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Update LaunchMetrics.py
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switch to dragen servers ID02 and ID03 so stats won't fail because of license expired on ID01
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darrelln32 committed Apr 21, 2024
1 parent 3853097 commit a7d2eb4
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion scripts/LaunchMetrics.py
Original file line number Diff line number Diff line change
Expand Up @@ -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)

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