Bug#687968: New upstream version

2012-09-17 Thread Andreas Tille
Hi Carlos, could you merge this with your changes in Git? Kind regards Andreas. - Forwarded message from Alessandro -oggei- Ogier alessandro.og...@ieo.eu - Date: Mon, 17 Sep 2012 13:42:59 +0200 From: Alessandro -oggei- Ogier alessandro.og...@ieo.eu To: Debian Bug Tracking

Bug#687920: RM: phy-spread -- ROM; Package es renamed in unstable (only!)

2012-09-17 Thread Andreas Tille
Hi, is there any better way to rename a package which makes ftpmasters work more easy? Kind regards Andreas. On Tue, Sep 18, 2012 at 12:11:39AM +0200, Alexander Reichle-Schmehl wrote: tags 687920 +moreinfo thanks Hi Andreas! * Andreas Tille ti...@debian.org [120917 08:49

Bug#685351: Commited source to svn [Was: Bug#685351: src:gnumed-client: Missing source code for *.js files]

2012-09-19 Thread Andreas Tille
Hi, just to keep a record: I commited the JS sources in question to gnumed packaging SVN. In case no other team member will upload or somebody will NMU I'll upload not before 5.10.2012 because I'm on vac. Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to

Bug#692946: cdd-dev: copyright file missing after upgrade (policy 12.5)

2012-11-11 Thread Andreas Tille
Hi Andreas, it is true that /usr/share/doc/cdd-dev does not contain a copyright file because it is simply a symlink to /usr/share/doc/blends-dev and the transitional (=empty) package cdd-dev depends from blends-dev. So while the report is correct I would consider an upload at current time simply

Bug#692946: cdd-dev: copyright file missing after upgrade (policy 12.5)

2012-11-15 Thread Andreas Tille
:22AM +0900, Charles Plessy wrote: Le Sun, Nov 11, 2012 at 02:57:45PM +0100, Andreas Tille a écrit : it is true that /usr/share/doc/cdd-dev does not contain a copyright file because it is simply a symlink to /usr/share/doc/blends-dev and the transitional (=empty) package cdd-dev depends

Bug#692946: cdd-dev: copyright file missing after upgrade (policy 12.5)

2012-11-15 Thread Andreas Tille
Hi, On Thu, Nov 15, 2012 at 10:17:08AM +0100, Andreas Beckmann wrote: On 2012-11-15 09:20, Andreas Tille wrote: Andreas, could you please [ ] agree [ ] disagree to the suggestion to lower the priority of this bug. I would like to deal with this as quick as possible

Bug#692946: cdd-dev: copyright file missing after upgrade (policy 12.5)

2012-11-15 Thread Andreas Tille
On Thu, Nov 15, 2012 at 11:54:22AM +0100, Andreas Beckmann wrote: [dropped -release@] On 2012-11-15 11:18, Andreas Tille wrote: package than working around this in piuparts (IIRC this is blocking about 50 rdepends from being checked). Hmmm, I wonder what metapackage might remain

Bug#693655: ugene: Please update ugene to the latest version 1.11.3

2012-11-19 Thread Andreas Tille
(upstream in CC) Hi Logan, thanks for your hint about the new upstream version. Usually we do notice new versions due to the debian/watch file. Unfortunately the download page has changed so our watch file (as far as I read the comments this was even written by Ivan himself) became

Bug#693700: unblock: blends/0.6.16

2012-11-19 Thread Andreas Tille
to Git + * Debhelper 9 (control+compat) + * Drop transitional cdd-* packages completely +Closes: #692946 + * DEP5 formated copyright while checking this in connection to +bug #692946 + + -- Andreas Tille ti...@debian.org Fri, 16 Nov 2012 14:31:49 +0100 + blends (0.6.15) unstable; urgency

Bug#693700: unblock: blends/0.6.16

2012-11-20 Thread Andreas Tille
On Tue, Nov 20, 2012 at 09:22:30PM +0100, Cyril Brulebois wrote: Andreas Tille ti...@debian.org (19/11/2012): - debhelper 9 instead of 7 - Standards-Version 3.9.3 instead of 3.9.1 - I'm aware that I should avoid such additional changes to reduce the amount

Bug#693834: ITP: metview -- Interactive data visualization and analysis environment

2012-11-20 Thread Andreas Tille
Hi Alastair, knowing that you are an active member of Debian Science team I assume you will maintain this and your other ITPed packages in Debian Science but it would have been cool to CC the list in the first ploace to make people aware of these ITPs. Kind regards Andreas. On Tue, Nov

Bug#693864: blends-dev: Debian mirror not found when trying to create metapackages source

2012-11-20 Thread Andreas Tille
Package: blends-dev Version: 0.6.15 Severity: grave Tags: squeeze patch Justification: renders package unusable Hello, when trying to create metapackages sources using `make dist` the Debian mirror can not be found when using the default configuration files delivered with the blends-dev package.

