bd2d35635bdfcfa6ddea367370bcab60b490291d
chmalee
  Tue Jun 2 17:27:24 2020 -0700
Make hgvsToVcf write error messages to stderr so comment lines don't mess up the VCF header

diff --git src/hg/utils/hgvsToVcf/tests/makefile src/hg/utils/hgvsToVcf/tests/makefile
index 513d374..c02bcc2 100644
--- src/hg/utils/hgvsToVcf/tests/makefile
+++ src/hg/utils/hgvsToVcf/tests/makefile
@@ -1,24 +1,26 @@
 kentSrc = ../../../..
 include ${kentSrc}/inc/common.mk
 
 hgvsToVcf = ${DESTBINDIR}/hgvsToVcf
 
 all:
 
 test: clinVarChanges testShifting
 	${MAKE} clean
 
 clinVarChanges: mkdirs
-	${hgvsToVcf} hg38 input/$@.txt output/$@.vcf
+	${hgvsToVcf} hg38 input/$@.txt output/$@.vcf 2>output/$@.err
 	diff -u expected/$@.vcf output/$@.vcf
+	diff -u expected/$@.err output/$@.err
 
 testShifting: mkdirs
-	${hgvsToVcf} hg38 input/$@.txt output/$@.vcf
+	${hgvsToVcf} hg38 input/$@.txt output/$@.vcf 2>output/$@.err
 	diff -u expected/$@.vcf output/$@.vcf
+	diff -u expected/$@.err output/$@.err
 
 clean::
 	rm -rf output
 
 mkdirs:
 	@${MKDIR} output