Feb-08 12:29:09.693 [main] DEBUG nextflow.cli.Launcher - $> nextflow run nf-core/circrna -r 925eb02043 -profile ucl_myriad --input /home/zchams6/samplesheet.csv --outdir /home/zchams6/Scratch/rnaseq/results/circRNA --phenotype /home/zchams6/phenotype.csv --tools circexplorer2,ciriquant,find_circ --gtf /home/zchams6/Scratch/gencode.v47.primary_assembly.annotation.gtf --fasta /home/zchams6/Scratch/Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa --mature /home/zchams6/Scratch/rnaseq/reference_files/mature.fa -c /home/zchams6/new_config.txt -resume Feb-08 12:29:09.993 [main] DEBUG nextflow.cli.CmdRun - N E X T F L O W ~ version 24.10.4 Feb-08 12:29:10.020 [main] DEBUG nextflow.plugin.PluginsFacade - Setting up plugin manager > mode=prod; embedded=false; plugins-dir=/home/zchams6/.nextflow/plugins; core-plugins: nf-amazon@2.9.2,nf-azure@1.10.2,nf-cloudcache@0.4.2,nf-codecommit@0.2.2,nf-console@1.1.4,nf-google@1.15.3,nf-tower@1.9.3,nf-wave@1.7.4 Feb-08 12:29:10.056 [main] INFO o.pf4j.DefaultPluginStatusProvider - Enabled plugins: [] Feb-08 12:29:10.058 [main] INFO o.pf4j.DefaultPluginStatusProvider - Disabled plugins: [] Feb-08 12:29:10.062 [main] INFO org.pf4j.DefaultPluginManager - PF4J version 3.12.0 in 'deployment' mode Feb-08 12:29:10.078 [main] INFO org.pf4j.AbstractPluginManager - No plugins Feb-08 12:29:10.096 [main] DEBUG nextflow.scm.ProviderConfig - Using SCM config path: /home/zchams6/.nextflow/scm Feb-08 12:29:11.320 [main] DEBUG nextflow.scm.AssetManager - Git config: /home/zchams6/.nextflow/assets/nf-core/circrna/.git/config; branch: master; remote: origin; url: https://github.com/nf-core/circrna.git Feb-08 12:29:11.355 [main] DEBUG nextflow.scm.RepositoryFactory - Found Git repository result: [RepositoryFactory] Feb-08 12:29:11.367 [main] DEBUG nextflow.scm.AssetManager - Git config: /home/zchams6/.nextflow/assets/nf-core/circrna/.git/config; branch: master; remote: origin; url: https://github.com/nf-core/circrna.git Feb-08 12:29:13.273 [main] DEBUG nextflow.scm.AssetManager - WARN: Cannot find any Git revision matching: null; ls-remote: [Ref[refs/pull/104/head=e691f5c800cf3ea934717df4156bb7f82be94563(-1)], Ref[refs/pull/149/head=8999212aae6026c51d0d9d5da08f1133b6a9d5f7(-1)], Ref[refs/pull/182/head=5a35f9909083e7d93778c342b0956b7949d74f1d(-1)], Ref[refs/pull/71/head=ddd0ccfe2fc41fd3563c92c09a476460acec5750(-1)], Ref[refs/pull/85/head=5d937da4d0035fb5090b3eb4d5622c3eec1cd194(-1)], Ref[refs/pull/69/head=1a64623bcd6c4e5247fba6044fdf53c167db05a9(-1)], Ref[refs/pull/40/head=ad9005f93621aefc497148b2222556b65abf6f23(-1)], Ref[refs/pull/24/head=b9a7cf5981711d176821828353503427ce0acfca(-1)], Ref[refs/pull/10/head=ead0ac0c2f898c15a45b40ad30ce9d2acb433d71(-1)], Ref[refs/pull/55/head=2a6541c464bd90093b3537ed36cce721a9301b89(-1)], Ref[refs/pull/182/merge=e8abc51c2b976577e23c4aa6675675c0fc229821(-1)], Ref[refs/pull/23/head=5e7d90cc47da5557e6272866f4ce2ed17fa1c580(-1)], Ref[refs/pull/148/head=ab74eb5e56eadc64ed59f003f7b88d99bf4c0903(-1)], Ref[refs/pull/120/head=eeb35ed90332747606bc111097a8db40d13f556d(-1)], Ref[refs/pull/165/head=3be2733652701c021ebb08bcc5f6a9d3ded57f07(-1)], Ref[refs/pull/103/head=abd9aa7fc8005a412e3c16733a21fef64382b233(-1)], Ref[refs/pull/3/head=35463ed4591839a3aa7daf003a6f8f64c1924bc3(-1)], Ref[refs/pull/118/head=3f7b7e24609fdc6dab776e692cda058db13caabe(-1)], Ref[refs/pull/179/head=df599a78e2524284bdc7900af3adf43a3f4d5ab8(-1)], Ref[refs/pull/38/head=7a48be85a684774dc7a61fd0d81bd98609484001(-1)], Ref[refs/pull/54/head=41025d038f7d6ab9dd841a0372fee4b13eb006e5(-1)], Ref[refs/pull/99/head=df3fa93b843398e3e05a7ee097ecdc8aede3acf3(-1)], Ref[refs/pull/167/head=6f69c930706939f7677eab9d21427244c416b453(-1)], Ref[refs/pull/98/head=02a5eff888d8e078940456a8fe1bf3dada2a9557(-1)], Ref[refs/pull/153/head=aaebb740f7575fb3fe60f349e42168fd66b106d5(-1)], Ref[refs/pull/84/head=8afed2c5c7fe34166a2172d38eedde4caeb81bcd(-1)], Ref[refs/pull/11/head=e40b578aa3a6e20dabce1447b0cb13d3d6d87b6f(-1)], Ref[refs/pull/181/head=d9a6344c82c8a56edf3e48804d8e7180e9d976f0(-1)], Ref[refs/pull/39/head=7a5a1e839ff3f866223cb7c68fe8412f22c9b6f6(-1)], Ref[refs/heads/155-gtf-file-not-found-with-ciriquant=b33d774c0ebd818dde8e2464a9956e8a1b9383d9(-1)], Ref[refs/pull/178/head=25d4c9a483cc4cc79a19ce6849749d5a595b45b5(-1)], Ref[refs/pull/183/head=81cb330b8aeb4a99be6e0802c563bff251eb1ff2(-1)], Ref[refs/pull/87/head=5c474b2924178c318c04bae5639b3e139daf1c6f(-1)], Ref[refs/pull/119/head=7ba39a5088c4bc8f36d47ef059d928a80ea0f7bb(-1)], Ref[refs/pull/41/head=5ab4525d3268582c07fc66737a6a4759c92b8edb(-1)], Ref[refs/heads/first-commit-for-pseudo-pr=2ef92f07fd4d12b4a792c5ad90512f29465e461a(-1)], Ref[refs/pull/36/head=e9381013777963ec6e83bc3ce2d1f3c0247e84d1(-1)], Ref[refs/pull/121/head=e273f70e30a6654ec46058b13efabf40e7438d14(-1)], Ref[refs/pull/1/head=ef9130722f96be06080c0bcd38804cfcb3a6fab3(-1)], Ref[refs/pull/22/head=1aa385f8ab8e6118691f59f9d71a9773ecf71d9c(-1)], Ref[refs/pull/25/head=e53ffd803d70887eeb2c29f7826724f096ae4b5d(-1)], Ref[refs/pull/107/head=0ee988b0ba81a5201485d5b1eb1879690893f45b(-1)], Ref[refs/pull/66/merge=f42deb0795023a6db841fea22dc2702614d0c1f6(-1)], Ref[refs/pull/88/head=38ef8e13bbf751d419a467c73a3ea27c5f32887f(-1)], Ref[refs/pull/177/head=30daac450cba31a01fa5e7b2d98b834ceef9d9c9(-1)], Ref[refs/pull/18/head=cb46136fd93473fbf273dcb71b820a0d95ba24b3(-1)], Ref[refs/pull/82/head=93c732d8f064b6ae4f046dc44ba013ad1e82462f(-1)], Ref[refs/pull/21/head=dfedc1453c92585bab71924d00f274665fc926ac(-1)], Ref[refs/pull/101/head=b950528996297a785b49b0f7e48b96a450d7371d(-1)], Ref[refs/pull/66/head=1a64623bcd6c4e5247fba6044fdf53c167db05a9(-1)], Ref[refs/pull/65/head=b84d894dd9416f821965b5ea4b09bd55fba9465a(-1)], Ref[refs/pull/180/head=b49b8e184d0a3f116e394541c25ae7d29b8e483d(-1)], Ref[refs/heads/master_old=a11e12cff3dc04d9dfa00c86dd7cd980ada75407(-1)], Ref[refs/pull/123/head=b81a30a9826388d2b693b606d531b96414bdc63e(-1)], Ref[refs/pull/158/merge=84bd487e7fc1a3fbf35193e03e7dfaaa9ba8d719(-1)], Ref[refs/pull/118/merge=a675940bdfaf04aca93cf24b5a092e52e7a318d9(-1)], Ref[refs/pull/27/head=249fa5e5fdbaab92ebe748462b3a3207c65da8f8(-1)], Ref[refs/pull/168/head=7ac747efcd42c0c0e9df9c53b0d975e78aa4e2f1(-1)], Ref[refs/pull/43/head=9c8ea66582306ddc462d2b9fcdeb86687d7665b3(-1)], Ref[refs/pull/12/head=b0c1d79fb43a123f45534e5b7b4fc566c6a3f84a(-1)], Ref[refs/pull/2/head=420c11c9da4cf04a344203d781f2ce5eb9a6d1f7(-1)], Ref[refs/pull/53/head=7a7f56273a8b2b23ce3658cf99d23126650f48be(-1)], Ref[refs/pull/56/head=deb12e4bf864eb6c051da040ad700550b70d0eda(-1)], Ref[refs/pull/31/head=e33fd5e3bf99ee26c930c75e6b84da4c8ee6dbcd(-1)], Ref[refs/pull/117/head=86af7b2abe18e63d6efbac38c88b1d87e76c1428(-1)], Ref[refs/pull/37/head=a077a0843543d42686654f6dfac549fe9e59ccd9(-1)], Ref[refs/pull/50/head=c0bfbd60a6cd9c2f6c001aed245023adc1b6272f(-1)], Ref[refs/heads/nf-core-template-merge-3.1.2=81cb330b8aeb4a99be6e0802c563bff251eb1ff2(-1)], Ref[refs/pull/158/head=b33d774c0ebd818dde8e2464a9956e8a1b9383d9(-1)], Ref[refs/pull/72/head=b969146ba24502018d13b0f0a1c4cfa40e24a2e4(-1)], Ref[refs/pull/152/head=9b57e7f2caab961aa3c1eab2169cda93cf1ba8e9(-1)], Ref[refs/pull/78/head=507145923586903dcbcad544f64c4315cdb434f0(-1)], Ref[refs/pull/75/head=83318cd8ab970211cbe3be3e81abceb75949f411(-1)], Ref[refs/pull/174/head=7b3dd3a9b15527d2c95ff33c51ae4cfd43620636(-1)], Ref[refs/heads/max-shift-plots-mqc=382ebe4e58c29e008188bfec20fb534f8d35976e(-1)], Ref[refs/pull/32/head=9f97d58ac0e7ed0403d99436fbb10efb25ba216b(-1)], Ref[refs/pull/77/head=8a33e6773d83fa06de9219fb81c42c227a7509c0(-1)], Ref[refs/pull/157/head=73bf5e4998cc12f08b9ca8c34141eb7c62be5c85(-1)], Ref[refs/heads/benchmarking=3f7b7e24609fdc6dab776e692cda058db13caabe(-1)], Ref[refs/pull/63/head=0ac639dad72c5dd3a43ce3d7031596d255ad34ec(-1)], Ref[refs/heads/numeric-sample-ids=6e6b2c095221ab98ba1bba8dd4c2befa85c05bb4(-1)], Ref[refs/pull/29/head=65475aadb2f79f25207dcb38f15e776e28370038(-1)], Ref[refs/pull/16/head=9a854e7db0bce85ef0005d482048763b65ae29b8(-1)], Ref[refs/pull/76/head=60cbad737a7db28ddd0399bf48d399d076ec5e3d(-1)], Ref[refs/pull/15/head=c83c7b7e3f0f1b9d592f24a7ed563e58af307fc5(-1)], Ref[refs/pull/173/head=44caaf30e765a9832ae99ce7408c87da457a5177(-1)], Ref[refs/heads/isoforms=c95d317565e405351bb923714e24e8c8c5f80e1a(-1)], Ref[refs/pull/46/head=f3c3ba8c5eda4714f5c9a4849350b24b8d84918e(-1)], Ref[refs/pull/14/head=6c6c7fb0ade27d0a9083d900d3f4bed820c7c3f1(-1)], Ref[refs/pull/95/head=2de5b60ee5f8c6bab7f3ef7d8aa313ba5b66b3cc(-1)], Ref[refs/pull/92/head=b0214b71f454682dd6eaed739bbfd93162aec279(-1)], Ref[refs/pull/28/head=c554080fa49643b9fb4b0abbca33dc2ac4114e72(-1)], Ref[refs/pull/159/head=90172a00bd369bf3f90f65e3f829d2a641f49c62(-1)], Ref[refs/pull/172/head=ddaed0a80603c70ab29d59d5a8b53882cc8c6e8c(-1)], Ref[refs/heads/nf-core-template-merge-3.2.0=047f277fc9985920558ae889e75af697404787fd(-1)], Ref[refs/pull/79/head=36d277236aa8dedd329d8743fd97e4f666bf584f(-1)], Ref[refs/pull/175/head=aa4a1043cf4bf1e56b6b3a66eb630cb42dfcc54d(-1)], Ref[refs/pull/44/head=dc404b10717ed086ef5d7543bc43558fb2797e91(-1)], Ref[refs/pull/113/head=e14ceae239324ca5b5fe4b9c5ab4c1612b6ec1b7(-1)], Ref[refs/pull/110/head=1c9d74e396c2e27cf5021b89577f1370858a81a7(-1)], Ref[refs/pull/7/head=3aece79cc26172baadb0921400c74887dfbb5e8e(-1)], Ref[refs/heads/sponging=5a35f9909083e7d93778c342b0956b7949d74f1d(-1)], Ref[refs/pull/124/head=0a98534fd6a368dd7c643ef38e82e0b96dbacc0b(-1)], Ref[refs/pull/30/head=96a985ba918c17152e5c05124b4af550695f18ee(-1)], Ref[refs/pull/17/head=1325ce1b0069d7490ddb050043077581907eabcf(-1)], SymbolicRef[HEAD -> refs/heads/dev=1a64623bcd6c4e5247fba6044fdf53c167db05a9(-1)], Ref[refs/pull/35/head=4a732c5000228c4a3cd023c0a8767740d3d2b4bd(-1)], Ref[refs/pull/132/head=0ea2e7538c0768e168998946666ffd847e319928(-1)], Ref[refs/pull/185/head=047f277fc9985920558ae889e75af697404787fd(-1)], Ref[refs/pull/90/head=87b10267276bcc754121257b6d1a093c73b392a7(-1)], Ref[refs/pull/13/head=09ad1a085ea2dcff93e134d0341fa2d2067ac257(-1)], Ref[refs/pull/154/head=34a3a80d4d372820a759956eda5bac21d2d7a2dc(-1)], Ref[refs/pull/58/head=c6f4b8437dab0b73829f3025804ab6300bced352(-1)], Ref[refs/pull/131/head=c65e604d913e3657f6f5bef065acb08e556df726(-1)], Ref[refs/pull/20/head=52d92d808866f50791b29c0b600a5bff5f670d77(-1)], Ref[refs/pull/51/head=8b1ebb3fd658778708eaeae35730916ae1f2dade(-1)], Ref[refs/pull/19/head=c2f814a737c1fb832d121326f5775e15ff7092bd(-1)], Ref[refs/pull/100/head=82e1b2849346df5e67b06c4a94b6e6f367eeb455(-1)], Ref[refs/pull/73/head=ab234c96d00ca5e54133420e08ae737657385694(-1)], Ref[refs/pull/96/head=e0a01236bd7b092c4a641e9845ac0f97fd80839e(-1)], Ref[refs/pull/57/head=0a7c7d7d1233e895bdce6b8fb0816bd137336b79(-1)], Ref[refs/pull/6/head=492ce3e1df8ae6023357e05a7b41ca908ca23ce8(-1)], Ref[refs/pull/128/head=e36310f39e3024f5fd2e8bf47d0fee2f7def2222(-1)], Ref[refs/pull/64/head=5117d07d38951dc4e85bd83f84d1552254181c2c(-1)], Ref[refs/pull/48/head=a67427bcc1db793ba062eb78ec976f5cd74ca23e(-1)], Ref[refs/pull/45/head=46c6e75df51430cede5a5dfccffc5aba8e436307(-1)], Ref[refs/pull/61/head=aa05678c09da5c20039ae6662e52290cdbf7e884(-1)], Ref[refs/pull/106/head=eceacd7e61d9f58f6a71064e0af7c97ea2b2f172(-1)], Ref[refs/pull/109/head=cf0a05519a95a40994d6037644e2ef87c6cf4d31(-1)], Ref[refs/heads/TEMPLATE=047f277fc9985920558ae889e75af697404787fd(-1)], Ref[refs/pull/122/head=f351b961d185f7173f3d7a4c2f73bf051930595f(-1)], Ref[refs/heads/dev=1a64623bcd6c4e5247fba6044fdf53c167db05a9(-1)], Ref[refs/pull/83/head=cf629aea1e6c02092bd6460e6a92a98d7fffc204(-1)], Ref[refs/pull/69/merge=1acf2afcf4744722b6faeb7126f1b2fe6385cb57(-1)], Ref[refs/heads/master=18e580e3f81c3c37189c49033948616a773404af(-1)], Ref[refs/pull/147/head=4974eaf5e2b41e30fc4dad822f6a5308ab9b632b(-1)], Ref[refs/pull/67/head=134217d3d41d381ac907ca7142b605c1fb6bf2a6(-1)], Ref[refs/pull/166/head=5082d4fad8e3d8b6bb51729c2f9c752b1df7b3f5(-1)]] Feb-08 12:29:13.290 [main] DEBUG nextflow.config.ConfigBuilder - Found config base: /home/zchams6/.nextflow/assets/nf-core/circrna/nextflow.config Feb-08 12:29:13.294 [main] DEBUG nextflow.config.ConfigBuilder - User config file: /home/zchams6/new_config.txt Feb-08 12:29:13.295 [main] DEBUG nextflow.config.ConfigBuilder - Parsing config file: /home/zchams6/.nextflow/assets/nf-core/circrna/nextflow.config Feb-08 12:29:13.296 [main] DEBUG nextflow.config.ConfigBuilder - Parsing config file: /home/zchams6/new_config.txt Feb-08 12:29:13.306 [main] DEBUG n.secret.LocalSecretsProvider - Secrets store: /home/zchams6/.nextflow/secrets/store.json Feb-08 12:29:13.309 [main] DEBUG nextflow.secret.SecretsLoader - Discovered secrets providers: [nextflow.secret.LocalSecretsProvider@16e99306] - activable => nextflow.secret.LocalSecretsProvider@16e99306 Feb-08 12:29:13.325 [main] DEBUG nextflow.config.ConfigBuilder - Applying config profile: `ucl_myriad` Feb-08 12:29:15.587 [main] DEBUG nextflow.config.ConfigBuilder - Applying config profile: `ucl_myriad` Feb-08 12:29:15.620 [main] DEBUG nextflow.config.ConfigBuilder - Available config profiles: [bih, cfc_dev, uzl_omics, ifb_core, embl_hd, denbi_qbic, alice, mjolnir_globe, uppmax, giga, incliva, ilifu, ki_luria, uge, rosalind_uge, lugh, mccleary, unibe_ibu, vai, czbiohub_aws, jax, roslin, ccga_med, tes, scw, unc_longleaf, tigem, tubingen_apg, google, apollo, ipop_up, vsc_calcua, pdc_kth, googlels, ceci_nic5, stjude, daisybio, eddie, medair, biowulf, apptainer, bi, bigpurple, adcra, cedars, pawsey_setonix, vsc_kul_uhasselt, pawsey_nimbus, ucl_myriad, utd_ganymede, charliecloud, icr_davros, ceres, arm, munin, rosalind, hasta, cfc, uzh, shu_bmrc, ebi_codon_slurm, ebc, ccga_dx, crick, ku_sund_danhead, marvin, shifter, biohpc_gen, mana, mamba, york_viking, unc_lccc, wehi, awsbatch, wustl_htcf, arcc, ceci_dragon2, imperial, maestro, software_license, genotoul, nci_gadi, abims, janelia, nu_genomics, googlebatch, oist, sahmri, kaust, test_igenomes, mpcdf, leicester, vsc_ugent, create, sage, cambridge, jex, podman, ebi_codon, cheaha, xanadu, nyu_hpc, test, marjorie, computerome, ucd_sonic, seg_globe, sanger, dkfz, bluebear, pasteur, einstein, ethz_euler, m3c, test_full, full, imb, ucl_cscluster, tuos_stanage, azurebatch, hki, seadragon, crukmi, csiro_petrichor, qmul_apocrita, wave, docker, engaging, gis, hypatia, psmn, eva, unity, nygc, fgcz, conda, crg, singularity, mpcdf_viper, pe2, self_hosted_runner, tufts, uw_hyak_pedslabs, debug, genouest, cbe, unsw_katana, gitpod, phoenix, seawulf, uod_hpc, fub_curta, uct_hpc, aws_tower, binac] Feb-08 12:29:15.754 [main] DEBUG nextflow.cli.CmdRun - Applied DSL=2 by global default Feb-08 12:29:15.755 [main] DEBUG nextflow.cli.CmdRun - Launching `https://github.com/nf-core/circrna` [romantic_laplace] DSL2 - revision: 925eb02043a5ce600dd531db597d2197b8576b24 Feb-08 12:29:15.757 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins declared=[nf-schema@2.1.1] Feb-08 12:29:15.758 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins default=[] Feb-08 12:29:15.758 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins resolved requirement=[nf-schema@2.1.1] Feb-08 12:29:15.759 [main] DEBUG nextflow.plugin.PluginUpdater - Installing plugin nf-schema version: 2.1.1 Feb-08 12:29:15.786 [main] INFO org.pf4j.AbstractPluginManager - Plugin 'nf-schema@2.1.1' resolved Feb-08 12:29:15.786 [main] INFO org.pf4j.AbstractPluginManager - Start plugin 'nf-schema@2.1.1' Feb-08 12:29:15.862 [main] DEBUG nextflow.plugin.BasePlugin - Plugin started nf-schema@2.1.1 Feb-08 12:29:15.926 [main] DEBUG nextflow.Session - Session UUID: 2d27f8d5-e6f3-4482-9d07-20a5f37ea0e7 Feb-08 12:29:15.926 [main] DEBUG nextflow.Session - Run name: romantic_laplace Feb-08 12:29:15.927 [main] DEBUG nextflow.Session - Executor pool size: 6 Feb-08 12:29:15.936 [main] DEBUG nextflow.file.FilePorter - File porter settings maxRetries=3; maxTransfers=50; pollTimeout=null Feb-08 12:29:15.942 [main] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'FileTransfer' minSize=10; maxSize=18; workQueue=LinkedBlockingQueue[10000]; allowCoreThreadTimeout=false Feb-08 12:29:15.973 [main] DEBUG nextflow.cli.CmdRun - Version: 24.10.4 build 5934 Created: 20-01-2025 16:47 UTC (16:47 BST) System: Linux 3.10.0-1127.el7.x86_64 Runtime: Groovy 4.0.23 on OpenJDK 64-Bit Server VM 17.0.2+8 Encoding: UTF-8 (UTF-8) Process: 146797@login12.myriad.ucl.ac.uk [10.34.0.15] CPUs: 6 - Mem: 30 GB (29.5 GB) - Swap: 0 (0) Feb-08 12:29:16.088 [main] DEBUG nextflow.Session - Work-dir: /lustre/scratch/scratch/zchams6/work [lustre] Feb-08 12:29:16.154 [main] DEBUG nextflow.executor.ExecutorFactory - Extension executors providers=[] Feb-08 12:29:16.165 [main] DEBUG nextflow.Session - Observer factory: DefaultObserverFactory Feb-08 12:29:16.260 [main] DEBUG nextflow.cache.CacheFactory - Using Nextflow cache factory: nextflow.cache.DefaultCacheFactory Feb-08 12:29:16.271 [main] DEBUG nextflow.util.CustomThreadPool - Creating default thread pool > poolSize: 7; maxThreads: 1000 Feb-08 12:29:16.452 [main] DEBUG nextflow.Session - Session start Feb-08 12:29:16.455 [main] DEBUG nextflow.trace.TraceFileObserver - Workflow started -- trace file: /home/zchams6/Scratch/rnaseq/results/circRNA/pipeline_info/execution_trace_2025-02-08_12-29-13.txt Feb-08 12:29:16.658 [main] DEBUG nextflow.script.ScriptRunner - > Launching execution Feb-08 12:29:17.013 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryMap:paramsSummaryMap]; plugin Id: nf-schema Feb-08 12:29:26.517 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryLog:paramsSummaryLog]; plugin Id: nf-schema Feb-08 12:29:26.519 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [validateParameters:validateParameters]; plugin Id: nf-schema Feb-08 12:29:26.522 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryMap:paramsSummaryMap]; plugin Id: nf-schema Feb-08 12:29:26.523 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [samplesheetToList:samplesheetToList]; plugin Id: nf-schema Feb-08 12:29:26.970 [main] INFO nextflow.Nextflow - ------------------------------------------------------ ,--./,-.  ___ __ __ __ ___ /,-._.--~'  |\ | |__ __ / ` / \ |__) |__ } {  | \| | \__, \__/ | \ |___ \`-._,-`-, `._,._,'  nf-core/circrna 0.0.1dev ------------------------------------------------------ Input/output options input : /home/zchams6/samplesheet.csv outdir : /home/zchams6/Scratch/rnaseq/results/circRNA phenotype : /home/zchams6/phenotype.csv circRNA Options tools : circexplorer2,ciriquant,find_circ Reference genome options fasta : /home/zchams6/Scratch/Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa gtf : /home/zchams6/Scratch/gencode.v47.primary_assembly.annotation.gtf mature : /home/zchams6/Scratch/rnaseq/reference_files/mature.fa Institutional config options config_profile_description: University College London Myriad cluster config_profile_contact : Chris Wyatt (ucbtcdr@ucl.ac.uk) config_profile_url : https://www.rc.ucl.ac.uk/docs/Clusters/Myriad/ Generic options trace_report_suffix : 2025-02-08_12-29-13 Core Nextflow options runName : romantic_laplace containerEngine : singularity launchDir : /lustre/scratch/scratch/zchams6 workDir : /lustre/scratch/scratch/zchams6/work projectDir : /home/zchams6/.nextflow/assets/nf-core/circrna userName : zchams6 profile : ucl_myriad configFiles :  !! Only displaying parameters that differ from the pipeline defaults !! ------------------------------------------------------ * The nf-core framework https://doi.org/10.1038/s41587-020-0439-x * Software dependencies https://github.com/nf-core/circrna/blob/master/CITATIONS.md Feb-08 12:29:26.973 [main] DEBUG nextflow.validation.SchemaValidator - Starting parameters validation Feb-08 12:29:27.290 [main] DEBUG nextflow.validation.SchemaEvaluator - Started validating /home/zchams6/phenotype.csv Feb-08 12:29:27.418 [main] DEBUG nextflow.validation.SchemaEvaluator - Validation of file '/home/zchams6/phenotype.csv' passed! Feb-08 12:29:27.423 [main] DEBUG nextflow.validation.SchemaEvaluator - Started validating /home/zchams6/samplesheet.csv Feb-08 12:29:27.498 [main] DEBUG nextflow.validation.SchemaEvaluator - Validation of file '/home/zchams6/samplesheet.csv' passed! Feb-08 12:29:27.500 [main] DEBUG n.v.FormatDirectoryPathEvaluator - Cloud blob storage paths are not supported by 'FormatDirectoryPathEvaluator': 's3://ngi-igenomes/igenomes/' Feb-08 12:29:27.501 [main] DEBUG nextflow.validation.SchemaValidator - Finishing parameters validation Feb-08 12:29:27.859 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ Feb-08 12:29:27.865 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:CAT_FASTQ` matches process NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ Feb-08 12:29:27.891 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:27.892 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:27.905 [main] DEBUG nextflow.executor.Executor - [warm up] executor > sge Feb-08 12:29:27.911 [main] DEBUG n.processor.TaskPollingMonitor - Creating task monitor for executor 'sge' > capacity: 100; pollInterval: 5s; dumpInterval: 5m Feb-08 12:29:27.914 [main] DEBUG n.processor.TaskPollingMonitor - >>> barrier register (monitor: sge) Feb-08 12:29:27.917 [main] DEBUG n.executor.AbstractGridExecutor - Creating executor 'sge' > queue-stat-interval: 1m Feb-08 12:29:28.009 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:GTFFILTER Feb-08 12:29:28.016 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:GTFFILTER` matches process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:GTFFILTER Feb-08 12:29:28.030 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.030 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.052 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:UCSC_GTFTOGENEPRED Feb-08 12:29:28.054 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:UCSC_GTFTOGENEPRED` matches process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:UCSC_GTFTOGENEPRED Feb-08 12:29:28.065 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.066 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.080 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:SEQKIT_SPLIT Feb-08 12:29:28.082 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:SEQKIT_SPLIT` matches process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:SEQKIT_SPLIT Feb-08 12:29:28.092 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.092 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.108 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:BOWTIE_BUILD Feb-08 12:29:28.110 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:BOWTIE_BUILD` matches process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:BOWTIE_BUILD Feb-08 12:29:28.120 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.120 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.133 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:BOWTIE2_BUILD Feb-08 12:29:28.134 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:BOWTIE2_BUILD` matches