Bug#693655: ugene: Please update ugene to the latest version 1.11.3

2012-11-21 Thread Andreas Tille
/ugene_get_latest_source.html I think you can retarget the watch file to this. Hope that helps. Thanks, Ivan -Original Message- From: Andreas Tille [mailto:andr...@an3as.eu] Sent: Monday, November 19, 2012 3:01 PM To: Logan Rosen; 693...@bugs.debian.org Cc: Ivan Efremov

Bug#693700: unblock: blends/0.6.16.1 (Was: Bug#693700: unblock: blends/0.6.16)

2012-11-21 Thread Andreas Tille
blends/0.6.16.1 On Tue, Nov 20, 2012 at 05:46:57PM -0400, David Prévot wrote: Hi, Le 20/11/2012 17:26, Andreas Tille a écrit : do you think the change of Vcs fields and updated documentation is OK? Seems inline with the 4th point of the freeze policy (“documentation fixes that are included

Bug#693655: ugene: Please update ugene to the latest version 1.11.3

2012-11-22 Thread Andreas Tille
Hi, On Wed, Nov 21, 2012 at 09:35:10AM +0100, Andreas Tille wrote: Hi Ivan, thanks for the help - I hope to get the Debian packaging soonish. hmmm, I guess that there is some showstopper in getting out the latest version soon. I was updating the debian/copyright file and noticed

Bug#693655: ugene: Please update ugene to the latest version 1.11.3

2012-11-23 Thread Andreas Tille
Thanks for the link. I'll create an according bug report inside Debian to keep a proper record. Kind regards Andreas. [1] http://debian-med.debian.net/tasks/bio#psipred -Original Message- From: Andreas Tille [mailto:andr...@an3as.eu] Sent: Thursday, November 22, 2012 4:57

Bug#694044: ugene: Source contains non-free components

2012-11-23 Thread Andreas Tille
Package: ugene Severity: serious Tags: experimental upstream Justification: need to remove non-free components Hi, the ugene source code contains two non-free plugins namely phylip (packaged in non-free) and psipred (prepared by Debian Med team in SVN[1]). The issue was reported upstream and is

Bug#668721: Any reason to not upload the patched package to close #668721

2012-08-06 Thread Andreas Tille
Hi Joey, following the advise to look into RC bugs before reading Bits from DPL I stumbled over this one. Could you give any reason why you do not upload with the provided patch? Please give some signal what to do (I'd volunteer to NMU in case you might have some time issues). Kind regards

Bug#684114: RM: beast-doc [armel armhf ia64 kfreebsd-amd64 kfreebsd-i386 mips mipsel powerpc s390 s390x sparc] -- ANAIS; Binary package should never have been existed

2012-08-07 Thread Andreas Tille
Package: ftp.debian.org Severity: normal As it was discussed on debian-release@l.d.o in the thread ending with http://lists.debian.org/debian-release/2012/07/msg00878.html it seems that some binary packages for arches were autobuilded for a package in contrib even if they should not (because

Bug#684114: RM: beast-doc [armel armhf ia64 kfreebsd-amd64 kfreebsd-i386 mips mipsel powerpc s390 s390x sparc] -- ANAIS; Binary package should never have been existed

2012-08-08 Thread Andreas Tille
Hi, On Wed, Aug 08, 2012 at 02:01:47PM +0200, Alexander Reichle-Schmehl wrote: * Andreas Tille ti...@debian.org [120807 08:57]: it seems that some binary packages for arches were autobuilded for a package in contrib even if they should not (because of its non-free dependencies). I

Bug#669278: Any reason to not answer this request (Was: please add phonon-backend-xine transitional package)

2012-08-09 Thread Andreas Tille
Hi, I wonder what might be the reason not to apply the patch provided by Andreas Beckmann (thanks Andreas!) to solve this RC bug. In case you might face some time issues I'd volunteer to NMU. Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to

Bug#645972: Entangle (Was: useful software for medical practice)

2012-08-10 Thread Andreas Tille
Hi, after doing some finger warming up in the morning and basically duplicating the work inside the pkg-phototools repository[1] (my fault to forget to check WNPP) I noticed that the packaging looks quite ready for upload. Matteo, any reason to use experimental as target distribution. I'd

Bug#668721: Any reason to not upload the patched package to close #668721

2012-08-10 Thread Andreas Tille
Hi Joey, lacking any answer from you I NMUed to DELAYED/10. Hope you like this Andreas. On Mon, Aug 06, 2012 at 12:08:34PM +0200, Andreas Tille wrote: Hi Joey, following the advise to look into RC bugs before reading Bits from DPL I stumbled over this one. Could you give any reason

Bug#645972: [Pkg-phototools-devel] Entangle (Was: useful software for medical practice)

2012-08-10 Thread Andreas Tille
Hi David, On Fri, Aug 10, 2012 at 07:03:10AM -0300, David Bremner wrote: I have been working with Matteo a bit on this, but feel free to take over sponsorship; I have been a bit slow in any case. When last Matteo and I talked, I was waiting for a man page for entangle. Seems I have totally

Bug#645972: Entangle (Was: useful software for medical practice)

2012-08-10 Thread Andreas Tille
Hi Matteo, On Fri, Aug 10, 2012 at 04:25:30PM +0200, Matteo F. Vescovi wrote: Hi! On Fri, Aug 10, 2012 at 10:53:34AM +0200, Andreas Tille wrote: after doing some finger warming up in the morning and basically duplicating the work inside the pkg-phototools repository[1] (my fault

Bug#674226: Status of ball

2012-08-14 Thread Andreas Tille
Hi Andreas, to some extend by chance I stumbled upon bug #674226 and I'm a bit unsure how to proceed. My wording by chance is that I was poking in the list of Debian RC bugs to speed up the release a bit in general to shorten the release cycle and enable the Debian Med team to do some even more

Bug#674226: Status of ball

2012-08-14 Thread Andreas Tille
Hi Andreas, thanks for your quick response. Just let me know if I could be of any help. Kind regards Andreas. On Tue, Aug 14, 2012 at 08:38:41AM +, Hildebrandt, Prof. Dr. Andreas wrote: Hi Andreas, Thanks for your mail and the explanations. We are currently working on

Bug#678949: Bug is tagged pending - do you need a sponsor?

