millironx/nf-configs
1
0
Fork 0
mirror of https://github.com/MillironX/nf-configs.git synced 2024-12-22 10:38:16 +00:00
Code Issues Releases Packages Activity

usage notes

Browse source
This commit is contained in:
Alex Rajewski 2022-04-22 10:23:19 -07:00 committed by GitHub
parent c1425c6c01
commit 766eb450be
No known key found for this signature in database
GPG key ID: 4AEE18F83AFDEB23
1 changed files with 7 additions and 0 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

7
docs/cedars.md Normal file
View file

@ -0,0 +1,7 @@
# Cedars-Sinai Medical Center HPC
- You will need HPC access from EIS, which can be requested in the Service Center.
- You will need to load the nextflow module on the HPC before running any pipelines (`module load nextflow`). This should automatically load Java as well.
- Run this with `-profile cedars`
- By default this config file does not specify a queue for submission, and things will thus go to `all.q`. Because of that, the memory and cpu limits have been set accordingly.
- We highly recommend specifying a location of a cache directory to store singularity images (so you re-use them across runs, and not pull each time), by specifying the location with the `$NXF_SINGULARITY_CACHE_DIR` bash environment variable in your `.bash_profile` or `.bashrc`