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 < [email protected]> 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 >> >> http://bioconductor.org/checkResults/3.6/bioc-LATEST/metaseqR/ >> >> 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 ( >> https://github.com/pmoulos/metaseqR). >> >> I suppose I have correctly followed the instructions here ( >> http://bioconductor.org/developers/how-to/git/maintain-github-bioc/) >> since >> 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 > > following > > http://bioconductor.org/developers/how-to/git/push-to-github-bioc/ > > 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 [email protected]: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 <[email protected]> > 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@129129 > bc3139a8-67e5-0310-9ffc-ced21a209358 > > > > Martin > > >> Any suggestions are most welcome. Thanks in advance. >> >> Panagiotis >> >> > > 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. > -- *Panagiotis Moulos, PhD* *Post doctoral researcher in Bioinformatics,* *BSRC 'Alexander Fleming'* *Fleming 34, 16672, Vari, Greece* *Tel: +30 210 9656310, int. 240* *Skype: panos_mou* [[alternative HTML version deleted]] _______________________________________________ [email protected] mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
