Bug#956136: Some investigations about bug (956136) nanopolish: FTBFS (undefined references)

Control: tags -1 pending Control: reassign -1 minimap2 Control: retitle -1 "-flto flag breaks nanopolish" Hamid, thanks a lot for your investigation. Kind regards, Andreas. -- http://fam-tille.de

Processed: Re: Bug#956136: Some investigations about bug (956136) nanopolish: FTBFS (undefined references)

Processing control commands: > tags -1 pending Bug #956136 [src:nanopolish] nanopolish: FTBFS (undefined references) Added tag(s) pending. > reassign -1 minimap2 Bug #956136 [src:nanopolish] nanopolish: FTBFS (undefined references) Bug reassigned from package 'src:nanopolish' to 'minimap2'. No

Bug#956136: Some investigations about bug (956136) nanopolish: FTBFS (undefined references)

Hi all, I could find the cause. It is the `-flto` in the compile and link flags of the libminimap2-dev package. LTO is introduced recently in the following commit on the [1]: 53883a7ff8c066c14c0ea4e42299ae9958feda6a Removing `-flto` from CFLAGS and LDFLAGS, then building libminimap2-dev with

Bug#956136: Some investigations about bug (956136) nanopolish: FTBFS (undefined references)

Control: tags -1 help Hi all, The undefined reference to those functions, means that there is a problem in linking with libminimap2 which implements them. Those functions are implemented in map.c of that library. I am able to reproduce the bug with pbuilder (sid) on the buster. I made some