My suggestion is that your interfaces to python be mediated with the basilisk package. Please contact me off line if you need assistance; see BiocSklearn for an example; I am sure there are others.
On Tue, Oct 18, 2022 at 12:31 PM Sarvesh Nikumbh <sarvesh.niku...@gmail.com> wrote: > Hi bioc team, > > My package seqArchR though does not error in any way, but can spit out > numerous warnings (originally from Python/scikit-learn which is a > dependency) depending on the version of scikit-learn available. This fills > the output to the extent that it is unreadable. The cause for this is the > deprecation/future version warning in NMF/scikitlearn > < > https://scikit-learn.org/stable/modules/generated/sklearn.decomposition.NMF.html > > > which is forced, so I cannot suppress it. > > I pushed a fix for this in the devel version -- where, instead of > increasing the dependency version, I check the module version using > packaging module from setuptools and appropriately make the python function > call. But this gives an error on the Windows build machine, and is fine on > Linux/macOS. > See > > https://bioconductor.org/checkResults/3.16/bioc-LATEST/seqArchR/palomino4-checksrc.html > > I expected that setuptools will be available on all machines, because the > previous alternative, distutils, is available with vanilla python, but is > not recommended. > > Would you suggest having setuptools in the SystemRequirements or using > distutils? > Or simply depending on higher version of scikit-learn (the latest 1.2) -- > which is the root cause of this issue anyway. > > Thanks and best, > Sarvesh > > -- > > thanks! > -Sarvesh > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > -- The information in this e-mail is intended only for the ...{{dropped:18}} _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
