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comparison codeml.xml @ 5:dba114391c98 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/codeml commit 866bfa31d035d511ca31f82c8ebac0f1df36b6ac
author iuc
date Fri, 09 Feb 2024 21:39:39 +0000
parents f9cb3a4339c2
children
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4:f9cb3a4339c2 5:dba114391c98
1 <tool name="codeML" id="codeml" version="@TOOL_VERSION@+galaxy2" profile="18.01"> 1 <tool name="codeML" id="codeml" version="@TOOL_VERSION@+galaxy2" profile="18.01">
2 <description> 2 <description>
3 Detects positive selection (paml package) 3 Detects positive selection (paml package)
4 </description> 4 </description>
5
6 <macros> 5 <macros>
7 <import>macros.xml</import> 6 <import>macros.xml</import>
8 </macros> 7 </macros>
9 8 <xrefs>
9 <xref type="bio.tools">paml</xref>
10 </xrefs>
10 <requirements> 11 <requirements>
11 <requirement type="package" version="@TOOL_VERSION@">paml</requirement> 12 <requirement type="package" version="@TOOL_VERSION@">paml</requirement>
12 </requirements> 13 </requirements>
13
14 <version_command><![CDATA[ codeml /dev/null 2>&1 | tail -1 ]]></version_command> 14 <version_command><![CDATA[ codeml /dev/null 2>&1 | tail -1 ]]></version_command>
15
16 <command><![CDATA[ 15 <command><![CDATA[
17 cp '$codeml_ctl' '$ctl' && 16 cp '$codeml_ctl' '$ctl' &&
18 codeml '$codeml_ctl' 17 codeml '$codeml_ctl'
19 ]]></command> 18 ]]></command>
20
21 <configfiles> 19 <configfiles>
22 <configfile name="codeml_ctl"><![CDATA[ 20 <configfile name="codeml_ctl"><![CDATA[
23 seqfile = $concat_nuc * sequence data file name 21 seqfile = $concat_nuc * sequence data file name
24 outfile = run_codeml * main result file name 22 outfile = run_codeml * main result file name
25 treefile = $tree * tree structure file name 23 treefile = $tree * tree structure file name