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

[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

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