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Merge pull request #1483 from BRCAChallenge/cleanup_spliceai
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Fixing one command line
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melissacline authored Dec 20, 2023
2 parents d892833 + 7d61a20 commit 96f41d4
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion pipeline/workflow/bayesdel_processing.py
Original file line number Diff line number Diff line change
Expand Up @@ -45,7 +45,7 @@ def run(self):
previous_vcf_path = pipeline_utils.extract_file(
self.cfg.previous_release_tar, tmp_dir,
'output/release/artifacts/variants_with_splice_ai.vcf')
args = ["python", "spliceai/add_splcieai_scores_for_new_variants.py",
args = ["python", "add_splcieai_scores_for_new_variants.py",
"-a", self.input().path, "-b", "1000", "-d", "4999",
"-f", brca_resources_dir + "/hg38.fa", "-f", "grch38",
"-o", self.output().path, "-s", previous_vcf_path,
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