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3 changes #6

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3 changes #6

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chrisgulvik
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  • updated readme
  • changed python shebang line and reorganized module names
  • changed analysis.errors print statement

@chrisgulvik
changed analysis errors print statement
32fc20b
@chrisgulvik
changed shebang to handle virt envs; rearranged modules to differenti…
eade59c 
…ate std lib from externals; updated version
@chrisgulvik
add example install; list dependencies; list citations
d29268e
@chrisgulvik
py2.7 compatible with recursive Fast5 searches, use realpath instead …
84a6de0 
…of abspath to handle symlinks, allow ~ input with expanduser, use path.join for nonsystem call var assignments, cleaned extra spaces on empty lines
@chrisgulvik
drop unused modules, use mp stdlib, reorganize database_default lines…
43687bc 
…, use and handle None args especially with paths, add filesize requirement >0 for validate_file() to return True, avoid shutil.which for py2 compatibility, use validate_utility() and validate_file() when possible, guppy --device default auto, clarify --genome-size infmt requirement, print analysis.errors as separate lines not as unformatted python list on screen, remove space before colons
@chrisgulvik
added -h and -V opts
bd2c4e7
@chrisgulvik
default uses all CPUs, unspecified args exits with error code 1, warn…
bafe86b 
… --list-organisms not implemented yet
@chrisgulvik
added print_organisms function so --list-organisms now works
b26c6d9
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@chrisgulvik