process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:BOWTIE2_BUILD Feb-08 12:29:28.144 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.144 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.157 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:BWA_INDEX Feb-08 12:29:28.159 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:BWA_INDEX` matches process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:BWA_INDEX Feb-08 12:29:28.168 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.168 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.181 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_EXTRACTSPLICESITES Feb-08 12:29:28.182 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:HISAT2_EXTRACTSPLICESITES` matches process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_EXTRACTSPLICESITES Feb-08 12:29:28.192 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.192 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.210 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high,process_high_memory` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD Feb-08 12:29:28.211 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high_memory` matches labels `process_high,process_high_memory` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD Feb-08 12:29:28.212 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:HISAT2_BUILD` matches process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD Feb-08 12:29:28.223 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.223 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.237 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE Feb-08 12:29:28.238 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:STAR_GENOMEGENERATE` matches process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE Feb-08 12:29:28.248 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.248 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.265 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:SAMTOOLS_FAIDX Feb-08 12:29:28.266 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:SAMTOOLS_FAIDX` matches process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:SAMTOOLS_FAIDX Feb-08 12:29:28.277 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.278 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.298 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:CIRCEXPLORER2_REFERENCE Feb-08 12:29:28.302 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:CIRCEXPLORER2_REFERENCE` matches process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:CIRCEXPLORER2_REFERENCE Feb-08 12:29:28.311 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.311 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.354 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC Feb-08 12:29:28.357 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FASTQC_TRIMGALORE:FASTQC` matches process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC Feb-08 12:29:28.365 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.365 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.396 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE Feb-08 12:29:28.400 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FASTQC_TRIMGALORE:TRIMGALORE` matches process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE Feb-08 12:29:28.408 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.409 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.484 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:STAR2PASS:PASS_1 Feb-08 12:29:28.491 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:STAR2PASS:PASS_1` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:STAR2PASS:PASS_1 Feb-08 12:29:28.503 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.503 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.549 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:STAR2PASS:SJDB Feb-08 12:29:28.555 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:STAR2PASS:SJDB` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:STAR2PASS:SJDB Feb-08 12:29:28.563 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.563 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.585 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:STAR2PASS:PASS_2 Feb-08 12:29:28.592 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:STAR2PASS:PASS_2` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:STAR2PASS:PASS_2 Feb-08 12:29:28.603 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.603 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.642 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRCEXPLORER2:PARSE Feb-08 12:29:28.649 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:CIRCEXPLORER2:PARSE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRCEXPLORER2:PARSE Feb-08 12:29:28.656 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.656 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.671 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRCEXPLORER2:ANNOTATE Feb-08 12:29:28.677 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:CIRCEXPLORER2:ANNOTATE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRCEXPLORER2:ANNOTATE Feb-08 12:29:28.684 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.684 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.701 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRCEXPLORER2:UNIFY Feb-08 12:29:28.708 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:CIRCEXPLORER2:UNIFY` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRCEXPLORER2:UNIFY Feb-08 12:29:28.714 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.714 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.747 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN Feb-08 12:29:28.754 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FIND_CIRC:ALIGN` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN Feb-08 12:29:28.763 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.763 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.785 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX Feb-08 12:29:28.790 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FIND_CIRC:SAMTOOLS_INDEX` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX Feb-08 12:29:28.798 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.798 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.833 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW Feb-08 12:29:28.837 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FIND_CIRC:SAMTOOLS_VIEW` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW Feb-08 12:29:28.846 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.846 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.862 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS Feb-08 12:29:28.868 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FIND_CIRC:ANCHORS` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS Feb-08 12:29:28.874 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.875 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.889 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN Feb-08 12:29:28.895 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FIND_CIRC:MAIN` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN Feb-08 12:29:28.902 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.902 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.919 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY Feb-08 12:29:28.926 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FIND_CIRC:UNIFY` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY Feb-08 12:29:28.932 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.932 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:28.971 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRIQUANT:MAIN Feb-08 12:29:28.977 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:BSJ_DETECTION:CIRIQUANT:MAIN` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRIQUANT:MAIN Feb-08 12:29:28.985 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:28.985 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.002 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRIQUANT:UNIFY Feb-08 12:29:29.008 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:CIRIQUANT:UNIFY` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRIQUANT:UNIFY Feb-08 12:29:29.014 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.014 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.042 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS Feb-08 12:29:29.046 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:EXTRACT_COUNTS` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS Feb-08 12:29:29.054 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.054 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.074 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:COMBINE_COUNTS_PER_TOOL Feb-08 12:29:29.077 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:COMBINE_COUNTS_PER_TOOL` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:COMBINE_COUNTS_PER_TOOL Feb-08 12:29:29.084 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.085 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.095 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS Feb-08 12:29:29.099 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:FILTER_BSJS` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS Feb-08 12:29:29.107 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.107 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.117 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL Feb-08 12:29:29.121 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:BED_ADD_SAMPLE_TOOL` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL Feb-08 12:29:29.128 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.129 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.152 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:COMBINE_TOOLS_PER_SAMPLE Feb-08 12:29:29.155 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:COMBINE_TOOLS_PER_SAMPLE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:COMBINE_TOOLS_PER_SAMPLE Feb-08 12:29:29.162 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.163 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.184 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:COMBINE_SAMPLES Feb-08 12:29:29.188 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:COMBINE_SAMPLES` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:COMBINE_SAMPLES Feb-08 12:29:29.195 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.195 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.216 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:INVESTIGATE_SHIFTS Feb-08 12:29:29.228 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.228 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.244 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ADD_INTRONS Feb-08 12:29:29.247 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:ADD_INTRONS` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ADD_INTRONS Feb-08 12:29:29.253 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.253 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.266 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_EXONS_INTRONS Feb-08 12:29:29.270 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:EXTRACT_EXONS_INTRONS` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_EXONS_INTRONS Feb-08 12:29:29.277 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.277 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.313 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:INTERSECT_GTF Feb-08 12:29:29.317 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):INTERSECT_GTF` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:INTERSECT_GTF Feb-08 12:29:29.317 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_COMBINED:INTERSECT_GTF` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:INTERSECT_GTF Feb-08 12:29:29.322 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.322 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.340 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:INGEST_DATABASE_NAMES Feb-08 12:29:29.344 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):INGEST_DATABASE_NAMES` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:INGEST_DATABASE_NAMES Feb-08 12:29:29.349 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.349 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.367 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:INTERSECT_DATABASE Feb-08 12:29:29.371 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):INTERSECT_DATABASE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:INTERSECT_DATABASE Feb-08 12:29:29.372 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_COMBINED:INTERSECT_DATABASE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:INTERSECT_DATABASE Feb-08 12:29:29.376 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.376 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.404 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:ANNOTATE Feb-08 12:29:29.408 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):ANNOTATE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:ANNOTATE Feb-08 12:29:29.408 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_COMBINED:ANNOTATE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:ANNOTATE Feb-08 12:29:29.413 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.413 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.439 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:INTERSECT_GTF Feb-08 12:29:29.442 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):INTERSECT_GTF` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:INTERSECT_GTF Feb-08 12:29:29.443 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_PER_SAMPLE:INTERSECT_GTF` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:INTERSECT_GTF Feb-08 12:29:29.447 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.447 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.460 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:INGEST_DATABASE_NAMES Feb-08 12:29:29.463 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):INGEST_DATABASE_NAMES` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:INGEST_DATABASE_NAMES Feb-08 12:29:29.468 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.468 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.484 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:INTERSECT_DATABASE Feb-08 12:29:29.487 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):INTERSECT_DATABASE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:INTERSECT_DATABASE Feb-08 12:29:29.488 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_PER_SAMPLE:INTERSECT_DATABASE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:INTERSECT_DATABASE Feb-08 12:29:29.492 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.492 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.510 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:ANNOTATE Feb-08 12:29:29.513 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):ANNOTATE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:ANNOTATE Feb-08 12:29:29.514 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_PER_SAMPLE:ANNOTATE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:ANNOTATE Feb-08 12:29:29.518 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.518 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.538 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF Feb-08 12:29:29.541 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):INTERSECT_GTF` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF Feb-08 12:29:29.542 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF Feb-08 12:29:29.546 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.546 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.556 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INGEST_DATABASE_NAMES Feb-08 12:29:29.559 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):INGEST_DATABASE_NAMES` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INGEST_DATABASE_NAMES Feb-08 12:29:29.564 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.564 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.579 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_DATABASE Feb-08 12:29:29.583 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):INTERSECT_DATABASE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_DATABASE Feb-08 12:29:29.583 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_DATABASE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_DATABASE Feb-08 12:29:29.587 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.587 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.607 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:ANNOTATE Feb-08 12:29:29.610 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_(COMBINED|PER_SAMPLE|PER_SAMPLE_TOOL):ANNOTATE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:ANNOTATE Feb-08 12:29:29.610 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:ANNOTATE_PER_SAMPLE_TOOL:ANNOTATE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:ANNOTATE Feb-08 12:29:29.614 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.615 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.634 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_COMBINED Feb-08 12:29:29.637 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:FASTA_COMBINED` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_COMBINED Feb-08 12:29:29.643 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.643 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.656 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE Feb-08 12:29:29.658 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:FASTA_PER_SAMPLE` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE Feb-08 12:29:29.663 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.663 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.674 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL Feb-08 12:29:29.676 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:FASTA_PER_SAMPLE_TOOL` matches process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL Feb-08 12:29:29.681 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.681 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.752 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:COMBINE_TRANSCRIPTOMES:COMBINE_TRANSCRIPTOME_GTFS Feb-08 12:29:29.754 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:COMBINE_TRANSCRIPTOME_GTFS` matches process NFCORE_CIRCRNA:CIRCRNA:COMBINE_TRANSCRIPTOMES:COMBINE_TRANSCRIPTOME_GTFS Feb-08 12:29:29.759 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.760 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.776 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:COMBINE_TRANSCRIPTOMES:EXCLUDE_OVERLONG_TRANSCRIPTS Feb-08 12:29:29.779 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:EXCLUDE_OVERLONG_TRANSCRIPTS` matches process NFCORE_CIRCRNA:CIRCRNA:COMBINE_TRANSCRIPTOMES:EXCLUDE_OVERLONG_TRANSCRIPTS Feb-08 12:29:29.784 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.784 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.804 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:COMBINE_TRANSCRIPTOMES:TRANSCRIPTOME Feb-08 12:29:29.807 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:TRANSCRIPTOME` matches process NFCORE_CIRCRNA:CIRCRNA:COMBINE_TRANSCRIPTOMES:TRANSCRIPTOME Feb-08 12:29:29.812 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.812 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.854 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:MARK_CIRCULAR Feb-08 12:29:29.857 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:MARK_CIRCULAR` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:MARK_CIRCULAR Feb-08 12:29:29.861 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.862 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.878 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:PSIRC_INDEX Feb-08 12:29:29.880 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:PSIRC_INDEX` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:PSIRC_INDEX Feb-08 12:29:29.884 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.884 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.900 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:RUN_PSIRC_QUANT Feb-08 12:29:29.902 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:RUN_PSIRC_QUANT` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:RUN_PSIRC_QUANT Feb-08 12:29:29.907 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.907 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.930 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:CUSTOM_TX2GENE Feb-08 12:29:29.931 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:CUSTOM_TX2GENE` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:CUSTOM_TX2GENE Feb-08 12:29:29.937 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.938 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.965 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:TXIMETA_TXIMETA Feb-08 12:29:29.968 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:TXIMETA_TXIMETA` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:TXIMETA_TXIMETA Feb-08 12:29:29.973 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:29.973 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:29.992 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:TXIMETA_TXIMPORT Feb-08 12:29:29.994 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:TXIMETA_TXIMPORT` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:TXIMETA_TXIMPORT Feb-08 12:29:30.001 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.001 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.104 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_GENE_COUNTS Feb-08 12:29:30.107 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:PSIRC_QUANT:JOIN_(GENE|TX)_(COUNTS|TPM)` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_GENE_COUNTS Feb-08 12:29:30.112 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.112 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.126 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_GENE_TPM Feb-08 12:29:30.129 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:PSIRC_QUANT:JOIN_(GENE|TX)_(COUNTS|TPM)` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_GENE_TPM Feb-08 12:29:30.133 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.133 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.148 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_TX_COUNTS Feb-08 12:29:30.151 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:PSIRC_QUANT:JOIN_(GENE|TX)_(COUNTS|TPM)` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_TX_COUNTS