Mercurial > repos > iuc > hmmer_hmmscan

comparison hmmscan.xml @ 7:be072920a53e draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hmmer3 commit 0bccf5220ed6549db7e053f85bbe917326b0a0be"
author iuc
date Wed, 21 Jul 2021 14:10:08 +0000
parents d92dd2f040cd
children 347a1f935f4c
comparison
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6:d92dd2f040cd 7:be072920a53e
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="hmmer_hmmscan" name="hmmscan" version="@TOOL_VERSION@+galaxy1"> 2 <tool id="hmmer_hmmscan" name="hmmscan" version="@TOOL_VERSION@+galaxy0">
3 <description>search protein sequence(s) against a protein profile database</description> 3 <description>search protein sequence(s) against a protein profile database</description>
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements"/> 7 <expand macro="requirements"/>
24 > '$output' 24 > '$output'
25 ]]></command> 25 ]]></command>
26 <inputs> 26 <inputs>
27 <expand macro="input_hmm_choice" /> 27 <expand macro="input_hmm_choice" />
28 <!-- todo use Galaxy features like data libraries/data tables/??? --> 28 <!-- todo use Galaxy features like data libraries/data tables/??? -->
29 <param name="seqfile" type="data" format="fasta" label="Sequence file"/> 29 <param name="seqfile" type="data" format="fasta" label="Sequence file" help="Please note this file should have a length less than 100K."/>
30 <expand macro="oformat_with_opts_dom_pfam"/> 30 <expand macro="oformat_with_opts_dom_pfam"/>
31 <expand macro="thresholds_xml"/> 31 <expand macro="thresholds_xml"/>
32 <expand macro="cut"/> 32 <expand macro="cut"/>
33 <expand macro="accel_heur_xml"/> 33 <expand macro="accel_heur_xml"/>
34 <expand macro="adv_opts"/> 34 <expand macro="adv_opts"/>
39 </outputs> 39 </outputs>
40 <tests> 40 <tests>
41 <test expect_num_outputs="4"> 41 <test expect_num_outputs="4">
42 <param name="input_hmm_conditional|input_hmm_source" value="history"/> 42 <param name="input_hmm_conditional|input_hmm_source" value="history"/>
43 <param name="input_hmm_conditional|hmmfile" value="MADE1.hmm"/> 43 <param name="input_hmm_conditional|hmmfile" value="MADE1.hmm"/>
44 <param name="seqfile" value="dna_target.fa"/> 44 <param name="seqfile" value="dna_target2.fa"/>
45 <expand macro="oformat_test" /> 45 <expand macro="oformat_test" />
46 <expand macro="seed_test" /> 46 <expand macro="seed_test" />
47 <output name="output" file="MADE1.out" lines_diff="24"> 47 <output name="output" file="MADE1.out" lines_diff="24">
48 <expand macro="assert_out" tool="hmmscan"/> 48 <expand macro="assert_out" tool="hmmscan"/>
49 </output> 49 </output>