[Debian-med-packaging] Bug#1044060: More qiime related issues affecting q2-quality-control (Was: Help needed to port qiime to Python3.12)

[Andreas Tille]

Hi,

I just realised that a new qiime version is out.  I will upgrade
to latest upstream and see how this might affect this issue

Kind regards
    Andreas.

Am Sun, Feb 18, 2024 at 12:11:04PM +0100 schrieb Andreas Tille:
> Control: tags -1 help
> 
> Hi again,
> 
> I hope to approach the last remaining Pandas issue for the qiime
> ecosystem.  As it has become obvious in the q2-types package I'm now
> facing pretty similar errors when running the q2-quality-control
> package which can be seen in full length in Salsa-CI[3] and contains
> errors like:
> 
> E           AttributeError: 'ProvenancePath' object has no attribute '_drv'
> E       AttributeError: 'ProvenancePath' object has no attribute '_raw_paths'
> E           AttributeError: 'ProvenancePath' object has no attribute '_str'
> E           AttributeError: 'OutPath' object has no attribute '_str'
> 
> This all goes back to the qiime package but I admit I have no idea
> how to fix this.
> 
> Kind regards
>      Andreas.
> 
> 
> [3] https://salsa.debian.org/med-team/q2-quality-control/-/jobs/5320775#L700
> 
> Am Sat, Feb 17, 2024 at 11:36:41AM +0100 schrieb Andreas Tille:
> > Hi,
> > 
> > as reported in a qiime2 issue[1] there is some problem with Python3.12
> > in the tests of the q2-* packages which are all using the qiime package.
> > This problem is currently hidden from the tests made by Python3.12
> > porters but it became obvious now on Salsa CI[2].  I tried to fiddle
> > around a bit with the qiime code but with no success at all.  Any help
> > would be welcome.
> > 
> > Kind regards
> >     Andreas.
> > 
> > [1] https://github.com/qiime2/qiime2/issues/751
> > [2] https://salsa.debian.org/med-team/q2-types/-/jobs/5313640#L900
> > 
> > -- 
> > http://fam-tille.de
> 
> -- 
> http://fam-tille.de

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