+ex1a.bam:ex1.bam
+ ../samtools view -h ex1.bam | awk 'BEGIN{FS=OFS="\t"}{if(/^@/)print;else{$$1=$$1"a";print}}' | ../samtools view -bS - > $@
+ex1b.bam:ex1.bam
+ ../samtools view -h ex1.bam | awk 'BEGIN{FS=OFS="\t"}{if(/^@/)print;else{$$1=$$1"b";print}}' | ../samtools view -bS - > $@
+ex1f.rg:
+ (echo "@RG ID:ex1 LB:ex1 SM:ex1"; echo "@RG ID:ex1a LB:ex1 SM:ex1"; echo "@RG ID:ex1b LB:ex1b SM:ex1b") > $@
+ex1f.bam:ex1.bam ex1a.bam ex1b.bam ex1f.rg
+ ../samtools merge -rh ex1f.rg $@ ex1.bam ex1a.bam ex1b.bam
+ex1f-rmduppe.bam:ex1f.bam
+ ../samtools rmdup ex1f.bam $@
+ex1f-rmdupse.bam:ex1f.bam
+ ../samtools rmdup -S ex1f.bam $@
+
+ex1.bcf:ex1.bam ex1.fa.fai
+ ../samtools mpileup -gf ex1.fa ex1.bam > $@
+
+../bcftools/bcftools:
+ (cd ../bcftools; make bcftools)