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comparison tool_dependencies.xml @ 1:93fa7ecb5292 draft

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Directly call SSPACE, remove sspace.py and hidden library file output. Use $GALAXY_SLOTS instead of $SSPACE_SITE_OPTIONS. Add readme.rst .
author crs4
date Fri, 21 Feb 2014 04:17:55 -0500
parents b1be94418db9
children bc4451edb703
comparison
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0:b1be94418db9 1:93fa7ecb5292
11 <destination_directory>$INSTALL_DIR</destination_directory> 11 <destination_directory>$INSTALL_DIR</destination_directory>
12 </action> 12 </action>
13 <action type="set_environment"> 13 <action type="set_environment">
14 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable> 14 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
15 </action> 15 </action>
16 <action type="set_environment">
17 <environment_variable name="SSPACE_SITE_OPTIONS" action="set_to">"-T 1"</environment_variable>
18 </action>
19 </actions> 16 </actions>
20 </install> 17 </install>
21 <readme> 18 <readme>
22 Change the SSPACE_SITE_OPTIONS variable in the installed env.sh file to adjust the number of threads to use in Bowtie alignment (-T). 19 Configuration: Previously (until Release 0), the SSPACE_SITE_OPTIONS variable in the installed env.sh file was used to adjust the number of threads to use in Bowtie alignment (-T). This is not used anymore and may be removed.
23 </readme> 20 </readme>
24 </package> 21 </package>
25 </tool_dependency> 22 </tool_dependency>