Re: Trouble with ensembl preconditions

2012-01-09 Thread Andreas Tille
On Mon, Jan 09, 2012 at 07:39:07AM +0800, Richard Holland wrote: libwww-perl-5.808 is a really nasty hack (it breaks an awful lot of other stuff if it is installed) and in an ideal world we wanted to avoid having to install it at all. To be honest I'm not sure how we got it to work in the

Re: clinica_0.2.1-1_amd64.changes REJECTED

2012-01-09 Thread Leonardo Robol
On Sun, 8 Jan 2012 15:39:13 +0100 Andreas Tille andr...@an3as.eu wrote: I checked out clinica from scratch using debcheckout but this did not changed anything. I guess the original upstream source remained the same (featuring the waf problem ftpmaster was concerned about) I've tried fixing

Cufflinks and locfit's problems

2012-01-09 Thread Alex Mestiashvili
I'm writing to you on behalf of Debian Med, an internal team of the Debian GNU/Linux distribution which tries to make Debian prepared best for use in medicine and biology. We created a Debian package [0] of cufflinks but realized that we can not put it to the official repository because of

Re: clinica_0.2.1-1_amd64.changes REJECTED

2012-01-09 Thread Charles Plessy
Le Sun, Jan 08, 2012 at 03:39:13PM +0100, Andreas Tille a écrit : I checked out clinica from scratch using debcheckout but this did not changed anything. I guess the original upstream source remained the same (featuring the waf problem ftpmaster was concerned about). Hi Andreas and

Re: clinica_0.2.1-1_amd64.changes REJECTED

2012-01-09 Thread Andreas Tille
On Mon, Jan 09, 2012 at 08:08:29PM +0900, Charles Plessy wrote: indeed, the problem is rather that the files that are checked in the repository, and the files that are in the upstream archive downloaded by uscan, do not match. Probably the archive that was checked in the repository was

Re: [Sra-tools] Dynamic linking of sra-toolkit version 2.1.3 and above.

2012-01-09 Thread SRA Toolkit Development Group
Hello Charles, Can you be more specific? There was no intentional loss of dynamic linking, and we still build our system dynamically. Waiting for your response, SRA Toolkit Team. At 1:33 AM -0500 1/9/12, Charles Plessy wrote: Dear SRA Toolkit team, I am attempting to upgrade our Debian

Re: [Sra-tools] Dynamic linking of sra-toolkit version 2.1.3 and above.

2012-01-09 Thread Charles Plessy
Le Mon, Jan 09, 2012 at 07:49:09AM -0500, SRA Toolkit Development Group a écrit : Can you be more specific? There was no intentional loss of dynamic linking, and we still build our system dynamically. The following commands give me different results on 2.1.2 and 2.1.3. make dynamic

Re: clinica_0.2.1-1_amd64.changes REJECTED

2012-01-09 Thread Charles Plessy
Le Mon, Jan 09, 2012 at 12:21:16PM +0100, Andreas Tille a écrit : it was repackages as required by ftpmaster. Even if it might be fine now because git-buildpackage works and is able to create the pristine tarball it is not the very best idea to have a different tarball without having a

Re: clinica_0.2.1-1_amd64.changes REJECTED

2012-01-09 Thread Andreas Tille
On Mon, Jan 09, 2012 at 11:32:59PM +0900, Charles Plessy wrote: I would also suggest to change its version number, for instance by adding ‘~dfsg’. http://www.debian.org/doc/manuals/developers-reference/best-pkging-practices#repackagedorigtargz Sounds reasonable. git-buildpackage

Re: clinica_0.2.1-1_amd64.changes REJECTED

2012-01-09 Thread Charles Plessy
Le Mon, Jan 09, 2012 at 03:51:14PM +0100, Andreas Tille a écrit : git-buildpackage --debsign-k Andreas Tille ti...@debian.org It is even simpler: git-buildpackage -k Andreas Tille ti...@debian.org -- Charles -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a

Re: Cufflinks and locfit's problems

2012-01-09 Thread Alex Mestiashvili
Dear Cole , I tried to contact both Catherine Loader and Jiayang Sun . Catherine seems to be not reachable and Jiayang couldn't help me with license questions . Thank you for the cooperation, Alex On 01/09/2012 02:42 PM, Cole Trapnell wrote: Hi Alex, Thanks for the update. Thanks for

Re: [Sra-tools] Dynamic linking of sra-toolkit version 2.1.3 and above.

2012-01-09 Thread SRA Toolkit Development Group
We did make a change of default target from release to pubtools, where the latter is forcefully static. If you have already performed a build, you may want to make clean before anything else. The steps to put things back to normal would be: $ make release dynamic and then things should be

Re: Package available (was Re: Micro Manager)

2012-01-09 Thread Steffen Möller
Hi Mark, It is great to see Fiji approaching On 01/07/2012 02:31 PM, Mark Longair wrote: I was very happy about your proposal to start a rearrangement of Fiji that is DFSG compliant. In parallel to that, I would like to discuss the possibility to upload more or less what you have with

Re: Droping med-doc?

2012-01-09 Thread Thorsten Alteholz
On Sun, 8 Jan 2012, Andreas Tille wrote: I finally came to the conclusion that it makes no sense to pretend having a documentation package if it is not maintained at all. I guess the contentes should better go to some kind of Wiki. So up, up and away

Re: Droping med-doc?

2012-01-09 Thread Andreas Tille
Hi, On Mon, Jan 09, 2012 at 07:51:17PM +0100, Thorsten Alteholz wrote: On Sun, 8 Jan 2012, Andreas Tille wrote: I finally came to the conclusion that it makes no sense to pretend having a documentation package if it is not maintained at all. I guess