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nextflow.config
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nextflow.config
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plugins {
id '[email protected]'
}
params.oldeventpath = "/lb/robot/research/processing/events/system/202[12]/*/*_samples*.txt"
params.novaseqflagfiles = "/nb/Research/Novaseq/*/SequenceComplete.txt"
profiles {
production {
params {
db = "/nb/Research/processingmgiscratch/processing.db"
email {
onstart = '[email protected]'
}
emailoncrash = true
ingest = false
neweventpath = "/lb/robot/research/processing/events/*.txt"
commit = 'run_processing'
genpipes = false
nomail = false
mgi {
outdir = '/nb/Research/processingmgiscratch/processing'
t7 {
flags = "/nb/Research/MGISeq/T7/*/flag/*.json"
custom_ini = "${projectDir}/assets/production.t7.ini"
demux = true
}
}
}
}
debug {
params {
db = "/nb/Research/processingmgiscratch/debug.db"
email {
onstart = '[email protected]'
onfinish = '[email protected]'
}
emailoncrash = false
ingest = false
neweventpath = "/lb/robot/research/processing/events/*.txt"
commit = 'run_processing'
genpipes = false
nomail = false
mgi {
outdir = '/nb/Research/processingmgiscratch/processing'
t7 {
flags = "/nb/Research/MGISeq/T7/*/flag/*.json"
custom_ini = "${projectDir}/assets/production.t7.ini"
demux = true
}
}
}
}
dev {
params {
db = "processing.dev.db"
email {
onstart = '[email protected]'
onfinish = '[email protected]'
}
emailoncrash = false
ingest = false
neweventpath = "testing/events/*.txt"
commit = 'run_processing'
genpipes = false
nomail = false
mgi {
outdir = '/nb/Research/processingmgiscratch/processing'
t7 {
flags = "testing/flag/*.json"
custom_ini = "${projectDir}/assets/debug.t7.ini"
demux = false
}
}
}
}
}
manifest {
description = 'C3G run processing monitor'
version = '0.0.1'
defaultBranch = 'main'
nextflowVersion = '22.07.1-edge'
}