Commit 106a9029 authored by bow's avatar bow
Browse files

Update settings keys

parent 9e3a495e
......@@ -20,7 +20,7 @@ rule align_flt3:
input:
fq1=RUN.output("{sample}/{sample}-R1.fq.gz"),
fq2=RUN.output("{sample}/{sample}-R2.fq.gz"),
index=RUN.settings["flt3_ref"]
index=RUN.settings["flt3_bwa_index"]
output:
bam=RUN.output("{sample}/itd-flt3/{sample}.flt3.bam"),
bai=RUN.output("{sample}/itd-flt3/{sample}.flt3.bai"),
......@@ -37,7 +37,7 @@ rule extract_sc_flt3:
input:
bam=RUN.output("{sample}/itd-flt3/{sample}.flt3.bam"),
bai=RUN.output("{sample}/itd-flt3/{sample}.flt3.bai"),
ref=RUN.settings["flt3_ref"],
ref=RUN.settings["flt3_fasta"],
scr=RUN.settings["extract_sc_flt3"],
output:
json=RUN.output("{sample}/itd-flt3/{sample}.flt3-sc.json"),
......
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