[Debian-med-packaging] Bug#938565: Autopkgtest failing - any takers for Segmentation fault in bowtie (Was: Bug#938565: sspace: Python2 removal in sid/bullseye)

[Andreas Tille]

Hi,

I think I was successful in porting sspace to Python3.  However, I'll
stall an upload since I observed a Segmentation fault in bowtie.  To
find out the problem I added some debug patch and some debugging code
to the test suite of sspace.  The output of this is:


autopkgtest [15:40:05]: test example-tests: [-----------------------
+ which python
/usr/bin/python
+ python
+ which bowtie-build
/usr/bin/bowtie-build
+ bowtie-build --help
Segmentation fault
autopkgtest [15:40:06]: test example-tests: -----------------------]
autopkgtest [15:40:06]: test example-tests:  - - - - - - - - - - results - - - - - - - - - -
example-tests        FAIL non-zero exit status 139
autopkgtest [15:40:06]: @@@@@@@@@@@@@@@@@@@@ summary
example-tests        FAIL non-zero exit status 139
autopkgtest [15:40:06]: Binaries: resetting testbed apt configuration


I'm worried about


$ bowtie-build --help
Segmentation fault    


which does NOT happen on a local machine where the test suite
runs successfully.  Anybody volunteering to check that issue?

Kind regards

       Andreas.

-- 
http://fam-tille.de