[Debian-science-sagemath] Problems with CPU extensions used by dependencies

[Tobias Hansen]

I checked now and I have all of these extensions available. That could
explain why less tests are failing for me. Jerome, did you already run
that one-liner to check?

Best,
Tobias


On 08/09/2016 02:46 AM, Ximin Luo wrote:
> It might be that Sage is adding extra optimisations not supported by our CPUs. For example, running this from sagemath.git after a failed test:
> 
> $ x=$(grep -o ' -m[^ ]*' sage/logs/pkgs/sagelib-7.2.log | sort -u | tee /dev/fd/2 | cut -b4- | tr '\n' '|'); grep --color -P "${x%|}" /proc/cpuinfo
>  -mavx2
>  -mfma
>  -mmmx
>  -msse
>  -msse2
>  -msse4.1
> flags		: [..] mmx fxsr sse sse2 [..] ssse3 [..] sse4_1 sse4_2 [..]
> [..]
> 
> I can see that avx2 fma are missing for me at least.
> 
> The difficulty for Debian is that we need to support all i386/amd64/etc CPUs, so we basically have to switch off all optimisations like this.
> 
> X
> 
> Jerome BENOIT:
>> Hi,
>>
>> On 08/08/16 19:45, Tobias Hansen wrote:
>>> I don't know. I think nobody packaged it yet because it's a relatively
>>> new dependency of Sage. And that things fail is because of the hacky way
>>> we are using it currently.
>>
>> I will think about it. Meanwhile I submitted an ITP for SageTeX.
>>
>> Thanks,
>> Jerome
>>
>>
>>> Best,
>>> Tobias
>>
>>> On 08/08/2016 06:52 PM, Jerome BENOIT wrote:
>>>> Is cysignals a very tricky/involve Cyphon software package ?
>>>>
>>>> Jerome
>>>>
>>>> On 08/08/16 12:59, Tobias Hansen wrote:
>>>>> Hi,
>>>>
>>>>> so there still seem to be big problems with cysignals:
>>>>
>>>>> 877x
>>>>>       File "src/cysignals/signals.pyx", line 100, in
>>>>> cysignals.signals.sig_raise_exception (build/src/cysignals/signals.c:1225)
>>>>>     SignalError: Illegal instruction
>>>>
>>>>> Best,
>>>>> Tobias
>>>>
>>>>> On 08/07/2016 02:27 PM, Jerome BENOIT wrote:
>>>>>> Please find in attachment my last log files:
>>>>>> the number of Failed examples is 1949
>>>>>>
>>>>>> Jerome
>>>>>>
>>>>>> On 05/08/16 11:57, Tobias Hansen wrote:
>>>>>>> On 08/05/2016 11:46 AM, Jerome BENOIT wrote:
>>>>>>>>
>>>>>>>>
>>>>>>>> On 05/08/16 11:25, Tobias Hansen wrote:
>>>>>>>>> Hi,
>>>>>>>>
>>>>>>>>> the first two errors I noticed were
>>>>>>>>
>>>>>>>>> 1839x
>>>>>>>>> In order to initialize the database,
>>>>>>>>> /home/jgmb/.local/share/sagemath/conway_polynomials/conway_polynomials.sobj
>>>>>>>>> must exist.
>>>>>>>>
>>>>>>>>> 999x
>>>>>>>>> Desired database (='cremona mini') does not exist
>>>>>>>>
>>>>>>>>> So it looks in /home/jgmb/.local/share/sagemath instead of
>>>>>>>>> /usr/share/sagemath, where for example
>>>>>>>>> conway_polynomials/conway_polynomials.sobj is installed by the package
>>>>>>>>> sagemath-database-conway-polynomials. I think this is due to
>>>>>>>>
>>>>>>>>> -export SAGE_SHARE="/usr/share/sagemath"
>>>>>>>>> +export SAGE_SHARE="$HOME/.local/share/sagemath"
>>>>>>>>
>>>>>>>>> in debian-temp-userdir.patch.
>>>>>>>>
>>>>>>>>> I don't understand why Ximin and I don't get these errors, but it should
>>>>>>>>> be fixed by cleaning up the mixed /usr and $HOME situation.
>>>>>>>>
>>>>>>>>> BTW, my failed tests count went up from ~200 to 423 because now some
>>>>>>>>> files from cysignals are not found.
>>>>>>>>
>>>>>>>> please let me know when the git material is updated in view to make new test
>>>>>>>> (and getting familiar with the process).
>>>>>>
>>>>>>> I will probably not have time to work on that today. It's complicated
>>>>>>> because it's hard to know for what exactly all the variables such as
>>>>>>> SAGE_LOCAL etc are used for. If you want you can also try it to get
>>>>>>> familiar with the stuff. In that case I could write a bit more about
>>>>>>> what to do.
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>>>
>>>>>>>>> BTW2, SageMath 7.3 was released. Obviously with Singular 3.1.7. But at
>>>>>>>>> least when they get that Singular 4 ticket done, we can backport the
>>>>>>>>> patch. Or maybe SageMath 7.4 comes soon enough to target that for
>>>>>>>>> Stretch. I guess we should fix your huge number of failing doctests
>>>>>>>>> before upgrading to SageMath 7.3
>>>>>>>>
>>>>>>>> Meanwhile we may have a working libgap 4.8.3 packages.
>>>>>>>>
>>>>>>>> Jerome
>>>>>>
>>>>>>> Very good. After uploading the git repo you can also try pushing to the
>>>>>>> apt and update the sagemath git to use it. The configure.ac in
>>>>>>> debian/pruner needs to be updated in order to find it, so you can get
>>>>>>> familiar with that.
>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>> Best,
>>>>>>>>> Tobias
>>>>>>>>
>>>>>>>>> On 08/05/2016 10:54 AM, Jerome BENOIT wrote:
>>>>>>>>>> Hello Tobias,
>>>>>>>>>>
>>>>>>>>>> please find in attachment my last log files.
>>>>>>>>>>
>>>>>>>>>> Jerome
>>>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>
>>>>
>>>>
>>
>>
>>
>