Mercurial > repos > iuc > jbrowse

comparison jbrowse-fromdir.xml @ 8:ad4b9d7eae6a draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 9a243c616a4a3156347e38fdb5f35863ae5133f9
author iuc
date Tue, 29 Nov 2016 10:55:30 -0500
parents 7342f467507b
children 5f70e7fe6077
comparison
equal deleted inserted replaced
7:1e74f16adaa1 8:ad4b9d7eae6a
1 <tool id="jbrowse_to_standalone" name="JBrowse - Data Directory to Standalone" version="0.4"> 1 <tool id="jbrowse_to_standalone" name="JBrowse - Data Directory to Standalone" version="@WRAPPER_VERSION@">
2 <description>upgrades the bare data directory to a full JBrowse instance</description> 2 <description>upgrades the bare data directory to a full JBrowse instance</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements"/> 6 <expand macro="requirements"/>
7 <expand macro="stdio"/> 7 <expand macro="stdio"/>
8 <version_command>python jbrowse.py --version</version_command>
9 <command><![CDATA[ 8 <command><![CDATA[
10 ## Create output directory 9 ## Create output directory
11 mkdir -p $output.files_path && 10 mkdir -p $output.files_path &&
12 ## Copy in jbrowse 11 ## Copy in jbrowse
13 cp -R \${JBROWSE_SOURCE_DIR}/* $output.files_path/ && 12 cp -R \${JBROWSE_SOURCE_DIR}/* $output.files_path/ &&
24 format="html" /> 23 format="html" />
25 </inputs> 24 </inputs>
26 <outputs> 25 <outputs>
27 <data format="html" name="output" label="#set $name = $input.name.replace('Data Directory', 'Standalone')# $name"/> 26 <data format="html" name="output" label="#set $name = $input.name.replace('Data Directory', 'Standalone')# $name"/>
28 </outputs> 27 </outputs>
28 <tests>
29 </tests>
29 <help><![CDATA[ 30 <help><![CDATA[
30 Upgrades an existing bare JBrowse "data" directory into a full-fledged JBrowse instance. 31 Upgrades an existing bare JBrowse "data" directory into a full-fledged JBrowse instance.
31 32
32 @ATTRIBUTION@ 33 @ATTRIBUTION@
33 ]]></help> 34 ]]></help>
34 <tests> 35 <expand macro="citations"/>
35 </tests>
36 <citations>
37 <citation type="doi">10.1101/gr.094607.109</citation>
38 </citations>
39 </tool> 36 </tool>
40