Bug#962717: q2-quality-control seems so uncover segfaults in bowtie2

2021-01-15 Thread Michael Crusoe
On Fri, 15 Jan 2021 at 11:22, Andreas Tille wrote: > On Fri, Jan 15, 2021 at 11:16:48AM +0100, Michael Crusoe wrote: > > bowtie2 segfaults for me if eatmydata and/or cowbuilder are being used, > so > > try with clearing out LD_PRELOAD first > > Ahhh, this makes perfectly sense and might explain

Bug#962717: q2-quality-control seems so uncover segfaults in bowtie2

2021-01-15 Thread Andreas Tille
On Fri, Jan 15, 2021 at 11:16:48AM +0100, Michael Crusoe wrote: > bowtie2 segfaults for me if eatmydata and/or cowbuilder are being used, so > try with clearing out LD_PRELOAD first Ahhh, this makes perfectly sense and might explain why some autopkgtests are failing here in my cowbuilder setup

Bug#962717: q2-quality-control seems so uncover segfaults in bowtie2

2021-01-15 Thread Michael Crusoe
bowtie2 segfaults for me if eatmydata and/or cowbuilder are being used, so try with clearing out LD_PRELOAD first

Bug#962717: q2-quality-control seems so uncover segfaults in bowtie2

2021-01-14 Thread Nilesh Patra
On Fri, 15 Jan, 2021, 11:30 am Andreas Tille, wrote: > Hi, > > On Fri, Jan 15, 2021 at 10:16:45AM +0530, Nilesh Patra wrote: > > > > I don't know about the segfaults, but I don't see q2-taxa in NEW? You > > probably uploaded it more than 8 hours ago from the time I'm typing this > > mail, it

Bug#962717: q2-quality-control seems so uncover segfaults in bowtie2

2021-01-14 Thread Andreas Tille
Hi, On Fri, Jan 15, 2021 at 10:16:45AM +0530, Nilesh Patra wrote: > > I don't know about the segfaults, but I don't see q2-taxa in NEW? You > probably uploaded it more than 8 hours ago from the time I'm typing this > mail, it usually appears in the queue. Argh, its good we talked about it.

Bug#962717: q2-quality-control seems so uncover segfaults in bowtie2

2021-01-14 Thread Nilesh Patra
On Fri, 15 Jan, 2021, 2:12 am Andreas Tille, wrote: > Hi, > > since q2-taxa is in new I intended to upload q2-quality-control as well. > I don't know about the segfaults, but I don't see q2-taxa in NEW? You probably uploaded it more than 8 hours ago from the time I'm typing this mail, it

Bug#962717: q2-quality-control seems so uncover segfaults in bowtie2

2021-01-14 Thread Andreas Tille
Hi, since q2-taxa is in new I intended to upload q2-quality-control as well. I upgraded to latest upstream and added some missing (Build-)Depends. Unfortunately the autopkgtest contains some "Segmentation fault" errors which is pretty suspicious. Here is an example: