module load biopython/1.53

URL: http://biopython.org/wiki/Biopython

Tags: bioinformatics genomics

proc ModulesHelp { } {
  puts stderr "BioPython 1.53"
  puts stderr "TAGS: bioinformatics, genomics"
  puts stderr "URL: http://biopython.org/wiki/Biopython"
}

module-whatis "BioPython 1.53"

source $env(MODULEPATH)/.gui_warning

prepend-path PATH       /packages/biopython-1.53/lib64/python2.4/site-packages/Bio
prepend-path PYTHONPATH /packages/biopython-1.53/lib64/python2.4/site-packages



                

module load plink/1.04

URL: http://pngu.mgh.harvard.edu/~purcell/plink/

Tags: bioinformatics genomics

proc ModulesHelp { } {
  puts stderr "plink-1.04"
  puts stderr "TAGS: bioinformatics, genomics"
  puts stderr "url: http://pngu.mgh.harvard.edu/~purcell/plink/"
}
module-whatis "plink-1.04"
prepend-path PATH /packages/plink-1.04


                

module load gcc/4.6.2

Tags: compilers

proc ModulesHelp { } {
  puts stderr "GCC 4.6.2 including gfortran"
  puts stderr "TAGS: compilers"
}
module-whatis "GCC 4.6.2 including gfortran"

prepend-path PATH /packages/gcc/gcc-4.6.2/bin
prepend-path LD_LIBRARY_PATH /packages/gcc/gcc-4.6.2/lib
prepend-path LD_LIBRARY_PATH /packages/gcc/gcc-4.6.2/lib64



                

module load java/1.6.0_30

Tags: java compilers

proc ModulesHelp { } {
  puts stderr "Java jdk1.6.0_30"
  puts stderr "TAGS: java, compilers"
}

module-whatis "Java jdk1.6.0_30"

if { [module-info mode load] && [regexp {saguaro} [uname nodename]] } {
  puts stderr "The Java Development Kit is not intended for use on the login nodes. Please use"
  puts stderr "the following command to launch an interactive session before attempting to use"
  puts stderr "or compile Java programs: qsub -X -I"
  exit
}

prepend-path PATH      /packages/java/jdk1.6.0_30/bin
prepend-path MANPATH   /packages/java/jdk1.6.0_30/man
setenv      JAVA_HOME /packages/java/jdk1.6.0_30



                

module load gcc/4.6.3

Tags: compilers

proc ModulesHelp { } {
  puts stderr "GCC 4.6.3 including gfortran"
  puts stderr "TAGS: compilers"
}
module-whatis "GCC 4.6.3 including gfortran"

prepend-path PATH /packages/gcc/gcc-4.6.3/bin
prepend-path LD_LIBRARY_PATH /packages/gcc/gcc-4.6.3/lib
prepend-path LD_LIBRARY_PATH /packages/gcc/gcc-4.6.3/lib64



                

module load matlab/R2011b

Tags: matlab

proc ModulesHelp { } {
  puts stderr "Matlab R2011b"
  puts stderr "TAGS: matlab"
}
module-whatis "Matlab R2011b"

source $env(MODULEPATH)/.gui_warning

prepend-path PATH /packages/MatlabR2011b/bin
prepend-path LD_LIBRARY_PATH /packages/MatlabR2011b/bin/glnxa64/


                

module load openmpi/1.4.5-gnu-4.6.3

URL: http://www.open-mpi.org/

Tags: mpi

proc ModulesHelp { } {
  puts stderr "OpenMPI 1.4.5 with version 4.6.3 of the GNU compilers"
  puts stderr "TAGS: mpi"
  puts stderr "URL: http://www.open-mpi.org/"
}
module-whatis "OpenMPI 1.4.5 compiled with GNU 4.6.3"

conflict mvapich mvapich2 openmpi intel-mpi

module load gcc/4.6.3
prereq gcc/4.6.3

prepend-path PATH            /packages/openmpi/1.4.5/gcc/4.6.3/normal/bin
prepend-path MANPATH         /packages/openmpi/1.4.5/gcc/4.6.3/normal/share/man
prepend-path LD_LIBRARY_PATH /packages/openmpi/1.4.5/gcc/4.6.3/normal/lib


                

module load scipy/0.10.0-r7012

Tags: scientific libraries python

proc ModulesHelp { } {
  puts stderr "scipy-0.10.0 svn revision 7012 built with numpy-1.5.1"
  puts stderr "TAGS: scientific libraries, python"
}
module-whatis "scipy-0.10.0 svn revision 7012 built with numpy-1.5.1"
module load numpy/1.5.1
prereq numpy/1.5.1
prepend-path LD_LIBRARY_PATH /packages/scipy-0.10.0.dev7012/lib
prepend-path PYTHONPATH /packages/scipy-0.10.0.dev7012/lib/python


                

module load cufflinks/1.0.3

URL: http://cufflinks.cbcb.umd.edu/

Tags: sequencing

proc ModulesHelp { } {
  puts stderr "cufflinks-1.0.3"
  puts stderr "TAGS: sequencing"
  puts stderr "URL: http://cufflinks.cbcb.umd.edu/"
}

module-whatis "cufflinks-1.0.3"

source $env(MODULEPATH)/.gui_warning

module load boost/1.43.0

module load samtools/0.1.14

prepend-path PATH /packages/cufflinks/cufflinks-1.0.3/bin



                

module load maya/2008

Tags: visualization

proc ModulesHelp { } {
  puts stderr "Autodesk Maya 2008"
  puts stderr "TAGS: visualization"
}
module-whatis "Autodesk Maya 2008"
source $env(MODULEPATH)/.gui_warning
prepend-path PATH /packages/maya2008/maya2008-x64/bin
prepend-path SGIAWD_LICENSE_FILE /packages/maya2008/aw.dat