Mercurial > repos > iuc > structureharvester
changeset 2:28b9809c4002 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/structureharvester commit f1cac0ad033da79288fe720fbe5af5948cc61d44
author | iuc |
---|---|
date | Wed, 25 Sep 2024 15:36:50 +0000 |
parents | 8dc371b783eb |
children | |
files | structureharvester.xml |
diffstat | 1 files changed, 13 insertions(+), 9 deletions(-) [+] |
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--- a/structureharvester.xml Thu Sep 17 09:35:06 2020 +0000 +++ b/structureharvester.xml Wed Sep 25 15:36:50 2024 +0000 @@ -1,7 +1,11 @@ -<tool id="structureharvester" name="structureHarvester" version="0.6.94"> +<tool id="structureharvester" name="structureHarvester" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@"> <description>for parsing STRUCTURE outputs and for performing the Evanno method</description> + <macros> + <token name="@TOOL_VERSION@">0.6.94</token> + <token name="@VERSION_SUFFIX@">1</token> + </macros> <requirements> - <requirement type="package" version="0.6.94">structureharvester</requirement> + <requirement type="package" version="@TOOL_VERSION@">structureharvester</requirement> </requirements> <version_command><![CDATA[ structureHarvester.py --version @@ -14,7 +18,7 @@ structureHarvester.py --dir inputs/ --out . $evanno $clumpp && mv summary.txt '$summary' #if $evanno - && mv evanno.txt $evanno + && mv evanno.txt '$evanno_out' #end if #if $clumpp && mkdir clumpp_indfile clumpp_popfile @@ -28,21 +32,21 @@ <param argument="--clumpp" type="boolean" checked="false" truevalue="--clumpp" falsevalue="" label="Generates one K*.indfile for each value of K run, for use with CLUMPP." /> </inputs> <outputs> - <data name="summary" format="txt" label="Structure Harvester summary"/> - <data name="evanno" format="txt" label="Evann method output"> + <data name="summary" format="txt" label="${tool.name} on ${on_string}: Summary"/> + <data name="evanno_out" format="txt" label="${tool.name} on ${on_string}: Evann output"> <filter>evanno</filter> </data> - <collection name="clumpp_indfile" type="list" label="Clumpp K*.indfile"> + <collection name="clumpp_indfile" type="list" label="${tool.name} on ${on_string}: Clumpp K*.indfile"> <filter>clumpp</filter> <discover_datasets pattern="__name__" format="txt" directory="clumpp_indfile" /> </collection> - <collection name="clumpp_popfile" type="list" label="Clumpp K*.popfile"> + <collection name="clumpp_popfile" type="list" label="${tool.name} on ${on_string}: Clumpp K*.popfile"> <filter>clumpp</filter> <discover_datasets pattern="__name__" format="txt" directory="clumpp_popfile" /> </collection> </outputs> <tests> - <test> + <test expect_num_outputs="3"> <param name="inputs" value="example_harvester_archive/Admix_run_001_f,example_harvester_archive/Admix_run_002_f,example_harvester_archive/Admix_run_004_f,example_harvester_archive/Admix_run_005_f,example_harvester_archive/Admix_run_007_f,example_harvester_archive/Admix_run_008_f,example_harvester_archive/K1ReRun_run_1_f,example_harvester_archive/K1ReRun_run_2_f" /> <param name="evanno" value="false" /> <param name="clumpp" value="true" /> @@ -89,7 +93,7 @@ Structure_Harvester_ is a program for parsing the output of Pritchard's STRUCTURE_ and for performing the Evanno method. -.. _Structure_Harvester: http://taylor0.biology.ucla.edu/structureHarvester/ +.. _Structure_Harvester: http://alumni.soe.ucsc.edu/~dearl/software/structureHarvester/ .. _STRUCTURE: http://web.stanford.edu/group/pritchardlab/structure.html ]]></help>