Merge pull request #10 from nf-core/dev

Final final PR, I hope
nf-core · Feb 15, 2023 · 665a4c2 · 665a4c2
2 parents 2606582 + d251b77
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -3,10 +3,12 @@
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
-## v1.0dev - [date]
+## Version 1.0 - [2023-02-15]
 
 Initial release of nf-core/phyloplace, created with the [nf-core](https://nf-co.re/) template.
 
+The pipeline performs phylogenetic placement of nucleotide or amino acid sequences in a reference phylogeny.
+
 ### `Added`
 
 ### `Fixed`

diff --git a/README.md b/README.md
@@ -29,6 +29,10 @@ This ensures that the pipeline runs on AWS, has sensible resource allocation def
 3. Graft query sequences onto the reference phylogeny with [`GAPPA`](https://github.com/lczech/gappa).
 4. If provided with a classification of the reference sequences, classify query sequences with [`GAPPA`](https://github.com/lczech/gappa).
 
+<p align="center">
+    <img src="docs/images/phyloplace_workflow.png" alt="nf-core/phyloplace workflow overview" width="60%">
+</p>
+
 ## Quick Start
 
 1. Install [`Nextflow`](https://www.nextflow.io/docs/latest/getstarted.html#installation) (`>=22.10.1`)

diff --git a/docs/usage.md b/docs/usage.md
@@ -6,10 +6,6 @@
 
 ## Introduction
 
-<p align="center">
-    <img src="images/phyloplace_workflow.png" alt="nf-core/phyloplace workflow overview" width="60%">
-</p>
-
 This pipeline performs "phylogenetic placement" of query sequences on to a reference phylogeny.
 With this method, the likelihoods of placing query sequences in the reference phylogeny are calculated on a one-by-one basis.
 This means that a full phylogeny is not estimated, which is perfect e.g. when sequences come from PCR amplicons or are fragments from metagenomes, but also when the number of query sequences is very large.

diff --git a/modules.json b/modules.json
@@ -62,7 +62,7 @@
                     },
                     "multiqc": {
                         "branch": "master",
-                        "git_sha": "c8e35eb2055c099720a75538d1b8adb3fb5a464c",
+                        "git_sha": "ee80d14721e76e2e079103b8dcd5d57129e584ba",
                         "installed_by": ["modules"]
                     }
                 }

diff --git a/modules/nf-core/multiqc/main.nf b/modules/nf-core/multiqc/main.nf