[Bioc-devel] rmspc problems reported in the Multiple platform build/check report for BioC 3.20

[Kern, Lori]

Yes that is correct.  It is Bioconductor's policy that packages should work with the up-to-date versions of system dependencies to ensure security and maintenance. As Jennifer pointed out support for .NET 6.0 ended November 12, 2024.  You will need to update to work with .NET 8.0 on the devel nebbiolo1 machine.



Lori Shepherd - Kern

Bioconductor Core Team

Roswell Park Comprehensive Cancer Center

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: Meriem Bahda <meriembahda using gmail.com>
Sent: Tuesday, January 28, 2025 2:09 AM
To: Jennifer Wokaty <Jennifer.Wokaty using sph.cuny.edu>
Cc: bioc-devel using r-project.org <bioc-devel using r-project.org>; Kern, Lori <Lori.Shepherd using RoswellPark.org>
Subject: Re: [Bioc-devel] rmspc problems reported in the Multiple platform build/check report for BioC 3.20

Hi Jennifer,

The package is still failing in nebbiolo1.

To confirm, .NET6 will not be installed in nebbiolo1, we will have to update the version of .NET of the package if we want it to work or nebbiolo1, right ?

Thank you,
Meriem

Le jeu. 26 d�c. 2024 � 12:51, Jennifer Wokaty <Jennifer.Wokaty using sph.cuny.edu<mailto:Jennifer.Wokaty using sph.cuny.edu>> a �crit :
I did install .NET on another machine. According to the latest reports, only the Linux devel server nebbiolo1 is failing for rmspc.

Jennifer Wokaty (they/them)

Waldron Lab at CUNY SPH
Bioconductor Core Team
________________________________
From: Meriem Bahda <meriembahda using gmail.com<mailto:meriembahda using gmail.com>>
Sent: Thursday, December 26, 2024 12:09 PM
To: Jennifer Wokaty <Jennifer.Wokaty using sph.cuny.edu<mailto:Jennifer.Wokaty using sph.cuny.edu>>
Cc: bioc-devel using r-project.org<mailto:bioc-devel using r-project.org> <bioc-devel using r-project.org<mailto:bioc-devel using r-project.org>>; Kern, Lori <Lori.Shepherd using roswellpark.org<mailto:Lori.Shepherd using roswellpark.org>>
Subject: Re: [Bioc-devel] rmspc problems reported in the Multiple platform build/check report for BioC 3.20

Thank you, Jennifer. We will look into updating the package with a newer version of .NET when we have a chance.

I am still receiving emails about the package failing in other hosts. Will that be solved too in the meantime?

Thank you,
Meriem

Le lun. 23 d�c. 2024 � 18:14, Jennifer Wokaty <Jennifer.Wokaty using sph.cuny.edu<mailto:Jennifer.Wokaty using sph.cuny.edu>> a �crit :
Hi,

Looking at https://dotnet.microsoft.com/en-us/download/dotnet<https://secure-web.cisco.com/1UGUZKO3kbsDaxGXpTEinn9z-pG8Wh2PPQzSClqdBpMHiuOWa_dGkTxMlSAh1g_E97WePoDJRP_Qk8b14Fk9BDD_3Ej19ZYFYmNpI4l5PtHGpCOJJpEGUFlwxHdnxGuuxMY0UQ3DuH3db1m7cWjuKEyYcWs2D3rOYXlD9l9Y1EAyWqGTY-e0TWYDZwxQ8H1v_QmV0FKTZCCixyqArvI_ugyr0I9DhCRd9t-hkilRYDXLi4qSscgV_6r_yTj1b4kZC4K1dTjmFqrIr5IvgXVaPSZnbygt7JfrLrhi5V9GgpGGjYRQ4qLGkVcHVQGT4AenJ/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fdotnet.microsoft.com%2Fen-us%2Fdownload%2Fdotnet__%3B%21%21LRXxDv2l%21Sljhs8ptYBWw-1a2n2QMdusKwxEqyDmRC2dJJgTm06qjXZfGYky21uS9979K_LhdR7UxJAoP8-1goEwqX3AAw2FksJ-FXtI%24>, support for .NET 6.0 ended November 12, 2024. While .NET 6.0 is available in the Ubuntu backports repository, please consider updating rmspc to work with a currently supported version of .NET.

In the meantime, I've installed .NET 6.0 on our release Linux server and left .NET 8.0 on our devel Linux server, which is available via the Ubuntu repository by default as you may want to consider as a replacement.

Jennifer Wokaty (they/them)

Waldron Lab at CUNY SPH
Bioconductor Core Team
________________________________
From: Bioc-devel <bioc-devel-bounces using r-project.org<mailto:bioc-devel-bounces using r-project.org>> on behalf of Kern, Lori via Bioc-devel <bioc-devel using r-project.org<mailto:bioc-devel using r-project.org>>
Sent: Tuesday, December 17, 2024 7:07 AM
To: Meriem Bahda <meriembahda using gmail.com<mailto:meriembahda using gmail.com>>; bioc-devel using r-project.org<mailto:bioc-devel using r-project.org> <bioc-devel using r-project.org<mailto:bioc-devel using r-project.org>>
Subject: Re: [Bioc-devel] rmspc problems reported in the Multiple platform build/check report for BioC 3.20

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

Our system administrator is currently out of office. When they return we will look into this.


Lori Shepherd - Kern

Bioconductor Core Team

Roswell Park Comprehensive Cancer Center

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: Bioc-devel <bioc-devel-bounces using r-project.org<mailto:bioc-devel-bounces using r-project.org>> on behalf of Meriem Bahda <meriembahda using gmail.com<mailto:meriembahda using gmail.com>>
Sent: Monday, December 16, 2024 8:37 PM
To: bioc-devel using r-project.org<mailto:bioc-devel using r-project.org> <bioc-devel using r-project.org<mailto:bioc-devel using r-project.org>>
Subject: [Bioc-devel] rmspc problems reported in the Multiple platform build/check report for BioC 3.20

Dear Community,

I submitted a recent version of the package rmspc to Bioconductor a year
ago, to upgrade it. A prerequisite for the rmspc package is .NET 6.0.
Before installing the rmspc package, the program .NET 6.0. should already
be installed on the user's computer.

I recently received an email saying the package didn't pass the platform
build check for the host *nebbiolo2*. I believe this error may have
occurred because .NET 6.0 isn't installed on this platform.

Thank you for your help!

--

*Meriem BAHDA*

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--
Meriem BAHDA





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