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sigven / cpsr

Cancer Predisposition Sequencing Reporter (CPSR)
https://sigven.github.io/cpsr/
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cpsr_configuration_default.toml missing from PCGR data #27

Closed brucemoran closed 4 years ago

brucemoran commented 4 years ago

Hi Sigve,

possibly due to update of CPSR/PCGR which I am using via Conda in a Singularity container. From RELEASE_NOTES:

##PCGR_SOFTWARE_VERSION = 0.8.4
##PCGR_DB_VERSION = 20191116

Data bundle from http://insilico.hpc.uio.no/pcgr/pcgr.databundle.grch38.20191116.tgz

I am now missing the pcgr/data/*/cpsr_configuration_default.toml config file. Seems like multiple different dirs since I was last in there looking around.

Any ideas? Should I clone the git repo to get the cpsr.toml, will that work same as above file? PResume same should be done for pcgr_configuration_default.toml which is also missing?

Thanks,

Bruce

sigven commented 4 years ago

Hi Bruce,

Thanks for reaching out. When I download the bundle from our local host (insilico.hpc.uio.no) I can see both of the default configuration files, so I am not completely sure what has gone wrong on your side?

regards, Sigve

brucemoran commented 4 years ago

Hi Sigve,

I have a reproducible error on my end, very odd, but can confirm the bundle is fine.

Bruce