[BioBrew Users] Biobrew modules.

Humberto Ortiz Zuazaga humberto at hpcf.upr.edu
Tue Mar 1 11:49:19 EST 2005


There's something still broken with modules on the BioBrew 3.3 roll.

$ module avail

--------------------------- /opt/BioBrew/modulefiles 
---------------------------
ClustalW/1.8.3-1 HMMER/2.3.2-pvm  gromacs/3.2.1-1
Fasta/3.4-1      NCBI/6.1.0-2     wise/2.2.0-1

$ module add NCBI/6.1.0-2

$ module list
Currently Loaded Modulefiles:
  1) NCBI/6.1.0-2

$ blast
-bash: blast: command not found

$ echo $PATH
/opt/BioBrew/NCBI/6.1.0-2/bin:/opt/gridengine/bin/glinux:/opt/BioBrew/mrbayes/3
.0/bin:/usr/kerberos/bin:/opt/FarmTools/fbsng/bin:/usr/local/bin:/bin:/usr/bin:
/usr/X11R6/bin:/opt/ganglia/bin:/usr/java/j2sdk1.4.2_04/bin:/opt/rocks/bin:/opt
/rocks/sbin:/home/humberto/bin

But the actual location of blast is

/opt/BioBrew/NCBI/6.1.0/bin/blast

So the module is incorrectly adding the rpm version number into the path.





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