2012-08-15 Thread Andreas Tille
Hi, any reason to delay an upload for this simple solution? I'd volunteer to sponsor / NMU. Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact

Bug#684114: RM: beast-doc [armel armhf ia64 kfreebsd-amd64 kfreebsd-i386 mips mipsel powerpc s390 s390x sparc] -- ANAIS; Binary package should never have been existed

2012-08-16 Thread Andreas Tille
Andreas. On Wed, Aug 08, 2012 at 03:12:44PM +0200, Andreas Tille wrote: Hi, On Wed, Aug 08, 2012 at 02:01:47PM +0200, Alexander Reichle-Schmehl wrote: * Andreas Tille ti...@debian.org [120807 08:57]: it seems that some binary packages for arches were autobuilded for a package

Bug#678949: Bug is tagged pending - do you need a sponsor?

2012-08-17 Thread Andreas Tille
Hi, I uploaded the package to DELAYED/10. Kind regards Andreas. On Wed, Aug 15, 2012 at 02:15:30PM +0200, Andreas Tille wrote: Hi, any reason to delay an upload for this simple solution? I'd volunteer to sponsor / NMU. Kind regards Andreas. -- http://fam-tille.de

Bug#685149: missing source for included Windows libraries

2012-08-17 Thread Andreas Tille
Hi Ansgar, thanks for checking. When looking into the packaging I noticed that this package can easily be moved from contrib to main because the only dependency (Recommends: clustalw) now can be fullfilled in main Debian. I would just set Recommends: clustalw (= 2.1+lgpl) Would you (with

Bug#676114: Ruby help needed (Was: Bug#676114: wordnet: FTBFS: debian/wn-for-goldendict.rb:465: invalid multibyte char (US-ASCII))

2012-06-05 Thread Andreas Tille
Hi, Dmitry E. Oboukhov un...@debian.org has added some Ruby code to wordnet packaging (debian/wn-for-goldendict.rb) which worked for two years and at least up to Fri, 01 Jun 2012 13:45:40 +0200 when I did the last upload. Yesterday I wanted to try to fix two (unrelated) open bugs and realised

Bug#676114: Ruby help needed (Was: Bug#676114: wordnet: FTBFS: debian/wn-for-goldendict.rb:465: invalid multibyte char (US-ASCII))

2012-06-05 Thread Andreas Tille
Hi Sam, On Tue, Jun 05, 2012 at 11:26:42AM -0400, Sam Ruby wrote: On 06/05/2012 10:08 AM, Andreas Tille wrote: debian/wn-for-goldendict.rb:465: invalid multibyte char (US-ASCII) debian/wn-for-goldendict.rb:465: invalid multibyte char (US-ASCII) debian/wn-for-goldendict.rb:465: syntax error

Bug#676114: Ruby help needed (Was: Bug#676114: wordnet: FTBFS: debian/wn-for-goldendict.rb:465: invalid multibyte char (US-ASCII))

2012-06-05 Thread Andreas Tille
Hi Steve, On Tue, Jun 05, 2012 at 06:10:55PM +0100, Steve McIntyre wrote: Any better hint? It sounds like you should replace the functionality of the script in a more suitable language, specifically: * one you (and other maintainers) understand * one that's stable and supported on all

Bug#676114: Ruby help needed (Was: Bug#676114: wordnet: FTBFS: debian/wn-for-goldendict.rb:465: invalid multibyte char (US-ASCII))

2012-06-05 Thread Andreas Tille
On Tue, Jun 05, 2012 at 06:35:28PM +0100, Steve McIntyre wrote: Sounds like you made a mistake, I'm afraid. :-( My barrier to revert this mistake is low. If there is no simple solution in three days (OK, I'll be offline weekend+Monday - so there is some additional delay) - I'll kick the binary

Bug#676455: ${misc:Depends} injects broken versioned depends (Was: Bug#676455: gnumed-doc: uninstallable in sid: depends on outdated libjs-jquery-livequery)

2012-06-07 Thread Andreas Tille
Hi, yesterday I uploaded the latest gnumed package including gnumed-doc which resulted in an uninstallable package in sid. The broken verisons were injected by Build-Depends: ... dh-linktree, libjs-jquery, libjs-jquery-livequery Depends: ${misc:Depends} I suspect something is broken here

Bug#676455: ${misc:Depends} injects broken versioned depends (Was: Bug#676455: gnumed-doc: uninstallable in sid: depends on outdated libjs-jquery-livequery)

2012-06-07 Thread Andreas Tille
On Thu, Jun 07, 2012 at 09:15:55AM +0200, Raphael Hertzog wrote: I suspect something is broken here with the dependency resulution. Any hint? Any more affected packages? dh-linktree uses the version of the package on the build system to inject a (usually strong) dependency in

