December

2016-11-29 Thread Thorsten Alteholz
Hi everybody, how time flies! This time of the year has come again and in order to carry on a tradition, I want to remind everybody of our combined efforts to take care of some poor souls. The days are closing in, the year is drawing to an end and we should think of all those, that are not a

Re: December

2016-12-26 Thread Thorsten Alteholz
Hi everybody, advent is over and the calender[1] has been filled with lots of entries. All in all 95 bugs have been closed, that is the second highest number after the all time record of 150 last year. So congratulations to all participants for a great job! Though some new bugs appeared duri

December

2017-11-30 Thread Thorsten Alteholz
Hi everybody, this time of the year has come again and in order to carry on a tradition (it is the seventh time this year), I want to remind everybody of our combined efforts to take care of some poor souls. The days are closing in, the year is drawing to an end and we should think of all th

Re: figtree autopkgtest

2017-11-30 Thread Thorsten Alteholz
Hi Andreas, On Thu, 30 Nov 2017, Andreas Tille wrote: I'll open several bugs for missing tests soon which we can close in our advent bug squashing party (Thorsten?) yes, but don't forget the old poor souls :-). Thorsten

Re: SVN to Git migration status

2017-12-01 Thread Thorsten Alteholz
Hi everybody, On Fri, 1 Dec 2017, Andreas Tille wrote: * I never liked the split of one upstream source into lots of SVN checkouts in different source packages. Those who are working on that set of packages need to do stupid repeated work for no good reason and I really regret

Re: Bugs closed in team help

2017-12-03 Thread Thorsten Alteholz
Hi Andreas, On Fri, 1 Dec 2017, Andreas Tille wrote: I'm not sure whether you consider Debichem team bugs as valid targets for the advent calendar nope, not for the debian-med calendar. But a debian-science calendar might be possible next year ... Thorsten

Re: December

2017-12-25 Thread Thorsten Alteholz
Hi everybody, advent is over and the calendar[1] has been filled with lots of entries. All in all 105 bugs have been closed, that is the second highest number after the all time record of 150 two years ago. So congratulations to all participants for a great job! Though some new bugs appeared

December

2018-11-30 Thread Thorsten Alteholz
Hi everybody, it is incredible but this time of the year has come again and in order to carry on a tradition, I want to remind everybody of our combined efforts to take care of some poor souls. The days are closing in, the year is drawing to an end and we should think of all those, that are

end of the year

2012-11-30 Thread Thorsten Alteholz
Hi everybody, now it is the time again. The days are closing in, the year is drawing to an end and the Christmas season starts. As last year we should think of all those, that are not around with their own kind. Again, during the last few months, lots of volunteers all around the world tracke

Re: end of the year

2012-12-01 Thread Thorsten Alteholz
On Fri, 30 Nov 2012, Andreas Tille wrote: If I understood you correctly that you are collecting the bugs manually (and not straight automatically from UDD which would set hard technical criterion) yes, it is still done manually. I would suggest the following extention of the rule

Re: end of the year

2012-12-01 Thread Thorsten Alteholz
Hi Eric, On Fri, 30 Nov 2012, Eric Maeker wrote: Thanks for the bug list. I found one for the freemedforms project http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=686677 It can be easily corrected, but I don't really know how to send the patch. I just had a short look at the bugrep

Re: end of the year

2012-12-03 Thread Thorsten Alteholz
On Mon, 3 Dec 2012, Eric Maeker wrote: All dependencies are corrected. Ok We just need to patch the control file and add a bug close in the changelog. SVN files are actually for the 0.8.0, so we have to patch tagged 0.7.6 files. Hmm, as 0.8.0 is already in experimental, I don't think tha

Re: end of the year

2012-12-27 Thread Thorsten Alteholz
Hi everybody, as Christmas time is over now here are some statistics about this year's bug squashing. We started with about 100 bugs for debian-med and could resolve 15 bugs for debian-med packages. Additionally 12 release critical bugs have been resolved by our members. So we haven't been as

Re: Apache clinical Text Analysis and Knowledge Extraction System (cTAKES)

2013-04-11 Thread Thorsten Alteholz
On Thu, 11 Apr 2013, Mathieu Malaterre wrote: Good luck with maven/java... See 693234#23 Hmm, and the ctakes-resources consist of 1GB of data ... Is there an upper limit of tolerated package size? Thorsten -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject o