Feb-08 12:29:30.155 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.155 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.176 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_TX_TPM Feb-08 12:29:30.179 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:PSIRC_QUANT:JOIN_(GENE|TX)_(COUNTS|TPM)` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_TX_TPM Feb-08 12:29:30.186 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.186 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.200 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:SPLIT_TYPES_COUNTS Feb-08 12:29:30.204 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:SPLIT_TYPES_(COUNTS|TPM)` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:SPLIT_TYPES_COUNTS Feb-08 12:29:30.207 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.207 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.215 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:SPLIT_TYPES_TPM Feb-08 12:29:30.218 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:SPLIT_TYPES_(COUNTS|TPM)` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:SPLIT_TYPES_TPM Feb-08 12:29:30.221 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.222 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.244 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:MERGE_EXPERIMENTS Feb-08 12:29:30.245 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:MERGE_EXPERIMENTS` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:MERGE_EXPERIMENTS Feb-08 12:29:30.250 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.250 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.306 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:MAIN Feb-08 12:29:30.308 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFICATION:CIRIQUANT:MAIN` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:MAIN Feb-08 12:29:30.313 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.313 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.331 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:EXTRACT_CIRC Feb-08 12:29:30.334 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFICATION:CIRIQUANT:EXTRACT_CIRC` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:EXTRACT_CIRC Feb-08 12:29:30.337 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.337 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.352 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:EXTRACT_GENES Feb-08 12:29:30.355 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFICATION:CIRIQUANT:EXTRACT_GENES` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:EXTRACT_GENES Feb-08 12:29:30.358 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.358 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.379 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:JOIN_GENE Feb-08 12:29:30.381 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:CIRIQUANT:JOIN_(GENE|CIRC)` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:JOIN_GENE Feb-08 12:29:30.385 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.385 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.399 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:JOIN_CIRC Feb-08 12:29:30.402 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:CIRIQUANT:JOIN_(GENE|CIRC)` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:JOIN_CIRC Feb-08 12:29:30.402 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:CIRIQUANT:JOIN_CIRC` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:JOIN_CIRC Feb-08 12:29:30.405 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.405 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.463 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:AGGREGATE Feb-08 12:29:30.466 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFICATION:AGGREGATE` matches process NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:AGGREGATE Feb-08 12:29:30.469 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.469 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.537 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:ADD_BACKSPLICE Feb-08 12:29:30.539 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:ADD_BACKSPLICE` matches process NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:ADD_BACKSPLICE Feb-08 12:29:30.546 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.546 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.622 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:TARGETSCAN Feb-08 12:29:30.624 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:TARGETSCAN` matches process NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:TARGETSCAN Feb-08 12:29:30.628 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.628 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.642 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:UNIFY_TARGETSCAN Feb-08 12:29:30.644 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:UNIFY_TARGETSCAN` matches process NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:UNIFY_TARGETSCAN Feb-08 12:29:30.650 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.650 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.681 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:MIRANDA Feb-08 12:29:30.683 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:MIRANDA` matches process NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:MIRANDA Feb-08 12:29:30.686 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.687 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.696 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:UNIFY_MIRANDA Feb-08 12:29:30.698 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:UNIFY_MIRANDA` matches process NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:UNIFY_MIRANDA Feb-08 12:29:30.702 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.702 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.746 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:MIRNA_TARGETS Feb-08 12:29:30.747 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:MIRNA_TARGETS` matches process NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:MIRNA_TARGETS Feb-08 12:29:30.750 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.751 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.772 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:MAJORITY_VOTE Feb-08 12:29:30.774 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:MAJORITY_VOTE` matches process NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:MAJORITY_VOTE Feb-08 12:29:30.777 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.777 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.807 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRCTEST_PREPARE Feb-08 12:29:30.809 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:CIRCTEST_PREPARE` matches process NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRCTEST_PREPARE Feb-08 12:29:30.812 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.812 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.832 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRCTEST_CIRCTEST Feb-08 12:29:30.833 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:CIRCTEST_CIRCTEST` matches process NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRCTEST_CIRCTEST Feb-08 12:29:30.837 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.837 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.894 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRIQUANT_PREPDE Feb-08 12:29:30.895 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:CIRIQUANT_PREPDE` matches process NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRIQUANT_PREPDE Feb-08 12:29:30.899 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.899 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.913 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:STRINGTIE_PREPDE Feb-08 12:29:30.915 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:STRINGTIE_PREPDE` matches process NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:STRINGTIE_PREPDE Feb-08 12:29:30.918 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.918 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:30.934 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRIQUANT_DE Feb-08 12:29:30.936 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:CIRIQUANT_DE` matches process NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRIQUANT_DE Feb-08 12:29:30.939 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:30.939 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:31.015 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_CIRCRNA:CIRCRNA:MULTIQC Feb-08 12:29:31.017 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:MULTIQC` matches process NFCORE_CIRCRNA:CIRCRNA:MULTIQC Feb-08 12:29:31.021 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: sge Feb-08 12:29:31.021 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'sge' Feb-08 12:29:31.046 [main] DEBUG nextflow.Session - Config process names validation disabled as requested Feb-08 12:29:31.049 [main] DEBUG nextflow.Session - Igniting dataflow network (138) Feb-08 12:29:31.056 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ Feb-08 12:29:31.057 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:GTFFILTER Feb-08 12:29:31.057 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:UCSC_GTFTOGENEPRED Feb-08 12:29:31.057 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:SEQKIT_SPLIT Feb-08 12:29:31.057 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:BOWTIE_BUILD Feb-08 12:29:31.057 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:BOWTIE2_BUILD Feb-08 12:29:31.057 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:BWA_INDEX Feb-08 12:29:31.057 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_EXTRACTSPLICESITES Feb-08 12:29:31.057 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD Feb-08 12:29:31.058 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE Feb-08 12:29:31.058 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:SAMTOOLS_FAIDX Feb-08 12:29:31.058 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:CIRCEXPLORER2_REFERENCE Feb-08 12:29:31.058 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC Feb-08 12:29:31.059 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE Feb-08 12:29:31.059 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:STAR2PASS:PASS_1 Feb-08 12:29:31.059 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:STAR2PASS:SJDB Feb-08 12:29:31.059 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:STAR2PASS:PASS_2 Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRCEXPLORER2:PARSE Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRCEXPLORER2:ANNOTATE Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRCEXPLORER2:UNIFY Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRIQUANT:MAIN Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRIQUANT:UNIFY Feb-08 12:29:31.060 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:COMBINE_COUNTS_PER_TOOL Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:COMBINE_TOOLS_PER_SAMPLE Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:COMBINE_SAMPLES Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:INVESTIGATE_SHIFTS Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ADD_INTRONS Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_EXONS_INTRONS Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:INTERSECT_GTF Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:INGEST_DATABASE_NAMES Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:INTERSECT_DATABASE Feb-08 12:29:31.061 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_COMBINED:ANNOTATE Feb-08 12:29:31.062 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:INTERSECT_GTF Feb-08 12:29:31.062 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:INGEST_DATABASE_NAMES Feb-08 12:29:31.062 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:INTERSECT_DATABASE Feb-08 12:29:31.062 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE:ANNOTATE Feb-08 12:29:31.062 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF Feb-08 12:29:31.062 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INGEST_DATABASE_NAMES Feb-08 12:29:31.062 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_DATABASE Feb-08 12:29:31.062 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:ANNOTATE Feb-08 12:29:31.062 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_COMBINED Feb-08 12:29:31.063 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE Feb-08 12:29:31.063 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL Feb-08 12:29:31.063 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:COMBINE_TRANSCRIPTOMES:COMBINE_TRANSCRIPTOME_GTFS Feb-08 12:29:31.063 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:COMBINE_TRANSCRIPTOMES:EXCLUDE_OVERLONG_TRANSCRIPTS Feb-08 12:29:31.063 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:COMBINE_TRANSCRIPTOMES:TRANSCRIPTOME Feb-08 12:29:31.063 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:MARK_CIRCULAR Feb-08 12:29:31.064 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:PSIRC_INDEX Feb-08 12:29:31.064 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:RUN_PSIRC_QUANT Feb-08 12:29:31.064 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:CUSTOM_TX2GENE Feb-08 12:29:31.064 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:TXIMETA_TXIMETA Feb-08 12:29:31.065 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:TXIMETA_TXIMPORT Feb-08 12:29:31.065 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_GENE_COUNTS Feb-08 12:29:31.065 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_GENE_TPM Feb-08 12:29:31.065 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_TX_COUNTS Feb-08 12:29:31.066 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:JOIN_TX_TPM Feb-08 12:29:31.066 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:SPLIT_TYPES_COUNTS Feb-08 12:29:31.066 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:SPLIT_TYPES_TPM Feb-08 12:29:31.066 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:PSIRC_QUANT:MERGE_EXPERIMENTS Feb-08 12:29:31.066 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:MAIN Feb-08 12:29:31.066 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:EXTRACT_CIRC Feb-08 12:29:31.066 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:EXTRACT_GENES Feb-08 12:29:31.066 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:JOIN_GENE Feb-08 12:29:31.066 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:CIRIQUANT:JOIN_CIRC Feb-08 12:29:31.066 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:QUANTIFICATION:AGGREGATE Feb-08 12:29:31.066 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:ADD_BACKSPLICE Feb-08 12:29:31.067 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:TARGETSCAN Feb-08 12:29:31.067 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:UNIFY_TARGETSCAN Feb-08 12:29:31.067 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:MIRANDA Feb-08 12:29:31.067 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:UNIFY_MIRANDA Feb-08 12:29:31.067 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:MIRNA_TARGETS Feb-08 12:29:31.067 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:MIRNA_BINDINGSITES:MAJORITY_VOTE Feb-08 12:29:31.067 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRCTEST_PREPARE Feb-08 12:29:31.067 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRCTEST_CIRCTEST Feb-08 12:29:31.067 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRIQUANT_PREPDE Feb-08 12:29:31.067 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:STRINGTIE_PREPDE Feb-08 12:29:31.067 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:STATISTICAL_TESTS:CIRIQUANT_DE Feb-08 12:29:31.068 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_CIRCRNA:CIRCRNA:MULTIQC Feb-08 12:29:31.071 [main] DEBUG nextflow.script.ScriptRunner - Parsed script files: Script_ba713808161af769: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/../../../modules/local/matrix/join_samples/main.nf Script_2a22227d06b5cb0f: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/nf-core/circexplorer2/parse/main.nf Script_3e5675e9bbc155b0: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/nf-core/fastqc_trimgalore.nf Script_56c7c9e8363ee20a: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/../../../modules/nf-core/custom/tx2gene/main.nf Script_b4435a8e7953ee7c: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/star2pass.nf Script_9f0a46caae1c063e: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./annotation.nf Script_1ccaa776f8f4d977: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/nf-core/bedtools/groupby/main.nf Script_4955288afd8ca61e: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../modules/nf-core/multiqc/main.nf Script_0d2ddc3121c03ca7: /home/zchams6/.nextflow/assets/nf-core/circrna/main.nf Script_3f8e5fa62b21dee7: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/agat/spaddintrons/main.nf Script_8a3ea44866dcb6ed: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/bedtools/getfasta/main.nf Script_d78a356bc22ae0ab: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./mirna/../../../modules/local/mirna_targets/main.nf Script_03ae70870ce2f104: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/mapsplice.nf Script_ae012e4c8a0548cc: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/deseq2/normalization/main.nf Script_106c67721b5d7179: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/nf-core/bowtie2/align/main.nf Script_30e3e9fa1298c6f4: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/circtest/prepare/main.nf Script_72fe376ca009d34a: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/../../../modules/local/ciriquant/ciriquant/main.nf Script_d8e65b113c3b6186: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/bwa/index/main.nf Script_7593d394d84180c1: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/main.nf Script_524545760a40e47d: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/../../../modules/local/tximeta/tximeta/main.nf Script_ca68a25ae58e8c2b: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/circexplorer2.nf Script_e44ec4852ec3fe72: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/ciriquant.nf Script_e1dadf8862007cd0: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/combinebeds/shifts/main.nf Script_cee327d5096983a0: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/local/mapsplice/align/main.nf Script_5169e1006116ccad: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/nf-core/segemehl/align/main.nf Script_2dd67952041c7517: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/nf-core/../../modules/nf-core/trimgalore/main.nf Script_15a6f18236447b08: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../modules/nf-core/cat/fastq/main.nf Script_ccfc074ce1216f8c: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/samtools/faidx/main.nf Script_e220272d56d02998: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/ciriquant/prepde/main.nf Script_9a77f797098860c5: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/quantification.nf Script_b666edf0129ec7fc: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/gffread/main.nf Script_a7f5a7ae670f1eb0: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/dcc.nf Script_20d2437b46d9fd67: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/csvtk/join/main.nf Script_62380f2fd3c257ac: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/local/star/sjdb/main.nf Script_94dd6c1bc77ba9ce: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/seqkit/split/main.nf Script_6166793ef63b46e3: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/nf-core/samtools/view/main.nf Script_446bf91286b1efa3: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/bsj_detection.nf Script_fd87c84398798b15: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/stringtie/prepde/main.nf Script_976448b5ba644ba8: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/../../../modules/local/quantification/split_types/main.nf Script_215a636da7ab24a2: /home/zchams6/.nextflow/assets/nf-core/circrna/./subworkflows/local/utils_nfcore_circrna_pipeline/../../nf-core/utils_nfschema_plugin/main.nf Script_3776c03548a5683e: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/circtest/circtest/main.nf Script_5f6ba38da8688c53: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/compute_correlations/main.nf Script_5c4e8d4051efa81e: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/nf-core/utils_nfcore_pipeline/main.nf Script_2b9c397211f08eba: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/psirc_quant.nf Script_2163888583c760c6: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/circrna_finder.nf Script_50f80fa0c3a81919: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/mirna_prediction.nf Script_4060365b2f018c47: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./mirna/../../../modules/local/majority_vote/main.nf Script_9ec7e57694520c06: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/combinebeds/filter/main.nf Script_e8d5fffd2634c2c4: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/ucsc/gtftogenepred/main.nf Script_b12aacda1d6ea50e: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/ciriquant/de/main.nf Script_ad3cd4f4d98d2267: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./../../modules/nf-core/bedtools/intersect/main.nf Script_e41509feb71703e3: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/bowtie/build/main.nf Script_8ca5e67ae1f810da: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/bioawk/main.nf Script_fcc5d58147b363e3: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/local/circrna_finder/main.nf Script_967ea477ddb06272: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/nf-core/samtools/index/main.nf Script_8f9b7c71e47adc6c: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/mirna_filtering/main.nf Script_9262b4f3087881d7: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/../../../modules/local/psirc/index/main.nf Script_3bada26aa31298bd: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/nf-core/circexplorer2/annotate/main.nf Script_5ccfaa55237746d2: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/../../../modules/nf-core/gawk/main.nf Script_5e3b53cbebb8b66c: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./mirna/mirna_bindingsites.nf Script_d0b8f450f71dfc7a: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./mirna/../../../modules/nf-core/cat/cat/main.nf Script_9923b27d392a0cf4: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/../../../modules/local/psirc/quant/main.nf Script_b6be0a0c990b72b6: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/nf-core/segemehl/index/main.nf Script_113f045ba19c2c46: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/nf-core/../../modules/nf-core/fastqc/main.nf