fixed missing quotation marks

dunnart/Snakefile

@@ -56,6 +56,10 @@ rule all:
         expand("results/bowtie2/{sample}_PPq30.sorted.dupmark.bam", sample=all_samples),
         expand("results/bowtie2/{sample}_PPq30.sorted.dedup.bam", sample=all_samples),
         expand("results/bowtie2/{sample}_PPq30.sorted.dedup.bai", sample=all_samples),
+        "results/bowtie2/H3K4me3_pooled_PPq30.sorted.dedup.bam",
+        "results/bowtie2/H3K27ac_pooled_PPq30.sorted.dedup.bam",
+        "logs/H3K4me3.mergeBAM",
+        "logs/H3K27ac.mergeBAM",
         expand("results/qc/{sample}.unfiltered.flagstat.qc", sample=all_samples),
         expand("results/qc/{sample}.dedup.flagstat.qc", sample=all_samples),
         expand("results/qc/{sample}.dupmark.flagstat.qc", sample=all_samples),
@@ -191,8 +195,8 @@ rule indexBam:
 
 rule mergeBAMreplicates:
     input:
-        H3K4me3 = ["results/bowtie2/A-2_H3K4me3_PPq30.sorted.dedup.bam,  results/bowtie2/B-2_H3K4me3_PPq30.sorted.dedup.bam"],
-        H3K27ac = ["results/bowtie2/A-3_H3K27ac_PPq30.sorted.dedup.bam, results/bowtie2/B-3_H3K27ac_PPq30.sorted.dedup.bam"]
+        H3K4me3 = ["results/bowtie2/A-2_H3K4me3_PPq30.sorted.dedup.bam",  "results/bowtie2/B-2_H3K4me3_PPq30.sorted.dedup.bam"],
+        H3K27ac = ["results/bowtie2/A-3_H3K27ac_PPq30.sorted.dedup.bam", "results/bowtie2/B-3_H3K27ac_PPq30.sorted.dedup.bam"]
     output:
         H3K4me3 = "results/bowtie2/H3K4me3_pooled_PPq30.sorted.dedup.bam",
         H3K27ac = "results/bowtie2/H3K27ac_pooled_PPq30.sorted.dedup.bam"