Bug#676455: ${misc:Depends} injects broken versioned depends (Was: Bug#676455: gnumed-doc: uninstallable in sid: depends on outdated libjs-jquery-livequery)

2012-06-07 Thread Andreas Tille
On Thu, Jun 07, 2012 at 12:24:35PM +0200, Raphael Hertzog wrote: It the next upstream version of your javascript library provides new files, they will not be in the symlink tree that you built in your package. So at runtime, it will fail because of the missing file. Yes, and if a future

Bug#676455: ${misc:Depends} injects broken versioned depends (Was: Bug#676455: gnumed-doc: uninstallable in sid: depends on outdated libjs-jquery-livequery)

2012-06-07 Thread Andreas Tille
On Thu, Jun 07, 2012 at 02:10:26PM +0200, Raphael Hertzog wrote: Yes, and if a future version of *any* library will change its ABI it will fail as well and we do not force the strict dependency anyway. So my question is rather, in how far such dh_linktree-ed JS libraries deserve that

Bug#675183: sitplus: diff for NMU version 1.0.3-2.1

2012-06-07 Thread Andreas Tille
Hi Tim, many thanks for your fix. Would you be so kind to commit your change to the Git repository? Every DD has commit permissions to Debian Med Vcs. Just tell me if you do not feel able to do so and I will inject your changes. Kind regards and thanks again for helping out Andreas. On

Bug#675183: sitplus: diff for NMU version 1.0.3-2.1

2012-06-08 Thread Andreas Tille
Hi Tim, On Thu, Jun 07, 2012 at 11:06:25PM +0100, Tim Retout wrote: many thanks for your fix.  Would you be so kind to commit your change to the Git repository?  Every DD has commit permissions to Debian Med Vcs. Just tell me if you do not feel able to do so and I will inject your

Bug#676579: ITP: libmath-vector-real-kdtree-perl -- This module implements a kd-Tree data structure in Perl and some related algorithms.

2012-06-08 Thread Andreas Tille
Hi Wei, I personally know that you are working on these packages as preconditions for some biomedical program(s). However, independently from this purpose these libmath-vector-*-perl packages might be relevant for the Debian Science metapackage science-mathematics-dev. Is there anybody who

Bug#677311: ITP: r-bioc-biocgenerics -- generic functions for Bioconductor

2012-06-13 Thread Andreas Tille
Package: wnpp Severity: wishlist Owner: Andreas Tille ti...@debian.org * Package name: r-bioc-biocgenerics Version : 0.2.0 Upstream Author : The Bioconductor Dev Team * URL : http://www.bioconductor.org/packages/release/bioc/html/BiocGenerics.html * License

Bug#648705: Please help with fixing a bug on kfreebsd [Was: Processed: unarchiving 648705]

2012-01-16 Thread Andreas Tille
Hi Alexander, On Mon, Jan 16, 2012 at 05:58:33PM +0100, Alexander Reichle-Schmehl wrote: ... ... and voila! You can indeed fix (or at least investigate further) these bugs while sitting before a Linux box. Well, what your are summerizing with a voila is quite a bit of work and the further

Bug#648705: Please help with fixing a bug on kfreebsd [Was: Processed: unarchiving 648705]

2012-01-16 Thread Andreas Tille
On Mon, Jan 16, 2012 at 06:43:58PM +0100, Alexander Reichle-Schmehl wrote: Well, actually it is: 1) Looking up a server name 2) ssh to that box 3) chroot like the welcome message told you So far it's easy - done this in the past. 4) check build depends And maybe: Considering several

Bug#656199: ITP: liboptions-java -- liboptions-java

2012-01-17 Thread Andreas Tille
Package: wnpp Severity: wishlist Owner: Andreas Tille ti...@debian.org * Package name: liboptions-java Version : 0.20120113 Upstream Author : Dr. Matthias Laux matthias.l...@icw.de * URL : sended in private via mail, I asked for publishing at some downloadable place

Bug#656203: ITP: libqsi -- Quantum Scientific Imaging Library

2012-01-17 Thread Andreas Tille
Hi Jasem, despite the long description for this package is missing this would probably a nice target for Debian Science. In case you are not aware of this project feel free to ask for explanation on the mailing list. Kind regards Andreas. On Tue, Jan 17, 2012 at 04:25:33PM +0300, Jasem

Bug#656573: RM: freediams -- ROM; Non-free data used in package

2012-01-20 Thread Andreas Tille
Package: ftp.debian.org Severity: normal Hi, it turned out that the database which is used in freediams (file global_resources/databases/drugs/master.db) is a compilation of data with different licenses. Some of the original data have non-free or unclear licenses. After a discussion on the

Bug#656469: ITP: eegdev -- biosignal acquisition device library

2012-01-20 Thread Andreas Tille
Hi Nicolas, this package is in the scope of the Debian Med team as well of NeuroDebian. Do you consider to maintain it in one of these teams (at your preference or where a sponsor volunteers)? Kind regards Andreas. On Thu, Jan 19, 2012 at 04:05:43PM +0100, Nicolas Bourdaud wrote:

Bug#656573: RM: freediams -- ROM; Non-free data used in package

2012-01-20 Thread Andreas Tille
Hi Alexander, On Fri, Jan 20, 2012 at 09:58:21AM +0100, Alexander Reichle-Schmehl wrote: clone 656573 -1 reassing -1 snapshot.debian.org thanks Hi! Am 20.01.2012 09:40, schrieb Andreas Tille: it turned out that the database which is used in freediams (file global_resources

