libquazip 0.5.0
Hi, I'm working on the libquazip package to upgrade it to the new 0.5.0 upstream. The watch file needs an update as the schema is when version ends with .0 -> remove it actually the watchfile contains http://sf.net/quazip/quazip-(.+)\.(?:tar\.gz) but how can I remove the .0, should I remove it from the changelog (0.5-1) or is there a way to correctly write the watchfile ? 0.5.0 url http://sourceforge.net/projects/quazip/files/quazip/0.5/quazip-0.5.tar.gz/download Thanks Eric -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/CAJ_Xb5d=waxn9rlape773vu1ugmd_czh78+s9xmxfdcq3gb...@mail.gmail.com
Re: Bug#694632: Bug#684039: Bug#694632: Bug#684039: ITP: prime-phylo -- Bayesian estimation of gene trees taking the species tree into account
I think the documentation http://debian-med.alioth.debian.org/docs/policy.html was not so clear about how to handle a new upstream release. Anyway when I also found http://wiki.debian.org/Games/VCS/git#Adding_a_new_upstream_release I came to the conclusion that I needed to run "git import-orig --pristine-tar" again. erik@linux:~$ wget --quiet http://prime.sbc.su.se/download/prime-phylo-1.0.11.tar.gz erik@linux:~$ cd prime-phylo erik@linux:~/prime-phylo$ git branch * master pristine-tar upstream erik@linux:~/prime-phylo$ git import-orig --pristine-tar ../prime-phylo-1.0.11.tar.gz What is the upstream version? [1.0.11] gbp:info: Importing '../prime-phylo-1.0.11.tar.gz' to branch 'upstream'... gbp:info: Source package is prime-phylo gbp:info: Upstream version is 1.0.11 pristine-tar: committed prime-phylo_1.0.11.orig.tar.gz.delta to branch pristine-tar gbp:info: Merging to 'master' Merge made by the 'recursive' strategy. gbp:info: Successfully imported version 1.0.11 of ../prime-phylo-1.0.11.tar.gz erik@linux:~/prime-phylo$ git push --all Enter passphrase for key '/home/erik/.ssh/id_rsa': Counting objects: 25, done. Delta compression using up to 6 threads. Compressing objects: 100% (14/14), done. Writing objects: 100% (15/15), 19.70 KiB, done. Total 15 (delta 7), reused 0 (delta 0) To git+ssh://git.debian.org/git/debian-med/prime-phylo.git 9785bae..1f18d28 master -> master 3e85ea5..8183c10 pristine-tar -> pristine-tar d895eb7..0ad54f6 upstream -> upstream erik@linux:~/prime-phylo$ git push --tags Enter passphrase for key '/home/erik/.ssh/id_rsa': Counting objects: 1, done. Writing objects: 100% (1/1), 184 bytes, done. Total 1 (delta 0), reused 0 (delta 0) cheers, Erik On Mon, Dec 17, 2012 at 5:26 PM, Andreas Tille wrote: > On Mon, Dec 17, 2012 at 05:24:00PM +0100, Erik Sjölund wrote: >> How do I upload the new source code release into git.debian.org? >http://debian-med.alioth.debian.org/docs/policy.html > > Seek for pristine-tar. > -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/cab+1q0s6prx3o6weqlbzj9yzmvaazi3eznkhnygvymuvrth...@mail.gmail.com
Re: Researcher and technician positions open at RIKEN in Japan.
