[Bioc-devel] View package posts from its web page
Hi Bioconductor team, I noticed that the posts present in the Bioconductor Forum associated with each Bioc package are not accessible from the package website itself. Taking the popular DESeq2 package as an example, if you click on the "posts" tag within the package webpage, the browser attempts to open the website: https://support.bioconductor.org/t/deseq2/ throwing back an error. I guess that page: https://support.bioconductor.org/?tag=DESeq2 should be opened instead. Best regards, Stefano [[alternative HTML version deleted]] ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
Re: [Bioc-devel] Got timeout for machv2 BUILD
HI,
We solved a similar issue for the INSPEcT package avoiding the
parallelization in the computation of examples and vignettes. In our case
it caused the timeout in the Windows environment.
Best,
Stefano
Il giorno ven 17 apr 2020 alle 21:11 Jianhong Ou, Ph.D. <
jianhong...@duke.edu> ha scritto:
> Hi,
>
> I got timeout for my package motifStack in machv2. But I don't know what
> cuased the issue.
>
> Any help would be greatly appreciated.
>
> Jianhong.
>
> From: Jianhong Ou, Ph.D.
> Sent: Wednesday, April 15, 2020 7:53 AM
> To: bioc-devel@r-project.org
> Subject: Got timeout for machv2 BUILD
>
> Hi,
>
> Hope you are doing well.
>
> I got timeout for my package motifStack in machv2. The ellapsedTime is
> 2403.0 seconds while in tokay2 is 82.1 seconds and in malbec2 is 126.1
> seconds. I have limited information how to debug.
> Could you share your suggestion? Thank you.
>
>
>
> Yours Sincerely,
>
> Jianhong Ou
>
> Email: jianhong...@duke.edu
> Bioinformatician II
> Department of Cell Biology
> Duke University School of Medicine
> Durham, NC, 27710
>
> Confidentiality Notice:\ This e-mail message, including ...{{dropped:12}}
>
> ___
> Bioc-devel@r-project.org mailing list
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>
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Re: [Bioc-devel] INSPEcT vignette building issue
Dear Bioc community, As the previous email described, we're facing issues in reproducing the TIMEOUT during the build of the INSPEcT package in the Windows environment. Does anyone have suggestions on how to reproduce the tokay2 testing environment? For instance, specific virtual machines or similar? Thanks in advance for helping! Stefano Il giorno ven 20 mar 2020 alle ore 15:08 Mattia Furlan ha scritto: > Hello, > > I am one of the maintainers of the INSPEcT package. > > I noticed that the vignette building on tokay2 resulted in a timeout. > So, I tried to build the document on a Windows 10 64 bit machine with the > development version of Bioconductor and R4.0. > In this configuration, everything run smoothly with a reasonable > computational time (few minutes). > > Could you please help me to fix the issue? > > Thank you, > > > Mattia Furlan > > [[alternative HTML version deleted]] > > ___ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > [[alternative HTML version deleted]] ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
[Bioc-devel] svn branching
Hi All, I have a question relative to the privileges that we have as developers on the Bioc server. Apart from the folders where the actual release and devel versions of our packages are, do we have access to some other folders in order to open new branches of our Bioc packages? For example, the directory where the package I'm working on is: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/INSPEcT which refers to the devel version of my package. I'm working there in order to fix some bugs on the code, but meanwhile I would like to open a different branch for adding new functionalities to the package. I tried to access, for example, the directory: https://hedgehog.fhcrc.org/bioconductor/branches/Rpacks/ but it's forbidden to my user. Is it possible to branch directly using the Bioc repository or do I need to do it on my local machine? Thanks, Stefano [[alternative HTML version deleted]] ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
