Bug#1004455: python3-mappy: undefined symbol ksw_extz2_sse on several architectures

[Nilesh Patra]

Hi Michael,

On Fri, 28 Jan 2022 01:17:08 +0200 Adrian Bunk  wrote:
> This is due to:
> 
> (sid_armhf-dchroot)bunk@amdahl:~$ python3
> Python 3.9.10 (main, Jan 16 2022, 17:12:18)
> [GCC 11.2.0] on linux
> Type "help", "copyright", "credits" or "license" for more information.
> >>> import mappy
> Traceback (most recent call last):
>   File "", line 1, in 
> ImportError: 
> /usr/lib/python3/dist-packages/mappy.cpython-39-arm-linux-gnueabihf.so: 
> undefined symbol: ksw_extz2_sse
> >>>

I know you are occupied and I apologize to bother you.
But could you please help fix this (simde related problem with minimap2?
Unfortunately this has caused a many testing removals and we would want to have 
them back again.

Regards,
Nilesh


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Bug#1004455: python3-mappy: undefined symbol ksw_extz2_sse on several architectures

[Adrian Bunk]

Package: python3-mappy
Version: 2.22+dfsg-3
Severity: serious
Control: block 1001716 by -1
Control: affects -1 src:nanolyse

https://tracker.debian.org/pkg/minimap2

Migration status for minimap2 (2.17+dfsg-12 to 2.22+dfsg-3): BLOCKED: 
Rejected/violates migration policy/introduces a regression
Issues preventing migration:
∙ ∙ autopkgtest for nanolyse/1.2.0-2: amd64: Pass, arm64: Pass, armhf: 
Regression ♻ (reference ♻), i386: Regression ♻ (reference ♻), ppc64el: 
Regression ♻ (reference ♻)


This is due to:

(sid_armhf-dchroot)bunk@amdahl:~$ python3
Python 3.9.10 (main, Jan 16 2022, 17:12:18)
[GCC 11.2.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import mappy
Traceback (most recent call last):
  File "", line 1, in 
ImportError: 
/usr/lib/python3/dist-packages/mappy.cpython-39-arm-linux-gnueabihf.so: 
undefined symbol: ksw_extz2_sse
>>>