Mercurial > repos > bebatut > cdhit
comparison tool_dependencies.xml @ 0:617a5f3baf7f draft
planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/cdhit/ commit 822c081d971c1fa6eef307936fb07dcf9d5db1c5-dirty
| author | bebatut |
|---|---|
| date | Mon, 14 Dec 2015 04:19:46 -0500 |
| parents | |
| children | aa923171e225 |
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| -1:000000000000 | 0:617a5f3baf7f |
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| 1 <?xml version="1.0"?> | |
| 2 <tool_dependency> | |
| 3 <package name="cd-hit" version="4.6.1"> | |
| 4 <install version="1.0"> | |
| 5 <actions> | |
| 6 <action type="download_by_url">https://cdhit.googlecode.com/files/cd-hit-v4.6.1-2012-08-27.tgz</action> | |
| 7 <action type="shell_command">make</action> | |
| 8 <action type="move_file"> | |
| 9 <source>cd-hit</source> | |
| 10 <destination>$INSTALL_DIR</destination> | |
| 11 </action> | |
| 12 <action type="move_file"> | |
| 13 <source>cd-hit-est</source> | |
| 14 <destination>$INSTALL_DIR</destination> | |
| 15 </action> | |
| 16 <action type="set_environment"> | |
| 17 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable> | |
| 18 <environment_variable name="CDHIT_SITE_OPTIONS" action="set_to">"-M 4000 -T 0"</environment_variable> | |
| 19 </action> | |
| 20 </actions> | |
| 21 </install> | |
| 22 <readme> | |
| 23 These links provide information for building the cdhit package: | |
| 24 | |
| 25 http://weizhong-lab.ucsd.edu/cd-hit/ | |
| 26 | |
| 27 https://code.google.com/p/cdhit/ | |
| 28 | |
| 29 https://code.google.com/p/cdhit/source/browse/README | |
| 30 | |
| 31 Change the CDHIT_SITE_OPTIONS variable in the installed env.sh file to adjust | |
| 32 the maximum memory Mb (-M) or to limit the number of threads (-T) | |
| 33 to match your site | |
| 34 </readme> | |
| 35 </package> | |
| 36 </tool_dependency> | |
| 37 |