software:alignment:tophat:2.0.3
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software:alignment:tophat:2.0.3 [2012/06/13 08:31] – created aorth | software:alignment:tophat:2.0.3 [2012/06/13 08:41] (current) – [Prepare module file] aorth | ||
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===== Configure, compile and install ===== | ===== Configure, compile and install ===== | ||
< | < | ||
- | make -j4 | + | make |
sudo make install</ | sudo make install</ | ||
Line 16: | Line 16: | ||
Create the module file, /// | Create the module file, /// | ||
- | < | + | < |
+ | #%Module1.0 | ||
##################################################################### | ##################################################################### | ||
## | ## | ||
- | ## cufflinks | + | ## tophat |
- | ## by Alan Orth, a.orth@cgiar.org | + | ## by Alan Orth, <a.orth@cgiar.org> |
+ | ## June 13, 2012 | ||
## | ## | ||
set version | set version | ||
- | set prefix | + | set appname |
- | set exec_prefix | + | set prefix |
- | set url " | + | set exec_prefix |
- | set msg "This module adds cufflinks | + | set datarootdir |
+ | set url " | ||
+ | set msg "This module adds tophat | ||
proc ModulesHelp { } { | proc ModulesHelp { } { | ||
Line 34: | Line 38: | ||
module-whatis | module-whatis | ||
- | conflict | + | conflict |
- | prepend-path | + | prepend-path |
- | # cufflinks 1.0.3 was compiled against boost 1.47.0, make sure if can find boost! | + | prepend-path |
- | prepend-path | + | |
- | # cufflinks | + | # tophat |
if { ![is-loaded samtools] } { | if { ![is-loaded samtools] } { | ||
module load samtools | module load samtools | ||
+ | } | ||
+ | |||
+ | # tophat depends on bowtie, load the bowtie module as well | ||
+ | if { ![is-loaded bowtie] } { | ||
+ | module load bowtie | ||
}</ | }</ | ||
==== Test module file ==== | ==== Test module file ==== | ||
- | < | + | < |
software/alignment/tophat/2.0.3.1339576268.txt.gz · Last modified: 2012/06/13 08:31 by aorth