Hi, 

All is clear now. I will wait for the transition then.

Thank you for all the help.

Gosia


> On 10 Aug 2017, at 18:52, Turaga, Nitesh <nitesh.tur...@roswellpark.org> 
> wrote:
> 
> In the meantime,
> 
> You can choose to simply checkout the SVN repo, and commit directly to it.
> 
> Nitesh
> 
> 
>> On Aug 10, 2017, at 12:46 PM, Turaga, Nitesh <nitesh.tur...@roswellpark.org> 
>> wrote:
>> 
>> Hi Gosia,
>> 
>> The cytofWorkflow was added to the wrong svn location, and then moved.
>> 
>> I really don't know whether Bioconductor-mirror mirrors workflow packages; I 
>> think not, so the basic step of cloning from the mirror is not appropriate.
>> 
>> Roughly, I think the strategy would be to configure, on your own repository, 
>> git-svn to reference the correct url in svn (...workflows/cytofWorkflow), as 
>> well as any git remotes you wish to push to. I am not able to provide the 
>> details on how this would be done (at the moment). 
>> 
>> Since we will transition to git.bioconductor.org next week, It will be 
>> happening on the 16th of august. Maybe a better strategy is to simply wait 
>> for the transition, then tackle the problem of syncing different git 
>> repositories? (Especially workflows).
>> 
>> 
>> Best,
>> 
>> Nitesh
>> 
>> 
>>> On Aug 10, 2017, at 6:47 AM, Malgorzata Nowicka <gosia.nowi...@uzh.ch> 
>>> wrote:
>>> 
>>> Hi Nitesh, 
>>> 
>>> If I skip the "update_remore.sh" step, I do not get the devel branch 
>>> created. 
>>> 
>>> One thing I have noticed is that in the git log there is 
>>> Rpacks/cytofWorkflow in the git-svn-id. Should'n it be 
>>> workflows/cytofWorkflow as well? Maybe this causes the problems?
>>> 
>>> Best,
>>> 
>>> Gosia
>>> 
>>> 
>>> 
>>> $ git clone https://github.com/gosianow/cytofWorkflow.git
>>> $ cd cytofWorkflow
>>> $ git log
>>> commit 24f8f340d0c27d7475f4c10a08f641d23799acae
>>> Author: gosianow <gosia.nowi...@uzh.ch>
>>> Date:   Wed Aug 9 15:13:53 2017 +0200
>>> 
>>>   Fix: use summarize_all instead of summarize_each
>>> 
>>> commit ac7399e64e2bc55497fd432e7731b231173eceba
>>> Author: mtmor...@fhcrc.org 
>>> <mtmor...@fhcrc.org@bc3139a8-67e5-0310-9ffc-ced21a209358>
>>> Date:   Fri Jun 9 09:31:13 2017 +0000
>>> 
>>>   Adding cytofWorkflow, IsoformSwitchAnalyzeR
>>> 
>>> 
>>>   git-svn-id: 
>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/cytofWorkflow@130219
>>>  bc3139a8-67e5-0310-9ffc-ced21a209358
>>> 
>>> $ git remote add bioc 
>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>> $ git remote -v
>>> bioc        
>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>  (fetch)
>>> bioc        
>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>  (push)
>>> origin      https://github.com/gosianow/cytofWorkflow.git (fetch)
>>> origin      https://github.com/gosianow/cytofWorkflow.git (push)
>>> 
>>> $ git branch -a
>>> * master
>>> remotes/origin/HEAD -> origin/master
>>> remotes/origin/master
>>> 
>>> 
>>> 
>>>> On 9 Aug 2017, at 16:37, Turaga, Nitesh <nitesh.tur...@roswellpark.org> 
>>>> wrote:
>>>> 
>>>> Hi Gosia,
>>>> 
>>>> I think you should repeat the steps, but completely skip the 
>>>> “update_remote.sh” bit. 
>>>> 
>>>> It’s setting your URL to the wrong location, I’ll show it below: 
>>>> 
>>>> $ git svn --username=m.nowicka dcommit --add-author-from
>>>> Committing to 
>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/cytofWorkflow 
>>>> ...
>>>>    M       vignettes/cytofWorkflow.Rmd
>>>> 
>>>> The location here, when you commit is supposed to be  
>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow,
>>>>  but instead you are commiting to the ‘Rpacks’ software package repo. This 
>>>> is a problem with update_remotes.sh. 
