Mercurial > repos > galaxytrakr > hfp_centriflaken_awsbatch

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

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planemo upload
author galaxytrakr
date Fri, 29 May 2026 13:27:47 +0000
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-1:000000000000 0:082e0091e813
1 def fs = File.separator
2 def pd = "${projectDir}"
3
4 // Global parameters
5 includeConfig "${pd}${fs}conf${fs}manifest.config"
6 includeConfig "${pd}${fs}conf${fs}base.config"
7
8 // Include FASTQ config to prepare for a case when the entry point is
9 // FASTQ metadata CSV or FASTQ input directory
10 includeConfig "${pd}${fs}conf${fs}fastq.config"
11
12 if (params.pipeline != null) {
13 try {
14 includeConfig "${params.workflowsconf}${fs}${params.pipeline}.config"
15 } catch (Exception e) {
16 System.err.println('-'.multiply(params.linewidth) + "\n" +
17 "\033[0;31m${params.cfsanpipename} - ERROR\033[0m\n" +
18 '-'.multiply(params.linewidth) + "\n" + "\033[0;31mCould not load " +
19 "default pipeline configuration. Please provide a pipeline \n" +
20 "name using the --pipeline option.\n\033[0m" + '-'.multiply(params.linewidth) + "\n")
21 System.exit(1)
22 }
23 }
24
25 // Include modules' config last.
26 includeConfig "${pd}${fs}conf${fs}logtheseparams.config"
27 includeConfig "${pd}${fs}conf${fs}modules.config"
28
29 // Nextflow runtime profiles
30 conda.cacheDir = "${pd}${fs}kondagac_cache"
31 singularity.cacheDir = "${pd}${fs}cingularitygac_cache"
32
33 // Cleanup after running
34 cleanup = true
35
36 profiles {
37 includeConfig "${pd}${fs}conf${fs}computeinfra.config"
38 }