Bug#656573: RM: freediams -- ROM; Non-free data used in package

2012-01-20 Thread Andreas Tille
Hi Sebastian, On Fri, Jan 20, 2012 at 09:58:42AM +0100, Sebastian Hilbert wrote: it turned out that the database which is used in freediams (file global_resources/databases/drugs/master.db) is a compilation of data with different licenses. Some of the original data have non-free or

Bug#656609: ITP: libhmsbeagle -- High-performance lib for Bayesian and Maximum Likelihood phylogenetics

2012-01-20 Thread Andreas Tille
Package: wnpp Severity: wishlist Owner: Andreas Tille ti...@debian.org * Package name: libhmsbeagle Version : 1.0 Upstream Author : Andrew Rambaut ramb...@gmail.com * URL : http://code.google.com/p/beagle-lib * License : LGPL-3+ Programming Lang: C, Java

Bug#656573: RM: freediams -- ROM; Non-free data used in package

2012-01-20 Thread Andreas Tille
On Fri, Jan 20, 2012 at 02:38:17PM +0100, Philipp Kern wrote: On Fri, Jan 20, 2012 at 10:01:56AM +0100, Andreas Tille wrote: Which versions are affected? All? (In which case you might need to contact the stable release managers to get the removed from Squeeze, too). In CC. squeeze

Bug#656633: ITP: pyfai -- python library for Fast Azimuthal Integration

2012-01-20 Thread Andreas Tille
Hi Jerome, it's probably a good idea to maintain this package in the Debian Science team. Kind regards Andreas. On Fri, Jan 20, 2012 at 05:07:40PM +0100, Jerome KIEFFER wrote: Package: wnpp Severity: wishlist Owner: Jerome KIEFFER jerome.kief...@esrf.fr * Package name:

Bug#656673: RM: med-doc -- ROM; there is no point in keeping old and unmaintained doc

2012-01-20 Thread Andreas Tille
Package: ftp.debian.org Severity: normal Hi, as announced in Debian Med list I finally gave up (non-)maintaining this package. Sorry for beeing that lazy but it is obvious that the package is and will be unmaintained and thus not helpful for our users. Thanks for maintaining ftpmaster

Bug#656741: ITP: libcolt-java -- scalable scientific and technical computing in Java

2012-01-21 Thread Andreas Tille
Package: wnpp Severity: wishlist Owner: Andreas Tille ti...@debian.org * Package name: libcolt-java Version : 1.2.0 Upstream Author : Wolfgang Hoschek wolfgang.hosc...@cern.ch and others from CERN - European Organization for Nuclear Research * URL : http://acs.lbl.gov

Bug#656755: libhmsbeagle FTBFS on everything except amd64

2012-01-21 Thread Andreas Tille
Hi Peter, On Sat, Jan 21, 2012 at 03:00:25PM +, peter green wrote: Note: i'm not an expert on this package, just someone looking at build failures and filing bugs. That's a really valuable job - thanks for doing so! It seems things are a little more complex than they first appeared.

Bug#656755: libhmsbeagle FTBFS on everything except amd64

2012-01-21 Thread Andreas Tille
On Sat, Jan 21, 2012 at 05:16:21PM +0100, Andreas Tille wrote: Moreover I just noticed that the -dev package is lacking static libraries. At least this was simple (see 1.0-3). Waiting for further information about the sse issue. Kind regards Andreas. -- http://fam-tille.de

Bug#656790: ITP: libmpj-java -- Java library for parallel applications for multicore processors and clusters

2012-01-21 Thread Andreas Tille
Package: wnpp Severity: wishlist Owner: Andreas Tille ti...@debian.org * Package name: libmpj-java Version : 0.38 Upstream Author : Distributed Systems Group, University of Portsmouth * URL : http://mpj-express.org/ * License : MIT License Programming Lang

Bug#656755: Help with architecture not supporting SSE (Was: Bug#656755: libhmsbeagle FTBFS on everything except amd64)

2012-01-22 Thread Andreas Tille
is welcome Andreas. On Sat, Jan 21, 2012 at 09:50:16PM +, Adam D. Barratt wrote: On Sat, 2012-01-21 at 17:16 +0100, Andreas Tille wrote: On Sat, Jan 21, 2012 at 03:00:25PM +, peter green wrote: It seems things are a little more complex than they first appeared

Bug#656573: RM: freediams -- ROM; Non-free data used in package

2012-01-24 Thread Andreas Tille
Hi Alexander, On Tue, Jan 24, 2012 at 06:34:42PM +0100, Alexander Reichle-Schmehl wrote: I'm not an FTP master, though. As far as I can see, the package is indeed distributable, but not fit for main. Thanks for inspecting the package. While this is not the best possible option it is at

Bug#636923: RM: libwww5.808-perl -- RC-buggy, NPOASR

2012-01-24 Thread Andreas Tille
Hi Jonathan, I can confirm that I'm working on Ensembl and I'm in contact with upstream since beginning of this year to work on a strategy to get rid of this nasty dependency. Moreover we have a Debian Med sprint this weekend where issues like this will be explicitely addressed. I admit that

