Ensembl vep singularity

Ensembl vep singularity

0

Hello all,

I would like to use variant effect prédictor on an hpc cluster. For that i use singularity with the docker image of vep :

singularity pull --name vep.sif docker://ensemblorg/ensembl-vep

But i have a problem to use one plugin because a perl module is missing.

I get this error :

WARNING: Failed to compile plugin Carol: Can’t locate Math/CDF.pm in
@INC (you may need to install the Math::CDF module) (@INC contains:
/shared/home/quentin67100/.vep/Plugins
/opt/vep/src/ensembl-vep/modules /opt/vep/src/ensembl-vep /etc/perl
/usr/local/lib/x86_64-linux-gnu/perl/5.26.1
/usr/local/share/perl/5.26.1 /usr/lib/x86_64-linux-gnu/perl5/5.26
/usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl/5.26
/usr/share/perl/5.26 /usr/local/lib/site_perl
/usr/lib/x86_64-linux-gnu/perl-base) at
/shared/home/quentin67100/.vep/Plugins/Carol.pm line 76. BEGIN
failed–compilation aborted at
/shared/home/quentin67100/.vep/Plugins/Carol.pm line 76.

I try these 2 command to solve the problems but without succes :

singularity exec vep.sif cpanm Math::CDF

And:

singularity exec vep.sif cpanm --local-lib-contained /shared/home/quentin67100/.vep/Plugins Math::CDF

Any solution ?


vep


ensembl


Singularity

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