Script_1d33ebb67eb6d2aa: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/local/combinebeds/counts/main.nf Script_4f612cfd8c52e8cd: /home/zchams6/.nextflow/assets/nf-core/circrna/./subworkflows/local/utils_nfcore_circrna_pipeline/../../nf-core/utils_nextflow_pipeline/main.nf Script_8b4cd5023b0747bc: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/star/genomegenerate/main.nf Script_373dd412fc1641ba: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./mirna/../../../modules/local/targetscan/predict/main.nf Script_6b9506f083c48b86: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/bowtie2/build/main.nf Script_39a274420382a3ef: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/hisat2/build/main.nf Script_6832762354939fbb: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/nf-core/star/align/main.nf Script_1925c9714c2e75e6: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/local/find_circ/find_circ/main.nf Script_52e05cf7b3d1bef6: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/hisat2/extractsplicesites/main.nf Script_3203a6fc1044bad5: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/local/find_circ/anchors/main.nf Script_2b72a5be5c8fe209: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/../../../modules/nf-core/tximeta/tximport/main.nf Script_ffad24c94bb8cd41: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/nf-core/gnu/sort/main.nf Script_21fba33c2f3b8ebd: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./mirna/../../../modules/nf-core/miranda/main.nf Script_4ff6e408f6a8c33c: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/prepare_genome.nf Script_6f78e66517777cd4: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/../../../modules/local/dcc/main.nf Script_2b5f65de622086ca: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/../../modules/nf-core/custom/gtffilter/main.nf Script_20434b4d73e2441f: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/combine_transcriptomes.nf Script_f829a1b86664a8ee: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/../../../modules/local/pygtftk/tabulate/main.nf Script_1a0fa9b2e3765865: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/segemehl.nf Script_33a79022ae60fe4b: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/ciriquant.nf Script_5ae62a5085f9ed5c: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/statistical_tests.nf Script_540bacbe97113cb1: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./../../modules/local/annotation/main.nf Script_26db80437d48d20a: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./detection_tools/find_circ.nf Script_adfb9796616ca4e0: /home/zchams6/.nextflow/assets/nf-core/circrna/./subworkflows/local/utils_nfcore_circrna_pipeline/main.nf Script_ccd07a787c92fd3e: /home/zchams6/.nextflow/assets/nf-core/circrna/./workflows/circrna/../../subworkflows/local/./quantification_tools/../../../modules/local/quantification/merge_experiments/main.nf Feb-08 12:29:31.071 [main] DEBUG nextflow.script.ScriptRunner - > Awaiting termination Feb-08 12:29:31.072 [main] DEBUG nextflow.Session - Session await Feb-08 12:29:31.149 [Actor Thread 4] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/ubuntu:20.04; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-ubuntu-20.04.img Feb-08 12:29:31.149 [Actor Thread 9] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/samtools:1.20--h50ea8bc_0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-samtools-1.20--h50ea8bc_0.img Feb-08 12:29:31.149 [Actor Thread 10] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/seqkit:2.8.0--h9ee0642_0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-seqkit-2.8.0--h9ee0642_0.img Feb-08 12:29:31.149 [Actor Thread 6] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/bowtie2:2.5.2--py39h6fed5c7_0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-bowtie2-2.5.2--py39h6fed5c7_0.img Feb-08 12:29:31.149 [Actor Thread 5] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/bwa:0.7.18--he4a0461_0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-bwa-0.7.18--he4a0461_0.img Feb-08 12:29:31.309 [Actor Thread 14] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/python:3.9--1; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-python-3.9--1.img Feb-08 12:29:31.452 [Actor Thread 28] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 1; slices: 1; internal sort time: 0.002 s; external sort time: 0.002 s; total time: 0.004 s Feb-08 12:29:31.453 [Actor Thread 28] DEBUG nextflow.file.FileCollector - >> temp file exists? false Feb-08 12:29:31.453 [Actor Thread 28] DEBUG nextflow.file.FileCollector - Missed collect-file cache -- cause: java.nio.file.NoSuchFileException: /lustre/scratch/scratch/zchams6/work/collect-file/a0d14c0ee7616eef38cba674c44d5267 Feb-08 12:29:31.560 [Actor Thread 28] DEBUG nextflow.file.FileCollector - Saved collect-files list to: /lustre/scratch/scratch/zchams6/work/collect-file/a0d14c0ee7616eef38cba674c44d5267 Feb-08 12:29:31.714 [Actor Thread 28] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-6155722291465827208 Feb-08 12:29:31.854 [Actor Thread 21] INFO nextflow.processor.TaskProcessor - [f0/6ba5e8] Cached process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:BOWTIE2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa) Feb-08 12:29:31.854 [Actor Thread 15] INFO nextflow.processor.TaskProcessor - [a6/90c138] Cached process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:GTFFILTER (gtf) Feb-08 12:29:31.856 [Actor Thread 1] INFO nextflow.processor.TaskProcessor - [59/bcc2e5] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (CONTROL_REP1) Feb-08 12:29:31.856 [Actor Thread 23] INFO nextflow.processor.TaskProcessor - [c0/8c0dfb] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (CONTROL_REP3) Feb-08 12:29:31.856 [Actor Thread 27] INFO nextflow.processor.TaskProcessor - [ca/2238cc] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (KO1_REP1) Feb-08 12:29:31.856 [Actor Thread 24] INFO nextflow.processor.TaskProcessor - [3e/5a1880] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (KO1_REP2) Feb-08 12:29:31.856 [Actor Thread 18] INFO nextflow.processor.TaskProcessor - [48/958c54] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (CONTROL_REP4) Feb-08 12:29:31.856 [Actor Thread 26] INFO nextflow.processor.TaskProcessor - [3e/70ab50] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (CONTROL_REP2) Feb-08 12:29:31.860 [Actor Thread 8] INFO nextflow.processor.TaskProcessor - [99/b27f0a] Cached process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:SAMTOOLS_FAIDX (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa) Feb-08 12:29:31.982 [Actor Thread 17] INFO nextflow.processor.TaskProcessor - [29/19f7c6] Cached process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:SEQKIT_SPLIT (fasta) Feb-08 12:29:32.050 [Actor Thread 28] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/hisat2:2.2.1--h1b792b2_3; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-hisat2-2.2.1--h1b792b2_3.img Feb-08 12:29:32.051 [Actor Thread 22] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/ucsc-gtftogenepred:447--h954228d_0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-ucsc-gtftogenepred-447--h954228d_0.img Feb-08 12:29:32.051 [Actor Thread 6] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/agat:1.4.0--pl5321hdfd78af_0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-agat-1.4.0--pl5321hdfd78af_0.img Feb-08 12:29:32.117 [Actor Thread 46] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/trim-galore:0.6.7--hdfd78af_0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-trim-galore-0.6.7--hdfd78af_0.img Feb-08 12:29:32.118 [Actor Thread 20] INFO nextflow.processor.TaskProcessor - [9d/fd9429] Cached process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:BWA_INDEX (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa) Feb-08 12:29:32.120 [Actor Thread 6] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/mulled-v2-1fa26d1ce03c295fe2fdcf85831a92fbcbd7e8c2:ded3841da0194af2701c780e9b3d653a85d27489-0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-mulled-v2-1fa26d1ce03c295fe2fdcf85831a92fbcbd7e8c2-ded3841da0194af2701c780e9b3d653a85d27489-0.img Feb-08 12:29:32.121 [Actor Thread 22] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/fastqc:0.12.1--hdfd78af_0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-fastqc-0.12.1--hdfd78af_0.img Feb-08 12:29:32.156 [Actor Thread 15] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'PublishDir' minSize=10; maxSize=18; workQueue=LinkedBlockingQueue[10000]; allowCoreThreadTimeout=false Feb-08 12:29:32.159 [Actor Thread 29] INFO nextflow.processor.TaskProcessor - [5f/c32731] Cached process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:UCSC_GTFTOGENEPRED (gtf) Feb-08 12:29:32.166 [Actor Thread 35] INFO nextflow.processor.TaskProcessor - [3d/d6c3c5] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ADD_INTRONS (gtf) Feb-08 12:29:32.167 [Actor Thread 41] INFO nextflow.processor.TaskProcessor - [0d/f5e469] Cached process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_EXTRACTSPLICESITES (gtf.filtered.gtf) Feb-08 12:29:32.194 [Actor Thread 5] INFO nextflow.processor.TaskProcessor - [69/df2336] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (CONTROL_REP4) Feb-08 12:29:32.204 [Actor Thread 44] INFO nextflow.processor.TaskProcessor - [98/1ef679] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (CONTROL_REP3) Feb-08 12:29:32.204 [Actor Thread 32] INFO nextflow.processor.TaskProcessor - [13/51f7ba] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (CONTROL_REP2) Feb-08 12:29:32.204 [Actor Thread 43] INFO nextflow.processor.TaskProcessor - [93/a1e81e] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (CONTROL_REP2) Feb-08 12:29:32.205 [Actor Thread 48] INFO nextflow.processor.TaskProcessor - [a3/8863fd] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (KO1_REP1) Feb-08 12:29:32.205 [Actor Thread 45] INFO nextflow.processor.TaskProcessor - [d0/4b0321] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (CONTROL_REP1) Feb-08 12:29:32.206 [Actor Thread 4] INFO nextflow.processor.TaskProcessor - [b6/533b4b] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (KO1_REP2) Feb-08 12:29:32.211 [Actor Thread 10] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/gawk:5.3.0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-gawk-5.3.0.img Feb-08 12:29:32.247 [Actor Thread 51] INFO nextflow.Nextflow - [HISAT2 index build] Available memory: 200 GB Feb-08 12:29:32.253 [Actor Thread 49] INFO nextflow.processor.TaskProcessor - [ca/2e8cf5] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (KO1_REP1) Feb-08 12:29:32.254 [Actor Thread 40] INFO nextflow.processor.TaskProcessor - [11/77cd62] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (CONTROL_REP1) Feb-08 12:29:32.267 [Actor Thread 18] INFO nextflow.processor.TaskProcessor - [6f/01a3be] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (KO1_REP3) Feb-08 12:29:32.268 [Actor Thread 33] INFO nextflow.processor.TaskProcessor - [a0/0c6569] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (CONTROL_REP4) Feb-08 12:29:32.269 [Actor Thread 51] INFO nextflow.Nextflow - [HISAT2 index build] At least 200 GB available, so using splice sites and exons to build HISAT2 index Feb-08 12:29:32.271 [Actor Thread 36] INFO nextflow.processor.TaskProcessor - [2b/32cdfa] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (KO1_REP2) Feb-08 12:29:32.274 [Actor Thread 14] INFO nextflow.processor.TaskProcessor - [3a/6974dc] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (CONTROL_REP3) Feb-08 12:29:32.290 [Actor Thread 28] INFO nextflow.processor.TaskProcessor - [3c/dd37f7] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_EXONS_INTRONS (gtf) Feb-08 12:29:32.300 [Actor Thread 1] INFO nextflow.processor.TaskProcessor - [eb/73e617] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (KO2_REP2) Feb-08 12:29:32.301 [Actor Thread 27] INFO nextflow.processor.TaskProcessor - [aa/71445f] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (KO2_REP1) Feb-08 12:29:32.302 [Actor Thread 23] INFO nextflow.processor.TaskProcessor - [99/fc1963] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (KO1_REP4) Feb-08 12:29:32.303 [Actor Thread 24] INFO nextflow.processor.TaskProcessor - [f2/5f0c2a] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (KO2_REP4) Feb-08 12:29:32.303 [Actor Thread 26] INFO nextflow.processor.TaskProcessor - [16/33b1fd] Cached process > NFCORE_CIRCRNA:CIRCRNA:CAT_FASTQ (KO2_REP3) Feb-08 12:29:32.335 [Actor Thread 30] INFO nextflow.processor.TaskProcessor - [2a/333ca1] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (KO1_REP3) Feb-08 12:29:32.362 [Actor Thread 40] INFO nextflow.processor.TaskProcessor - [5e/2cb1e6] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (KO2_REP3) Feb-08 12:29:32.401 [Actor Thread 5] INFO nextflow.processor.TaskProcessor - [ce/b94ec9] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (KO2_REP2) Feb-08 12:29:32.433 [Actor Thread 6] INFO nextflow.processor.TaskProcessor - [ec/e1e27d] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (KO2_REP1) Feb-08 12:29:32.433 [Actor Thread 20] INFO nextflow.processor.TaskProcessor - [1f/6c1d6c] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (KO2_REP4) Feb-08 12:29:32.445 [Actor Thread 27] INFO nextflow.processor.TaskProcessor - [a4/46c9d6] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:FASTQC (KO1_REP4) Feb-08 12:29:32.671 [Actor Thread 8] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:SAMTOOLS_FAIDX > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:32.671 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.671 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:UCSC_GTFTOGENEPRED > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:32.671 [Actor Thread 8] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:SAMTOOLS_FAIDX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.672 [Actor Thread 14] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.698 [Actor Thread 48] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.700 [Actor Thread 4] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.701 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.702 [Actor Thread 19] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/mulled-v2-ac74a7f02cebcfcc07d8e8d1d750af9c83b4d45a:f70b31a2db15c023d641c32f433fb02cd04df5a6-0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-mulled-v2-ac74a7f02cebcfcc07d8e8d1d750af9c83b4d45a-f70b31a2db15c023d641c32f433fb02cd04df5a6-0.img Feb-08 12:29:32.703 [Actor Thread 33] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.729 [Actor Thread 5] INFO nextflow.processor.TaskProcessor - [16/984efe] Cached process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:CIRCEXPLORER2_REFERENCE (gtf) Feb-08 12:29:32.763 [Actor Thread 8] INFO nextflow.processor.TaskProcessor - [d9/2a82f5] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (KO1_REP3) Feb-08 12:29:32.763 [Actor Thread 4] INFO nextflow.processor.TaskProcessor - [a5/dc927e] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (KO1_REP4) Feb-08 12:29:32.766 [Actor Thread 14] INFO nextflow.processor.TaskProcessor - [03/9457a2] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (KO2_REP2) Feb-08 12:29:32.778 [Actor Thread 8] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.825 [Actor Thread 14] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.828 [Actor Thread 4] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.833 [Actor Thread 48] INFO nextflow.processor.TaskProcessor - [55/5a8777] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (KO2_REP1) Feb-08 12:29:32.837 [Actor Thread 48] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.838 [Actor Thread 33] INFO nextflow.processor.TaskProcessor - [61/e02838] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (KO2_REP3) Feb-08 12:29:32.838 [Actor Thread 17] INFO nextflow.processor.TaskProcessor - [e4/0e9050] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (CONTROL_REP1) Feb-08 12:29:32.839 [Actor Thread 45] INFO nextflow.processor.TaskProcessor - [25/806972] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (CONTROL_REP2) Feb-08 12:29:32.840 [Actor Thread 33] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.841 [Actor Thread 23] INFO nextflow.processor.TaskProcessor - [14/c47764] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (CONTROL_REP3) Feb-08 12:29:32.842 [Actor Thread 17] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:32.843 [Actor Thread 17] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.843 [Actor Thread 17] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:32.843 [Actor Thread 17] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:32.843 [Actor Thread 17] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:32.845 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:32.846 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.846 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:32.846 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:32.847 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:32.847 [Actor Thread 16] INFO nextflow.processor.TaskProcessor - [db/30ae68] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (KO1_REP2) Feb-08 12:29:32.847 [Actor Thread 34] INFO nextflow.processor.TaskProcessor - [0c/6d89c9] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (CONTROL_REP4) Feb-08 12:29:32.848 [Actor Thread 29] INFO nextflow.processor.TaskProcessor - [c5/409921] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (KO1_REP1) Feb-08 12:29:32.848 [Actor Thread 43] INFO nextflow.processor.TaskProcessor - [8a/9ad102] Cached process > NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE (KO2_REP4) Feb-08 12:29:32.850 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:32.850 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.850 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:FASTQC_TRIMGALORE:TRIMGALORE > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.850 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:32.851 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:32.851 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:32.899 [Actor Thread 16] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:32.900 [Actor Thread 16] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.900 [Actor Thread 16] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:32.900 [Actor Thread 16] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:32.901 [Actor Thread 16] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:32.903 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:32.903 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.904 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:32.904 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:32.904 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:32.906 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:32.907 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.907 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:32.907 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:32.907 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:32.920 [Actor Thread 4] INFO nextflow.processor.TaskProcessor - [da/7f78db] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (CONTROL_REP1) Feb-08 12:29:32.922 [Actor Thread 47] INFO nextflow.processor.TaskProcessor - [3f/0a7b1d] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (CONTROL_REP3) Feb-08 12:29:32.922 [Actor Thread 4] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:32.922 [Actor Thread 4] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.924 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:32.924 [Actor Thread 14] INFO nextflow.processor.TaskProcessor - [85/737f68] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (CONTROL_REP2) Feb-08 12:29:32.924 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.926 [Actor Thread 14] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:32.926 [Actor Thread 14] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.933 [Actor Thread 17] INFO nextflow.processor.TaskProcessor - [f4/241018] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (CONTROL_REP4) Feb-08 12:29:32.935 [Actor Thread 17] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:32.935 [Actor Thread 17] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.938 [Actor Thread 23] INFO nextflow.processor.TaskProcessor - [c7/5a9eaf] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (KO2_REP2) Feb-08 12:29:32.941 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:32.941 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:32.941 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:32.999 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:32.999 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.000 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (2)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8d/b2552e598e581373dcde8959b5514b/CONTROL_REP3_unmapped.cram` (pattern: `CONTROL_REP3_unmapped.cram`) Feb-08 12:29:33.001 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (2)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8d/b2552e598e581373dcde8959b5514b/CONTROL_REP3_unmapped.sam` (pattern: `CONTROL_REP3_unmapped.sam`) Feb-08 12:29:33.003 [Actor Thread 15] INFO nextflow.processor.TaskProcessor - [a2/327afd] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (KO1_REP1) Feb-08 12:29:33.003 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (2)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8d/b2552e598e581373dcde8959b5514b/CONTROL_REP3_unmapped.bam.bai` (pattern: `CONTROL_REP3_unmapped.bam.bai`) Feb-08 12:29:33.004 [Actor Thread 8] INFO nextflow.processor.TaskProcessor - [c8/99af7e] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (KO1_REP2) Feb-08 12:29:33.004 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (2)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8d/b2552e598e581373dcde8959b5514b/CONTROL_REP3_unmapped.bam.csi` (pattern: `CONTROL_REP3_unmapped.bam.csi`) Feb-08 12:29:33.005 [Actor Thread 29] INFO nextflow.processor.TaskProcessor - [cf/2b3328] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (KO2_REP3) Feb-08 12:29:33.006 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (2)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8d/b2552e598e581373dcde8959b5514b/CONTROL_REP3_unmapped.bam.crai` (pattern: `CONTROL_REP3_unmapped.bam.crai`) Feb-08 12:29:33.006 [Actor Thread 15] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.006 [Task submitter] DEBUG nextflow.executor.GridTaskHandler - [SGE] submitted process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa) > jobId: 700660; workDir: /lustre/scratch/scratch/zchams6/work/14/6b64fb94377ac8d5e3474e4b454dc2 Feb-08 12:29:33.006 [Actor Thread 15] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.006 [Task submitter] INFO nextflow.Session - [14/6b64fb] Submitted process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa) Feb-08 12:29:33.006 [Actor Thread 16] INFO nextflow.processor.TaskProcessor - [e7/192a9b] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (KO2_REP1) Feb-08 12:29:33.007 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (2)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8d/b2552e598e581373dcde8959b5514b/CONTROL_REP3_unmapped.unselected.bam` (pattern: `CONTROL_REP3_unmapped.unselected.bam`) Feb-08 12:29:33.007 [Actor Thread 8] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.007 [Actor Thread 8] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.008 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:33.008 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.009 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.009 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.009 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.011 [Actor Thread 16] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:33.011 [Actor Thread 16] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.011 [Actor Thread 16] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.012 [Actor Thread 16] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.012 [Actor Thread 16] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.013 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (1)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8b/e604dfb3f2c8dc37a9c9ba8b3f15c5/CONTROL_REP1_unmapped.cram` (pattern: `CONTROL_REP1_unmapped.cram`) Feb-08 12:29:33.014 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (1)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8b/e604dfb3f2c8dc37a9c9ba8b3f15c5/CONTROL_REP1_unmapped.sam` (pattern: `CONTROL_REP1_unmapped.sam`) Feb-08 12:29:33.015 [Actor Thread 5] INFO nextflow.processor.TaskProcessor - [cb/3be629] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (KO1_REP3) Feb-08 12:29:33.015 [Actor Thread 45] INFO nextflow.processor.TaskProcessor - [9e/bd79fc] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (KO1_REP4) Feb-08 12:29:33.015 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (1)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8b/e604dfb3f2c8dc37a9c9ba8b3f15c5/CONTROL_REP1_unmapped.bam.bai` (pattern: `CONTROL_REP1_unmapped.bam.bai`) Feb-08 12:29:33.016 [Actor Thread 33] INFO nextflow.processor.TaskProcessor - [3e/17f186] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN (KO2_REP4) Feb-08 12:29:33.016 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (1)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8b/e604dfb3f2c8dc37a9c9ba8b3f15c5/CONTROL_REP1_unmapped.bam.csi` (pattern: `CONTROL_REP1_unmapped.bam.csi`) Feb-08 12:29:33.017 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (1)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8b/e604dfb3f2c8dc37a9c9ba8b3f15c5/CONTROL_REP1_unmapped.bam.crai` (pattern: `CONTROL_REP1_unmapped.bam.crai`) Feb-08 12:29:33.017 [Actor Thread 5] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:33.017 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (1)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/8b/e604dfb3f2c8dc37a9c9ba8b3f15c5/CONTROL_REP1_unmapped.unselected.bam` (pattern: `CONTROL_REP1_unmapped.unselected.bam`) Feb-08 12:29:33.018 [Actor Thread 5] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.018 [Actor Thread 5] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.018 [Actor Thread 5] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.018 [Actor Thread 5] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.019 [Actor Thread 43] INFO nextflow.processor.TaskProcessor - [8d/b2552e] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (CONTROL_REP3) Feb-08 12:29:33.020 [Actor Thread 33] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:33.021 [Actor Thread 33] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.021 [Actor Thread 33] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.021 [Actor Thread 33] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.021 [Actor Thread 33] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.022 [Actor Thread 26] INFO nextflow.processor.TaskProcessor - [8b/e604df] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (CONTROL_REP1) Feb-08 12:29:33.023 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.023 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.023 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-08 12:29:33.023 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.023 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.023 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.024 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.024 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.024 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.024 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.024 [Actor Thread 43] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.024 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.024 [Actor Thread 17] INFO nextflow.processor.TaskProcessor - [dd/b222c5] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (KO2_REP2) Feb-08 12:29:33.025 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (4)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/ca/21ce189db285b46ee09e9acaca607f/CONTROL_REP4_unmapped.cram` (pattern: `CONTROL_REP4_unmapped.cram`) Feb-08 12:29:33.026 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (4)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/ca/21ce189db285b46ee09e9acaca607f/CONTROL_REP4_unmapped.sam` (pattern: `CONTROL_REP4_unmapped.sam`) Feb-08 12:29:33.026 [Actor Thread 17] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.026 [Actor Thread 17] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.026 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.026 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.026 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (4)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/ca/21ce189db285b46ee09e9acaca607f/CONTROL_REP4_unmapped.bam.bai` (pattern: `CONTROL_REP4_unmapped.bam.bai`) Feb-08 12:29:33.027 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.027 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.027 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.027 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.027 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.027 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (4)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/ca/21ce189db285b46ee09e9acaca607f/CONTROL_REP4_unmapped.bam.csi` (pattern: `CONTROL_REP4_unmapped.bam.csi`) Feb-08 12:29:33.028 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (4)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/ca/21ce189db285b46ee09e9acaca607f/CONTROL_REP4_unmapped.bam.crai` (pattern: `CONTROL_REP4_unmapped.bam.crai`) Feb-08 12:29:33.029 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (4)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/ca/21ce189db285b46ee09e9acaca607f/CONTROL_REP4_unmapped.unselected.bam` (pattern: `CONTROL_REP4_unmapped.unselected.bam`) Feb-08 12:29:33.029 [Actor Thread 17] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/find_circ%3A1.2--hdfd78af_0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-find_circ%3A1.2--hdfd78af_0.img Feb-08 12:29:33.030 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (3)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/7b/54dbfc8b7667de713caa0b991c40a3/CONTROL_REP2_unmapped.cram` (pattern: `CONTROL_REP2_unmapped.cram`) Feb-08 12:29:33.031 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (3)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/7b/54dbfc8b7667de713caa0b991c40a3/CONTROL_REP2_unmapped.sam` (pattern: `CONTROL_REP2_unmapped.sam`) Feb-08 12:29:33.099 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (3)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/7b/54dbfc8b7667de713caa0b991c40a3/CONTROL_REP2_unmapped.bam.bai` (pattern: `CONTROL_REP2_unmapped.bam.bai`) Feb-08 12:29:33.100 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (5)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/bf/7400e64c6f509f572345cf595683d4/KO1_REP1_unmapped.cram` (pattern: `KO1_REP1_unmapped.cram`) Feb-08 12:29:33.100 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (6)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/5a/7ea3e89f5f54ae717deee1301af89a/KO1_REP2_unmapped.cram` (pattern: `KO1_REP2_unmapped.cram`) Feb-08 12:29:33.100 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (3)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/7b/54dbfc8b7667de713caa0b991c40a3/CONTROL_REP2_unmapped.bam.csi` (pattern: `CONTROL_REP2_unmapped.bam.csi`) Feb-08 12:29:33.100 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (5)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/bf/7400e64c6f509f572345cf595683d4/KO1_REP1_unmapped.sam` (pattern: `KO1_REP1_unmapped.sam`) Feb-08 12:29:33.100 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (6)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/5a/7ea3e89f5f54ae717deee1301af89a/KO1_REP2_unmapped.sam` (pattern: `KO1_REP2_unmapped.sam`) Feb-08 12:29:33.101 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (3)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/7b/54dbfc8b7667de713caa0b991c40a3/CONTROL_REP2_unmapped.bam.crai` (pattern: `CONTROL_REP2_unmapped.bam.crai`) Feb-08 12:29:33.101 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (6)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/5a/7ea3e89f5f54ae717deee1301af89a/KO1_REP2_unmapped.bam.bai` (pattern: `KO1_REP2_unmapped.bam.bai`) Feb-08 12:29:33.101 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (5)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/bf/7400e64c6f509f572345cf595683d4/KO1_REP1_unmapped.bam.bai` (pattern: `KO1_REP1_unmapped.bam.bai`) Feb-08 12:29:33.102 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (3)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/7b/54dbfc8b7667de713caa0b991c40a3/CONTROL_REP2_unmapped.unselected.bam` (pattern: `CONTROL_REP2_unmapped.unselected.bam`) Feb-08 12:29:33.102 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (6)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/5a/7ea3e89f5f54ae717deee1301af89a/KO1_REP2_unmapped.bam.csi` (pattern: `KO1_REP2_unmapped.bam.csi`) Feb-08 12:29:33.102 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (5)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/bf/7400e64c6f509f572345cf595683d4/KO1_REP1_unmapped.bam.csi` (pattern: `KO1_REP1_unmapped.bam.csi`) Feb-08 12:29:33.103 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (6)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/5a/7ea3e89f5f54ae717deee1301af89a/KO1_REP2_unmapped.bam.crai` (pattern: `KO1_REP2_unmapped.bam.crai`) Feb-08 12:29:33.103 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (5)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/bf/7400e64c6f509f572345cf595683d4/KO1_REP1_unmapped.bam.crai` (pattern: `KO1_REP1_unmapped.bam.crai`) Feb-08 12:29:33.104 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (6)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/5a/7ea3e89f5f54ae717deee1301af89a/KO1_REP2_unmapped.unselected.bam` (pattern: `KO1_REP2_unmapped.unselected.bam`) Feb-08 12:29:33.104 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (5)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/bf/7400e64c6f509f572345cf595683d4/KO1_REP1_unmapped.unselected.bam` (pattern: `KO1_REP1_unmapped.unselected.bam`) Feb-08 12:29:33.105 [Actor Thread 27] INFO nextflow.processor.TaskProcessor - [ab/71adc8] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (KO2_REP1) Feb-08 12:29:33.105 [Actor Thread 29] INFO nextflow.processor.TaskProcessor - [33/551610] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (KO1_REP3) Feb-08 12:29:33.105 [Actor Thread 33] INFO nextflow.processor.TaskProcessor - [79/d16279] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (KO1_REP4) Feb-08 12:29:33.106 [Actor Thread 47] INFO nextflow.processor.TaskProcessor - [7b/54dbfc] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (CONTROL_REP2) Feb-08 12:29:33.107 [Actor Thread 27] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.107 [Actor Thread 27] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.108 [Actor Thread 5] INFO nextflow.processor.TaskProcessor - [4d/5fb653] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (KO2_REP4) Feb-08 12:29:33.108 [Actor Thread 49] INFO nextflow.processor.TaskProcessor - [bf/7400e6] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (KO1_REP1) Feb-08 12:29:33.108 [Actor Thread 9] INFO nextflow.processor.TaskProcessor - [5a/7ea3e8] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (KO1_REP2) Feb-08 12:29:33.108 [Actor Thread 4] INFO nextflow.processor.TaskProcessor - [53/7e1fb7] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX (KO2_REP3) Feb-08 12:29:33.109 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.109 [Actor Thread 29] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.110 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.110 [Actor Thread 33] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.110 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.110 [Actor Thread 33] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.110 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.111 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.111 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.111 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.111 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.112 [Actor Thread 4] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.112 [Actor Thread 4] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.113 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.113 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.113 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.113 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.114 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.114 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.114 [Actor Thread 9] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.114 [Actor Thread 5] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.114 [Actor Thread 5] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.114 [Actor Thread 16] INFO nextflow.processor.TaskProcessor - [9a/855028] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (CONTROL_REP3) Feb-08 12:29:33.115 [Actor Thread 34] INFO nextflow.processor.TaskProcessor - [ca/21ce18] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (CONTROL_REP4) Feb-08 12:29:33.115 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (7)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/97/07ce030643f218ad1483d21a046b9e/KO2_REP2_unmapped.cram` (pattern: `KO2_REP2_unmapped.cram`) Feb-08 12:29:33.116 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (7)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/97/07ce030643f218ad1483d21a046b9e/KO2_REP2_unmapped.sam` (pattern: `KO2_REP2_unmapped.sam`) Feb-08 12:29:33.116 [Actor Thread 40] INFO nextflow.processor.TaskProcessor - [11/a6ff42] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (CONTROL_REP1) Feb-08 12:29:33.117 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (7)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/97/07ce030643f218ad1483d21a046b9e/KO2_REP2_unmapped.bam.bai` (pattern: `KO2_REP2_unmapped.bam.bai`) Feb-08 12:29:33.118 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (7)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/97/07ce030643f218ad1483d21a046b9e/KO2_REP2_unmapped.bam.csi` (pattern: `KO2_REP2_unmapped.bam.csi`) Feb-08 12:29:33.119 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (7)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/97/07ce030643f218ad1483d21a046b9e/KO2_REP2_unmapped.bam.crai` (pattern: `KO2_REP2_unmapped.bam.crai`) Feb-08 12:29:33.119 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (7)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/97/07ce030643f218ad1483d21a046b9e/KO2_REP2_unmapped.unselected.bam` (pattern: `KO2_REP2_unmapped.unselected.bam`) Feb-08 12:29:33.122 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.122 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.122 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.122 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.122 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.122 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.122 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.124 [Actor Thread 23] INFO nextflow.processor.TaskProcessor - [97/07ce03] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (KO2_REP2) Feb-08 12:29:33.125 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.125 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.125 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.125 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.125 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.126 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.126 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.128 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.128 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.129 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.129 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.129 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.129 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.129 [Actor Thread 23] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.130 [Actor Thread 19] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/mulled-v2-c27e472038a09e49d9147bc52903e12836302c12:60ffb3b15a2c40c669f8d38382b1e6e4b065f5e4-0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-mulled-v2-c27e472038a09e49d9147bc52903e12836302c12-60ffb3b15a2c40c669f8d38382b1e6e4b065f5e4-0.img Feb-08 12:29:33.199 [Task submitter] DEBUG nextflow.executor.GridTaskHandler - [SGE] submitted process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa) > jobId: 700661; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 Feb-08 12:29:33.199 [Task submitter] INFO nextflow.Session - [65/d2a54c] Submitted process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa) Feb-08 12:29:33.200 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (8)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/03/bae5ccbbceed121ebf5a9970894d3b/KO2_REP1_unmapped.cram` (pattern: `KO2_REP1_unmapped.cram`) Feb-08 12:29:33.200 [Actor Thread 8] INFO nextflow.processor.TaskProcessor - [75/75e313] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (CONTROL_REP2) Feb-08 12:29:33.201 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (10)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/95/5b7ef0a6473a302d633a945022a569/KO1_REP4_unmapped.cram` (pattern: `KO1_REP4_unmapped.cram`) Feb-08 12:29:33.201 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (9)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/93/b77bb143a6ea3f0373c48ffa0f1b45/KO1_REP3_unmapped.cram` (pattern: `KO1_REP3_unmapped.cram`) Feb-08 12:29:33.201 [Actor Thread 29] INFO nextflow.processor.TaskProcessor - [ff/43be25] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (KO1_REP2) Feb-08 12:29:33.201 [Actor Thread 16] INFO nextflow.processor.TaskProcessor - [b7/cecf45] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (KO1_REP1) Feb-08 12:29:33.201 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (8)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/03/bae5ccbbceed121ebf5a9970894d3b/KO2_REP1_unmapped.sam` (pattern: `KO2_REP1_unmapped.sam`) Feb-08 12:29:33.201 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (9)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/93/b77bb143a6ea3f0373c48ffa0f1b45/KO1_REP3_unmapped.sam` (pattern: `KO1_REP3_unmapped.sam`) Feb-08 12:29:33.201 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (10)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/95/5b7ef0a6473a302d633a945022a569/KO1_REP4_unmapped.sam` (pattern: `KO1_REP4_unmapped.sam`) Feb-08 12:29:33.202 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (9)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/93/b77bb143a6ea3f0373c48ffa0f1b45/KO1_REP3_unmapped.bam.bai` (pattern: `KO1_REP3_unmapped.bam.bai`) Feb-08 12:29:33.202 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (8)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/03/bae5ccbbceed121ebf5a9970894d3b/KO2_REP1_unmapped.bam.bai` (pattern: `KO2_REP1_unmapped.bam.bai`) Feb-08 12:29:33.202 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (10)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/95/5b7ef0a6473a302d633a945022a569/KO1_REP4_unmapped.bam.bai` (pattern: `KO1_REP4_unmapped.bam.bai`) Feb-08 12:29:33.203 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (8)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/03/bae5ccbbceed121ebf5a9970894d3b/KO2_REP1_unmapped.bam.csi` (pattern: `KO2_REP1_unmapped.bam.csi`) Feb-08 12:29:33.203 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (10)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/95/5b7ef0a6473a302d633a945022a569/KO1_REP4_unmapped.bam.csi` (pattern: `KO1_REP4_unmapped.bam.csi`) Feb-08 12:29:33.203 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (9)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/93/b77bb143a6ea3f0373c48ffa0f1b45/KO1_REP3_unmapped.bam.csi` (pattern: `KO1_REP3_unmapped.bam.csi`) Feb-08 12:29:33.204 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (9)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/93/b77bb143a6ea3f0373c48ffa0f1b45/KO1_REP3_unmapped.bam.crai` (pattern: `KO1_REP3_unmapped.bam.crai`) Feb-08 12:29:33.204 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (8)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/03/bae5ccbbceed121ebf5a9970894d3b/KO2_REP1_unmapped.bam.crai` (pattern: `KO2_REP1_unmapped.bam.crai`) Feb-08 12:29:33.204 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (10)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/95/5b7ef0a6473a302d633a945022a569/KO1_REP4_unmapped.bam.crai` (pattern: `KO1_REP4_unmapped.bam.crai`) Feb-08 12:29:33.205 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (10)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/95/5b7ef0a6473a302d633a945022a569/KO1_REP4_unmapped.unselected.bam` (pattern: `KO1_REP4_unmapped.unselected.bam`) Feb-08 12:29:33.205 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (8)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/03/bae5ccbbceed121ebf5a9970894d3b/KO2_REP1_unmapped.unselected.bam` (pattern: `KO2_REP1_unmapped.unselected.bam`) Feb-08 12:29:33.205 