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HenrikBengtsson / CBI-software

A Scientific Software Stack for HPC (CentOS oriented)
https://wynton.ucsf.edu/hpc/software/software-repositories.html
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SOFTWARE: GISTIC 2.0 #26

Closed HenrikBengtsson closed 2 years ago

HenrikBengtsson commented 2 years ago

Installation gist

mkdir GISTIC-2.0.23
cd GISTIC-2.0.23
curl -O ftp://ftp.broadinstitute.org/pub/GISTIC2.0/GISTIC_2_0_23.tar.gz
tar vzxf GISTIC_2_0_23.tar.gz 
mv GISTIC_2_0_23.tar.gz ..  ## Not needed anymore
## more INSTALL.txt ## Installation notes
mkdir MATLAB_Compiler_Runtime   ## Hard-coded name used by 'gistic2'
cd MCR_Installer
unzip MCRInstaller.zip
./install -mode silent -agreeToLicense yes -destinationFolder "$(dirname "${PWD}")/MATLAB_Compiler_Runtime"
...
On the target computer, append the following to your LD_LIBRARY_PATH environment variable:

/tmp/hb/20210928/gistic2-2.0.23/MATLAB_Compiler_Runtime/v83/runtime/glnxa64:/tmp/hb/20210928/gistic2-2.0.23/MATLAB_Compiler_Runtime/v83/bin/glnxa64:/tmp/hb/20210928/gistic2-2.0.23/MATLAB_Compiler_Runtime/v83/sys/os/glnxa64:

Next, set the XAPPLRESDIR environment variable to the following value:

/tmp/hb/20210928/gistic2-2.0.23/MATLAB_Compiler_Runtime/v83/X11/app-defaults
$ ./gistic2
Setting Matlab MCR root to /scratch/hb/gistic2/MATLAB_Compiler_Runtime

See also