Re: [Bioc-devel] EXTERNAL: Unexpected message when using 'git commit'

2017-10-16 Thread cstrato
Dear Turaga, Thank you for your reply. This is exactly the problem which I do not understand. I did NOT add "rabbitus@lumimacs-iMac.local” as my email. This was done automatically when I called 'git commit'. The message says: Your name and email address were configured automatically based on

Re: [Bioc-devel] EXTERNAL: Unexpected message when using 'git commit'

2017-10-16 Thread Turaga, Nitesh
Hi Your email and username, need to be the same as your Github ID. I’m not sure why you are trying to add "rabbitus@lumimacs-iMac.local” as your email and username. Could you please explain that? > On Oct 16, 2017, at 4:07 PM, cstrato wrote: > > Dear All, > > When I first did: > > $

[Bioc-devel] Unexpected message when using 'git commit'

2017-10-16 Thread cstrato
Dear All, When I first did: $ git commit -m "update for configure.in" everything seemed to be ok. However, the next day when I tried once again to run 'git commit' I got the following message: $ git commit -m "update for configure.in" [master 7a9855f] update for configure.in Committer: ra

Re: [Bioc-devel] EXTERNAL: Permission Denied when pushing to bioc repo

2017-10-16 Thread Turaga, Nitesh
Yes, you should have received an email with that ID. > On Oct 16, 2017, at 2:37 PM, Thomas Sherman wrote: > > Thank you so much for the help, everything works now. > > I was not aware of my SVN ID, was that assigned when I submitted the package? > > Fro

Re: [Bioc-devel] EXTERNAL: Issues of package updating

2017-10-16 Thread Shepherd, Lori
The packages have moved from svn repository to git; And has been announced on the support site, mailing list, and website. Please follow the instructions for updating your package on the g...@git.bioconductor.org server : http://bioconductor.org/developers/how-to/git/ Lori Shepherd Biocon

[Bioc-devel] Issues of package updating

2017-10-16 Thread Tsu-Pei Chiu (Lester)
Hi Bioconductor team, We recently published a NAR paper (as the link below) and would like to update our Bioconduction tool: DNAshapeR. https://academic.oup.com/nar/article/4430925/Genome-wide-pre diction-of-minor-groove I followed the instructions and updated our package on https://hedgehog.fhcr

Re: [Bioc-devel] EXTERNAL: Re: Cannot move 'xps' to GIT

2017-10-16 Thread cstrato
Dear Martin, Thank you for this clarification. I must admit that I did not realize that there exists now a 'git log' Snapshot Date, since usually the information: 'This page was generated on 2017-10-15 16:06:50 -0400 (Sun, 15 Oct 2017)' was sufficient for me. Best regards, Christian P.S.: Si

Re: [Bioc-devel] EXTERNAL: Permission Denied when pushing to bioc repo

2017-10-16 Thread Turaga, Nitesh
Hi, Your SVN ID is t.sherman, you did not submit that in the google form. That is why you did not get access to your package, till now. For now, I’ve changed it to accept your current key. You should have access now. Please try again. Nitesh > On Oct 16, 2017, at 2:17 PM, Thomas Sherman wr

Re: [Bioc-devel] EXTERNAL: Re: failing Bioconductor Package groHMM

2017-10-16 Thread Anusha Nagari
Hi Hervé, Thanks for your suggestion. I am building the package to test and fix any errors on our redhat linux cluster. However, I am unable to fix the following error: Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, : unable to run 'pdflatex' on 'groHMM.tex' Calls:

[Bioc-devel] Permission Denied when pushing to bioc repo

2017-10-16 Thread Thomas Sherman
Hello, I am a developer of the RVS package (https://bioconductor.org/packages/devel/bioc/html/RVS.html). I am having trouble pushing my changes to the Bioconductor repository. I submitted my github account (sherman5) which has the ssh key I'm trying to use. I've also submitted this key expli

Re: [Bioc-devel] Unnecessary NOTE in BiocCheck

2017-10-16 Thread Vincent Carey
Maybe it is OK -- because when it is run centrally on the privileged build system, the check will succeed, no "note", and on a local system, it will "fail" provoking the note. Perhaps a condition could be added in BiocCheck to avoid this. On Mon, Oct 16, 2017 at 8:01 AM, Lucas Schiffer wrote: >

[Bioc-devel] Unnecessary NOTE in BiocCheck

2017-10-16 Thread Lucas Schiffer
* Checking for bioc-devel mailing list subscription... * NOTE: Cannot determine whether maintainer is subscribed to the bioc-devel mailing list (requires admin credentials). Subscribe here: https://stat.ethz.ch/mailman/listinfo/bioc-devel The NOTE above appears when running BiocCheck

[Bioc-devel] can't reproduce error message from build report

2017-10-16 Thread Sitte, Maren
Dear Bioconductor team, at the moment i try ty update the developer version of the package "pwOmics". It passes the BUILD report on the Linux and Windows server (and also locally on my Linux computer). But from the OS X server I got an error message "Error in texi2dvi(file = file, pdf = TRUE, cl

[Bioc-devel] Package missing from the latest build report?

2017-10-16 Thread Stian Lågstad
I've recently pushed some changes to chimeraviz ( https://bioconductor.org/packages/devel/bioc/html/chimeraviz.html) and I was waiting to see that the next build turned out alright, but now it looks like chimeraviz is missing from the list at http://bioconductor.org/checkResults/devel/bioc-LATEST/.