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (9)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/93/b77bb143a6ea3f0373c48ffa0f1b45/KO1_REP3_unmapped.unselected.bam` (pattern: `KO1_REP3_unmapped.unselected.bam`) Feb-08 12:29:33.207 [Actor Thread 40] INFO nextflow.processor.TaskProcessor - [cd/136c9b] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (CONTROL_REP4) Feb-08 12:29:33.209 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (11)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/67/f79c56a19ed296916ccc0f5ddf896c/KO2_REP3_unmapped.cram` (pattern: `KO2_REP3_unmapped.cram`) Feb-08 12:29:33.210 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (11)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/67/f79c56a19ed296916ccc0f5ddf896c/KO2_REP3_unmapped.sam` (pattern: `KO2_REP3_unmapped.sam`) Feb-08 12:29:33.210 [Actor Thread 45] INFO nextflow.processor.TaskProcessor - [03/bae5cc] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (KO2_REP1) Feb-08 12:29:33.211 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (11)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/67/f79c56a19ed296916ccc0f5ddf896c/KO2_REP3_unmapped.bam.bai` (pattern: `KO2_REP3_unmapped.bam.bai`) Feb-08 12:29:33.212 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (11)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/67/f79c56a19ed296916ccc0f5ddf896c/KO2_REP3_unmapped.bam.csi` (pattern: `KO2_REP3_unmapped.bam.csi`) Feb-08 12:29:33.213 [Actor Thread 47] INFO nextflow.processor.TaskProcessor - [93/b77bb1] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (KO1_REP3) Feb-08 12:29:33.213 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (11)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/67/f79c56a19ed296916ccc0f5ddf896c/KO2_REP3_unmapped.bam.crai` (pattern: `KO2_REP3_unmapped.bam.crai`) Feb-08 12:29:33.213 [Actor Thread 26] INFO nextflow.processor.TaskProcessor - [95/5b7ef0] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (KO1_REP4) Feb-08 12:29:33.213 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.214 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.214 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (11)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/67/f79c56a19ed296916ccc0f5ddf896c/KO2_REP3_unmapped.unselected.bam` (pattern: `KO2_REP3_unmapped.unselected.bam`) Feb-08 12:29:33.214 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.214 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.214 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.214 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.214 [Actor Thread 45] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.215 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (12)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/91/057dca06477863b37bb7507cd96ca9/KO2_REP4_unmapped.cram` (pattern: `KO2_REP4_unmapped.cram`) Feb-08 12:29:33.216 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (12)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/91/057dca06477863b37bb7507cd96ca9/KO2_REP4_unmapped.sam` (pattern: `KO2_REP4_unmapped.sam`) Feb-08 12:29:33.217 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.217 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (12)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/91/057dca06477863b37bb7507cd96ca9/KO2_REP4_unmapped.bam.bai` (pattern: `KO2_REP4_unmapped.bam.bai`) Feb-08 12:29:33.217 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.217 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.217 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.217 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.217 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.217 [Actor Thread 26] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.217 [Actor Thread 15] INFO nextflow.processor.TaskProcessor - [32/3f4405] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (KO2_REP2) Feb-08 12:29:33.217 [Actor Thread 5] INFO nextflow.processor.TaskProcessor - [a9/c6e5ee] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (CONTROL_REP3) Feb-08 12:29:33.218 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (12)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/91/057dca06477863b37bb7507cd96ca9/KO2_REP4_unmapped.bam.csi` (pattern: `KO2_REP4_unmapped.bam.csi`) Feb-08 12:29:33.218 [Actor Thread 49] INFO nextflow.processor.TaskProcessor - [67/f79c56] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (KO2_REP3) Feb-08 12:29:33.219 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (12)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/91/057dca06477863b37bb7507cd96ca9/KO2_REP4_unmapped.bam.crai` (pattern: `KO2_REP4_unmapped.bam.crai`) Feb-08 12:29:33.219 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process `NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (12)` is unable to find [UnixPath]: `/lustre/scratch/scratch/zchams6/work/91/057dca06477863b37bb7507cd96ca9/KO2_REP4_unmapped.unselected.bam` (pattern: `KO2_REP4_unmapped.unselected.bam`) Feb-08 12:29:33.220 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.220 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.220 [Actor Thread 27] INFO nextflow.processor.TaskProcessor - [e1/7f5da5] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (CONTROL_REP1) Feb-08 12:29:33.220 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.220 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.220 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.220 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.220 [Actor Thread 47] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.223 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.224 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.224 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.224 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.224 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.224 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.224 [Actor Thread 49] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.228 [Actor Thread 9] INFO nextflow.processor.TaskProcessor - [34/edcb42] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (KO2_REP1) Feb-08 12:29:33.228 [Actor Thread 51] INFO nextflow.processor.TaskProcessor - [ea/f32cba] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (KO1_REP1) Feb-08 12:29:33.232 [Actor Thread 23] INFO nextflow.processor.TaskProcessor - [a1/bb7e4c] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (CONTROL_REP4) Feb-08 12:29:33.300 [Actor Thread 34] INFO nextflow.processor.TaskProcessor - [91/057dca] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW (KO2_REP4) Feb-08 12:29:33.300 [Actor Thread 29] INFO nextflow.processor.TaskProcessor - [ba/28093d] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (KO1_REP4) Feb-08 12:29:33.300 [Actor Thread 27] INFO nextflow.processor.TaskProcessor - [43/efabcd] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (KO2_REP3) Feb-08 12:29:33.301 [Actor Thread 43] INFO nextflow.processor.TaskProcessor - [f9/286c48] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (KO1_REP3) Feb-08 12:29:33.301 [Actor Thread 4] INFO nextflow.processor.TaskProcessor - [23/452506] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (CONTROL_REP3) Feb-08 12:29:33.301 [Actor Thread 16] INFO nextflow.processor.TaskProcessor - [50/99d075] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (CONTROL_REP1) Feb-08 12:29:33.301 [Actor Thread 48] INFO nextflow.processor.TaskProcessor - [09/bc45cd] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (KO1_REP2) Feb-08 12:29:33.301 [Actor Thread 19] INFO nextflow.processor.TaskProcessor - [49/d1af7b] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (CONTROL_REP2) Feb-08 12:29:33.302 [Actor Thread 5] INFO nextflow.processor.TaskProcessor - [d3/aa86e1] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (KO2_REP2) Feb-08 12:29:33.303 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-08 12:29:33.304 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-08 12:29:33.304 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-08 12:29:33.304 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-08 12:29:33.304 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-08 12:29:33.304 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Feb-08 12:29:33.304 [Actor Thread 34] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:SAMTOOLS_VIEW > Skipping output binding because one or more optional files are missing: fileoutparam<7:1> Feb-08 12:29:33.311 [Actor Thread 26] INFO nextflow.processor.TaskProcessor - [89/b3e471] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (KO1_REP1) Feb-08 12:29:33.314 [Actor Thread 40] INFO nextflow.processor.TaskProcessor - [2b/367a67] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (KO2_REP1) Feb-08 12:29:33.315 [Actor Thread 43] DEBUG nextflow.container.SingularityCache - Singularity found local store for image=https://depot.galaxyproject.org/singularity/bedtools:2.31.1--hf5e1c6e_0; path=/home/zchams6/Scratch/.apptainer/pull/depot.galaxyproject.org-singularity-bedtools-2.31.1--hf5e1c6e_0.img Feb-08 12:29:33.320 [Actor Thread 9] INFO nextflow.processor.TaskProcessor - [06/95b4d0] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (KO2_REP3) Feb-08 12:29:33.323 [Actor Thread 49] INFO nextflow.processor.TaskProcessor - [e7/7116f0] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (CONTROL_REP1) Feb-08 12:29:33.326 [Actor Thread 15] INFO nextflow.processor.TaskProcessor - [5f/32e046] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:ANCHORS (KO2_REP4) Feb-08 12:29:33.330 [Actor Thread 5] INFO nextflow.processor.TaskProcessor - [97/669c79] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (KO1_REP4) Feb-08 12:29:33.330 [Actor Thread 23] INFO nextflow.processor.TaskProcessor - [52/9cda9f] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (KO1_REP3) Feb-08 12:29:33.399 [Actor Thread 4] INFO nextflow.processor.TaskProcessor - [67/0afcd1] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (KO1_REP2) Feb-08 12:29:33.400 [Actor Thread 17] INFO nextflow.processor.TaskProcessor - [f5/9eb2d5] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (KO1_REP1) Feb-08 12:29:33.401 [Actor Thread 20] INFO nextflow.processor.TaskProcessor - [9f/0a43a6] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (KO2_REP2) Feb-08 12:29:33.400 [Actor Thread 33] INFO nextflow.processor.TaskProcessor - [25/efdcdb] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (CONTROL_REP4) Feb-08 12:29:33.400 [Actor Thread 6] INFO nextflow.processor.TaskProcessor - [4b/32dc34] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (CONTROL_REP3) Feb-08 12:29:33.400 [Actor Thread 30] INFO nextflow.processor.TaskProcessor - [f9/db00a1] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (CONTROL_REP1) Feb-08 12:29:33.400 [Actor Thread 1] INFO nextflow.processor.TaskProcessor - [7a/fee9d9] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (CONTROL_REP3) Feb-08 12:29:33.400 [Actor Thread 29] INFO nextflow.processor.TaskProcessor - [33/9eae6b] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (KO1_REP1) Feb-08 12:29:33.401 [Actor Thread 47] INFO nextflow.processor.TaskProcessor - [ec/16af9f] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (CONTROL_REP2) Feb-08 12:29:33.403 [Actor Thread 48] INFO nextflow.processor.TaskProcessor - [ea/5653d3] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (KO2_REP1) Feb-08 12:29:33.408 [Actor Thread 24] INFO nextflow.processor.TaskProcessor - [81/15269d] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (CONTROL_REP1) Feb-08 12:29:33.408 [Actor Thread 3] INFO nextflow.processor.TaskProcessor - [d2/f61407] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (CONTROL_REP3) Feb-08 12:29:33.410 [Actor Thread 40] INFO nextflow.processor.TaskProcessor - [3b/e7c0fa] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (KO1_REP1) Feb-08 12:29:33.411 [Actor Thread 19] INFO nextflow.processor.TaskProcessor - [77/4a248a] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (CONTROL_REP1) Feb-08 12:29:33.411 [Actor Thread 34] INFO nextflow.processor.TaskProcessor - [24/990f19] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (CONTROL_REP3) Feb-08 12:29:33.411 [Actor Thread 14] INFO nextflow.processor.TaskProcessor - [04/a26930] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (KO1_REP1) Feb-08 12:29:33.417 [Actor Thread 45] INFO nextflow.processor.TaskProcessor - [c8/630220] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (KO2_REP3) Feb-08 12:29:33.499 [Actor Thread 4] INFO nextflow.processor.TaskProcessor - [90/f05054] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (KO1_REP4) Feb-08 12:29:33.500 [Actor Thread 44] INFO nextflow.processor.TaskProcessor - [0b/958f4a] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (KO1_REP1) Feb-08 12:29:33.500 [Actor Thread 9] INFO nextflow.processor.TaskProcessor - [e2/96fc61] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (KO1_REP2) Feb-08 12:29:33.500 [Actor Thread 21] INFO nextflow.processor.TaskProcessor - [99/16cd2a] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (KO1_REP2) Feb-08 12:29:33.500 [Actor Thread 51] INFO nextflow.processor.TaskProcessor - [68/ef4b8b] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (CONTROL_REP1) Feb-08 12:29:33.500 [Actor Thread 33] INFO nextflow.processor.TaskProcessor - [3f/43e1e9] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (KO1_REP3) Feb-08 12:29:33.501 [Actor Thread 36] INFO nextflow.processor.TaskProcessor - [43/9af361] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:MAIN (KO2_REP4) Feb-08 12:29:33.507 [Actor Thread 25] INFO nextflow.processor.TaskProcessor - [20/eab695] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (KO1_REP2) Feb-08 12:29:33.508 [Actor Thread 10] INFO nextflow.processor.TaskProcessor - [6f/895aa0] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (KO1_REP2) Feb-08 12:29:33.524 [Actor Thread 27] INFO nextflow.processor.TaskProcessor - [68/bfd306] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (KO2_REP1) Feb-08 12:29:33.524 [Actor Thread 8] INFO nextflow.processor.TaskProcessor - [68/223394] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (CONTROL_REP3) Feb-08 12:29:33.530 [Actor Thread 26] INFO nextflow.processor.TaskProcessor - [03/72da9c] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (KO2_REP1) Feb-08 12:29:33.533 [Actor Thread 41] INFO nextflow.processor.TaskProcessor - [d8/b155af] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (CONTROL_REP4) Feb-08 12:29:33.531 [Actor Thread 15] INFO nextflow.processor.TaskProcessor - [fe/b3e278] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (KO2_REP2) Feb-08 12:29:33.533 [Actor Thread 28] INFO nextflow.processor.TaskProcessor - [c7/63b7b4] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (KO2_REP2) Feb-08 12:29:33.600 [Actor Thread 6] INFO nextflow.processor.TaskProcessor - [01/424324] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (KO2_REP2) Feb-08 12:29:33.600 [Actor Thread 12] INFO nextflow.processor.TaskProcessor - [68/9db240] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (CONTROL_REP4) Feb-08 12:29:33.600 [Actor Thread 9] INFO nextflow.processor.TaskProcessor - [d7/7ee7b7] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (KO1_REP4) Feb-08 12:29:33.600 [Actor Thread 24] INFO nextflow.processor.TaskProcessor - [2b/ac1984] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (KO1_REP4) Feb-08 12:29:33.601 [Actor Thread 11] INFO nextflow.processor.TaskProcessor - [20/6d4c84] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (CONTROL_REP2) Feb-08 12:29:33.601 [Actor Thread 17] INFO nextflow.processor.TaskProcessor - [9d/554979] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FIND_CIRC:UNIFY (KO2_REP4) Feb-08 12:29:33.602 [Actor Thread 42] INFO nextflow.processor.TaskProcessor - [94/629dfa] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (KO1_REP2) Feb-08 12:29:33.602 [Actor Thread 35] INFO nextflow.processor.TaskProcessor - [4a/115315] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (KO2_REP3) Feb-08 12:29:33.602 [Actor Thread 18] INFO nextflow.processor.TaskProcessor - [9a/d3ede1] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (CONTROL_REP4) Feb-08 12:29:33.602 [Actor Thread 23] INFO nextflow.processor.TaskProcessor - [d4/67b954] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (KO2_REP3) Feb-08 12:29:33.602 [Actor Thread 22] INFO nextflow.processor.TaskProcessor - [fc/9eb919] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (KO2_REP2) Feb-08 12:29:33.602 [Actor Thread 48] INFO nextflow.processor.TaskProcessor - [78/94975b] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (CONTROL_REP2) Feb-08 12:29:33.606 [Actor Thread 25] INFO nextflow.processor.TaskProcessor - [50/72db99] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (KO1_REP4) Feb-08 12:29:33.606 [Actor Thread 50] INFO nextflow.processor.TaskProcessor - [43/4d98ec] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (KO2_REP3) Feb-08 12:29:33.606 [Actor Thread 47] INFO nextflow.processor.TaskProcessor - [f4/1ae43c] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (KO2_REP1) Feb-08 12:29:33.606 [Actor Thread 52] INFO nextflow.processor.TaskProcessor - [1c/d66d23] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (CONTROL_REP4) Feb-08 12:29:33.606 [Actor Thread 1] INFO nextflow.processor.TaskProcessor - [f3/09bf24] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (CONTROL_REP2) Feb-08 12:29:33.619 [Actor Thread 27] INFO nextflow.processor.TaskProcessor - [b1/e32e65] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (KO1_REP3) Feb-08 12:29:33.621 [Actor Thread 14] INFO nextflow.processor.TaskProcessor - [82/90cb28] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (KO2_REP3) Feb-08 12:29:33.625 [Actor Thread 33] INFO nextflow.processor.TaskProcessor - [dd/8162f3] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (CONTROL_REP2) Feb-08 12:29:33.630 [Actor Thread 2] INFO nextflow.processor.TaskProcessor - [c8/124a4e] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (KO2_REP1) Feb-08 12:29:33.630 [Actor Thread 32] INFO nextflow.processor.TaskProcessor - [68/7e0038] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (CONTROL_REP2) Feb-08 12:29:33.699 [Actor Thread 48] INFO nextflow.processor.TaskProcessor - [21/2b9e60] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (KO2_REP3) Feb-08 12:29:33.699 [Actor Thread 19] INFO nextflow.processor.TaskProcessor - [93/b32f3c] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (KO1_REP3) Feb-08 12:29:33.699 [Actor Thread 55] INFO nextflow.processor.TaskProcessor - [d8/f99cc7] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:EXTRACT_COUNTS (KO2_REP4) Feb-08 12:29:33.699 [Actor Thread 12] INFO nextflow.processor.TaskProcessor - [fa/d28620] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (CONTROL_REP4) Feb-08 12:29:33.700 [Actor Thread 15] INFO nextflow.processor.TaskProcessor - [97/31130c] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (KO2_REP4) Feb-08 12:29:33.700 [Actor Thread 44] INFO nextflow.processor.TaskProcessor - [80/39ae0f] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (KO2_REP1) Feb-08 12:29:33.700 [Actor Thread 46] INFO nextflow.processor.TaskProcessor - [d2/1eaae6] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (KO2_REP2) Feb-08 12:29:33.701 [Actor Thread 43] INFO nextflow.processor.TaskProcessor - [8a/38becc] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FILTER_BSJS (KO2_REP4) Feb-08 12:29:33.702 [Actor Thread 53] INFO nextflow.processor.TaskProcessor - [76/59f87d] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (KO1_REP4) Feb-08 12:29:33.702 [Actor Thread 49] INFO nextflow.processor.TaskProcessor - [db/eff4db] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:ANNOTATE_PER_SAMPLE_TOOL:INTERSECT_GTF (KO1_REP3) Feb-08 12:29:33.703 [Actor Thread 1] INFO nextflow.processor.TaskProcessor - [42/723efb] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (KO2_REP4) Feb-08 12:29:33.705 [Actor Thread 28] INFO nextflow.processor.TaskProcessor - [72/5b5a3c] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FASTA_PER_SAMPLE_TOOL (KO1_REP3) Feb-08 12:29:33.712 [Actor Thread 26] INFO nextflow.processor.TaskProcessor - [54/d53a3b] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (KO1_REP4) Feb-08 12:29:33.722 [Actor Thread 24] INFO nextflow.processor.TaskProcessor - [f1/d8045d] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (KO2_REP4) Feb-08 12:29:33.726 [Actor Thread 32] INFO nextflow.processor.TaskProcessor - [f0/fd8e3d] Cached process > NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:BED_ADD_SAMPLE_TOOL (KO1_REP3) Feb-08 12:30:05.206 [Actor Thread 7] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 48885; slices: 1; internal sort time: 25.417 s; external sort time: 1.797 s; total time: 27.214 s Feb-08 12:30:05.208 [Actor Thread 7] DEBUG nextflow.file.FileCollector - >> temp file exists? true Feb-08 12:30:05.226 [Actor Thread 7] DEBUG nextflow.file.FileCollector - Retrieved cached collect-files from: /lustre/scratch/scratch/zchams6/work/collect-file/f7f0bf05d23ba934c48e0d10ae5756e7 Feb-08 12:30:05.238 [Actor Thread 7] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-13827292894443772808 Feb-08 12:34:32.953 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700660; id: 14; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/14/6b64fb94377ac8d5e3474e4b454dc2 started: -; exited: -; ] ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] Feb-08 12:39:32.993 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700660; id: 14; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/14/6b64fb94377ac8d5e3474e4b454dc2 started: -; exited: -; ] ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] Feb-08 12:44:33.038 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700660; id: 14; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/14/6b64fb94377ac8d5e3474e4b454dc2 started: -; exited: -; ] ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] Feb-08 12:49:33.070 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700660; id: 14; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/14/6b64fb94377ac8d5e3474e4b454dc2 started: -; exited: -; ] ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] Feb-08 12:54:33.105 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700660; id: 14; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/14/6b64fb94377ac8d5e3474e4b454dc2 started: -; exited: -; ] ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] Feb-08 12:58:38.133 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[jobId: 700660; id: 14; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: COMPLETED; exit: 137; error: -; workDir: /lustre/scratch/scratch/zchams6/work/14/6b64fb94377ac8d5e3474e4b454dc2 started: 1739019283186; exited: 2025-02-08T12:58:34Z; ] Feb-08 12:58:38.134 [Task