You are correct that it is because this is a workflow package and not a software package. The workflow package location is
/trunk/madman/workflows/ It should be updated there. Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 ________________________________ From: Bioc-devel <bioc-devel-boun...@r-project.org> on behalf of Malgorzata Nowicka <gosia.nowi...@uzh.ch> Sent: Wednesday, July 19, 2017 9:46:33 AM To: bioc-devel@r-project.org Subject: [Bioc-devel] unable to push local changes to bioconductor svn repository Hello, I have followed Scenario number 2 for my svn mirror for the cytofWorkflow package (more precisely workflow) and I encounter the same problem as described below by Zongli. Below are my exact steps. The same steps worked for my other package DRIMSeq. Could it be because it is a workflow and not a regular package? If I do not change the update_remotes.sh file, there are even more errors because cytofWorkflow is not at https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ <https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/>. How should I fix it? Thank you for your help, Gosia ### I have forked https://github.com/Bioconductor-mirror/cytofWorkflow <https://github.com/Bioconductor-mirror/cytofWorkflow> to my repo https://github.com/gosianow/cytofWorkflow.git <https://github.com/gosianow/cytofWorkflow.git> ### I have added a commit to https://github.com/gosianow/cytofWorkflow.git <https://github.com/gosianow/cytofWorkflow.git> ### Now, I would like to update the bioc svn $ git clone https://github.com/gosianow/cytofWorkflow.git <https://github.com/gosianow/cytofWorkflow.git> $ curl -O https://raw.githubusercontent.com/Bioconductor/mirror/master/update_remotes.sh <https://raw.githubusercontent.com/Bioconductor/mirror/master/update_remotes.sh> $ cd cytofWorkflow ### Replace Rpacks with workflows in update_remotes.sh as cytofWorkflow is in https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/ <https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/> $ bash ../update_remotes.sh $ git branch -a $ git checkout devel $ git svn rebase Migrating from a git-svn v1 layout... Data from a previous version of git-svn exists, but .git/svn (required for this version (2.11.0 (Apple Git-81)) of git-svn) does not exist. Done migrating from a git-svn v1 layout Unable to determine upstream SVN information from working tree history > On 12 May 2017, at 15:52, Martin Morgan <martin.mor...@roswellpark.org> wrote: > > On 05/11/2017 10:02 AM, Xu, Zongli (NIH/NIEHS) [E] wrote: >> Hi, >> >> >> >> I got a new Linux computer, cloned my package from github, made some >> changes. I am able to update the changes to github, but can not push >> it to Bioconductor svn repository. Can someone help me to solve the >> problem. >> >> >> >> The following is what I did: >> >> >> >> git svn clone https://github.com/xuz1/ENmix > > The github repository is just a git repository, not SVN; you should follow > the directions at scenario 2 of > > http://bioconductor.org/developers/how-to/git-mirrors/ > <http://bioconductor.org/developers/how-to/git-mirrors/> > > checkout the git repository, add svn remotes, rebase with svn, make git > commits, then dcommit to svn. > > Martin > > >> >> cd ENmix >> >> bash ../update_remotes.sh >> >> >> >> #push to github >> >> git checkout master >> >> git add -A . >> >> git commit -a -s -m "commit made by Xu" >> >> git remote -v >> >> git push origin master >> >> >> >> #push to Bioconductor svn >> >> git checkout devel >> >> >> >> I am good up to here, but when I run the following command >> >> git svn rebase --username z.xu >> >> >> >> It showed the following error message: >> >> >> >> Data from a previous version of git-svn exists, but >> >> .git/svn >> >> (required for this version (1.7.1) of git-svn) does not exist. >> >> Done migrating from a git-svn v1 layout >> >> Unable to determine upstream SVN information from working tree >> history >> >> >> >> Can anyone guide me what should I do to solve this problem. >> >> >> >> Thanks, >> >> Zongli >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioc-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/bioc-devel >> > > > This email message may contain legally privileged and/or...{{dropped:2}} > > _______________________________________________ > Bioc-devel@r-project.org <mailto:Bioc-devel@r-project.org> mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > <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 This email message may contain legally privileged and/or confidential information. 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