Mercurial > repos > galaxyp > uniprotxml_downloader
changeset 1:fc8c4bd28681 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/uniprotxml_downloader commit b4871f9659a924a68430aed3a93f4f9bad733fd6
| author | galaxyp |
|---|---|
| date | Wed, 07 Dec 2016 16:44:14 -0500 |
| parents | 0bd2688166a5 |
| children | e1abc9a35c64 |
| files | uniprotxml_downloader.xml |
| diffstat | 1 files changed, 17 insertions(+), 15 deletions(-) [+] |
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--- a/uniprotxml_downloader.xml Tue Mar 08 12:03:49 2016 -0500 +++ b/uniprotxml_downloader.xml Wed Dec 07 16:44:14 2016 -0500 @@ -1,25 +1,26 @@ -<tool id="uniprotxml_downloader" name="UniProtXML Download" version="1.0.0"> +<tool id="uniprotxml_downloader" name="UniProtXML Download" version="1.0.1"> <description>proteome</description> <requirements> - <requirement type="binary">wget</requirement> + <requirement type="package" version="2.7.12">python</requirement> </requirements> <stdio> <exit_code range="1:" level="fatal" description="Error downloading proteome." /> </stdio> - <command interpreter="python"> + <command> <![CDATA[ -uniprotxml_downloader.py -v -#if $taxid.choice == 'common': ---taxon $taxid.organism -#if $taxid.reviewed: ---reviewed=$taxid.reviewed -#end if -#else: -#for id in $taxid.taxons.split(','): --t $id -#end for -#end if ---output="${proteome}" + python '$__tool_directory__/uniprotxml_downloader.py' + -v + #if $taxid.choice == 'common': + --taxon '$taxid.organism' + #if $taxid.reviewed: + --reviewed=$taxid.reviewed + #end if + #else: + #for id in $taxid.taxons.split(','): + -t $id + #end for + #end if + --output="${proteome}" ]]> </command> <inputs> @@ -61,6 +62,7 @@ </outputs> <tests> <test> + <param name="choice" value="taxids"/> <param name="taxons" value="1566990"/> <output name="uniprotxml"> <assert_contents>