Le Fri, Dec 14, 2012 at 05:10:06PM -0800, George Marselis a écrit : > Wow. Do they need sysadmins, as well? Hi George, the positions that are not attached to a research project will be the subject of another open call later. I will also forward it. Have a nice day, -- Charles -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218103507.gf23...@falafel.plessy.net
Re: mialmpick upload
Hello Andreas, On 12/17/12 21:44, Andreas Tille wrote: Hi Gert, On Mon, Dec 17, 2012 at 04:13:07PM +0100, Gert Wollny wrote: debian/copyright: please git pull (to get the result of cme fix dpkg-copyright ) Also add a "Files: debian/*" section (even if it might seem a bit redundant because you are upstream and Debian maintainer in one person.) Added. debian/watch: $ uscan --verbose --report -- Scanning for watchfiles in . -- Found watchfile in ./debian -- In debian/watch, processing watchfile line: http://sf.net/mia/mialmpick-(.+)\.tar\.xz -- Found the following matching hrefs: mialmpick-0.2.5.tar.xz Newest version on remote site is 0.2.5, local version is 0.2.6 => remote site does not even have current version -- Scan finished May I borrow your time travel device? ;-) I wish I had one, turns out someone installed a time delay device on one of the servers- i.e. "uscane --verbose --debug --report" showed that the used lookup data base was only updated one hour before I uploaded the new release. Now the data base is up-to-date and the release shows up. Best Gert -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/50d04b20.1040...@gmail.com
Re: MIA upload
Hello Andreas, On 12/17/12 21:38, Andreas Tille wrote: Fine. Package is uploaded. Please `git pull` for my latest change to use xz compression - the dbg packages are quite large and using xz makes some difference here. Good to know how this can be done :) Thanks, for the help. Since the two remaining packages of this bulk depend on this one I will wait with the upload until it is available from the repro. Best Gert -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/50d04c52.10...@gmail.com
Re: libquazip 0.5.0
Svn commited 0.5.0 (tested) Eric 2012/12/18 Eric Maeker : > Hi, > > I'm working on the libquazip package to upgrade it to the new 0.5.0 upstream. > The watch file needs an update as the schema is > > when version ends with .0 -> remove it > > actually the watchfile contains > > http://sf.net/quazip/quazip-(.+)\.(?:tar\.gz) > > but how can I remove the .0, should I remove it from the changelog > (0.5-1) or is there a way to correctly write the watchfile ? > > 0.5.0 url > > http://sourceforge.net/projects/quazip/files/quazip/0.5/quazip-0.5.tar.gz/download > > Thanks > Eric -- Eric Maeker, MD (FR) http://www.freemedforms.com/ http://www.ericmaeker.fr/ -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/CAJ_Xb5d1ujZGxteFe7BjoaL=hr0srofpgw+u3ergg0hoq8d...@mail.gmail.com
Bug#696233: ITP: cdbfasta -- Fasta file indexing and retrieval tool
Package: wnpp Severity: wishlist Owner: Andreas Tille * Package name: cdbfasta Version : 0.99 Upstream Author : Geo Pertea * URL : http://cdbfasta.sourceforge.net/ * License : Public Domain due to private mail Programming Lang: C++ Description : Fasta file indexing and retrieval tool CDB (Constant DataBase) can be used for creating indices for quick retrieval of any particular sequences from large multi-FASTA files. It has the option to compress data records in order to save space. The packaging will be done in Debian Med team and is available at Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/cdbfasta/trunk/ -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218132013.19619.10727.report...@mail.an3as.eu
Re: Bug#694632: Bug#684039: Bug#694632: Bug#684039: ITP: prime-phylo -- Bayesian estimation of gene trees taking the species tree into account