Re: Hint for some imaging software from Fedora Medical SIG

2013-05-16 Thread Thorsten Alteholz
Hi everybody, On Thu, 16 May 2013, Andreas Tille wrote: You might like to check this Wiki page for further interesting programs besides Seg3D[2] and msvtk[3]. I might consider creating a packaging skeleton if this helps. Any takers for packaging? shouldn't we begin with an entry in the task

Re: FreeMedForms new upstream

2013-07-08 Thread Thorsten Alteholz
On Sun, 7 Jul 2013, Andreas Tille wrote: I have put Thorsten Alteholz explicitly in CC - perhaps he might be able to verify and upload before I can do. it builds here and I uploaded it. But according to lintinan this package still needs a lot of care ... Thorsten -- To UNSUBSCRIBE

Re: freemedforms & rpath

2013-07-10 Thread Thorsten Alteholz
Hi Eric, On Wed, 10 Jul 2013, Eric Maeker wrote: I've commited the rpath issue correction. Please, if anyone can make a small test. Just compil, install, and run /usr/bin/freemedforms (or by the menu entry). doing a svn-buildpackage results in: cp -a global_resources/package_helpers/freemed

Advent calendar

2013-11-25 Thread Thorsten Alteholz
Hi, in order to keep an old tradition, I want to remind everybody of our combined efforts to take care of some poor souls at this time of the year. As the years before we should think of all those, that are not around with their own kind. Again, during the last few months, lots of volunteers

Re: Bug#728797: ITP: python-mne -- Python modules for MEG and EEG data analysis

2013-11-28 Thread Thorsten Alteholz
Hi Yaroslav, On Thu, 28 Nov 2013, Andreas Tille wrote: H, this information is new to me. If I have understood NEW queue correctly than it is better not to touch packages which are in the queue. Otherwise you might confuse ftpmaster or influence the position of your package to get handled l

Re: Bug#728797: ITP: python-mne -- Python modules for MEG and EEG data analysis

2013-11-29 Thread Thorsten Alteholz
On Thu, 28 Nov 2013, Yaroslav Halchenko wrote: in case an ftp trainee has checked the -1 version and now sees a new one, he would not be delighted by this, as his previous work would be just a waste of time. is that from personal experience? I just wanted to mention an argument from a diffe

Re: bedtools version 2.18.0

2013-12-14 Thread Thorsten Alteholz
On Sat, 14 Dec 2013, Andreas Tille wrote: Personally, I have no problem with this. I also have the feeling that a couple of years ago, it would not have been a problem. However, I have the impression that now it is important for Debian that images are rebuild from their source. I do not thi

Re: Advent calendar

2013-12-25 Thread Thorsten Alteholz
Hi everybody, thanks alot for closing so much bugs. After taking care of 64 bugs in 2011 and 27 bugs in 2012, we reached a new all time high of 73 bugs this year, BRAVO! The oldest bug that could be closed was #541207 [1] which was the RFP of fis-gtm dated from 2009 :-). Season's Greetings

Re: [MoM] snp-sites (Was: I would like to submit a package to debian-med)

2014-01-15 Thread Thorsten Alteholz
On Wed, 15 Jan 2014, Andreas Tille wrote: Uploaded ... waiting for acception by ftpmaster. So this is my moment to ask questions :-) debian/copyright says: Files: * License: GPL-2+ But the accompanying commentary says something about GPLv3+ (as do the headers of the src/* files). On th

Re: [MoM] snp-sites (Was: I would like to submit a package to debian-med)

2014-01-15 Thread Thorsten Alteholz
Hi Jorge, On Wed, 15 Jan 2014, Jorge Sebastião Soares wrote: GPL wise it's all done I think. It's all committed including the new pristine tar 1.3. wow, that was fast. Please let me know if you find any other weirdness. From my point of view everything is fine now. @Andreas: I am waiting

Re: MIRA 4.0 released at SourceForge

2014-02-04 Thread Thorsten Alteholz
Hi, On Mon, 3 Feb 2014, Andreas Tille wrote: Thanks to Thorsten mira is no uploaded while I was sleeping my last night in Stonehaven. I was watching Super Bowl and due to the really boring game I had some spare time :-). Any clue how to adapt the watch file to fetch version 4.0? Today ev

Re: Updating fis-gtm package to 6.1

2014-02-10 Thread Thorsten Alteholz
Hi everybody, the whole project has the systemd-discussion and we discuss about the packaging of fis-gtm :-). So let me ask some questions and I hope they haven't been asked before ... More precisely we are talking about versions: fis-gtm-6.0 (currently in Debian)

