Comments (3)
Thanks-- the intention behind the -p option is to make sure the genomes are set up with proper everyone-can-look permissions, otherwise we'd end up debugging a bunch of issues related to incorrect permissions being set for the shared genomes. So I think removing it is going to lead to more problems for new users getting started, so your workaround is the way I'd go for now for your particular system. It's the first time we've seen a problem with it. It is definitely not ideal for your setup though, sorry about that.
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Thanks for being understanding, Vic. Hopefully the sysadmins can relax your quota. On shared systems where we are managing bcbio for other users, what we usually do is have a bcbio
user that has permissions to do the installation and write to the genome directories and what not. Maybe they could set you up with something like that with relaxed quota.
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Related Issues (20)
- gnomad exome issue HOT 5
- Error while adding reference to the given genome to the base index file HOT 1
- Failed to install due to broken link HOT 5
- Feature request: Update Drosophila genome build to support dm6 HOT 5
- mirbase GFF file not installed for mmu even if it is present HOT 2
- a peculiar bug in grch37 dbnsftp recipe HOT 3
- gnomad_exome ggb randomly fails on chr1 HOT 5
- UNPACK_DIR: unbound variable HOT 3
- Issues with installing dbscSNV HOT 7
- bismark_indices.loc missing HOT 2
- Problems with centralized conda installation HOT 2
- Broad FTP login error is causing bcbio-nextgen data upgrade to fail HOT 7
- Integrate additional GiaB samples for validation HOT 1
- limit conda environments HOT 1
- Don't use both mamba and conda to install packages
- Incorrect Ensembl release version for hg38 transcripts.yaml
- Installation problem conda package libtiff HOT 1
- Please submit cloudbiolinux/BCBIO related issues to bcbio github
- cloubiolinux.org website is hijacked or domain expired
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