Hi Erik, On Tue, Dec 18, 2012 at 10:06:15AM +0100, Erik Sjölund wrote: > I think the documentation > > http://debian-med.alioth.debian.org/docs/policy.html > > was not so clear about how to handle a new upstream release. Anyway > when I also found > > http://wiki.debian.org/Games/VCS/git#Adding_a_new_upstream_release > > I came to the conclusion that I needed to run > > "git import-orig --pristine-tar" > > again. Yes, in dead. We would be happy about any patch to the Debian Med policy that might5 make this more clear. Sometimes it is hard to describe things which are clear to the people who are comfortable with the procedure to describe it for newcomers - so any hint is welcome. > ... > erik@linux:~/prime-phylo$ git push --tags > Enter passphrase for key '/home/erik/.ssh/id_rsa': > Counting objects: 1, done. > Writing objects: 100% (1/1), 184 bytes, done. > Total 1 (delta 0), reused 0 (delta 0) This worked for me. So the package is in principle ready for uploading with the one minor exception that the ITP bug is closed in some previous version and not the latest to be uploaded one. If you ask me I would simply strip the changelog to prime-phylo (1.0.11-1) unstable; urgency=low * Initial release (Closes: #684039) -- Erik Sjolund Mon, 17 Dec 2012 14:11:13 +0100 by simply droping the detailed pre-Debian upload history which is not relevant for the *debian/*changelog. Usually ftpmasters are a bit disturbed about longish and for them uninteresting history and finally we do have the data inside Git repository anyway. In case you insist in keeping the longish changelog (which would be fine for me if you might have your personal preference) I would move the Closes statement just up to the latest changelog entry. However, in this case we should change the target distribution from "unstable" to "UNRELEASED" to make pretty clear that these versions never have hit the Debian mirrors. Please either change it in the way of your choice or tell me what you prefer and I'll do the change and upload. Thanks for preparing the package Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218133053.ga19...@an3as.eu
Re: libquazip 0.5.0
On Tue, Dec 18, 2012 at 01:22:21PM +0100, Eric Maeker wrote: > Svn commited 0.5.0 (tested) Thanks. Uploaded with some nitpicking changes. Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218143141.gb19...@an3as.eu
Anybody up for packaging OpenIGTLink?
Hi, I'm lurking on Fedora Medical list and I think this is also something for us. Any volunteer? Kind regards Andreas. - Forwarded message from Mario Ceresa - Date: Mon, 17 Dec 2012 18:04:24 +0100 From: Mario Ceresa To: Development discussions related to Fedora , FedoraMedical Subject: Review swap openigtlink - [Fedora Medical] Hi, I'm packaging OpenIGTLink (http://openigtlink.org/) and I'd like to swap reviews: https://bugzilla.redhat.com/show_bug.cgi?id=887911 Thanks, Mario ___ Medical-sig mailing list medical-...@lists.fedorahosted.org https://lists.fedorahosted.org/mailman/listinfo/medical-sig - End forwarded message - -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218151355.gc19...@an3as.eu
Re: Bug#684039: Bug#694632: Bug#684039: Bug#694632: Bug#684039: ITP: prime-phylo -- Bayesian estimation of gene trees taking the species tree into account
On Tue, Dec 18, 2012 at 2:30 PM, Andreas Tille wrote: > Sometimes it is hard to > describe things which are clear to the people who are comfortable with > the procedure to describe it for newcomers - so any hint is welcome. I understand. I'll think about it... > > If you ask me I would > simply strip the changelog to > > > prime-phylo (1.0.11-1) unstable; urgency=low > > * Initial release (Closes: #684039) > > -- Erik Sjolund Mon, 17 Dec 2012 14:11:13 +0100 > > I followed your suggestion (i.e. stripping the changelog). cheers, Erik -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/CAB+1q0TJ5-Mge17wM=uuh40o9d55uc2+hgsqydeb6gtsunc...@mail.gmail.com
Re: Anybody up for packaging OpenIGTLink?
Already done. http://packages.qa.debian.org/o/openigtlink.html On Tue, Dec 18, 2012 at 10:13 AM, Andreas Tille wrote: > Hi, > > I'm lurking on Fedora Medical list and I think this is also something > for us. Any volunteer? > > Kind regards > > Andreas. > > - Forwarded message from Mario Ceresa - > > Date: Mon, 17 Dec 2012 18:04:24 +0100 > From: Mario Ceresa > To: Development discussions related to Fedora < > de...@lists.fedoraproject.org>, > FedoraMedical > Subject: Review swap openigtlink - [Fedora Medical] > > Hi, I'm packaging OpenIGTLink (http://openigtlink.org/) and I'd like > to swap reviews: > https://bugzilla.redhat.com/show_bug.cgi?id=887911 > > Thanks, > > Mario > ___ > Medical-sig mailing list > medical-...@lists.fedorahosted.org > https://lists.fedorahosted.org/mailman/listinfo/medical-sig > > - End forwarded message - > > -- > http://fam-tille.de > > > -- > To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org > with a subject of "unsubscribe". Trouble? Contact > listmas...@lists.debian.org > Archive: http://lists.debian.org/20121218151355.gc19...@an3as.eu > >
Re: Anybody up for packaging OpenIGTLink?
