Merge pull request #143 from ggabernet/master

add cfc_dev profile

.github/workflows/main.yml

@@ -16,7 +16,7 @@ jobs:
     needs: test_all_profiles
     strategy:
         matrix:
-          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']
+          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']
     steps:
       - uses: actions/checkout@v1
       - name: Install Nextflow

conf/cfc.config

@@ -1,7 +1,7 @@
 //Profile config names for nf-core/configs
 params {
   config_profile_description = 'QBiC Core Facility cluster profile provided by nf-core/configs.'
-  config_profile_contact = 'Alexander Peltzer (@apeltzer)'
+  config_profile_contact = 'Gisela Gabernet (@ggabernet)'
   config_profile_url = 'http://qbic.uni-tuebingen.de/'
 }
 

conf/cfc_dev.config

@@ -0,0 +1,28 @@
+//Profile config names for nf-core/configs
+params {
+  config_profile_description = 'QBiC Core Facility cluster dev profile without container cache provided by nf-core/configs.'
+  config_profile_contact = 'Gisela Gabernet (@ggabernet)'
+  config_profile_url = 'http://qbic.uni-tuebingen.de/'
+}
+
+singularity {
+  enabled = true
+}
+
+process {
+  beforeScript = 'module load devel/singularity/3.4.2'
+  executor = 'slurm'
+  queue = { task.memory > 60.GB || task.cpus > 20 ? 'qbic' : 'compute' }
+}
+
+weblog{
+  enabled = true
+  url = 'https://services.qbic.uni-tuebingen.de/flowstore/workflows'
+}
+
+params {
+  igenomes_base = '/nfsmounts/igenomes'
+  max_memory = 1999.GB
+  max_cpus = 128
+  max_time = 140.h
+}

nfcore_custom.config

@@ -17,6 +17,7 @@ profiles {
   ccga_dx      { includeConfig "${params.custom_config_base}/conf/ccga_dx.config" }
   ccga_med     { includeConfig "${params.custom_config_base}/conf/ccga_med.config" }
   cfc          { includeConfig "${params.custom_config_base}/conf/cfc.config" }
+  cfc_dev      { includeConfig "${params.custom_config_base}/conf/cfc_dev.config" }
   crick        { includeConfig "${params.custom_config_base}/conf/crick.config" }
   czbiohub_aws { includeConfig "${params.custom_config_base}/conf/czbiohub_aws.config" }
   czbiohub_aws_highpriority {
@@ -47,7 +48,9 @@ profiles {
 params {
   // This is a groovy map, not a nextflow parameter set
   hostnames = [
+    binac: ['.binac.uni-tuebingen.de'],
     cbe: ['.cbe.vbc.ac.at'],
+    cfc: ['.hpc.uni-tuebingen.de'],
     crick: ['.thecrick.org'],
     genotoul: ['.genologin1.toulouse.inra.fr', '.genologin2.toulouse.inra.fr'],
     genouest: ['.genouest.org'],