millironx/nf-configs
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Merge branch 'master' into master

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BarryDigby 2021-07-28 12:16:16 +01:00 committed by GitHub
commit 871b82f6f4
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2 changed files with 15 additions and 13 deletions
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3
.github/workflows/main.yml vendored
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@ -18,12 +18,13 @@ jobs:
matrix: matrix:
profile: profile:
- 'abims' - 'abims'
- 'awsbatch'
- 'aws_tower' - 'aws_tower'
- 'awsbatch'
- 'bi' - 'bi'
- 'bigpurple' - 'bigpurple'
- 'binac' - 'binac'
- 'biohpc_gen' - 'biohpc_gen'
- 'cambridge'
- 'cbe' - 'cbe'
- 'ccga_dx' - 'ccga_dx'
- 'ccga_med' - 'ccga_med'

23
nfcore_custom.config
View file

@ -11,12 +11,13 @@
//Please use a new line per include Config section to allow easier linting/parsing. Thank you. //Please use a new line per include Config section to allow easier linting/parsing. Thank you.
profiles { profiles {
abims { includeConfig "${params.custom_config_base}/conf/abims.config" } abims { includeConfig "${params.custom_config_base}/conf/abims.config" }
awsbatch { includeConfig "${params.custom_config_base}/conf/awsbatch.config" }
aws_tower { includeConfig "${params.custom_config_base}/conf/aws_tower.config" } aws_tower { includeConfig "${params.custom_config_base}/conf/aws_tower.config" }
awsbatch { includeConfig "${params.custom_config_base}/conf/awsbatch.config" }
bi { includeConfig "${params.custom_config_base}/conf/bi.config" } bi { includeConfig "${params.custom_config_base}/conf/bi.config" }
bigpurple { includeConfig "${params.custom_config_base}/conf/bigpurple.config" } bigpurple { includeConfig "${params.custom_config_base}/conf/bigpurple.config" }
binac { includeConfig "${params.custom_config_base}/conf/binac.config" } binac { includeConfig "${params.custom_config_base}/conf/binac.config" }
biohpc_gen { includeConfig "${params.custom_config_base}/conf/biohpc_gen.config" } biohpc_gen { includeConfig "${params.custom_config_base}/conf/biohpc_gen.config" }
cambridge { includeConfig "${params.custom_config_base}/conf/cambridge.config" }
cbe { includeConfig "${params.custom_config_base}/conf/cbe.config" } cbe { includeConfig "${params.custom_config_base}/conf/cbe.config" }
ccga_dx { includeConfig "${params.custom_config_base}/conf/ccga_dx.config" } ccga_dx { includeConfig "${params.custom_config_base}/conf/ccga_dx.config" }
ccga_med { includeConfig "${params.custom_config_base}/conf/ccga_med.config" } ccga_med { includeConfig "${params.custom_config_base}/conf/ccga_med.config" }
@ -24,20 +25,21 @@ profiles {
cfc_dev { includeConfig "${params.custom_config_base}/conf/cfc_dev.config" } cfc_dev { includeConfig "${params.custom_config_base}/conf/cfc_dev.config" }
crick { includeConfig "${params.custom_config_base}/conf/crick.config" } crick { includeConfig "${params.custom_config_base}/conf/crick.config" }
czbiohub_aws { includeConfig "${params.custom_config_base}/conf/czbiohub_aws.config" } czbiohub_aws { includeConfig "${params.custom_config_base}/conf/czbiohub_aws.config" }
denbi_qbic { includeConfig "${params.custom_config_base}/conf/denbi_qbic.config" }
ebc { includeConfig "${params.custom_config_base}/conf/ebc.config" } ebc { includeConfig "${params.custom_config_base}/conf/ebc.config" }
eddie { includeConfig "${params.custom_config_base}/conf/eddie.config" } eddie { includeConfig "${params.custom_config_base}/conf/eddie.config" }
eva { includeConfig "${params.custom_config_base}/conf/eva.config" } eva { includeConfig "${params.custom_config_base}/conf/eva.config" }
