On 19/07/2017 23:12, Adrian Bunk wrote:
test_vcf_query:
/<<PKGBUILDDIR>>/bcftools view -Ob /tmp/f0hqBlggDJ/view.filter.vcf.gz |
/<<PKGBUILDDIR>>/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4'
*** Error in `/<<PKGBUILDDIR>>/bcftools': free(): invalid next size (fast):
0x80abd7a0 ***
/bin/bash: line 1: 11930 Done /<<PKGBUILDDIR>>/bcftools view
-Ob /tmp/f0hqBlggDJ/view.filter.vcf.gz
11931 Aborted | /<<PKGBUILDDIR>>/bcftools query -f'%POS
%CIGAR\n' -i'strlen(CIGAR[*])=4'
Non-zero status 134
.. failed ...
...
The crash in test_vcf_query is already fixed upstream in the following
commit:
https://github.com/samtools/bcftools/commit/8bfb9d5a94aaab4617bc38cfefa8332729dbd837#diff-f200ee7e516d3b752a03f395b72c8cd5
The two test_vcf_norm failures are caused by the following differing
output on 32-bit architectures:
--- test/norm.out
+++ test/norm.out.new
@@ -55,4 +55,5 @@
3 17 . CA C 999 PASS INDEL;AN=0
GT:DP ./.:0 ./.:0
4 25 . T TT,* 999 PASS INDEL;AN=0
GT:DP ./.:0 ./.:0
4 36 . TC C,TT,TTC 999 PASS
INDEL;AN=0 GT:DP ./.:0 ./.:0
+4 37 . C I 999 PASS INDEL;AN=0
GT:DP ./.:0 ./.:0
5 21 . A AAG 999 PASS INDEL;AN=0
GT:DP ./.:0 ./.:0