Hi Dominique, On Tue, Dec 18, 2012 at 10:20:11AM -0500, Dominique Belhachemi wrote: > Already done. > http://packages.qa.debian.org/o/openigtlink.html > > > > Hi, I'm packaging OpenIGTLink (http://openigtlink.org/) and I'd like Great. I have added Depends: libopenigtlink1-dev to imaging-dev. It would be wonderfull if people would verify *immediately* whether our tasks might lack other packages I simply do not know. I'm about to prepare metapackages for Wheezy - it would be to bad if we miss something. Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218153739.gd19...@an3as.eu
Re: Bug#694632: Bug#684039: ITP: prime-phylo -- Bayesian estimation of gene trees taking the species tree into account
Hi Erik On Tue, Dec 18, 2012 at 04:18:26PM +0100, Erik Sjölund wrote: > On Tue, Dec 18, 2012 at 2:30 PM, Andreas Tille wrote: > > Sometimes it is hard to > > describe things which are clear to the people who are comfortable with > > the procedure to describe it for newcomers - so any hint is welcome. > > I understand. I'll think about it... This would be great. > > prime-phylo (1.0.11-1) unstable; urgency=low > > > > * Initial release (Closes: #684039) > > > > -- Erik Sjolund Mon, 17 Dec 2012 14:11:13 +0100 > > > > > > I followed your suggestion (i.e. stripping the changelog). Thanks and uploaded. BTW, in the Debian Med team we did not formalised the sponsering process via filing RFS bugs (for no specific reason - it just worked without this.) I'm just not comfortable with the procedure and do not know where and when to close this RFS bug. If it should have been done in the changelog as well I just missed this. If its done by the sponsee please do so - if the sponsor is expected to close it just tell me to do so. Kind regards and thanks for your work on the package Andreas. PS: Please let us know whether you are subscribed to the list - I would stop CCing you in this case (and you can definitely remove me from CCs and rather use list-reply.) -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218155314.ge19...@an3as.eu
Re: Bug#696233: ITP: cdbfasta -- Fasta file indexing and retrieval tool
Hi Tim, IMHO SVN is ready for upload. Please checkout whether you do see any conflicts with BioLinux or whether you might backport any other changes. Kind regards Andreas. On Tue, Dec 18, 2012 at 02:20:13PM +0100, Andreas Tille wrote: > Package: wnpp > Severity: wishlist > Owner: Andreas Tille > > * Package name: cdbfasta > Version : 0.99 > Upstream Author : Geo Pertea > * URL : http://cdbfasta.sourceforge.net/ > * License : Public Domain due to private mail > Programming Lang: C++ > Description : Fasta file indexing and retrieval tool > CDB (Constant DataBase) can be used for creating indices for quick > retrieval of any particular sequences from large multi-FASTA files. > It has the option to compress data records in order to save space. > > The packaging will be done in Debian Med team and is available at > Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/cdbfasta/trunk/ > > > -- > To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org > with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org > Archive: > http://lists.debian.org/20121218132013.19619.10727.report...@mail.an3as.eu > > -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218160034.gf19...@an3as.eu
Re: Bug#684039: Bug#694632: Bug#684039: ITP: prime-phylo -- Bayesian estimation of gene trees taking the species tree into account
On Tue, Dec 18, 2012 at 4:53 PM, Andreas Tille wrote: > Thanks and uploaded. Thanks a lot. > > BTW, in the Debian Med team we did not formalised the sponsering process > via filing RFS bugs (for no specific reason - it just worked without > this.) Good to know. > PS: Please let us know whether you are subscribed to the list - I would > stop CCing you in this case (and you can definitely remove me from CCs > and rather use list-reply.) I am now subscribed to debian-med@lists.debian.org cheers, Erik -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/cab+1q0tg2aemokn7wy2pquy4asqt-9uriwc7lecojaqhjt4...@mail.gmail.com
Re: Bug#696233: ITP: cdbfasta -- Fasta file indexing and retrieval tool
