Commit 76aa491a authored by bow's avatar bow
Browse files

Update flt3 csv rule

parent fa320a0d
......@@ -70,7 +70,7 @@ rule plot_sc_linear_flt3:
rule flt3_json_to_csv:
input:
counts=RUN.output("{sample}/itd-flt3/{sample}.flt3-sc.json"),
json=RUN.output("{sample}/itd-flt3/{sample}.flt3-sc.json"),
scr=RUN.settings["json2csv"],
output:
csv=RUN.output("{sample}/itd-flt3/{sample}.flt3-sc.roi.csv"),
......@@ -79,4 +79,4 @@ rule flt3_json_to_csv:
end=RUN.settings["flt3_end"],
conda: srcdir("envs/flt3_csv.yml")
shell:
"python {input.scr} {wildcards.sample} --start {params.start} --end {params.end} > {output.csv}"
"python {input.scr} {input.json} {wildcards.sample} --start {params.start} --end {params.end} > {output.csv}"
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