>>>> 
>>>> The new steps you should follow are:
>>>> 
>>>> $ git clone https://github.com/gosianow/cytofWorkflow.git
>>>> 
>>>> $ cd cytofWorkflow
>>>> 
>>>> $ git log
>>>> 
>>>> $ git remote add bioc 
>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>> 
>>>> $ git remote -v
>>>> 
>>>> bioc       
>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>>  (fetch)
>>>> bioc       
>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>>  (push)
>>>> origin     https://github.com/gosianow/cytofWorkflow.git (fetch)
>>>> origin     https://github.com/gosianow/cytofWorkflow.git (push)
>>>> 
>>>> $ git branch -a
>>>> 
>>>> devel
>>>> * master
>>>> remotes/git-svn-devel
>>>> remotes/origin/HEAD -> origin/master
>>>> remotes/origin/master
>>>> 
>>>> $ git checkout devel
>>>> 
>>>> /t/cytofWorkflow ❯❯❯ 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
>>>> Rebuilding 
>>>> .git/svn/refs/remotes/git-svn-devel/.rev_map.bc3139a8-67e5-0310-9ffc-ced21a209358
>>>>  ...
>>>> r130219 = ac7399e64e2bc55497fd432e7731b231173eceba
>>>> Done rebuilding 
>>>> .git/svn/refs/remotes/git-svn-devel/.rev_map.bc3139a8-67e5-0310-9ffc-ced21a209358
>>>> W: Ignoring error from SVN, path probably does not exist: (160013): 
>>>> Filesystem has no item: 
>>>> '/bioconductor/!svn/rvr/130320/trunk/madman/Rpacks/cytofWorkflow' path not 
>>>> found
>>>> W: Do not be alarmed at the above message git-svn is just searching 
>>>> aggressively for old history.
>>>> This may take a while on large repositories
>>>> Current branch devel is up to date.
>>>> 
>>>> 
>>>> Please try the following steps. After that, make whatever changes you need 
>>>> to, and try the 
>>>> 
>>>> • `git merge master —log` to merge your changes from the master branch or 
>>>> skip this step and work directly on the current branch.
>>>> 
>>>> to sync and commit your changes to svn.
>>>> 
>>>> $ git svn dcommit --add-author-from 
>>>> 
>>>> 
>>>> 
>>>> Try that and let me know.
>>>> 
>>>> Best,
>>>> 
>>>> Nitesh
>>>> 
>>>> 
>>>>> On Aug 9, 2017, at 9:44 AM, Malgorzata Nowicka <gosia.nowi...@uzh.ch> 
>>>>> wrote:
>>>>> 
>>>>> Hello Nitesh, 
>>>>> 
>>>>> thank you for your response.
>>>>> 
>>>>> Following your steps, git snv rebase works, but I get an error at git svn 
>>>>> --username=m.nowicka dcommit --add-author-from step:
>>>>> 
>>>>> $ git clone https://github.com/gosianow/cytofWorkflow.git
>>>>> 
>>>>> $ curl -O 
>>>>> https://raw.githubusercontent.com/Bioconductor/mirror/master/update_remotes.sh
>>>>> 
>>>>> $ cd cytofWorkflow
>>>>> 
>>>>> $  bash ../update_remotes.sh
>>>>> 
>>>>> $ git remote remove bioc
>>>>> 
>>>>> $  git remote add bioc 
>>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>>> 
>>>>> $ git remote -v
>>>>> bioc      
>>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>>>  (fetch)
>>>>> bioc      
>>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>>>  (push)
>>>>> origin    https://github.com/gosianow/cytofWorkflow.git (fetch)
>>>>> origin    https://github.com/gosianow/cytofWorkflow.git (push)
>>>>> 
>>>>> $ git checkout devel
>>>>> Switched to branch '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 (1.9.1) of git-svn) does not exist.
>>>>> Done migrating from a git-svn v1 layout
>>>>> Rebuilding 
>>>>> .git/svn/refs/remotes/git-svn-devel/.rev_map.bc3139a8-67e5-0310-9ffc-ced21a209358
>>>>>  ...
>>>>> r130219 = ac7399e64e2bc55497fd432e7731b231173eceba
>>>>> Done rebuilding 
>>>>> .git/svn/refs/remotes/git-svn-devel/.rev_map.bc3139a8-67e5-0310-9ffc-ced21a209358
>>>>> W: Ignoring error from SVN, path probably does not exist: (160013): 
>>>>> Filesystem has no item: 
>>>>> '/bioconductor/!svn/rvr/130320/trunk/madman/Rpacks/cytofWorkflow' path 
>>>>> not found
>>>>> W: Do not be alarmed at the above message git-svn is just searching 
>>>>> aggressively for old history.
>>>>> This may take a while on large repositories
>>>>> Current branch devel is up to date.
>>>>> 
>>>>> 
>>>>> $ git merge master --log
>>>>> Updating ac7399e..24f8f34
>>>>> Fast-forward
>>>>> vignettes/cytofWorkflow.Rmd | 10 +++++-----
>>>>> 1 file changed, 5 insertions(+), 5 deletions(-)
>>>>> 
>>>>> $ git svn --username=m.nowicka dcommit --add-author-from
>>>>> Committing to 
>>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/cytofWorkflow 
>>>>> ...
>>>>>   M       vignettes/cytofWorkflow.Rmd
>>>>> 
>>>>> ERROR from SVN:
>>>>> URL access forbidden for unknown reason: Access to 
>>>>> '/bioconductor/!svn/txr/131862-4/trunk/madman/Rpacks/cytofWorkflow/vignettes/cytofWorkflow.Rmd'
>>>>>  forbidden: Additional errors:: PUT of 
>>>>> '/bioconductor/!svn/txr/131862-4/trunk/madman/Rpacks/cytofWorkflow/vignettes/cytofWorkflow.Rmd':
>>>>>  403 Forbidden
>>>>> W: 24f8f340d0c27d7475f4c10a08f641d23799acae and 
>>>>> refs/remotes/git-svn-devel differ, using rebase:
>>>>> :040000 040000 9c7bec20b6bdfa48a192b3116e4dc5ac84f62e49 
>>>>> 60724811228c0228ddd7d237321443220f5bb6cd M        vignettes
>>>>> Current branch devel is up to date.
>>>>> ERROR: Not all changes have been committed into SVN, however the committed
>>>>> ones (if any) seem to be successfully integrated into the working tree.
>>>>> Please see the above messages for details.
>>>>> 
>>>>> 
>>>>> $ git config -l
>>>>> filter.lfs.required=true
>>>>> filter.lfs.clean=git-lfs clean -- %f
>>>>> filter.lfs.smudge=git-lfs smudge -- %f
>>>>> filter.lfs.process=git-lfs filter-process
>>>>> user.name=Malgorzata Nowicka
>>>>> user.email=gosia.nowi...@uzh.ch
>>>>> push.default=matching
>>>>> filter.lfs.clean=git-lfs clean %f
>>>>> filter.lfs.smudge=git-lfs smudge %f
>>>>> filter.lfs.required=true
>>>>> core.editor=vim
>>>>> core.repositoryformatversion=0
>>>>> core.filemode=true
>>>>> core.bare=false
>>>>> core.logallrefupdates=true
>>>>> remote.origin.url=https://github.com/gosianow/cytofWorkflow.git
>>>>> remote.origin.fetch=+refs/heads/*:refs/remotes/origin/*
>>>>> branch.master.remote=origin
>>>>> branch.master.merge=refs/heads/master
>>>>> svn-remote.devel.url=https://hedgehog.fhcrc.org/bioconductor//trunk/madman/Rpacks/cytofWorkflow
>>>>> svn-remote.devel.fetch=:refs/remotes/git-svn-devel
>>>>> remote.bioc.url=https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>>> remote.bioc.fetch=+refs/heads/*:refs/remotes/bioc/*
>>>>> 
>>>>> 
>>>>>> On 8 Aug 2017, at 16:42, Turaga, Nitesh <nitesh.tur...@roswellpark.org> 
>>>>>> wrote:
>>>>>> 
>>>>>> Hi Gosia,
>>>>>> 
>>>>>> I tried to reproduce your error. But I’m not sure there have been any 
>>>>>> changes on either your Github repo, or your SVN. Both repositories are 
>>>>>> at the exact same location right now. 
>>>>>> 
>>>>>> Please try these commands on a “fresh” clone of your GitHub repo. 
