mirror of
https://github.com/MillironX/nf-configs.git
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commit
15574ab849
4 changed files with 33 additions and 2 deletions
2
.github/workflows/main.yml
vendored
2
.github/workflows/main.yml
vendored
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@ -16,7 +16,7 @@ jobs:
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needs: test_all_profiles
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strategy:
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matrix:
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profile: ['awsbatch', 'bigpurple', 'binac', 'cbe', 'ccga_dx', 'ccga_med', 'cfc', 'crick', 'denbi_qbic', 'ebc', 'genotoul', 'genouest', 'gis', 'google', 'hebbe', 'kraken', 'munin', 'pasteur', 'phoenix', 'prince', 'shh', 'uct_hex', 'uppmax', 'utd_ganymede', 'uzh']
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profile: ['awsbatch', 'bigpurple', 'binac', 'cbe', 'ccga_dx', 'ccga_med', 'cfc', 'cfc_dev', 'crick', 'denbi_qbic', 'ebc', 'genotoul', 'genouest', 'gis', 'google', 'hebbe', 'kraken', 'munin', 'pasteur', 'phoenix', 'prince', 'shh', 'uct_hex', 'uppmax', 'utd_ganymede', 'uzh']
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steps:
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- uses: actions/checkout@v1
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- name: Install Nextflow
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@ -1,7 +1,7 @@
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//Profile config names for nf-core/configs
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params {
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config_profile_description = 'QBiC Core Facility cluster profile provided by nf-core/configs.'
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config_profile_contact = 'Alexander Peltzer (@apeltzer)'
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config_profile_contact = 'Gisela Gabernet (@ggabernet)'
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config_profile_url = 'http://qbic.uni-tuebingen.de/'
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}
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28
conf/cfc_dev.config
Normal file
28
conf/cfc_dev.config
Normal file
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@ -0,0 +1,28 @@
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//Profile config names for nf-core/configs
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params {
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config_profile_description = 'QBiC Core Facility cluster dev profile without container cache provided by nf-core/configs.'
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config_profile_contact = 'Gisela Gabernet (@ggabernet)'
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config_profile_url = 'http://qbic.uni-tuebingen.de/'
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}
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singularity {
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enabled = true
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}
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process {
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beforeScript = 'module load devel/singularity/3.4.2'
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executor = 'slurm'
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queue = { task.memory > 60.GB || task.cpus > 20 ? 'qbic' : 'compute' }
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}
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weblog{
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enabled = true
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url = 'https://services.qbic.uni-tuebingen.de/flowstore/workflows'
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}
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params {
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igenomes_base = '/nfsmounts/igenomes'
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max_memory = 1999.GB
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max_cpus = 128
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max_time = 140.h
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}
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@ -17,6 +17,7 @@ profiles {
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ccga_dx { includeConfig "${params.custom_config_base}/conf/ccga_dx.config" }
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ccga_med { includeConfig "${params.custom_config_base}/conf/ccga_med.config" }
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cfc { includeConfig "${params.custom_config_base}/conf/cfc.config" }
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cfc_dev { includeConfig "${params.custom_config_base}/conf/cfc_dev.config" }
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crick { includeConfig "${params.custom_config_base}/conf/crick.config" }
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czbiohub_aws { includeConfig "${params.custom_config_base}/conf/czbiohub_aws.config" }
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czbiohub_aws_highpriority {
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@ -47,7 +48,9 @@ profiles {
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params {
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// This is a groovy map, not a nextflow parameter set
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hostnames = [
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binac: ['.binac.uni-tuebingen.de'],
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cbe: ['.cbe.vbc.ac.at'],
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cfc: ['.hpc.uni-tuebingen.de'],
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crick: ['.thecrick.org'],
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genotoul: ['.genologin1.toulouse.inra.fr', '.genologin2.toulouse.inra.fr'],
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genouest: ['.genouest.org'],
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