Update cosigt.smk for the last docker

raveancic · Mar 4, 2024 · 71d713d · 71d713d
1 parent d79c3b3
commit 71d713d
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/cosigt_smk/workflow/rules/cosigt.smk b/cosigt_smk/workflow/rules/cosigt.smk
@@ -23,7 +23,7 @@ rule cosigt_genotype:
 		prefix="results/cosigt_results/{sample}"
 	shell:
 		'''
-		cosigt {input.zpath} {input.xpack} resources/extra/bad_samples.txt {params.prefix}
+		cosigt -p {input.zpath} -g {input.xpack} -b resources/extra/bad_samples.txt -o {params.prefix}
 		'''
 
 rule evaluate_cosigt:
@@ -95,4 +95,4 @@ rule plot_evaluation_dendro_jaccard:
 	shell:
 		'''
 		python workflow/scripts/tpr.py results/cosigt_results {input.proxi} {output}
-		'''
+		'''