Save disk space: make bam files temporary

Snakefile

@@ -404,7 +404,7 @@ rule map_paired_trimmed_reads:
         amb=REFERENCE_DIR + "{ref}.fasta.amb",
         sa=REFERENCE_DIR + "{ref}.fasta.sa",
     output:
-        bam="data/tmp/Mapped_{sample}_to_{ref}-paired.bam",
+        bam=temp("data/tmp/Mapped_{sample}_to_{ref}-paired.bam"),
     conda:
         "envs/bwa-samtools.yaml"
     threads: