[Bioc-devel] Package not updated in build system from github
moulos at fleming.gr
Fri Aug 25 14:51:02 CEST 2017
Thank you Martin! I had missed that part. Indeed maybe you can update the
instructions for non-git masters (like me).
On Fri, Aug 25, 2017 at 1:14 PM, Martin Morgan <
martin.morgan at roswellpark.org> wrote:
> On 08/25/2017 03:36 AM, Panagiotis Moulos wrote:
>> Dear all,
>> For some time now, my package metaseqR fails to pass the checks at the
>> build system
>> Although I am not sure I understand the source of the problem (all is well
>> in my local systems),
>> "Error : object ‘vsn’ is not exported by 'namespace:vsn'"
>> I tried a couple of fixes to see if the problem goes away. However, it
>> seems that the package is not updated in the build system, although I
>> bumped the "z" version from x.y.z (1.17.0 to 1.17.2) for some time now (
>> I suppose I have correctly followed the instructions here (
>> I didn't receive any errors/warnings and all seem ok in the repository.
> The scenario describes how to establish the git repo. Once established,
> you need to push changes to github
> git push origin master
> (I guess you've already done that) and to bioconductor
> git push upstream master
> I'll update the instructions in this scenario to make this clear.
> One way of seeing recent commits is to make a temporary 'shallow' clone of
> the repository
> The are no changes in Bioconductor's git. You can quickly see the last
> commit by changing to a separate directory and
> /tmp$ git clone --depth 1 git at git.bioconductor.org:packages/metaseqR
> Cloning into 'metaseqR'...
> remote: Counting objects: 173, done.
> remote: Compressing objects: 100% (170/170), done.
> remote: Total 173 (delta 17), reused 0 (delta 0)
> Receiving objects: 100% (173/173), 1.41 MiB | 2.56 MiB/s, done.
> Resolving deltas: 100% (17/17), done.
> Checking connectivity... done.
> /tmp$ cd metaseqR/
> tmp/metaseqR$ git log --all
> commit c531533fe9ebb7918e79d4ef09d8c694737379b9
> Author: Herve Pages <hpages at fhcrc.org>
> Date: Mon Apr 24 19:50:57 2017 +0000
> bump x.y.z versions to odd y after creation of 3_5 branch
> git-svn-id: file:///home/git/hedgehog.fhcr
> c.org/bioconductor/trunk/madman/Rpacks/metaseqR at 129129
>> Any suggestions are most welcome. Thanks in advance.
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*Panagiotis Moulos, PhD*
*Post doctoral researcher in Bioinformatics,*
*BSRC 'Alexander Fleming'*
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