Hello, I've worked a bit on bowtie in git [0] and think that it is ready for upload. It also presumably closes #864439. One of the issues I run during package building is that bowtie unit tests fail on example6 and exmaple9. Could somebody who uses bowtie please comment on this ? Not sure if this is something I should report upstream.
bowtie -a --best --strata -v 2 --suppress 1,5,6,7 e_coli -c ATGCATCATGCGCCAT > example6.out bowtie 1.1.2-6 cat example6.out - gi|110640213|ref|NC_008253.1| 2852852 8:T>A bowtie 1.2.1.1+dfsg-1 cat example6.out - gi|110640213|ref|NC_008253.1| 2852852 8:T>A - gi|110640213|ref|NC_008253.1| 148810 10:A>G,13:C>G + gi|110640213|ref|NC_008253.1| 1093035 2:T>G,15:A>T - gi|110640213|ref|NC_008253.1| 905664 6:A>G,7:G>T - gi|110640213|ref|NC_008253.1| 4930433 4:G>T,6:C>G bowtie -a -m 3 --best --strata -v 2 e_coli --suppress 1,5,6,7 -c ATGCATCATGCGCCAT > example9.out bowtie 1.1.2-6 cat example9.out - gi|110640213|ref|NC_008253.1| 2852852 8:T>A bowtie 1.2.1.1+dfsg-1 produces empty example9.out Thank you, Alex [0] https://anonscm.debian.org/git/debian-med/bowtie.git