Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-23 Thread Andreas Tille
Hi Olivier, On Tue, Mar 22, 2011 at 09:29:10AM +0100, Olivier Sallou wrote: > Thanks for your help at driving me for better/cleaner packaging That's a pleasure. We definitely save time compared if we would need to do all the packaging in a small team. So we try to involve more people and enlarg

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-22 Thread Olivier Sallou
Thanks for your help at driving me for better/cleaner packaging Olivier Le 3/22/11 12:44 AM, Charles Plessy a écrit : Le Mon, Mar 21, 2011 at 03:43:59PM +0100, Olivier Sallou a écrit : I have created a get-orig-source that strips out the file, and a patch 'debianpackaging' that updated the bui

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-21 Thread Charles Plessy
Le Mon, Mar 21, 2011 at 03:43:59PM +0100, Olivier Sallou a écrit : > > I have created a get-orig-source that strips out the file, and a > patch 'debianpackaging' that updated the build related files to > remove tests on the file. Dear Olivier, thank you very much for all your efforts and your pe

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-21 Thread Olivier Sallou
Hi, I have created a get-orig-source that strips out the file, and a patch 'debianpackaging' that updated the build related files to remove tests on the file. Ran in "trunk", it creates a new orig.tar.gz in tarballs (used other examples in svn) Olivier Le 3/21/11 1:15 PM, Andreas Tille a

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-21 Thread Olivier Sallou
ok , I gonna update to add a get-orig source to remove file and keep patch to remove tests on file. I will let you know Olivier Le 3/21/11 1:44 PM, Andreas Tille a écrit : On Mon, Mar 21, 2011 at 01:19:16PM +0100, Olivier Sallou wrote: this is done in a patch debianpackaging, should it be st

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-21 Thread Andreas Tille
On Mon, Mar 21, 2011 at 01:19:16PM +0100, Olivier Sallou wrote: > this is done in a patch debianpackaging, should it be stripped directly > via a get-orig-source? > I do not manage souce myself, I just do the packaging. Sure. But if the file in the source tarball is non-distributable regarding

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-21 Thread Olivier Sallou
This should be ok now. I tested installed packages, man pages etc.. Copyright issue is fixed (at least worarounded). Thanks for your help Olivier Le 3/21/11 12:32 PM, Andreas Tille a écrit : On Mon, Mar 21, 2011 at 11:07:31AM +0100, Olivier Sallou wrote: I just have an issue with my lintian

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-21 Thread Andreas Tille
On Mon, Mar 21, 2011 at 11:07:31AM +0100, Olivier Sallou wrote: > I just have an issue with my lintian override I cannot make work (W: > libsquizz: package-name-doesnt-match-sonames libbioali0 libbioseq0) > My override is not taken into account. I tried many things but there is > certainly some

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-21 Thread Olivier Sallou
Hi, I have updated and patched squizz to remove licensed file (used for testing) I have packages: squizz, libsquizz and libsquizz-dev. I kept libraries in a single package as it does not really make sense to separate them. I just have an issue with my lintian override I cannot make work (W: li

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-21 Thread Charles Plessy
Le Mon, Mar 21, 2011 at 09:39:14AM +0100, Olivier Sallou a écrit : > > 1) How did you find license issues ? (manual parse of all files?) > > 2) Regarding symbol file, how did you generate it ? (could help for > further work) Hi Olivier, to check for license issues, I usually use commands like “

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-21 Thread Olivier Sallou
Hi Charles, I have a question regarding your work: 1) How did you find license issues ? (manual parse of all files?) 2) Regarding symbol file, how did you generate it ? (could help for further work) Thanks Olivier Le 3/19/11 7:39 AM, Charles Plessy a écrit : Le Fri, Mar 18, 2011 at 06:32:0

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-18 Thread Charles Plessy
Le Fri, Mar 18, 2011 at 06:32:05PM +0100, Olivier Sallou a écrit : > > I could also create (sub)binary packages with package name libbioseq > and libbioali, but I don't think it is acceptable to use several > packages names (not like squizz-xxx). My control file would have > source package squizz

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-18 Thread Andreas Tille
On Fri, Mar 18, 2011 at 06:32:05PM +0100, Olivier Sallou wrote: > Hi Andreas, > I am splitting squizz in packages squizz (binary), libsquizz and > libsquizz-dev as you proposed. > > I have an "issue" though, the generated libs (libsquizz) by the tool are > libbioseq and libbioali, not some libs

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-18 Thread Olivier Sallou
Hi Andreas, I am splitting squizz in packages squizz (binary), libsquizz and libsquizz-dev as you proposed. I have an "issue" though, the generated libs (libsquizz) by the tool are libbioseq and libbioali, not some libsquizz-bioseq kind. This raise a Warn in lintian. Should I change the "ma

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-18 Thread Andreas Tille
Hi Olivier, thanks for working on this package. (I actually have the impression that Travemünde triggered some kind of competition who might package the highest number of new packages. ;-)) I had a look into the packaging and I think it might work this way but the existence of the libs leaves so

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-18 Thread Olivier Sallou
Hi, squizz is packaged on SVN and has been tested in my config (and pbuilder too). Can someone check it and upload it, if ok ;-) Thanks Olivier Le 3/17/11 8:47 PM, Andreas Tille a écrit : Hi Olivier, thanks for keeping us informed - tasks page will be updated after next cron run Andre

Re: Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-17 Thread Andreas Tille
Hi Olivier, thanks for keeping us informed - tasks page will be updated after next cron run Andreas. On Thu, Mar 17, 2011 at 05:56:23PM +0100, Olivier Sallou wrote: > Package: wnpp > Severity: wishlist > X-Debbugs-CC: debian-med@lists.debian.org > > Maintainer: Olivier Sallou > Language: C >

Bug#618689: ITP: squizz bioinformatics sequence converter tool

2011-03-17 Thread Olivier Sallou
Package: wnpp Severity: wishlist X-Debbugs-CC: debian-med@lists.debian.org Maintainer: Olivier Sallou Language: C License: GNU v2 Upstream Author: Nicolas Joly Homepage: ftp://ftp.pasteur.fr/pub/gensoft/projects/squizz/ Description: Squizz is a sequence/alignment format checker, but it has so