Mercurial > repos > iuc > hmmer_hmmbuild
diff hmmbuild.xml @ 3:7ea31fc35394 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hmmer3 commit fa7dec5f222510d58f566f4799a04e3731fa03f6
author | iuc |
---|---|
date | Sat, 07 Apr 2018 03:51:18 -0400 |
parents | fb8582aff5db |
children | 750269125dc9 |
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--- a/hmmbuild.xml Wed Apr 04 14:01:35 2018 -0400 +++ b/hmmbuild.xml Sat Apr 07 03:51:18 2018 -0400 @@ -1,5 +1,5 @@ <?xml version="1.0"?> -<tool id="hmmer_hmmbuild" name="hmmbuild" version="@WRAPPER_VERSION@.0"> +<tool id="hmmer_hmmbuild" name="hmmbuild" version="@TOOL_VERSION@"> <description>Build a profile HMM from an input multiple alignment</description> <macros> <import>macros.xml</import> @@ -10,7 +10,7 @@ hmmbuild #if $hmmname: --n "$hmmname" + -n '$hmmname' #end if @FORMAT_SELECTOR@ @@ -25,16 +25,16 @@ @SEED@ @LENGTHS@ -#if $maxinsertlen: ---maxinsertlen $maxinsertlen +#if str($maxinsertlen): + --maxinsertlen $maxinsertlen #end if -$hmmout -$msafile - ]]></command> +'$hmmout' +'$msafile' + ]]></command> <inputs> <expand macro="input_msa" /> - <param name="hmmname" type="text" optional="True" label="Name for the HMM" help="(-n)"/> + <param name="hmmname" argument="-n" type="text" optional="true" label="Name for the HMM" /> <expand macro="format_selector"/> <expand macro="mcss"/> <expand macro="arsws"/> @@ -45,11 +45,10 @@ <expand macro="seed"/> <expand macro="lengths" /> - <param name="maxinsertlen" label="Pretend all inserts are length <= n" - help="(--maxinsertlen)" optional="True" type="integer"/> + <param argument="--maxinsertlen" type="integer" optional="true" label="Pretend all inserts are length <= n" /> </inputs> <outputs> - <data format="hmm3" name="hmmout" label="HMM profile from $msafile.name"/> + <data name="hmmout" format="hmm3" label="HMM profile from $msafile.name"/> </outputs> <tests> <test> @@ -83,6 +82,6 @@ @LENGTHS_HELP@ @ATTRIBUTION@ -]]></help> + ]]></help> <expand macro="citation"/> </tool>