Hi Andreas, I've pulled all changes and it looks good. No more of that messy backporting for a while, you'll be glad to hear, as I'm now on Ubuntu 12.04 and most things are in sync with Debian - but I'm sure that new incompatibilities will rapidly appear in the next Debian release cycle. My version numbering is still out of whack but everything else is in my package is now the same. Cheers, TIM On Tue, 2012-12-18 at 16:00 +, Andreas Tille wrote: > Hi Tim, > > IMHO SVN is ready for upload. Please checkout whether you do see any > conflicts with BioLinux or whether you might backport any other changes. > > Kind regards > > Andreas. > > On Tue, Dec 18, 2012 at 02:20:13PM +0100, Andreas Tille wrote: > > Package: wnpp > > Severity: wishlist > > Owner: Andreas Tille > > > > * Package name: cdbfasta > > Version : 0.99 > > Upstream Author : Geo Pertea > > * URL : http://cdbfasta.sourceforge.net/ > > * License : Public Domain due to private mail > > Programming Lang: C++ > > Description : Fasta file indexing and retrieval tool > > CDB (Constant DataBase) can be used for creating indices for quick > > retrieval of any particular sequences from large multi-FASTA files. > > It has the option to compress data records in order to save space. > > > > The packaging will be done in Debian Med team and is available at > > Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/cdbfasta/trunk/ > > > > > > -- > > To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org > > with a subject of "unsubscribe". Trouble? Contact > > listmas...@lists.debian.org > > Archive: > > http://lists.debian.org/20121218132013.19619.10727.report...@mail.an3as.eu > > > > > -- Tim Booth NERC Environmental Bioinformatics Centre Centre for Ecology and Hydrology Maclean Bldg, Benson Lane Crowmarsh Gifford Wallingford, England OX10 8BB http://nebc.nerc.ac.uk +44 1491 69 2705 -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/1355847878.10304.141.camel@balisaur
Re: Bug#696233: ITP: cdbfasta -- Fasta file indexing and retrieval tool
Hi Tim, On Tue, Dec 18, 2012 at 04:24:38PM +, Tim Booth wrote: > I've pulled all changes and it looks good. Fine and thus uploaded to unstable. > No more of that messy > backporting for a while, you'll be glad to hear, as I'm now on Ubuntu > 12.04 and most things are in sync with Debian - but I'm sure that new > incompatibilities will rapidly appear in the next Debian release cycle. Good to know. In any case you know we try to make your life to keep the diff to Debian as small as possible as easy as we can. Feel free to add some hints with guidelines to DebianMed wiki area or to Debian Med policy. Just let us know if we could provide some even better support. BTW, the next package on my "helpful for BioLinux" record is macs. If you have other targets, just let us know. > My version numbering is still out of whack but everything else is in my > package is now the same. I ignored the latest-debian-changelog-entry-without-new-version lintian warning because I think it might heal with the next upload. If it would be supported by upstream with a proper version numbering that would be even better. As you have noticed I kept the 0.9* versioning in because this seems more natural and sticking to the "highest printed version of some of the tools" sounded reasonable. No idea whether this was the best choice - if not we need to go with an epoch in the future. Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218165642.gg19...@an3as.eu
Re: Bug#696233: ITP: cdbfasta -- Fasta file indexing and retrieval tool
Hi Andreas, > BTW, the next package on my "helpful for BioLinux" record is macs. If > you have other targets, just let us know. Macs is certainly something we put in BL, and I don't have any issues with the package as it stands so it would be good to see it in Debian too. I've not made any modifications on it since Soon's last commit to SVN. The latest thing I've been looking at is Meme. That is quite a mess but needs attention, especially as the meme source appears to contain a newer version of glam2 which is currently in the main repo at version 1064-1. I'm not sure is the glam2 version is actually new and improved or if they just pulled the old code into the meme source tarball, along with a load of other stuff that is in there. This reminds me that I also need to push my Bowtie2 package to SVN. Consensus seems to be that Bowtie2 should be packages specifically as "bowtie2", not an updated "bowtie". But I'm not doing that today - I'm off to the Gym instead ;-) Cheers, TIM -- Tim Booth NERC Environmental Bioinformatics Centre Centre for Ecology and Hydrology Maclean Bldg, Benson Lane Crowmarsh Gifford Wallingford, England OX10 8BB http://nebc.nerc.ac.uk +44 1491 69 2705 -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/1355853439.10304.161.camel@balisaur
