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Added kraken config (#15)

* Added kraken template
* docs: updated some info
* fix: updated igenomes_base path
This commit is contained in:
Martin Proks 2019-08-05 11:19:06 +02:00 committed by Maxime Garcia
parent 5abe8bca35
commit c583aa0233
2 changed files with 34 additions and 0 deletions

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conf/kraken.config Normal file
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//Profile config names for nf-core/configs
params {
config_profile_name = 'KRAKEN'
config_profile_description = 'Jenkins cluster provided by nf-core/configs.'
config_profile_contact = 'Maxime Garcia or Johannes Alneberg'
config_profile_url = 'kraken.dyn.scilifelab.se'
}
process {
executor = 'local'
}
docker {
enabled = true
mountFlags = 'z'
fixOwnership = true
}
params {
max_memory = 60.GB
max_cpus = 16
max_time = 72.h
igenomes_base = '/share/igenomes/'
}

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docs/kraken.md Normal file
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# nf-core/configs: KRAKEN Configuration
This profile can be **only** combined with `jenkins.config`. It is used for
testing pipeline with real data on **in-house** cluster located at SciLifeLab.
To use, run the pipeline with `-profile kraken`. This will download and launch
the [`kraken.config`](../conf/kraken.config) which has been pre-configured to
test the pipeline using `docker` by default.
Example: `nextflow run -profile kraken,jenkins`