Explicitly loading perl to aviod: 'Perl module GD::Graph::bars not in…

…stalled, skipping charts' error
CCBR · Nov 20, 2019 · 2ab3f83 · 2ab3f83
1 parent 223f717
commit 2ab3f83
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/Rules/fastq_screen.rl b/Rules/fastq_screen.rl
@@ -8,4 +8,4 @@ rule fastq_screen:
             outdir = "QC",
             config=config['references'][pfamily]['FASTQ_SCREEN_CONFIG'],rname="pl:fastq_screen"
     threads: 24
-    shell:  "module load bowtie; {params.fastq_screen} --conf {params.config} --outdir {params.outdir} --subset 1000000 --aligner bowtie2 --force {input}"
+    shell:  "module load bowtie; module load perl/5.24.3; {params.fastq_screen} --conf {params.config} --outdir {params.outdir} --subset 1000000 --aligner bowtie2 --force {input}"