Mercurial > repos > iuc > hmmer3
view hmmfetch.xml @ 1:b5066aa77fea draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hmmer3 commit f7d83adb11624763b9b113f938a1d5f311c8f9fa-dirty
author | iuc |
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date | Sat, 19 Sep 2015 17:05:45 -0400 |
parents | 62479bdcc059 |
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<?xml version="1.0"?> <tool id="hmmer_hmmfetch" name="hmmfetch" version="@WRAPPER_VERSION@.0"> <description>retrieve profile HMM(s) from a file</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements"/> <expand macro="stdio"/> <command><![CDATA[ hmmfetch -f $hmmfile $keyfile > $output; ]]></command> <inputs> <!-- TODO: implement auto-indexing --> <expand macro="input_hmm" /> <param name="keyfile" type="data" format="tabular,txt" label="List of HMM names to extract"/> </inputs> <outputs> <data format="hmm3" name="output" label="Selected HMM Models from $hmmfile.name"> </data> </outputs> <tests> <test> <param name="hmmfile" value="fn3.hmm"/> <param name="keyfile" value="fn3.keys"/> <output name="output" file="fn3.hmm" lines_diff="4"/> </test> </tests> <help><![CDATA[ @HELP_PRE@ Quickly retrieves one or more profile HMMs from an <hmmfile> (a large Pfam database, for example). The profile names should be listed in a text file, separated by newlines By default, fetched HMMs are printed to standard output in HMMER3 format. @ATTRIBUTION@ ]]></help> <expand macro="citation"/> </tool>