231229599259249d0b0a00be9dd95b64d9d9a48c
max
  Tue Dec 15 01:58:10 2020 -0800
adding VCF test case to chromToUcsc, no new feature or code change, so no redmine

diff --git src/utils/chromToUcsc/tests/makefile src/utils/chromToUcsc/tests/makefile
index 6d6c431..459127a 100644
--- src/utils/chromToUcsc/tests/makefile
+++ src/utils/chromToUcsc/tests/makefile
@@ -1,20 +1,21 @@
 kentSrc = ../../..
 include ../../../inc/common.mk
 
 
 all:
 	mkdir -p out
 	# alas, our automated tests cannot output anything to stderr, as otherwise emails will be sent
 	python2 ${DESTBINDIR}/chromToUcsc -i in/hg19.bed -o out/hg19.bed -a hg19.chromAlias.tsv 2> /dev/null
 	python2 ${DESTBINDIR}/chromToUcsc  -i in/mm10.bed -o out/mm10.bed -a mm10.chromAlias.tsv 2> /dev/null
 	diff out/hg19.bed expected/hg19.bed
 	diff out/mm10.bed expected/mm10.bed
 	python3 ${DESTBINDIR}/chromToUcsc  -i in/hg19.bed -o out/hg19.bed -a hg19.chromAlias.tsv 2> /dev/null
 	python3 ${DESTBINDIR}/chromToUcsc  -i in/mm10.bed -o out/mm10.bed -a mm10.chromAlias.tsv 2> /dev/null
 	diff out/hg19.bed expected/hg19.bed
 	diff out/mm10.bed expected/mm10.bed
 	python3 ${DESTBINDIR}/chromToUcsc  -i in/hg19.bed -o out/hg19.bed -a https://hgdownload.soe.ucsc.edu/goldenPath/hg19/database/chromAlias.txt.gz 2> /dev/null
 	diff out/hg19.bed expected/hg19.bed
+	python2 ${DESTBINDIR}/chromToUcsc -i in/hg19.vcf -o out/hg19.vcf -a hg19.chromAlias.tsv 2> /dev/null
 
 clean:
 	rm -f out/*