[Bioc-devel] cfTools build error

[Jennifer Wokaty]

Ran,

I don't see the error that you mention. The current error on the build report is that cfTools is missing cfToolsData, which I understand is a recently accepted experiment package. It should probably become available on Tuesday so I may see the error on the build report on Wednesday. When I look at cfTools, I see that you're managing tensorflow with basilisk, which is the right way to go about it.  I've removed the cache for cfTools in basilisk on palomino4 , but this may not be helpful until we have cfToolsData next week. If we continue to see the problem, I can try removing the cache again and troubleshoot more.

Martin,

Regarding your question about updating tensorflow that is made available on the build machines for CRAN package tensorflow<https://cran.r-project.org/web/packages/tensorflow/index.html>, it should be fine to update tensorflow on kunpeng2.


Jennifer Wokaty (they/them)

Waldron Lab at CUNY SPH
Bioconductor Core Team
________________________________
From: Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of Martin Grigorov <martin.grigorov using gmail.com>
Sent: Tuesday, October 10, 2023 3:14 PM
To: RAN HU <huran using ucla.edu>
Cc: bioc-devel using r-project.org <bioc-devel using r-project.org>
Subject: Re: [Bioc-devel] cfTools build error

* This email originates from a sender outside of CUNY. Verify the sender before replying or clicking on links and attachments. *

Hi,

https://nam02.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fpypi.org%2Fproject%2Ftensorflow%2F2.10.0%2F*files__%3BIw!!PxiZbSOawA!PCH5e74i_iyFpJzRK4TpZKocPg4CQic6KN2P-81NJnswcL3UZlJgQ_LNH2b1xHbOyfz-oBh9_4nlay119oA0O1_yiPai9gBrNQcC%24&data=05%7C01%7Cjennifer.wokaty%40sph.cuny.edu%7Cb5487ea55dcd49d6879208dbc9c5303c%7C6f60f0b35f064e099715989dba8cc7d8%7C0%7C0%7C638325620989566974%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=ueZgqhgyQOW8oziReHZyw%2By4VSB05n6Ko5RVi5cmeQs%3D&reserved=0<https://urldefense.com/v3/__https://pypi.org/project/tensorflow/2.10.0/*files__;Iw!!PxiZbSOawA!PCH5e74i_iyFpJzRK4TpZKocPg4CQic6KN2P-81NJnswcL3UZlJgQ_LNH2b1xHbOyfz-oBh9_4nlay119oA0O1_yiPai9gBrNQcC$>  is the first release that
provides a wheel for Linux ARM64 (aarch64).
Would it be OK to update from 2.8.0 to 2.10.0 ? Or even better to 2.14.0
(latest and greatest)!

Regards,
Martin

On Tue, Oct 10, 2023 at 9:30 PM RAN HU <huran using ucla.edu> wrote:

> Dear Bioc Team,
>
> I have a build error on palomino4 and kunpeng2 due to an environment
> problem: Multiple platform build/check report for BioC 3.18 - All results
> for package cfTools (bioconductor.org)
> <https://nam02.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fbioconductor.org%2FcheckResults%2Fdevel%2Fbioc-LATEST%2FcfTools%2F__%3B!!PxiZbSOawA!PCH5e74i_iyFpJzRK4TpZKocPg4CQic6KN2P-81NJnswcL3UZlJgQ_LNH2b1xHbOyfz-oBh9_4nlay119oA0O1_yiPai9myA1xWz%24&data=05%7C01%7Cjennifer.wokaty%40sph.cuny.edu%7Cb5487ea55dcd49d6879208dbc9c5303c%7C6f60f0b35f064e099715989dba8cc7d8%7C0%7C0%7C638325620989566974%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=l7ojno1fBG3mpn7ubSm6y5gcDwfEOhL6QRROUDeG3Fo%3D&reserved=0 >
> PackagesNotFoundError: The following packages are not available from
> current channels:
>   - tensorflow=2.8.0
>
> Could you help me solve this? Thank you in advance!
>
> Best,
>
> Ran
>
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