danielecook · February 7, 2020 17:56
diff --git a/gistmakefile.makefile b/gistmakefile.makefile
 	 $(patsubst %.vcf,%.vcf.gz,$(wildcard */*.vcf)) \
 	 $(patsubst %.vcf.gz,%.vcf.gz.csi,$(wildcard */*.vcf.gz))
 # Gzip VCFs and index if not present
 %.vcf.gz: %.vcf
 	# gzipping $<
 	bcftools view --output-type z $< > $@

 %.vcf.gz.csi: %.vcf.gz
 	bcftools index $<
	$(patsubst %.vcf,%.vcf.gz,$(wildcard /.vcf)) \
	$(patsubst %.vcf.gz,%.vcf.gz.csi,$(wildcard /.vcf.gz))
	# Gzip VCFs and index if not present
	%.vcf.gz: %.vcf
	# gzipping $<
	bcftools view --output-type z $< > $@

	%.vcf.gz.csi: %.vcf.gz
	bcftools index $<