>>>>>> 
>>>>>> $ git clone https://github.com/gosianow/cytofWorkflow.git
>>>>>> 
>>>>>> $ cd cytofWorkflow
>>>>>> 
>>>>>> $ git log
>>>>>> 
>>>>>> $ bash update_remotes.sh
>>>>>> 
>>>>>> $ git remote remove bioc
>>>>>> 
>>>>>> $ git remote add bioc 
>>>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>>>> 
>>>>>> $ git remote -v
>>>>>> 
>>>>>> bioc     
>>>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>>>>  (fetch)
>>>>>> bioc     
>>>>>> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/workflows/cytofWorkflow/
>>>>>>  (push)
>>>>>> origin   https://github.com/gosianow/cytofWorkflow.git (fetch)
>>>>>> origin   https://github.com/gosianow/cytofWorkflow.git (push)
>>>>>> 
>>>>>> $ git branch -a
>>>>>> 
>>>>>> devel
>>>>>> * master
>>>>>> remotes/git-svn-devel
>>>>>> remotes/origin/HEAD -> origin/master
>>>>>> remotes/origin/master
>>>>>> 
>>>>>> $ git checkout devel
>>>>>> 
>>>>>> /t/cytofWorkflow ❯❯❯ 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
>>>>>> Rebuilding 
>>>>>> .git/svn/refs/remotes/git-svn-devel/.rev_map.bc3139a8-67e5-0310-9ffc-ced21a209358
>>>>>>  ...
>>>>>> r130219 = ac7399e64e2bc55497fd432e7731b231173eceba
>>>>>> Done rebuilding 
>>>>>> .git/svn/refs/remotes/git-svn-devel/.rev_map.bc3139a8-67e5-0310-9ffc-ced21a209358
>>>>>> W: Ignoring error from SVN, path probably does not exist: (160013): 
>>>>>> Filesystem has no item: 
>>>>>> '/bioconductor/!svn/rvr/130320/trunk/madman/Rpacks/cytofWorkflow' path 
>>>>>> not found
>>>>>> W: Do not be alarmed at the above message git-svn is just searching 
>>>>>> aggressively for old history.
>>>>>> This may take a while on large repositories
>>>>>> Current branch devel is up to date.
>>>>>> 
>>>>>> 
>>>>>> Please try the following steps. After that, make whatever changes you 
>>>>>> need to, and try the 
>>>>>> 
>>>>>> • `git merge master —log` to merge your changes from the master branch 
>>>>>> or skip this step and work directly on the current branch.
>>>>>> 
>>>>>> to sync and commit your changes to svn.
>>>>>> 
>>>>>> $ git svn dcommit --add-author-from 
>>>>>> 
>>>>>> Best,
>>>>>> 
>>>>>> Nitesh
>>>>>> 
>>>>>>> On Jul 19, 2017, at 10:01 AM, Shepherd, Lori 
>>>>>>> <lori.sheph...@roswellpark.org> wrote:
>>>>>>> 
>>>>>>> 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.  If you are not the intended recipient(s), or the employee 
>>>>>>> or agent responsible for the delivery of this message to the intended 
>>>>>>> recipient(s), you are hereby notified that any disclosure, copying, 
>>>>>>> distribution, or use of this email message is prohibited.  If you have 
>>>>>>> received this message in error, please notify the sender immediately by 
>>>>>>> e-mail and delete this email message from your computer. Thank you.
>>>>>>>         [[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.  If you are not the intended recipient(s), or the employee 
>>>>>> or agent responsible for the delivery of this message to the intended 
>>>>>> recipient(s), you are hereby notified that any disclosure, copying, 
>>>>>> distribution, or use of this email message is prohibited.  If you have 
>>>>>> received this message in error, please notify the sender immediately by 
>>>>>> e-mail and delete this email message from your computer. Thank you.
>>>>> 
>>>> 
>>>> 
>>>> 
>>>> This email message may contain legally privileged and/or confidential 
>>>> information.  If you are not the intended recipient(s), or the employee or 
>>>> agent responsible for the delivery of this message to the intended 
>>>> recipient(s), you are hereby notified that any disclosure, copying, 
>>>> distribution, or use of this email message is prohibited.  If you have 
>>>> received this message in error, please notify the sender immediately by 
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>>> 
>> 
>> 
>> 
>> This email message may contain legally privileged and/or confidential 
>> information.  If you are not the intended recipient(s), or the employee or 
>> agent responsible for the delivery of this message to the intended 
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> 
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