Bug#656755: Help with architecture not supporting SSE (Was: Bug#656755: libhmsbeagle FTBFS on everything except amd64)

2012-01-24 Thread Andreas Tille
On Wed, Jan 25, 2012 at 01:37:59AM +, peter green wrote: Andreas Tille wrote: Hi, I have to admit that I do not have any experience with SSE issues. Any advise what to do in cases like this (see build logs linked below)? From looking at the build logs it looks like it is trying

Bug#656755: Help with architecture not supporting SSE (Was: Bug#656755: libhmsbeagle FTBFS on everything except amd64)

2012-01-25 Thread Andreas Tille
Hi Peter, many thanks for the patch which was in fact helpful to solve the problem. On Wed, Jan 25, 2012 at 11:04:13AM +, peter green wrote: Ok I took pity on you and took a look at the Makefile.am in that directory, turns out it wasn't that hard to disable building of the CPU with SSE

Bug#653799: FTBFS: CMake Error at cmake_modules/FindOpenCV.cmake:77 (file): file STRINGS file /usr/include/opencv/cvver.h cannot be read.

2012-01-09 Thread Andreas Tille
Hi, On Fri, Dec 30, 2011 at 07:08:09PM -0600, Steve M. Robbins wrote: Source: sitplus Version: 1.0.1-2 Severity: serious Justification: fails to build from source Package failed to build in a clean sid chroot: -- checking for one of the modules 'glib-2.0' -- Found GLib2: glib-2.0

Bug#653366: fails to build twice in a row

2012-01-09 Thread Andreas Tille
Hi Andy, as you can see the Debian packaged version of Amide recived a bug report. I checked this problem and realised that the cause is not connected to the outdated autotools (even if it would definitely help to update these and call autoreconf). The problem is that your release tarball

Bug#653366: fails to build twice in a row

2012-01-10 Thread Andreas Tille
. In any case, I don't see why those files need to hang around, and updated the makefile to clean them out. Andy On 01/09/2012 01:25 PM, Andreas Tille wrote: Hi Andy, as you can see the Debian packaged version of Amide recived a bug report. I checked this problem and realised

Bug#651802: closed by Andreas Tille ti...@debian.org (Bug#651802: fixed in exonerate 2.2.0-4)

2012-01-12 Thread Andreas Tille
On Thu, Jan 12, 2012 at 10:31:10AM +0100, Micah Gersten wrote: Is there any reason that you didn't apply my patch to alleviate the need for the autoconf patch? debian/patches/fix_build-as-needed.patch This still fails with --as-needed. Build log attached. So either your patch was not

Bug#611922: [ti...@alioth.debian.org: r9269 - trunk/packages/swarm/trunk/debian]

2012-01-12 Thread Andreas Tille
Andreas. - Forwarded message from Andreas Tille ti...@alioth.debian.org - Date: Thu, 12 Jan 2012 21:32:44 + From: Andreas Tille ti...@alioth.debian.org To: debian-med-com...@lists.alioth.debian.org Subject: r9269 - trunk/packages/swarm/trunk/debian X-Spam_score: -2.8 Author

Bug#661260: RM: libajax5-dev [m68k] -- ROM; replaced by new version except for m68k

2012-02-25 Thread Andreas Tille
Package: ftp.debian.org Severity: normal Hi, I noticed that libajax5-dev is listed at http://packages.debian.org/search?keywords=libajax5-dev for unstable for m68k architecture. This could be removed because in sid there is the new version libajax6-dev. The very same applies to

Bug#661280: Uninstallable: depends on old glew binaries

2012-02-25 Thread Andreas Tille
Hi, while I can confirm that https://buildd.debian.org/status/package.php?p=arb claims a lacking Build-Depends libmotiv-dev should be available according to http://packages.debian.org/search?keywords=libmotif-dev At least the libglew issue is fixed in the latest upload and the bug

Bug#649446: science-statistics: Please change from r-cran-design to r-cran-rms

2011-11-21 Thread Andreas Tille
Hi Dirk, thanks for the hint, it's fixed in SVN and will be closed after next upload of Debian Science packages. Kind regards Andreas. PS: BTW, you can easily fix this yourself by editing the according file in

Bug#649619: gcalcli: Broken UTF-8 support

2011-11-22 Thread Andreas Tille
Package: gcalcli Severity: normal Tags: upstream Hi, just tried $ gcalcli calw +--+--+--+--+--+--+--+ |Sunday|Monday|Tuesday |Wednesday |Thursday |Friday|Saturday |

Bug#661280: Uninstallable: depends on old glew binaries

2012-02-27 Thread Andreas Tille
Hi, On Mon, Feb 27, 2012 at 12:00:48PM +0100, Julien Cristau wrote: At least the libglew issue is fixed in the latest upload and the bug title should be changed. Any hint how to track down this Build-Depends issue? buildds don't install stuff from non-free, if you have non-free

Bug#661659: Help: Re: Bug#661659: libhmsbeagle: FTBFS on kfreebsd

2012-02-28 Thread Andreas Tille
Hi, any hint whether this is rather a problem of JDK on BSD? I personally do not have any idea how to handle this. Kind regards Andreas. On Wed, Feb 29, 2012 at 12:36:21AM +0100, Julien Cristau wrote: Source: libhmsbeagle Version: 1.0-4 Severity: serious Justification: fails to

