On Tue, Dec 04, 2018 at 07:54:25AM +0100, Andreas Tille wrote: > > === testing ./data/c1#bounds.sam === > > ./scram.test: 27: [: ./data/c1#bounds.sam: unexpected operator > > ../progs/scramble -t4 ./data/c1#bounds.sam test.out/c1#bounds.sam > > ../progs/scramble -t4 -r ./data/c1.fa ./data/c1#bounds.sam > > test.out/c1#bounds.full.cram > > ../progs/scramble -t4 ./data/c1#bounds.sam > test.out/tmp.sam > > ../progs/scramble -t4 test.out/c1#bounds.full.cram > > > test.out/c1#bounds.full.sam > > Bus error > > FAIL scram_mt.test (exit status: 1)
Bug identified and fixed in upstream commit 37b33d3. Thanks for the bug report. It turned out to not be a multi-threading issue per-se, but rather my use of a pooled memory allocator when working in a threaded environment. I forgot to ensure all my pooled structures were word aligned. James -- James Bonfield (j...@sanger.ac.uk) The Sanger Institute, Hinxton, Cambs, CB10 1SA -- The Wellcome Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a company registered in England with number 2742969, whose registered office is 215 Euston Road, London, NW1 2BE.
