[Bioc-devel] Trigger a new build after version bump
Hi, The built is has been done on the updates I pushed. Here you see that the release version has been bumped to 1.2.1 instead of 1.2.0 and dev version has been bumped to 1.3.3 instead of 1.3.0. However, I still see the same error as before. Here is the OS built results for the release branch: http://bioconductor.org/checkResults/release/bioc-LATEST/OmicsLonDA/merida1-buildsrc.html Command output ############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data OmicsLonDA ### ############################################################################## ############################################################################## * checking for file ?OmicsLonDA/DESCRIPTION? ... OK * preparing ?OmicsLonDA?: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ?OmicsLonDA.Rmd? using rmarkdown Bioconductor version 3.10 (BiocManager 1.30.10), R 3.6.2 (2019-12-12) Installing package(s) 'OmicsLonDA' trying URL 'https://bioconductor.org/packages/3.10/bioc/bin/macosx/el-capitan/contrib/3.6/OmicsLonDA_1.2.0.tgz' Content type 'application/x-gzip' length 5219591 bytes (5.0 MB) In the above snippet, it says "trying URL 'https://bioconductor.org/packages/3.10/bioc/bin/macosx/el-capitan/contrib/3.6/OmicsLonDA_1.2.0.tgz' " v1.2.0 is the old version. The new version is 1.2.1. Should I update anything to make sure BioC checks the new version "1.2.1"? Thanks,
From: Bioc-devel <bioc-devel-bounces at r-project.org> on behalf of Ahmed Metwally <ametwall at stanford.edu>
Sent: Tuesday, December 17, 2019 4:58 AM
To: Shepherd, Lori <Lori.Shepherd at RoswellPark.org>
Cc: bioc-devel at r-project.org <bioc-devel at r-project.org>
Subject: Re: [Bioc-devel] Trigger a new build after version bump
Sent: Tuesday, December 17, 2019 4:58 AM
To: Shepherd, Lori <Lori.Shepherd at RoswellPark.org>
Cc: bioc-devel at r-project.org <bioc-devel at r-project.org>
Subject: Re: [Bioc-devel] Trigger a new build after version bump
Great! Thank you, Lori Ahmed A. Metwally Sent from iPhone On Dec 17, 2019, at 4:21 AM, Shepherd, Lori <Lori.Shepherd at RoswellPark.org<mailto:Lori.Shepherd at RoswellPark.org>> wrote: Jakob is correct. To expand a bit more: The results will not be present on today's build report but should be there on tomorrows. We do a git pull around 4:45 PM EST for the daily builds. If commits are made after that (which it seems like in this case) it would be on the following days. For What Its worth I do see your changes on git.bioconductor.org<http://git.bioconductor.org> so you were able to push them correctly. Cheers, Lori Shepherd 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 at r-project.org<mailto:bioc-devel-bounces at r-project.org>> on behalf of Ahmed Metwally <ametwall at stanford.edu<mailto:ametwall at stanford.edu>> Sent: Tuesday, December 17, 2019 2:49 AM To: Jakob Theorell <jakob.theorell at ndcn.ox.ac.uk<mailto:jakob.theorell at ndcn.ox.ac.uk>>; bioc-devel at r-project.org<mailto:bioc-devel at r-project.org> <bioc-devel at r-project.org<mailto:bioc-devel at r-project.org>> Subject: Re: [Bioc-devel] Trigger a new build after version bump Hi Jakob, Thanks for your explanation. I was looking for any statement about how long should I wait but couldn't find any. I pushed the updates around 6 hours ago. I'll wait for 24-48h as you suggested and will check back. Best, ________________________________ From: Jakob Theorell <jakob.theorell at ndcn.ox.ac.uk<mailto:jakob.theorell at ndcn.ox.ac.uk>> Sent: Monday, December 16, 2019 10:35 PM To: Ahmed Metwally <ametwall at stanford.edu<mailto:ametwall at stanford.edu>>; bioc-devel at r-project.org<mailto:bioc-devel at r-project.org> <bioc-devel at r-project.org<mailto:bioc-devel at r-project.org>> Subject: Re: Trigger a new build after version bump Dear Ahmed, I am not in the core team, but I still wonder: how long have you waited since you pushed? During the review process you get an immediate update of the package upon push with a version bump, but with accepted packages it takes 24-48 hours for the changes to trickle through to the build report. And you have to go in and check the build reports yourself on the BioConductor sites related to the release and devel branches. Best regards Jakob Theorell, MD/PhD Autoimmune Neurology Group Nuffield Department of Clinical Neurosciences University of Oxford ________________________________ From: Bioc-devel <bioc-devel-bounces at r-project.org<mailto:bioc-devel-bounces at r-project.org>> on behalf of Ahmed Metwally <ametwall at stanford.edu<mailto:ametwall at stanford.edu>> Sent: 17 December 2019 02:34 To: bioc-devel at r-project.org<mailto:bioc-devel at r-project.org> <bioc-devel at r-project.org<mailto:bioc-devel at r-project.org>> Subject: [Bioc-devel] Trigger a new build after version bump Dear Bioc devel team, OmicsLonDA package is failing to build on release and devel branches: http://bioconductor.org/checkResults/release/bioc-LATEST/OmicsLonDA/ http://bioconductor.org/checkResults/devel/bioc-LATEST/OmicsLonDA/ I have fixed the issue and pushed the changes to RELEASE_3_10, and dev-master branch. I bumped the package version on the RELEASE_3_10 to v1.2.1 instead of v1.2.0. I did the same for the dev branch, bumped the version to v1.3.3 instead of v1.3.0. I was following instructions listed here: https://bioconductor.org/developers/how-to/git/sync-existing-repositories/ However, my changes didn't trigger a new build. In the past, when I was submitting the OmicsLonDA to Bioc, whenever I do version bump, I receive an email says that I successfully triggered a new build. This time I didn't receive any emails. Also, the build error and data don't change in the above-mentioned URLs to reflect a new build! Please let me know what I'm missing here. 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