monitor] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'TaskFinalizer' minSize=10; maxSize=18; workQueue=LinkedBlockingQueue[10000]; allowCoreThreadTimeout=false Feb-08 12:58:38.148 [TaskFinalizer-1] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for task: name=NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); work-dir=/lustre/scratch/scratch/zchams6/work/14/6b64fb94377ac8d5e3474e4b454dc2 error [nextflow.exception.ProcessFailedException]: Process `NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa)` terminated with an error exit status (137) Feb-08 12:58:38.162 [TaskFinalizer-1] INFO nextflow.processor.TaskProcessor - [14/6b64fb] NOTE: Process `NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa)` terminated with an error exit status (137) -- Execution is retried (1) Feb-08 12:58:38.291 [Task submitter] DEBUG nextflow.executor.GridTaskHandler - [SGE] submitted process NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa) > jobId: 700785; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e Feb-08 12:58:38.292 [Task submitter] INFO nextflow.Session - [16/f373a4] Re-submitted process > NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa) Feb-08 12:59:33.131 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:04:33.175 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:09:33.203 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:14:33.229 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:19:33.264 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:24:33.291 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:29:33.325 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:34:33.363 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:39:33.411 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:44:33.443 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:49:33.479 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:54:33.512 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 13:59:33.541 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:04:33.562 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:09:33.594 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:14:33.619 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:19:33.638 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:24:33.658 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:29:33.683 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:34:33.706 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:39:33.733 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:44:33.757 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:49:33.786 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:54:33.810 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 14:59:33.830 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:04:33.861 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:09:33.883 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:14:33.917 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:19:33.950 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:24:33.981 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:29:34.003 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:34:34.049 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:39:34.077 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:44:34.099 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:49:34.120 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:54:34.147 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 15:59:34.164 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:04:34.180 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:09:34.194 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:14:34.208 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:19:34.235 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:24:34.271 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:29:34.298 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:34:34.315 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:39:34.341 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:44:34.376 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:49:34.423 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:54:34.441 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 16:59:34.455 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:04:34.462 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:09:34.472 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:14:34.486 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:19:34.506 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:24:34.522 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:29:34.531 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:34:36.123 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:39:36.133 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:44:37.908 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:49:37.920 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:54:37.944 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 17:59:37.963 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:04:37.978 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:09:37.997 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:14:38.008 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:19:38.032 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:24:38.050 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:29:38.063 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:34:38.082 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:39:38.094 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:44:38.119 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:49:38.141 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:54:38.159 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 18:59:38.178 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:04:38.189 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:09:38.212 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:14:38.225 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:19:38.238 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:24:38.257 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:29:38.269 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:34:38.291 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:39:38.312 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:44:38.333 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:49:38.350 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:54:38.370 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 19:59:38.386 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:04:38.412 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:09:38.432 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:14:38.454 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:19:38.471 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:24:38.489 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:29:38.512 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:34:38.527 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:39:38.544 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:44:38.567 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:49:38.586 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:54:38.615 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 20:59:38.632 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:04:38.667 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:09:38.700 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:14:38.738 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:19:38.777 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:24:38.805 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:29:38.826 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:34:38.857 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:39:38.928 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:44:38.951 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:49:38.977 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:54:39.013 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 21:59:39.058 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:04:39.104 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:09:39.146 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:14:39.195 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:19:39.224 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:24:39.252 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:29:39.289 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:34:39.319 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:39:40.377 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:44:41.670 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:49:41.726 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:54:41.764 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 22:59:43.105 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:04:43.118 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:09:43.162 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:14:43.212 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:19:43.261 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:24:43.310 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:29:43.340 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:34:43.847 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:39:43.872 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:44:43.897 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:49:43.905 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:54:43.931 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-08 23:59:43.962 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:04:46.292 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:09:46.341 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:14:46.366 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:19:46.415 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:24:46.485 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:29:46.518 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:34:46.564 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:39:46.617 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:44:46.645 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:49:46.682 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:54:46.742 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 00:59:46.771 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:04:46.822 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:09:46.841 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:14:46.871 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:19:46.926 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:24:46.972 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:29:47.025 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:34:47.072 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:39:47.104 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:44:47.130 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:49:47.174 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:54:47.197 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 01:59:47.241 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:04:47.279 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:09:47.315 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:14:47.383 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:19:47.416 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:24:47.463 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:29:47.491 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:34:47.525 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:39:47.564 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:44:47.638 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:49:47.675 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:54:47.695 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 02:59:47.720 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:04:47.753 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:09:47.800 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:14:47.827 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:19:47.872 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:24:47.927 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:29:47.951 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:34:48.009 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:39:48.061 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:44:48.115 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:49:48.172 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:54:48.200 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 03:59:48.242 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:04:48.256 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:09:48.268 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:14:48.308 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:19:48.339 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:24:48.395 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:29:48.466 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:34:48.504 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:39:48.537 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:44:48.596 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:49:48.633 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:54:48.660 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 04:59:48.729 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:04:48.751 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:09:48.806 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:14:48.842 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:19:48.878 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:24:48.912 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:29:48.967 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:34:49.006 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:39:49.050 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:44:49.095 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:49:49.180 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:54:49.248 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 05:59:49.298 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:04:49.333 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:09:49.370 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:14:49.425 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:19:49.479 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:24:49.531 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:29:49.569 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:34:49.607 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:39:49.633 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:44:49.677 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:49:49.706 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:54:49.745 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 06:59:49.837 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:04:49.865 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:09:49.895 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:14:49.947 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:19:50.018 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:24:50.048 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:29:50.078 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:34:50.102 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:39:50.142 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:44:50.183 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:49:50.204 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:54:50.261 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 07:59:50.314 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:04:50.355 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:09:50.427 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:14:50.491 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:19:50.525 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:24:50.568 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:29:50.617 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:34:50.658 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:39:50.694 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:44:50.721 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:49:50.774 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:54:50.860 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 08:59:50.917 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 09:04:50.995 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 09:09:51.026 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 09:14:51.077 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 09:19:51.122 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 09:24:51.165 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor sge > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[jobId: 700661; id: 30; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:HISAT2_BUILD (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/65/d2a54c441c548b309dcc1628a78255 started: -; exited: -; ] ~> TaskHandler[jobId: 700785; id: 182; name: NFCORE_CIRCRNA:CIRCRNA:PREPARE_GENOME:STAR_GENOMEGENERATE (Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa); status: SUBMITTED; exit: -; error: -; workDir: /lustre/scratch/scratch/zchams6/work/16/f373a4d739c07c569d93f0fd92564e started: -; exited: -; ] Feb-09 09:25:11.249 [SIGHUP handler] DEBUG nextflow.Session - Session aborted -- Cause: SIGHUP Feb-09 09:25:11.249 [SIGHUP handler] DEBUG nextflow.Session - Session aborted -- Cause: SIGHUP Feb-09 09:25:11.262 [SIGHUP handler] DEBUG nextflow.Session - Unexpected error while dumping DAG status java.lang.IndexOutOfBoundsException: Index: -1, Size: 531 at java.base/java.util.ArrayList.rangeCheckForAdd(ArrayList.java:756) at java.base/java.util.ArrayList.add(ArrayList.java:481) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.dag.DAG.normalizeMissingVertices(DAG.groovy:303) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.dag.DAG.normalize(DAG.groovy:339) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.dag.DAG.dumpActiveNodes(DAG.groovy:349) at nextflow.Session.dumpNetworkStatus(Session.groovy:545) at nextflow.Session.abort(Session.groovy:796) at nextflow.Session$_registerSignalHandlers_closure18.doCall(Session.groovy:497) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:568) at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) at org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) at groovy.lang.Closure.call(Closure.java:433) at org.codehaus.groovy.runtime.ConvertedClosure.invokeCustom(ConvertedClosure.java:52) at org.codehaus.groovy.runtime.ConversionHandler.invoke(ConversionHandler.java:113) at jdk.proxy1/jdk.proxy1.$Proxy29.handle(Unknown Source) at jdk.unsupported/sun.misc.Signal$InternalMiscHandler.handle(Signal.java:198) at java.base/jdk.internal.misc.Signal$1.run(Signal.java:219) at java.base/java.lang.Thread.run(Thread.java:833) Feb-09 09:25:11.262 [SIGHUP handler] DEBUG nextflow.Session - Unexpected error while dumping DAG status java.lang.IndexOutOfBoundsException: Index: -1, Size: 531 at java.base/java.util.ArrayList.rangeCheckForAdd(ArrayList.java:756) at java.base/java.util.ArrayList.add(ArrayList.java:481) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.dag.DAG.normalizeMissingVertices(DAG.groovy:303) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.dag.DAG.normalize(DAG.groovy:339) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.dag.DAG.dumpActiveNodes(DAG.groovy:349) at nextflow.Session.dumpNetworkStatus(Session.groovy:545) at nextflow.Session.abort(Session.groovy:796) at nextflow.Session$_registerSignalHandlers_closure18.doCall(Session.groovy:497) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:568) at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) at org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) at groovy.lang.Closure.call(Closure.java:433) at org.codehaus.groovy.runtime.ConvertedClosure.invokeCustom(ConvertedClosure.java:52) at org.codehaus.groovy.runtime.ConversionHandler.invoke(ConversionHandler.java:113) at jdk.proxy1/jdk.proxy1.$Proxy29.handle(Unknown Source) at jdk.unsupported/sun.misc.Signal$InternalMiscHandler.handle(Signal.java:198) at java.base/jdk.internal.misc.Signal$1.run(Signal.java:219) at java.base/java.lang.Thread.run(Thread.java:833) Feb-09 09:25:11.357 [SIGHUP handler] DEBUG nextflow.Session - Thread[Actor Thread 27,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[AnsiLogObserver,5,main] java.base@17.0.2/java.lang.Object.wait(Native Method) app//nextflow.trace.AnsiLogObserver.render0(AnsiLogObserver.groovy:185) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethodClosure(MetaClassImpl.java:1017) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1207) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//groovy.lang.Closure.call(Closure.java:412) app//groovy.lang.Closure.run(Closure.java:505) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-1,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-9,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[process reaper,10,system] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:252) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:401) java.base@17.0.2/java.util.concurrent.SynchronousQueue.poll(SynchronousQueue.java:903) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1061) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[SIGHUP handler,9,system] java.base@17.0.2/java.lang.Thread.dumpThreads(Native Method) java.base@17.0.2/java.lang.Thread.getAllStackTraces(Thread.java:1662) app//nextflow.util.SysHelper.dumpThreads(SysHelper.groovy:188) app//nextflow.Session.abort(Session.groovy:800) app//nextflow.Session$_registerSignalHandlers_closure18.doCall(Session.groovy:497) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//org.codehaus.groovy.runtime.ConvertedClosure.invokeCustom(ConvertedClosure.java:52) app//org.codehaus.groovy.runtime.ConversionHandler.invoke(ConversionHandler.java:113) jdk.proxy1/jdk.proxy1.