Bug#661659: Help: Re: Bug#661659: libhmsbeagle: FTBFS on kfreebsd

2012-02-29 Thread Andreas Tille
Hi, On Wed, Feb 29, 2012 at 01:25:21PM +0100, Xerxes Rånby wrote: 2012-02-29 08:45, Andreas Tille skrev: I think you simply meed to use a javase 6 compatible jvm and classlibrary to compile this code. The Math.getExponent got added in JDK6. OpenJDK6 can compile this fine. http

Bug#652883: [Pkg-mc-devel] Bug#652883: reproduced (update)

2012-02-29 Thread Andreas Tille
Hi, upstream might be interested in the problem and the (admittedly weak) workaround. Kind regards Andreas. On Wed, Feb 29, 2012 at 05:36:25PM +1100, Dmitry Smirnov wrote: Dear Jakub, This issue comes down to use of concurrent shell. If you start mc with '-u' argument the problem

Bug#658139: evince: missing mime entry

2012-02-29 Thread Andreas Tille
On Wed, Feb 29, 2012 at 04:59:32PM +0100, Raphael Hertzog wrote: Russ Alberry gave some tentative spec for such a tool: http://lists.debian.org/87k446oqzh@windlord.stanford.edu Quoting this mail: I think one has to make the assumption that one can add %s after Exec in order to load a

Bug#658139: evince: missing mime entry

2012-02-29 Thread Andreas Tille
Hi, On Wed, Feb 29, 2012 at 05:44:57PM +0100, Josselin Mouette wrote: Le mercredi 29 février 2012 à 17:24 +0100, Andreas Tille a écrit : I'd consider the chance to write something which might probably work in most cases as a weak excuse to drop a solution that worked for years and would

Bug#661403: sitplus: FTBFS with libconfig9

2012-03-01 Thread Andreas Tille
Hi Luis, On Thu, Mar 01, 2012 at 09:22:19AM +0100, Luis Rivas wrote: Sorry for the delay in my response, I was on holidays and my wife just got berserker everytime I tried to get close to my computer ;) I know this situation perfectly well (and in some moments I'm thankfull to my wife for

Bug#661823: ITP: dune -- toolbox for solving PDEs

2012-03-02 Thread Andreas Tille
Hi, maintenance in the Debian Science team comes to mind. Kind regards Andreas. On Thu, Mar 01, 2012 at 05:30:32PM +0100, Ansgar Burchardt wrote: Package: wnpp Severity: wishlist Owner: Ansgar Burchardt ans...@debian.org * Package name: dune-common, dune-geometry, dune-grid,

Bug#661824: ITP: jel -- library for evaluating algebraic expressions in Java

2012-03-02 Thread Andreas Tille
Hi Florian, a maintenance in the Debian Science team comes to mind. Kind regards Andreas. On Thu, Mar 01, 2012 at 05:51:10PM +0100, Florian Rothmaier wrote: Package: wnpp Severity: wishlist Owner: Florian Rothmaier froth...@ari.uni-heidelberg.de * Package name: jel

Bug#661663: mrbayes: unbuildable on kfreebsd (libhmsbeagle-dev not available)

2012-03-05 Thread Andreas Tille
Hi, I just uploaded libhmsbeagle with *all* packages set Arch: linux-any which (hopefully) solves bug #661659. When thinking twice about it it would have been sufficient to leave libhmsbeagle-dev and libhmsbeagle1 as Arch:any because these could probably perfectly build on kfreebsd.

Bug#661663: mrbayes: unbuildable on kfreebsd (libhmsbeagle-dev not available)

2012-03-05 Thread Andreas Tille
Hi, On Mon, Mar 05, 2012 at 01:47:29PM +0100, Julien Cristau wrote: libhmsbeagle-dev and libhmsbeagle1 as Arch:any because these could probably perfectly build on kfreebsd. However, this would probably mean to set Build-Depends: openjdk-6-jdk | default-jdk No, that doesn't

Bug#662818: Enhancement for seaview Makefile [Was: Bug#662818: seaview: Hardening flags missing]

2012-03-06 Thread Andreas Tille
Hi Manolo, there is a bug report which includes a fix regarding to your Makefile. Please have a look at http://bugs.debian.org/662818 or http://anonscm.debian.org/viewvc/debian-med/trunk/packages/seaview/trunk/debian/patches/ to inspect the patch which enables simple propagation of

Bug#652770: cimg: FTBFS: dist.h:82:7: error: expected identifier before numeric constant

2012-02-08 Thread Andreas Tille
True and False when OpenCV headers are required). So now, I can say the bug is corrected in upcoming 1.5.0 version of the CImg Library. Best Regards, David. 2011/12/29 Andreas Tille andr...@an3as.eu Hi David, I keep the bug report in CC and thus full quote your mail to leave

Bug#659163: r-base-dev: Please enable using ${R:depends} substvar in r-cran.mk

2012-02-08 Thread Andreas Tille
Package: r-base-dev Severity: wishlist Tags: patch Hi, as discussed on the mailing list starting at http://lists.debian.org/debian-med/2012/02/msg00074.html I'm providing hereby the patch which would be quite helpful for all R packages maintained by the Debian Med team and several of Debian

