Mercurial > repos > iuc > hmmer_phmmer

comparison phmmer.xml @ 8:92ff5dcded40 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 20:24:54 +0000
parents 8a791afd99fb
children 37bcc9fb0bb1
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7:8a791afd99fb 8:92ff5dcded40
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="hmmer_phmmer" name="phmmer" version="@TOOL_VERSION@+galaxy0"> 2 <tool id="hmmer_phmmer" name="phmmer" version="@TOOL_VERSION@+galaxy1">
3 <description>search a protein sequence against a protein database (BLASTP-like)</description> 3 <description>search a protein sequence against a protein database (BLASTP-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 phmmer 12 phmmer
12 13
13 @OFORMAT_WITH_OPTS@ 14 @OFORMAT_WITH_OPTS@
14 @HSSI@ 15 @HSSI@
15 @THRESHOLDS@ 16 @THRESHOLDS@
17 @THRESHOLDS_DOM@
16 @ACCEL_HEUR@ 18 @ACCEL_HEUR@
17 @EVAL_CALIB@ 19 @EVAL_CALIB@
18 @ADV_OPTS@ 20 @ADV_OPTS@
19 21
20 @CPU@ 22 @CPU@
28 <param name="seqfile" type="data" format="fasta" label="Protein sequence to search with"/> 30 <param name="seqfile" type="data" format="fasta" label="Protein sequence to search with"/>
29 <!-- todo use Galaxy features like data libraries/data tables/??? --> 31 <!-- todo use Galaxy features like data libraries/data tables/??? -->
30 <param name="seqdb" type="data" format="fasta" label="Sequence Database"/> 32 <param name="seqdb" type="data" format="fasta" label="Sequence Database"/>
31 <expand macro="oformat_with_opts_dom_pfam"/> 33 <expand macro="oformat_with_opts_dom_pfam"/>
32 <expand macro="hssi"/> 34 <expand macro="hssi"/>
33 <expand macro="thresholds_xml"/> 35 <expand macro="thresholds_dom_xml"/>
34 <expand macro="accel_heur_xml"/> 36 <expand macro="accel_heur_xml"/>
35 <expand macro="eval_calib_xml"/> 37 <expand macro="eval_calib_xml"/>
36 <expand macro="adv_opts"/> 38 <expand macro="adv_opts"/>
37 <expand macro="seed"/> 39 <expand macro="seed"/>
38 </inputs> 40 </inputs>