Re: [Bioc-devel] R version dependency

Hi, You can even set 3.5 if your code working with that version of R, but BiocManager won't load the latest Bioconductor version (3.19) unless you have R 4.4. Cheers, Anatoly On Tue, Apr 23, 2024 at 2:57 AM Richard Heery wrote: > Hi all, > > I'm wondering what we should now list as the R

Re: [Bioc-devel] org.Hs.eg.db contains no GRPEL1 gene

ble early next week. > > -Original Message- > From: Bioc-devel On Behalf Of James W. > MacDonald > Sent: Thursday, April 18, 2024 9:30 AM > To: Anatoly Sorokin ; bioc-devel@r-project.org > Subject: Re: [Bioc-devel] org.Hs.eg.db contains no GRPEL1 gene > > It is

Re: [Bioc-devel] Important Bioconductor Release Deadlines

ns of R is always useful, even if you're > not a package maintainer. > > /Henrik > > On Thu, Apr 4, 2024 at 8:08 PM Anatoly Sorokin wrote: > > > > Hi Henrik, > > > > thank you for the prompt reply. I'm on Mac OS 12.5. > > > > And regarding the linking

[Bioc-devel] org.Hs.eg.db contains no GRPEL1 gene

Hi, sorry if this is the wrong list to send this request, but the landing page of the org.Hs.eg.db package contains no reference for the bug report. The most recent version of the org.Hs.eg.db package (3.19.7) misses the GRPEL1 gene (https://www.ncbi.nlm.nih.gov/gene/80273). It could not be found

Re: [Bioc-devel] Important Bioconductor Release Deadlines

stable version of the platform. I did not sign up as an R beta tester. Cheers, Anatoly -- > *From:* Bioc-devel on behalf of > Anatoly Sorokin > *Sent:* Thursday, April 4, 2024 10:28:47 PM > *To:* Kern, Lori > *Cc:* bioc-devel@r-project.org > *Subject:* Re:

Re: [Bioc-devel] Important Bioconductor Release Deadlines

away from that model for many reasons; > one is the friction added to developers, another is the friction added > to end-users, and some people may be stuck with older versions of R > and in no control of updating. > > Hope this helps, > > Henrik > > On Thu, Apr 4, 2

Re: [Bioc-devel] Important Bioconductor Release Deadlines

Hi all, I'm sorry for the complaint, but do you really think it is wise to make the new release dependent on the R version which has not released yet? I have a lot of R-related projects going on apart from maintaining the Bioconductor package and I'm not comfortable installing the unreleased

Re: [Bioc-devel] synaptome.db check error

ove the lock files on the next run > next Wednesday. > > Jennifer Wokaty (they/them) > > Waldron Lab at CUNY SPH > Bioconductor Core Team > -- > *From:* Bioc-devel on behalf of > Anatoly Sorokin > *Sent:* Friday, September 1, 2023 6:34

[Bioc-devel] synaptome.db check error

Dear all, I've found a strange error on *nebbiolo2 * check server for our package synaptome.db: * installing to library ‘/home/biocbuild/bbs-3.18-bioc/R/site-library’ ERROR: failed to lock directory

Re: [Bioc-devel] Dependence from another New package

oswell Park Comprehensive Cancer Center > > Department of Biostatistics & Bioinformatics > > Elm & Carlton Streets > > Buffalo, New York 14263 > ---------- > *From:* Bioc-devel on behalf of > Anatoly Sorokin > *Sent:* Monday, September 27, 2021 5:52

Re: [Bioc-devel] Dependence from another New package

utlook for iOS <https://aka.ms/o0ukef> > -- > *From:* Bioc-devel on behalf of > Anatoly Sorokin > *Sent:* Sunday, September 26, 2021 7:59:17 PM > *To:* bioc-devel@r-project.org > *Subject:* [Bioc-devel] Dependence from another New package > > H

[Bioc-devel] AnnotationHub is too old on build system

Hi all, We have submitted a data package to AnnotationHub, and it was loaded there around September 20th. Today we've submitted the accompanying software package, but the automated build system returns an error message: "error: no records found for the given index" on the line on which we are

[Bioc-devel] Dependence from another New package

Hi, We have submitted package, that required large data. According to suggestion from bioconductor team, we split the package into two parts, first of which was recently become available on AnnotationHub. Once the data package was on the hub, I've submitted the new version of the software package

Re: [Bioc-devel] Git lfs support

tics & Bioinformatics > > Elm & Carlton Streets > > Buffalo, New York 14263 > -- > *From:* Bioc-devel on behalf of > Anatoly Sorokin > *Sent:* Friday, September 10, 2021 5:56 AM > *To:* bioc-devel@r-project.org > *Sub

Re: [Bioc-devel] Git lfs support

021 at 12:59 PM Hervé Pagès wrote: > Hi Anatoly, > > Let's keep this conversation on the bioc-devel mailing list where it > started. > > On 26/08/2021 02:46, Anatoly Sorokin wrote: > > Hi Hervé, > > > > thank you for your answer. Does this mean that the SQLite

[Bioc-devel] Git lfs support

Hi all, we have developed a package that provides access to the data in the locally stored SQLite database. The GitHub Action successfully built the package, but in Bioconductor, it got an error. The only reason for the error is that the database itself is stored on GitHub via git-lfs, and the R