Commit 4a6e4222 authored by Gervaise Henry's avatar Gervaise Henry 🤠
Browse files

Fix local process ulimit set

parent d770f29d
Pipeline #7402 passed with stages
in 5 minutes and 13 seconds
# v2.1.4
# v2.1.5
**UserFacing**
* Check Design File for spaces in name and file contents
* Update design example, README, and astrocyte.yml with current barcode IDs
......
......@@ -32,7 +32,7 @@ bclCount = Channel
.count()
// Define regular variables
pipelineVersion = "2.1.4"
pipelineVersion = "2.1.5"
name = params.name
designLocation = Channel
.fromPath(params.designFile)
......@@ -105,7 +105,6 @@ process checkDesignFile {
script:
"""
hostname
ulimit -u 16384
ulimit -a
noSpaceDesign=\$(echo "${designLocation}" | tr -d ' ')
if [[ "\${noSpaceDesign}" != "${designLocation}" ]]; then
......@@ -203,7 +202,6 @@ if (bclCount.value == 1) {
script:
"""
hostname
ulimit -u 16384
ulimit -a
bash countDesign.sh
"""
......@@ -264,7 +262,6 @@ process versions {
script:
"""
hostname
ulimit -u 16384
ulimit -a
python3 generate_versions.py -f version_*.txt -o versions
python3 generate_references.py -r ${references} -o references
......@@ -291,7 +288,6 @@ process multiqc {
script:
"""
hostname
ulimit -u 16384
ulimit -a
#export LC_ALL=C.UTF-8
#export LANG=C.UTF-8
......
......@@ -47,6 +47,6 @@ manifest {
homePage = 'https://git.biohpc.swmed.edu/BICF/Astrocyte/cellranger_mkfastq'
description = 'This pipeline is a wrapper for the cellranger mkfastq tool from 10x Genomics (which uses Illuminas bcl2fastq). It takes bcls and demultiplexes samples from 10x Genomics Single Cell Gene Expression libraries into fastqs.'
mainScript = 'main.nf'
version = '2.1.4'
version = '2.1.5'
nextflowVersion = '>=0.31.0'
}
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