$Proxy29.handle(Unknown Source) jdk.unsupported@17.0.2/sun.misc.Signal$InternalMiscHandler.handle(Signal.java:198) java.base@17.0.2/jdk.internal.misc.Signal$1.run(Signal.java:219) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-6,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Signal Dispatcher,9,system] Thread[JGit-FileStoreAttributeReader-1,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[pool-2-thread-1,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Actor Thread 7,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Actor Thread 49,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Actor Thread 31,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Actor Thread 1,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Actor Thread 32,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[main,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) app//nextflow.util.Barrier$_awaitCompletion_closure3.doCall(Barrier.groovy:92) app//nextflow.util.Barrier$_awaitCompletion_closure3.call(Barrier.groovy) app//nextflow.extension.Bolts.withLock(Bolts.groovy:337) app//nextflow.extension.Bolts.withLock(Bolts.groovy) app//nextflow.util.Barrier.awaitCompletion(Barrier.groovy:89) app//nextflow.Session.await(Session.groovy:676) app//nextflow.script.ScriptRunner.await(ScriptRunner.groovy:256) app//nextflow.script.ScriptRunner.execute(ScriptRunner.groovy:144) app//nextflow.cli.CmdRun.run(CmdRun.groovy:376) app//nextflow.cli.Launcher.run(Launcher.groovy:503) app//nextflow.cli.Launcher.main(Launcher.groovy:658) Thread[Common-Cleaner,8,InnocuousThreadGroup] java.base@17.0.2/java.lang.Object.wait(Native Method) java.base@17.0.2/java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:155) java.base@17.0.2/jdk.internal.ref.CleanerImpl.run(CleanerImpl.java:140) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) java.base@17.0.2/jdk.internal.misc.InnocuousThread.run(InnocuousThread.java:162) Thread[Task monitor,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:252) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1757) app//nextflow.processor.TaskPollingMonitor$_await_closure5.doCall(TaskPollingMonitor.groovy:529) app//nextflow.processor.TaskPollingMonitor$_await_closure5.call(TaskPollingMonitor.groovy) app//nextflow.extension.Bolts.withLock(Bolts.groovy:337) app//nextflow.extension.Bolts.withLock(Bolts.groovy) app//nextflow.processor.TaskPollingMonitor.await(TaskPollingMonitor.groovy:528) app//nextflow.processor.TaskPollingMonitor.pollLoop(TaskPollingMonitor.groovy:453) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645) app//org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628) app//org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82) app//nextflow.processor.TaskPollingMonitor$_start_closure2.doCall(TaskPollingMonitor.groovy:318) app//nextflow.processor.TaskPollingMonitor$_start_closure2.call(TaskPollingMonitor.groovy) app//groovy.lang.Closure.run(Closure.java:505) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-7,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-5,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Reference Handler,10,system] java.base@17.0.2/java.lang.ref.Reference.waitForReferencePendingList(Native Method) java.base@17.0.2/java.lang.ref.Reference.processPendingReferences(Reference.java:253) java.base@17.0.2/java.lang.ref.Reference$ReferenceHandler.run(Reference.java:215) Thread[Actor Thread 13,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-2,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[SIGHUP handler,9,system] java.base@17.0.2/java.lang.Thread.dumpThreads(Native Method) java.base@17.0.2/java.lang.Thread.getAllStackTraces(Thread.java:1662) app//nextflow.util.SysHelper.dumpThreads(SysHelper.groovy:188) app//nextflow.Session.abort(Session.groovy:800) app//nextflow.Session$_registerSignalHandlers_closure18.doCall(Session.groovy:497) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//org.codehaus.groovy.runtime.ConvertedClosure.invokeCustom(ConvertedClosure.java:52) app//org.codehaus.groovy.runtime.ConversionHandler.invoke(ConversionHandler.java:113) jdk.proxy1/jdk.proxy1.$Proxy29.handle(Unknown Source) jdk.unsupported@17.0.2/sun.misc.Signal$InternalMiscHandler.handle(Signal.java:198) java.base@17.0.2/jdk.internal.misc.Signal$1.run(Signal.java:219) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-8,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-3,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-4,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Task submitter,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) app//nextflow.processor.TaskPollingMonitor.awaitTasks(TaskPollingMonitor.groovy:388) app//nextflow.processor.TaskPollingMonitor.submitLoop(TaskPollingMonitor.groovy:412) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethodClosure(MetaClassImpl.java:1017) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1207) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//groovy.lang.Closure.call(Closure.java:412) app//groovy.lang.Closure.run(Closure.java:505) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Notification Thread,9,system] Thread[TaskFinalizer-1,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Finalizer,8,system] java.base@17.0.2/java.lang.Object.wait(Native Method) java.base@17.0.2/java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:155) java.base@17.0.2/java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:176) java.base@17.0.2/java.lang.ref.Finalizer$FinalizerThread.run(Finalizer.java:172) Thread[Thread-4,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:252) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:1672) java.base@17.0.2/java.util.concurrent.LinkedBlockingDeque.pollFirst(LinkedBlockingDeque.java:515) java.base@17.0.2/java.util.concurrent.LinkedBlockingDeque.poll(LinkedBlockingDeque.java:677) app//nextflow.util.SimpleAgent.run(SimpleAgent.groovy:89) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethodClosure(MetaClassImpl.java:1017) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1207) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//groovy.lang.Closure.call(Closure.java:412) app//groovy.lang.Closure.run(Closure.java:505) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-10,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Feb-09 09:25:11.357 [SIGHUP handler] DEBUG nextflow.Session - Thread[Actor Thread 27,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[AnsiLogObserver,5,main] java.base@17.0.2/java.lang.Object.wait(Native Method) app//nextflow.trace.AnsiLogObserver.render0(AnsiLogObserver.groovy:185) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethodClosure(MetaClassImpl.java:1017) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1207) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//groovy.lang.Closure.call(Closure.java:412) app//groovy.lang.Closure.run(Closure.java:505) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-1,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-9,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[process reaper,10,system] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:252) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:401) java.base@17.0.2/java.util.concurrent.SynchronousQueue.poll(SynchronousQueue.java:903) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1061) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[SIGHUP handler,9,system] java.base@17.0.2/java.lang.Thread.dumpThreads(Native Method) java.base@17.0.2/java.lang.Thread.getAllStackTraces(Thread.java:1662) app//nextflow.util.SysHelper.dumpThreads(SysHelper.groovy:188) app//nextflow.Session.abort(Session.groovy:800) app//nextflow.Session$_registerSignalHandlers_closure18.doCall(Session.groovy:497) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//org.codehaus.groovy.runtime.ConvertedClosure.invokeCustom(ConvertedClosure.java:52) app//org.codehaus.groovy.runtime.ConversionHandler.invoke(ConversionHandler.java:113) jdk.proxy1/jdk.proxy1.$Proxy29.handle(Unknown Source) jdk.unsupported@17.0.2/sun.misc.Signal$InternalMiscHandler.handle(Signal.java:198) java.base@17.0.2/jdk.internal.misc.Signal$1.run(Signal.java:219) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-6,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Signal Dispatcher,9,system] Thread[JGit-FileStoreAttributeReader-1,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[pool-2-thread-1,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Actor Thread 7,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Actor Thread 49,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Actor Thread 31,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Actor Thread 1,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Actor Thread 32,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[main,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) app//nextflow.util.Barrier$_awaitCompletion_closure3.doCall(Barrier.groovy:92) app//nextflow.util.Barrier$_awaitCompletion_closure3.call(Barrier.groovy) app//nextflow.extension.Bolts.withLock(Bolts.groovy:337) app//nextflow.extension.Bolts.withLock(Bolts.groovy) app//nextflow.util.Barrier.awaitCompletion(Barrier.groovy:89) app//nextflow.Session.await(Session.groovy:676) app//nextflow.script.ScriptRunner.await(ScriptRunner.groovy:256) app//nextflow.script.ScriptRunner.execute(ScriptRunner.groovy:144) app//nextflow.cli.CmdRun.run(CmdRun.groovy:376) app//nextflow.cli.Launcher.run(Launcher.groovy:503) app//nextflow.cli.Launcher.main(Launcher.groovy:658) Thread[Common-Cleaner,8,InnocuousThreadGroup] java.base@17.0.2/java.lang.Object.wait(Native Method) java.base@17.0.2/java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:155) java.base@17.0.2/jdk.internal.ref.CleanerImpl.run(CleanerImpl.java:140) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) java.base@17.0.2/jdk.internal.misc.InnocuousThread.run(InnocuousThread.java:162) Thread[Task monitor,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:252) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1757) app//nextflow.processor.TaskPollingMonitor$_await_closure5.doCall(TaskPollingMonitor.groovy:529) app//nextflow.processor.TaskPollingMonitor$_await_closure5.call(TaskPollingMonitor.groovy) app//nextflow.extension.Bolts.withLock(Bolts.groovy:337) app//nextflow.extension.Bolts.withLock(Bolts.groovy) app//nextflow.processor.TaskPollingMonitor.await(TaskPollingMonitor.groovy:528) app//nextflow.processor.TaskPollingMonitor.pollLoop(TaskPollingMonitor.groovy:453) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645) app//org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628) app//org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82) app//nextflow.processor.TaskPollingMonitor$_start_closure2.doCall(TaskPollingMonitor.groovy:318) app//nextflow.processor.TaskPollingMonitor$_start_closure2.call(TaskPollingMonitor.groovy) app//groovy.lang.Closure.run(Closure.java:505) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-7,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-5,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Reference Handler,10,system] java.base@17.0.2/java.lang.ref.Reference.waitForReferencePendingList(Native Method) java.base@17.0.2/java.lang.ref.Reference.processPendingReferences(Reference.java:253) java.base@17.0.2/java.lang.ref.Reference$ReferenceHandler.run(Reference.java:215) Thread[Actor Thread 13,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@17.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-2,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[SIGHUP handler,9,system] java.base@17.0.2/java.lang.Thread.dumpThreads(Native Method) java.base@17.0.2/java.lang.Thread.getAllStackTraces(Thread.java:1662) app//nextflow.util.SysHelper.dumpThreads(SysHelper.groovy:188) app//nextflow.Session.abort(Session.groovy:800) app//nextflow.Session$_registerSignalHandlers_closure18.doCall(Session.groovy:497) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//org.codehaus.groovy.runtime.ConvertedClosure.invokeCustom(ConvertedClosure.java:52) app//org.codehaus.groovy.runtime.ConversionHandler.invoke(ConversionHandler.java:113) jdk.proxy1/jdk.proxy1.$Proxy29.handle(Unknown Source) jdk.unsupported@17.0.2/sun.misc.Signal$InternalMiscHandler.handle(Signal.java:198) java.base@17.0.2/jdk.internal.misc.Signal$1.run(Signal.java:219) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-8,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-3,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-4,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Task submitter,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) app//nextflow.processor.TaskPollingMonitor.awaitTasks(TaskPollingMonitor.groovy:388) app//nextflow.processor.TaskPollingMonitor.submitLoop(TaskPollingMonitor.groovy:412) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethodClosure(MetaClassImpl.java:1017) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1207) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//groovy.lang.Closure.call(Closure.java:412) app//groovy.lang.Closure.run(Closure.java:505) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Notification Thread,9,system] Thread[TaskFinalizer-1,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[Finalizer,8,system] java.base@17.0.2/java.lang.Object.wait(Native Method) java.base@17.0.2/java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:155) java.base@17.0.2/java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:176) java.base@17.0.2/java.lang.ref.Finalizer$FinalizerThread.run(Finalizer.java:172) Thread[Thread-4,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:252) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:1672) java.base@17.0.2/java.util.concurrent.LinkedBlockingDeque.pollFirst(LinkedBlockingDeque.java:515) java.base@17.0.2/java.util.concurrent.LinkedBlockingDeque.poll(LinkedBlockingDeque.java:677) app//nextflow.util.SimpleAgent.run(SimpleAgent.groovy:89) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) java.base@17.0.2/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) java.base@17.0.2/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) java.base@17.0.2/java.lang.reflect.Method.invoke(Method.java:568) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethodClosure(MetaClassImpl.java:1017) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1207) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//groovy.lang.Closure.call(Closure.java:412) app//groovy.lang.Closure.run(Closure.java:505) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Thread[PublishDir-10,5,main] java.base@17.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@17.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:341) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@17.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3463) java.base@17.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3434) java.base@17.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1623) java.base@17.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1062) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1122) java.base@17.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) java.base@17.0.2/java.lang.Thread.run(Thread.java:833) Feb-09 09:25:11.360 [SIGHUP handler] ERROR nextflow.Nextflow - Pipeline failed. Please refer to troubleshooting docs: https://nf-co.re/docs/usage/troubleshooting Feb-09 09:25:11.360 [SIGHUP handler] ERROR nextflow.Nextflow - Pipeline failed. Please refer to troubleshooting docs: https://nf-co.re/docs/usage/troubleshooting Feb-09 09:25:11.362 [Task monitor] DEBUG n.processor.TaskPollingMonitor - <<< barrier arrives (monitor: sge) - terminating tasks monitor poll loop Feb-09 09:25:11.363 [main] DEBUG nextflow.Session - Session await > all processes finished Feb-09 09:25:11.363 [main] DEBUG nextflow.Session - Session await > all barriers passed Feb-09 09:25:11.377 [Actor Thread 31] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for task: name=NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:CIRIQUANT:MAIN; work-dir=null error [java.lang.InterruptedException]: java.lang.InterruptedException Feb-09 09:25:11.386 [Actor Thread 32] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 25; slices: 1; internal sort time: 0.007 s; external sort time: 0.002 s; total time: 0.009 s Feb-09 09:25:11.387 [Actor Thread 32] DEBUG nextflow.file.FileCollector - >> temp file exists? true Feb-09 09:25:11.398 [Actor Thread 32] DEBUG nextflow.file.FileCollector - Retrieved cached collect-files from: /lustre/scratch/scratch/zchams6/work/collect-file/7fc26f5862cd6c9a8f9f31a7a661501a Feb-09 09:25:11.402 [Actor Thread 32] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-8423781784653667056 Feb-09 09:25:11.425 [Actor Thread 7] ERROR nextflow.extension.OperatorImpl - @unknown nextflow.exception.WorkflowScriptErrorException: No circular RNAs were found by at least 1 tools and in at least 1 samples. These thresholds can be adjusted using the parameters 'min_tools' and 'min_samples'. Feel free to check the preliminary results in '/home/zchams6/Scratch/rnaseq/results/circRNA' You can enable saving intermediate files by setting the parameter 'save_intermediates' to 'true'. at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.Nextflow.error(Nextflow.groovy:226) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at Script_446bf91286b1efa3$_runScript_closure1$_closure2$_closure15.doCall(Script_446bf91286b1efa3:237) at Script_446bf91286b1efa3$_runScript_closure1$_closure2$_closure15.doCall(Script_446bf91286b1efa3) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:568) at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) at org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.extension.OperatorImpl$_ifEmpty_closure30.doCall(OperatorImpl.groovy:1043) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:568) at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) at org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.extension.DataflowHelper$3.afterStop(DataflowHelper.groovy:257) at groovyx.gpars.dataflow.operator.DataflowProcessor.fireAfterStop(DataflowProcessor.java:324) at groovyx.gpars.dataflow.operator.DataflowProcessorActor.afterStop(DataflowProcessorActor.java:59) at jdk.internal.reflect.GeneratedMethodAccessor122.invoke(Unknown Source) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:568) at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) at org.codehaus.groovy.runtime.InvokerHelper.invokePojoMethod(InvokerHelper.java:633) at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:624) at groovyx.gpars.actor.Actor.callDynamic(Actor.java:369) at groovyx.gpars.actor.Actor.handleTermination(Actor.java:320) at groovyx.gpars.actor.AbstractLoopingActor$1.handleMessage(AbstractLoopingActor.java:86) at groovyx.gpars.util.AsyncMessagingCore.run(AsyncMessagingCore.java:132) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1136) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) at java.base/java.lang.Thread.run(Thread.java:833) Feb-09 09:25:11.425 [Actor Thread 72] ERROR nextflow.extension.OperatorImpl - @unknown nextflow.exception.WorkflowScriptErrorException: No transcriptome fasta file produced. at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.Nextflow.error(Nextflow.groovy:226) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at Script_20434b4d73e2441f$_runScript_closure1$_closure2$_closure6.doCall(Script_20434b4d73e2441f:31) at Script_20434b4d73e2441f$_runScript_closure1$_closure2$_closure6.doCall(Script_20434b4d73e2441f) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:568) at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) at org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.extension.OperatorImpl$_ifEmpty_closure30.doCall(OperatorImpl.groovy:1043) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:568) at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) at org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.extension.DataflowHelper$3.afterStop(DataflowHelper.groovy:257) at groovyx.gpars.dataflow.operator.DataflowProcessor.fireAfterStop(DataflowProcessor.java:324) at groovyx.gpars.dataflow.operator.DataflowProcessorActor.afterStop(DataflowProcessorActor.java:59) at jdk.internal.reflect.GeneratedMethodAccessor122.invoke(Unknown Source) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:568) at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) at org.codehaus.groovy.runtime.InvokerHelper.invokePojoMethod(InvokerHelper.java:633) at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:624) at groovyx.gpars.actor.Actor.callDynamic(Actor.java:369) at groovyx.gpars.actor.Actor.handleTermination(Actor.java:320) at groovyx.gpars.actor.AbstractLoopingActor$1.handleMessage(AbstractLoopingActor.java:86) at groovyx.gpars.util.AsyncMessagingCore.run(AsyncMessagingCore.java:132) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1136) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635) at java.base/java.lang.Thread.run(Thread.java:833) Feb-09 09:25:11.429 [main] INFO nextflow.Nextflow - -[nf-core/circrna] Pipeline completed with errors- Feb-09 09:25:11.571 [main] WARN n.processor.TaskPollingMonitor - Killing running tasks (2) Feb-09 09:25:18.079 [main] DEBUG n.trace.WorkflowStatsObserver - Workflow completed > WorkflowStats[succeededCount=0; failedCount=1; ignoredCount=0; cachedCount=178; pendingCount=0; submittedCount=2; runningCount=-2; retriesCount=1; abortedCount=2; succeedDuration=0ms; failedDuration=46m 59s; cachedDuration=9d 1h 30s;loadCpus=-36; loadMemory=0; peakRunning=1; peakCpus=12; peakMemory=72 GB; ] Feb-09 09:25:18.080 [main] DEBUG nextflow.trace.TraceFileObserver - Workflow completed -- saving trace file Feb-09 09:25:18.085 [main] DEBUG nextflow.trace.ReportObserver - Workflow completed -- rendering execution report Feb-09 09:25:19.425 [main] DEBUG nextflow.trace.TimelineObserver - Workflow completed -- rendering execution timeline Feb-09 09:25:19.534 [main] DEBUG nextflow.Session - Failed to invoke observer completion handler: nextflow.trace.GraphObserver@73ce59fd java.lang.IndexOutOfBoundsException: Index: -1, Size: 582 at java.base/java.util.ArrayList.rangeCheckForAdd(ArrayList.java:756) at java.base/java.util.ArrayList.add(ArrayList.java:481) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.dag.DAG.normalizeMissingVertices(DAG.groovy:303) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.dag.DAG.normalize(DAG.groovy:339) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.trace.GraphObserver.onFlowComplete(GraphObserver.groovy:83) at nextflow.Session.notifyFlowComplete(Session.groovy:1155) at nextflow.Session.shutdown0(Session.groovy:749) at nextflow.Session.destroy(Session.groovy:694) at nextflow.script.ScriptRunner.shutdown(ScriptRunner.groovy:260) at nextflow.script.ScriptRunner.execute(ScriptRunner.groovy:146) at nextflow.cli.CmdRun.run(CmdRun.groovy:376) at nextflow.cli.Launcher.run(Launcher.groovy:503) at nextflow.cli.Launcher.main(Launcher.groovy:658) Feb-09 09:25:19.572 [main] DEBUG nextflow.cache.CacheDB - Closing CacheDB done Feb-09 09:25:19.726 [main] INFO org.pf4j.AbstractPluginManager - Stop plugin 'nf-schema@2.1.1' Feb-09 09:25:19.726 [main] DEBUG nextflow.plugin.BasePlugin - Plugin stopped nf-schema Feb-09 09:25:19.729 [main] DEBUG nextflow.script.ScriptRunner - > Execution complete -- Goodbye