GARD_detect HPC issues, closes #31

rnajena / poseidon

PoSeiDon: positive selection detection and recombination analysis pipeline

MIT License

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GARD_detect HPC issues, closes #31 #34

Open fischer-hub opened 2 years ago

fischer-hub commented 2 years ago

changed /TEMPDIR from $(PWD) to /tmp because path was too long for MPI
copy ${aln} to /TEMPDIR since GARD wasn't able to follow the symlink on the cluster apparently
adjust paths to new /TEMPDIR

mchaisso commented 2 years ago

Is the literal path /tmp used or is a /tmp in a virtual machine used? Our file system does not have /tmp on processing nodes.

fischer-hub commented 2 years ago

Is the literal path /tmp used or is a /tmp in a virtual machine used? Our file system does not have /tmp on processing nodes.

Hi @mchaisso , it should be the literal path. Did this solution not run on your cluster? Do the nodes on your cluster have a seperate filesystem from the rest?