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change reviewed to true/false #778

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change reviewed to true/false #778

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92847ad
change reviewed to true/false
bgruening Oct 27, 2024
6126ccc
Update .shed.yml
bgruening Oct 27, 2024
c564d0e
Update uniprotxml_downloader.xml
bgruening Oct 27, 2024
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1 change: 1 addition & 0 deletions tools/uniprotxml_downloader/.shed.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -12,5 +12,6 @@ long_description: |
name: uniprotxml_downloader
owner: galaxyp
remote_repository_url: https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/uniprotxml_downloader
homepage_url: https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/uniprotxml_downloader
type: unrestricted

17 changes: 14 additions & 3 deletions tools/uniprotxml_downloader/uniprotxml_downloader.xml
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@@ -1,4 +1,4 @@
<tool id="uniprotxml_downloader" name="UniProt" version="2.4.0" profile="21.01">
<tool id="uniprotxml_downloader" name="UniProt" version="2.4.1" profile="23.0">
<description>download proteome as XML or fasta</description>
<macros>
<import>macros.xml</import>
Expand Down Expand Up @@ -55,8 +55,8 @@ python '$__tool_directory__/uniprotxml_downloader.py'
less of a chance peptides will be identified but less sequence redundancy
]]>
</help>
<option value="yes">UniProtKB/Swiss-Prot (reviewed only)</option>
<option value="no">UniProtKB/TrEMBL (unreviewed only)</option>
<option value="true">UniProtKB/Swiss-Prot (reviewed only)</option>
<option value="false">UniProtKB/TrEMBL (unreviewed only)</option>
</param>
</when>
<when value="enter_ids">
Expand Down Expand Up @@ -170,6 +170,17 @@ python '$__tool_directory__/uniprotxml_downloader.py'
</assert_contents>
</output>
</test>
<test>
<param name="input_choice" value="common"/>
<param name="reviewed" value="true"/>
<param name="format" value="fasta"/>
<output name="proteome">
<assert_contents>
<has_text text="E1Q2I0" />
<has_text text="E1Q3C4" />
</assert_contents>
</output>
</test>
</tests>
<help>
<![CDATA[
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