Mercurial > repos > galaxytrakr > hfp_centriflaken_awsbatch

comparison 0.4.2/conf/base.config @ 0:082e0091e813 draft default tip

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author galaxytrakr
date Fri, 29 May 2026 13:27:47 +0000
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-1:000000000000 0:082e0091e813
1 params {
2 fs = File.separator
3 cfsanpipename = 'CPIPES'
4 center = 'CFSAN, FDA.'
5 libs = "${projectDir}${params.fs}lib"
6 modules = "${projectDir}${params.fs}modules"
7 projectconf = "${projectDir}${params.fs}conf"
8 assetsdir = "${projectDir}${params.fs}assets"
9 subworkflows = "${projectDir}${params.fs}subworkflows"
10 workflows = "${projectDir}${params.fs}workflows"
11 workflowsconf = "${workflows}${params.fs}conf"
12 routines = "${libs}${params.fs}routines"
13 toolshelp = "${libs}${params.fs}help"
14 swmodulepath = "${params.fs}nfs${params.fs}software${params.fs}modules"
15 tracereportsdir = "${launchDir}${params.fs}${cfsanpipename}-${params.pipeline}${params.fs}nextflow-reports"
16 dummyfile = "${projectDir}${params.fs}assets${params.fs}dummy_file.txt"
17 dummyfile2 = "${projectDir}${params.fs}assets${params.fs}dummy_file2.txt"
18 linewidth = 80
19 pad = 32
20 pipeline = null
21 help = null
22 input = null
23 output = null
24 metadata = null
25 publish_dir_mode = "copy"
26 publish_dir_overwrite = true
27 user_email = null
28 }
29
30 dag {
31 enabled = true
32 file = "${params.tracereportsdir}${params.fs}${params.pipeline}_dag.html"
33 overwrite = true
34 }
35
36 report {
37 enabled = true
38 file = "${params.tracereportsdir}${params.fs}${params.pipeline}_exec_report.html"
39 overwrite = true
40 }
41
42 trace {
43 enabled = true
44 file = "${params.tracereportsdir}${params.fs}${params.pipeline}_exec_trace.txt"
45 overwrite = true
46 }
47
48 timeline {
49 enabled = true
50 file = "${params.tracereportsdir}${params.fs}${params.pipeline}_exec_timeline.html"
51 overwrite = true
52 }