Commit d164e88d authored by Beatrice Tan's avatar Beatrice Tan
Browse files

Update GISTIC2.smk

parent 24140414
...@@ -13,7 +13,7 @@ rule install_gistic: ...@@ -13,7 +13,7 @@ rule install_gistic:
rule run_gistic: rule run_gistic:
"""Run GISTIC2 for the tumor segmentation data.""" """Run GISTIC2 for the tumor segmentation data."""
input: input:
os.path.join(config["gisticdir"], "gistic2"), gistic_dir=os.path.join(config["gisticdir"], "gistic2"),
seg="Input/Segments_tumor.txt" seg="Input/Segments_tumor.txt"
output: output:
"GISTIC/all_lesions.conf_" + config["gistic_precision"] + ".txt", "GISTIC/all_lesions.conf_" + config["gistic_precision"] + ".txt",
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