genotoul { includeConfig "${params.custom_config_base}/conf/genotoul.config" }
genouest { includeConfig "${params.custom_config_base}/conf/genouest.config" }
gis { includeConfig "${params.custom_config_base}/conf/gis.config" }
google { includeConfig "${params.custom_config_base}/conf/google.config" }
hebbe { includeConfig "${params.custom_config_base}/conf/hebbe.config" }
icr_davros { includeConfig "${params.custom_config_base}/conf/icr_davros.config" } icr_davros { includeConfig "${params.custom_config_base}/conf/icr_davros.config" }
ifb_core { includeConfig "${params.custom_config_base}/conf/ifb_core.config" } ifb_core { includeConfig "${params.custom_config_base}/conf/ifb_core.config" }
imperial { includeConfig "${params.custom_config_base}/conf/imperial.config" } imperial { includeConfig "${params.custom_config_base}/conf/imperial.config" }
imperial_mb { includeConfig "${params.custom_config_base}/conf/imperial_mb.config" } imperial_mb { includeConfig "${params.custom_config_base}/conf/imperial_mb.config" }
genotoul { includeConfig "${params.custom_config_base}/conf/genotoul.config" } jax { includeConfig "${params.custom_config_base}/conf/jax.config" }
google { includeConfig "${params.custom_config_base}/conf/google.config" } lugh { includeConfig "${params.custom_config_base}/conf/lugh.config" }
denbi_qbic { includeConfig "${params.custom_config_base}/conf/denbi_qbic.config" }
genouest { includeConfig "${params.custom_config_base}/conf/genouest.config" }
gis { includeConfig "${params.custom_config_base}/conf/gis.config" }
hebbe { includeConfig "${params.custom_config_base}/conf/hebbe.config" }
lugh { includeConfig "${params.custom_config_base}/conf/lugh.config"}
mpcdf { includeConfig "${params.custom_config_base}/conf/mpcdf.config" } mpcdf { includeConfig "${params.custom_config_base}/conf/mpcdf.config" }
munin { includeConfig "${params.custom_config_base}/conf/munin.config" } munin { includeConfig "${params.custom_config_base}/conf/munin.config" }
oist { includeConfig "${params.custom_config_base}/conf/oist.config" } oist { includeConfig "${params.custom_config_base}/conf/oist.config" }
@ -52,7 +54,6 @@ profiles {
utd_ganymede { includeConfig "${params.custom_config_base}/conf/utd_ganymede.config" } utd_ganymede { includeConfig "${params.custom_config_base}/conf/utd_ganymede.config" }
utd_sysbio { includeConfig "${params.custom_config_base}/conf/utd_sysbio.config" } utd_sysbio { includeConfig "${params.custom_config_base}/conf/utd_sysbio.config" }
uzh { includeConfig "${params.custom_config_base}/conf/uzh.config" } uzh { includeConfig "${params.custom_config_base}/conf/uzh.config" }
jax { includeConfig "${params.custom_config_base}/conf/jax.config" }
} }
// If user hostnames contain one of these substring and they are // If user hostnames contain one of these substring and they are
@ -65,11 +66,11 @@ params {
cbe: ['.cbe.vbc.ac.at'], cbe: ['.cbe.vbc.ac.at'],
cfc: ['.hpc.uni-tuebingen.de'], cfc: ['.hpc.uni-tuebingen.de'],
crick: ['.thecrick.org'], crick: ['.thecrick.org'],
genotoul: ['.genologin1.toulouse.inra.fr', '.genologin2.toulouse.inra.fr'],
genouest: ['.genouest.org'],
icr_davros: ['.davros.compute.estate'], icr_davros: ['.davros.compute.estate'],
imperial: ['.hpc.ic.ac.uk'], imperial: ['.hpc.ic.ac.uk'],
imperial_mb: ['.hpc.ic.ac.uk'], imperial_mb: ['.hpc.ic.ac.uk'],
genotoul: ['.genologin1.toulouse.inra.fr', '.genologin2.toulouse.inra.fr'],
genouest: ['.genouest.org'],
uppmax: ['.uppmax.uu.se'], uppmax: ['.uppmax.uu.se'],
utd_ganymede: ['ganymede.utdallas.edu'], utd_ganymede: ['ganymede.utdallas.edu'],
utd_sysbio: ['sysbio.utdallas.edu'] utd_sysbio: ['sysbio.utdallas.edu']