[Bioc-devel] Build error for cfTools

[RAN HU]

Hi,

I noticed that there is still a build error on Windows Server for cfTools:
https://bioconductor.org/checkResults/devel/bioc-LATEST/cfTools/palomino7-buildsrc.html.
Does this prevent Windows users from installing or using the R package?

If so, I’d really appreciate the opportunity to work together to resolve
this issue and help ensure it doesn't occur in future releases.

Thank you for your time and support!

Best,
Ran

On Fri, Aug 16, 2024 at 1:43 PM RAN HU <huran using ucla.edu> wrote:

> Hi Martin,
>
> Thank you very much for your efforts in solving the problem! I
> believe kunpeng2 is a relatively new platform, so we did not previously
> notice the build error. The problem is understandable, and I appreciate
> that we’ve worked to address it to make most platforms working.
>
> Best,
> Ran
>
>
>
> On Fri, Aug 16, 2024 at 1:57 AM Martin Grigorov <martin.grigorov using gmail.com>
> wrote:
>
>> Hi Ran,
>>
>> Do you remember how it was solved before (for kunpeng2) ?
>>
>> https://anaconda.org/conda-forge/tensorflow does not provide
>> linux-aarch64 build even for 2.17.0 in the conda-forge channel. Your
>> package uses 2.10.0.
>> The anaconda channel does provide it -
>> https://anaconda.org/anaconda/tensorflow, but AFAIK using this channel
>> is non-free.
>>
>> The builder setup docs list tensorflow as a PIP dependency:
>> https://github.com/Bioconductor/BBS/blob/devel/Ubuntu-files/22.04/pip_pkgs.txt#L8
>>
>> biocbuild using kunpeng2 ~> pip install tensorflow
>> Defaulting to user installation because normal site-packages is not
>> writeable
>> Requirement already satisfied: tensorflow in
>> /usr/local/lib/python3.9/site-packages (2.12.0)
>> Requirement already satisfied: tensorflow-cpu-aws==2.12.0 in
>> /usr/local/lib64/python3.9/site-packages (from tensorflow) (2.12.0)
>>
>> I.e. tensorflow 2.12.0 is installed via pip, but conda does not use pip
>> packages.
>>
>> Regards,
>> Martin
>>
>> On Fri, Aug 16, 2024 at 4:51 AM RAN HU <huran using ucla.edu> wrote:
>>
>>> Hi,
>>>
>>> I am the maintainer of the cfTools package. I found cfTools have build
>>> errors on palomino7/8 and kunpeng2 for BioC 3.19 and 3.20, which appear
>>> to
>>> be caused by an environment issue related to a Python dependency. This
>>> has
>>> happened before and was solved. Could you help me solve this again? And
>>> is
>>> there a way to avoid this error in future when there is a new release?
>>>
>>> Thank you very much!
>>>
>>> Best,
>>> Ran
>>>
>>>         [[alternative HTML version deleted]]
>>>
>>> _______________________________________________
>>> Bioc-devel using r-project.org mailing list
>>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>>>
>>

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