From a7d2eb49a2fa9e8cfc06d99585d65adeb7461708 Mon Sep 17 00:00:00 2001 From: darrelln32 Date: Sun, 21 Apr 2024 15:43:38 -0400 Subject: [PATCH] Update LaunchMetrics.py switch to dragen servers ID02 and ID03 so stats won't fail because of license expired on ID01 --- scripts/LaunchMetrics.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/scripts/LaunchMetrics.py b/scripts/LaunchMetrics.py index 4007eda..9fd76f2 100644 --- a/scripts/LaunchMetrics.py +++ b/scripts/LaunchMetrics.py @@ -146,7 +146,7 @@ def dragen_rna_alignment_and_metrics(sample, run, sample_parameters, rna_directo launch_dragen_rna = "/opt/edico/bin/dragen -f -r {} --fastq-list {} --fastq-list-sample-id {} -a {} --intermediate-results-dir /staging/temp --enable-map-align true --enable-sort true --enable-bam-indexing true --enable-map-align-output true --output-format BAM --enable-rna true --enable-duplicate-marking true --enable-rna-quantification true --output-file-prefix {} --output-directory {} --bin_memory 50000000000".format(rna_path, fastq_list, sample.sample_id, sample_parameters["GTF"], sample.sample_id, rna_directory) - bsub_launch_dragen_rna = "bsub -J {0}{1} -o {0}{1}.out -cwd \"{2}\" -m \"id01\" -q dragen -n 48 -M 4 {3}".format(rna_dragen_job_name_header, sample.sample_id, rna_directory, launch_dragen_rna) + bsub_launch_dragen_rna = "bsub -J {0}{1} -o {0}{1}.out -cwd \"{2}\" -m \"id02 id03\" -q dragen -n 48 -M 4 {3}".format(rna_dragen_job_name_header, sample.sample_id, rna_directory, launch_dragen_rna) print(bsub_launch_dragen_rna) call(bsub_launch_dragen_rna, shell = True)