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Docs for QBiC pipelines
Should be --target_bed
and not --targetBED
Dear all,
there are some broken lins in the exomeseq.md, when referencing the sarek input documentation
and the variant calling docs
. The links https://github.com/nf-core/sarek/blob/master/docs/input.md and https://github.com/nf-core/sarek/blob/dev/docs/variant_calling are not valid anymore. I guess it should rather point to Sarek Usage Docs now?
Potentially, this issue also occurs in other parts of the docs..
Best,
Marie
Error:
java.io.FileNotFoundException: /nfsmounts/container/.nfcore-cageseq-1.0.0.img.lock (Read-only file system)
Usually, this mean that the container pulling failed or the container is corrupted.
Solution:
Navigate to
/nfsmounts/containers
and remove the existing container.
Re-run your pipeline.
The master branch contains changes not present in the dev branch:
They look like they should stay there though. For me this setup is a bit confusing now. Intuitively I would merge into dev
, which is then eventually released into master
. In the past that apparently didn't always happen. I guess 2 scenarios could be used:
master
branch to only allow merges from dev
. Everyone would then merge their PRs into dev
for a release. That would include more overhead to make releases every once in a while and changes won't directly appear on the website.dev
branch completely and everyone just directly merges into master
from their fork. Is there a reason to keep the dev
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