Re: Bug#696233: ITP: cdbfasta -- Fasta file indexing and retrieval tool
Hi Tim, On Tue, Dec 18, 2012 at 05:57:19PM +, Tim Booth wrote: > Hi Andreas, > > > BTW, the next package on my "helpful for BioLinux" record is macs. If > > you have other targets, just let us know. > > Macs is certainly something we put in BL, and I don't have any issues > with the package as it stands so it would be good to see it in Debian > too. I've not made any modifications on it since Soon's last commit to > SVN. Yes. This seems to be a low hanging fruit regarding Debian integration and I do not see any reason not to harvest it because finally it saves you a private BL package and it might serve other users. I'll do this probably in the next couple of days (if nobody else is faster ;-)) > The latest thing I've been looking at is Meme. That is quite a mess but > needs attention, especially as the meme source appears to contain a > newer version of glam2 which is currently in the main repo at version > 1064-1. I'm not sure is the glam2 version is actually new and improved > or if they just pulled the old code into the meme source tarball, along > with a load of other stuff that is in there. I remember I spent some time into meme in the past and I also remember these very issues you are describing here. I do not remember what might have been the final blocker but it was nothing that was considered like a very simple job. I'll put it on my important list and will see what I can do. (I was actually hoping that Soon would come up with a MoM project but he never answered any ping ...) > This reminds me that I also need to push my Bowtie2 package to SVN. > Consensus seems to be that Bowtie2 should be packages specifically as > "bowtie2", not an updated "bowtie". Fine for me. I'm far to distant from a practical use of these packages that I could raise any educated opinion about this. > But I'm not doing that today - I'm off to the Gym instead ;-) Yep - stay healthy, merry Christmas and see you at next years sprint Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218192530.ge19...@an3as.eu
Re: mialmpick upload
On Tue, Dec 18, 2012 at 11:53:20AM +0100, Gert Wollny wrote: > > > >May I borrow your time travel device? ;-) > I wish I had one, turns out someone installed a time delay device on > one of the servers- i.e. "uscane --verbose --debug --report" showed > that the used lookup data base was only updated one hour before I > uploaded the new release. Now the data base is up-to-date and the > release shows up. I can confirm this and just uploaded mialmpick (after some nitpicking changes -> git pull). Thanks for your preparation Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218195523.gg19...@an3as.eu
Beast 1.7.4 and libhmsbeagle from SVN uploaded to experimental - PLEASE TEST
Hi, even if beast 1.6.2 did not made it into testing and thus will not make it into Wheezy I stayed away from simply pushing the new best version into unstable. The reason is that it needs the latest SVN from libhmsbeagle to build and I somehow want some real work tests first before we might crash some work environments with untested code. So it would be really good if you could install end test the just uploaded beast 1.7.4. Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20121218214014.gi19...@an3as.eu
pysam package
Hi, I've been maintaining a pysam package for my lab, and realized that other people might find pysam[1] useful. I used stdeb, git-buildpackage, and pbuilder to make my own package[2]. Unfortunately since I haven't actually talked to experienced packagers I'm sure there are improvements I could be making. (For instance I need to figure out how to run pysam's tests in debian/rules.) Would it be worthwhile to work toward making an official package? (And if so a pointer for what to do next would be appreciated). Diane [1] https://code.google.com/p/pysam/ [2] http://woldlab.caltech.edu/gitweb/?p=pysam.git;a=summary pgpJyNzw3xHsk.pgp Description: PGP signature
