-
Notifications
You must be signed in to change notification settings - Fork 1
/
nextflow.config
73 lines (60 loc) · 1.6 KB
/
nextflow.config
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
params {
lsf_opts = ""
runtime_opts = ""
singularity_cache_dir = "$HOME/.singularity_cache"
dask_work_dir = "$PWD/work/dask"
}
manifest {
defaultBranch = "main"
name = 'nextflow-dask'
author = 'Cristian Goina'
homePage = 'https://github.com/JaneliaSciComp/nextflow-dask'
description = 'Workflow for starting a dask cluster'
mainScript = 'main.nf'
nextflowVersion = '>=20.10.0'
version = '0.1.0'
}
profiles {
standard {
docker {
enabled = false
}
singularity {
enabled = true
}
}
lsf {
params {
scheduler_mem_gb_per_core = 15
worker_mem_gb_per_core = 15
worker_threads = 2
worker_queue = ''
worker_lsf_opts = ''
}
process {
executor = 'lsf'
clusterOptions = params.lsf_opts
withLabel: 'workerClusterOptions' {
queue = params.worker_queue ? params.worker_queue : ''
clusterOptions = "${params.lsf_opts} ${params.worker_lsf_opts}"
}
}
docker {
enabled = false
}
singularity {
enabled = true
}
}
}
docker {
temp = 'auto'
// newer versions no longer bind current path so I am binding it explicitly
runOptions = "-v $PWD:$PWD ${params.runtime_opts}"
}
singularity {
autoMounts = true
cacheDir = "${params.singularity_cache_dir}"
// newer versions no longer bind current path so I am binding it explicitly
runOptions = "-B $PWD ${params.runtime_opts}"
}