Mercurial > repos > iuc > hmmer_nhmmer

comparison nhmmer.xml @ 8:2ec5e1ad1da7 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hmmer3 commit 061757dd7b3bfe66b7738fd54bd6c5e135d9afe8
author iuc
date Mon, 06 Nov 2023 20:23:30 +0000
parents b28e8ed99424
children 54b92ae4f75b
comparison
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7:b28e8ed99424 8:2ec5e1ad1da7
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="hmmer_nhmmer" name="nhmmer" version="@TOOL_VERSION@+galaxy0"> 2 <tool id="hmmer_nhmmer" name="nhmmer" version="@TOOL_VERSION@+galaxy1">
3 <description>search a DNA model or alignment against a DNA database (BLASTN-like)</description> 3 <description>search a DNA model or alignment against a DNA database (BLASTN-like)</description>
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="bio_tools"/>
7 <expand macro="requirements"/> 8 <expand macro="requirements"/>
8 <expand macro="stdio"/> 9 <expand macro="stdio"/>
9 <command><![CDATA[ 10 <command><![CDATA[
10 @ADDTHREADS@ 11 @ADDTHREADS@
11 nhmmer 12 nhmmer
12 13
13 @OFORMAT_WITH_OPTS@ 14 @OFORMAT_WITH_OPTS@
14 @HSSI@ 15 @HSSI@
15 @THRESHOLDS_NODOM@ 16 @THRESHOLDS@
16 @CUT@
17 @ACCEL_HEUR@ 17 @ACCEL_HEUR@
18 @FORMAT_SELECTOR@ 18 @FORMAT_SELECTOR@
19 @ADV_OPTS@ 19 @ADV_OPTS@
20 @LENGTHS@ 20 @LENGTHS@
21 @CPU@ 21 @CPU@
28 <inputs> 28 <inputs>
29 <expand macro="input_hmm" /> 29 <expand macro="input_hmm" />
30 <param name="seqfile" type="data" format="fasta" label="Target sequence file"/> 30 <param name="seqfile" type="data" format="fasta" label="Target sequence file"/>
31 <expand macro="oformat_with_opts_dfam_alisc"/> 31 <expand macro="oformat_with_opts_dfam_alisc"/>
32 <expand macro="hssi"/> 32 <expand macro="hssi"/>
33 <expand macro="thresholds_nodom"/> 33 <expand macro="thresholds_cut_xml"/>
34 <expand macro="cut" />
35 <expand macro="accel_heur_xml"/> 34 <expand macro="accel_heur_xml"/>
36 <expand macro="format_selector_noprot"/> 35 <expand macro="format_selector_noprot"/>
37 <expand macro="adv_opts"/> 36 <expand macro="adv_opts"/>
38 <expand macro="lengths"/> 37 <expand macro="lengths"/>
39 <!-- TODO: block_length toponly bottomonly --> 38 <!-- TODO: block_length toponly bottomonly -->