Bug#657478: biomaj-watcher: diff for NMU version 1.2.0-3.1

2012-02-10 Thread Andreas Tille
Hi Gregor, On Fri, Feb 10, 2012 at 01:20:44PM +0100, gregor herrmann wrote: On Fri, 10 Feb 2012 09:34:50 +0100, Olivier Sallou wrote: I already fixed the issue on SVN, but I am waiting for a translation review end before uploading the package (that will fix all translation bugs). Could

Bug#655439: Source for user manual of R haplo.stats

2012-02-10 Thread Andreas Tille
Hi Jason, as you might know the Debian Med project packaged haplo.stats for Debian. However, as you can see at http://bugs.debian.org/655439 for the Debian distribution we would need the source of the PDF shipped inside your distribution tarball. If you could bundle this straight into the

Bug#655439: Source for user manual of R haplo.stats

2012-02-10 Thread Andreas Tille
Hi Jason, many thanks for your prompt reply. On Fri, Feb 10, 2012 at 09:45:26AM -0600, Sinnwell, Jason P. wrote: I was not aware of your inclusion of haplo.stats with the Debian Med project. Sorry, that we did not informed you in the first place. Usually the first maintainer who touches a

Bug#593617: [pbrac...@xm1math.net: Re: New version of TexMaker packaged vor Debian]

2012-02-10 Thread Andreas Tille
Hi, this issue is also known in upstream request tracker: - Forwarded message from Pascal Brachet pbrac...@xm1math.net - Date: Fri, 10 Feb 2012 18:58:14 +0100 From: Pascal Brachet pbrac...@xm1math.net To: Andreas Tille ti...@debian.org Subject: Re: New version of TexMaker packaged vor

Bug#659428: ssake: Uses perl4 corelibs without Depends

2012-02-10 Thread Andreas Tille
Hi Dominic, there is a fix in SVN for this problem. I just like to clarify the reason for not uploading and will act accordingly. So there is no need for NMU in this case (even if welcome in general). Thanks for your QA work Andreas. On Fri, Feb 10, 2012 at 11:59:43PM +, Dominic

Bug#659163: r-base-dev: Please enable using ${R:depends} substvar in r-cran.mk

2012-02-13 Thread Andreas Tille
On Mon, Feb 13, 2012 at 07:33:06AM -0600, Dirk Eddelbuettel wrote: Sorry, had a hectic week last week and didn't see this report til the weekend. No problem. Yes, it looks good. We will need to have package Build-Depends on r-base-dev (= 2.14.2) as R 2.14.2 comes out on Feb 29; we can

Bug#659163: r-base-dev: Please enable using ${R:depends} substvar in r-cran.mk

2012-02-13 Thread Andreas Tille
Hi Dirk, On Mon, Feb 13, 2012 at 07:51:20AM -0600, Dirk Eddelbuettel wrote: ... During this two-week period, I fear we may not have buildability as these versions would have identified (as R is concerned) as 2.14.0. But I guess as your patch is written, with the r-base-dev (= $(shell ...)

Bug#652456: Bug#659163: r-base-dev: Please enable using ${R:depends} substvar in r-cran.mk

2012-02-13 Thread Andreas Tille
[changed CC to #652456 because it rather concerns this bug] On Mon, Feb 13, 2012 at 08:24:44AM -0600, Dirk Eddelbuettel wrote: Maybe there is one. The regexp is a little 'tight' (ie [0-9]+ for all the digit parts may be safter) and I am a little worried about our own Debian transitions before

Bug#659163: r-base-dev: Please enable using ${R:depends} substvar in r-cran.mk

2012-02-13 Thread Andreas Tille
On Mon, Feb 13, 2012 at 11:37:02PM +0900, Charles Plessy wrote: Le Mon, Feb 13, 2012 at 07:51:20AM -0600, Dirk Eddelbuettel a écrit : But I guess as your patch is written, with the r-base-dev (= $(shell ...) we would be ok as we have 2.14.0-1 (first release) =

Bug#659163: r-base-dev: Please enable using ${R:depends} substvar in r-cran.mk

2012-02-13 Thread Andreas Tille
On Mon, Feb 13, 2012 at 08:56:55AM -0600, Dirk Eddelbuettel wrote: I really just want to depend with = on the R version (as it is called in Debian !!) building this package. Going with parsing the changelog is better than asking R for its version as R does not know about its Debian

Bug#652456: Candidate file r-cran.mk

2012-02-13 Thread Andreas Tille
On Mon, Feb 13, 2012 at 10:06:30AM -0600, Dirk Eddelbuettel wrote: Ok, I have a candidate changelog entry r-base (2.14.1-2) unstable; urgency=low * debian/r-cran.mk: Include simple-patchsys.mk only if quilt not used as requested by Andreas Tille (Closes: #652456

Bug#659808: libsbml5-octave: uninstallable on ia64

2012-02-13 Thread Andreas Tille
Hi Ivo, I'd (strongly) vote for simply droping this useless depends. If I would have been your sponsor I have worked out together with you solving these issues: $ lintian libsbml_5.2.0-1.dsc W: libsbml source: package-depends-on-hardcoded-libc libsbml5-octave depends W: libsbml source:

Bug#659824: biojava-live: New version available

2012-02-13 Thread Andreas Tille
Package: biojava-live Severity: minor There is a much newer version available as the packaged version. The debian/watch file now regards http://biojava.org/wiki/BioJava:Download Please raise your voice if there is any reason to keep the old version. Kind regards Andreas. --

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