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comparison picard_ValidateSamFile.xml @ 8:3a3234d7a2e8 draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 00a7926c285bc4a339bd7deebf40b28f39c7d947-dirty
author devteam
date Thu, 16 Jul 2015 15:53:10 -0400
parents 379fdf4c41ac
children 05087b27692a
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7:379fdf4c41ac 8:3a3234d7a2e8
1 <tool name="ValidateSamFile" id="picard_ValidateSamFile" version="1.126.0"> 1 <tool name="ValidateSamFile" id="picard_ValidateSamFile" version="@TOOL_VERSION@.0">
2 <description>assess validity of SAM/BAM dataset</description> 2 <description>assess validity of SAM/BAM dataset</description>
3 <requirements>
4 <requirement type="package" version="1.126.0">picard</requirement>
5 </requirements>
6
7 <macros> 3 <macros>
8 <import>picard_macros.xml</import> 4 <import>picard_macros.xml</import>
9 </macros> 5 </macros>
10 6 <expand macro="requirements" />
11 <command> 7 <command>
12 8
13 ##set the maximum number of open file to hard maximum or 4096 if on a mac (mac gives 'unlimited' as output of `ulimit -Hn` command 9 ##set the maximum number of open file to hard maximum or 4096 if on a mac (mac gives 'unlimited' as output of `ulimit -Hn` command
14 10
15 [ `ulimit -Hn` = unlimited ] &amp;&amp; ulimit -Sn 4096 || ulimit -Sn `ulimit -Hn` 11 [ `ulimit -Hn` = unlimited ] &amp;&amp; ulimit -Sn 4096 || ulimit -Sn `ulimit -Hn`