mirror of
https://github.com/MillironX/taxprofiler.git
synced 2024-11-22 09:19:54 +00:00
Apply suggestions from code review
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
This commit is contained in:
parent
be93eae640
commit
f5baf910be
2 changed files with 0 additions and 8 deletions
|
@ -159,7 +159,6 @@ if (!params.igenomes_ignore) {
|
||||||
|
|
||||||
env {
|
env {
|
||||||
PYTHONNOUSERSITE = '1'
|
PYTHONNOUSERSITE = '1'
|
||||||
// PYTHONUTF8 = '1' // MetaPhlAn3 may fail with a UnicodeDecodeError if the locale is not set appropriately.
|
|
||||||
R_PROFILE_USER = "/.Rprofile"
|
R_PROFILE_USER = "/.Rprofile"
|
||||||
R_ENVIRON_USER = "/.Renviron"
|
R_ENVIRON_USER = "/.Renviron"
|
||||||
JULIA_DEPOT_PATH = "/usr/local/share/julia"
|
JULIA_DEPOT_PATH = "/usr/local/share/julia"
|
||||||
|
|
|
@ -127,10 +127,3 @@ workflow SHORTREAD_ADAPTERREMOVAL {
|
||||||
mqc = ch_multiqc_files
|
mqc = ch_multiqc_files
|
||||||
}
|
}
|
||||||
|
|
||||||
def ensureFastQExtension(row) {
|
|
||||||
def (meta, read) = row
|
|
||||||
def filename = file(read.parent).resolve("${read.baseName}.fastq.gz")
|
|
||||||
|
|
||||||
read.renameTo(filename.toString())
|
|
||||||
return [meta, read]
|
|
||||||
}
|
|
||||||
|
|
Loading…
Reference in a new issue