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cancerit / cgpCaVEManWrapper

Reference implementation of CGP workflow for CaVEMan SNV analysis
http://cancerit.github.io/cgpCaVEManWrapper/
GNU Affero General Public License v3.0
6 stars 3 forks source link

Missing run instructions #50

Closed winni2k closed 4 years ago

winni2k commented 4 years ago

How do I run this tool?

winni2k commented 4 years ago

I'm still experimenting, but It looks like something like this would work with singularity:

CGPWRAPPER_VERSION=1.16.0

singularity pull cgpcavemanwrapper-$CGPWRAPPER_VERSION.sif docker://quay.io/wtsicgp/cgpcavemanwrapper:$CGPWRAPPER_VERSION
singularity exec cgpcavemanwrapper-$CGPWRAPPER_VERSION.sif caveman.pl --help
keiranmraine commented 4 years ago

Please see the wiki and command line help:

https://github.com/cancerit/cgpCaVEManWrapper/wiki

Docker and singularity are known to work.