Re: Updating fis-gtm package to 6.1

2014-02-11 Thread Thorsten Alteholz
On Tue, 11 Feb 2014, Andreas Tille wrote: As far as I have read Dominique's (and more importantly Thorsten's mail who was perhaps partly wearing his ftpmaster hat, thanks Thorsten - I was hoping for input like this) the question was rather rhetorically. Oh, no, it was not meant to be rhetori

Re: Updating fis-gtm package to 6.1

2014-02-11 Thread Thorsten Alteholz
On Mon, 10 Feb 2014, Dominique Belhachemi wrote: There is no big difference to all the other packages in Debian. Transitions happen all the time. Compared to other transitions, a transition from 6.0 to 6.1 to 6.2 within one release cycle sounds really different to me. Besides, the older ver

Re: Updating fis-gtm package to 6.1

2014-02-11 Thread Thorsten Alteholz
On Tue, 11 Feb 2014, Bhaskar, K.S wrote: Dominique's suggestion makes sense. There's no issue changing the latest release and having fis-gtm reflect that, so that someone installing fis-gtm always gets the latest release. My concern is just to make sure that installing the latest release w

Re: readseq2 upstream unresponsive

2014-02-20 Thread Thorsten Alteholz
On Wed, 19 Feb 2014, olivier sallou wrote: after several mails to upstream to clarify some license issue, I think we will have to put readseq2 in non-free. I didn't follow the previous discussion. Is it the file that is available at: http://iubio.bio.indiana.edu/soft/molbio/readseq/java/

Re: [MoM] incorporating phyutility into the packages

2014-03-16 Thread Thorsten Alteholz
Hi Stephen, thanks to Andreas I learned today that I need to write more emails and that phyutility is going to be uploaded soon. Before this upload, can you please have a closer look at the (yet) incomplete contents of debian/copyright. Would it make sense to create a separate package from the

Re: [MoM] incorporating phyutility into the packages

2014-03-17 Thread Thorsten Alteholz
Hi Stephen, On Sun, 16 Mar 2014, Stephen Smith wrote: I would be happy to take a look at the copyright contents. However, I am a bit new to this so not exactly sure which bits are missing. In debian/copyright the maintainer must document the copyright holder and license of all files in the so

Re: [MoM] incorporating phyutility into the packages

2014-03-23 Thread Thorsten Alteholz
Hi Stephen, On Thu, 20 Mar 2014, Stephen Smith wrote: Hopefully, yes! I have tracked down as best I can, all the authors of the original JEBL and the LGPL version that it was under. These have been added to the copyright. sorry for not being more verbose, the jebl directory was just one examp

Re: [MoM] incorporating phyutility into the packages

2014-04-01 Thread Thorsten Alteholz
Hi Stephen, lintian tells me something about: W: phyutility: incompatible-java-bytecode-format Java7 version (Class format: 51 I am not a Java expert, but wouldn't this make the package unusable on standard Debian? Do you need src/jade/lib/libmatrixExp.so for anything? Thorsten -- To U

Re: force bowtie2 transition to testing

2014-04-09 Thread Thorsten Alteholz
On Wed, 9 Apr 2014, Andreas Tille wrote: On Wed, Apr 09, 2014 at 05:42:22PM +0200, Alex Mestiashvili wrote: bowtie2 has stuck in unstable because of change in supported architectures. I've opened #742614, but haven't received any reaction so far. Is there anything else one can do to force the

Re: Set of R preliminary packages towards (r-bioc-)BioSeqClass - 2Upload!2U

2014-07-10 Thread Thorsten Alteholz
Hi Steffen, On Thu, 10 Jul 2014, "Steffen Möller" wrote: package, which is all much about machine learning on biological sequences. Those packages work, but are not nice, yet, in particular those are not necessarily DFSG clean at the very moment. It is mostly about PDFs shipping with the source

Re: Updating the fis-gtm package to V6.2-000

2014-09-29 Thread Thorsten Alteholz
On Mon, 29 Sep 2014, Andreas Tille wrote: [amul:4] V6.2-000 is ready for upload! And so I did. Thanks for your work on this Hmm, AGPL code without exception linked with openssl doesn't look well .. Thorsten -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject

Re: Updating the fis-gtm package to V6.2-000

2014-09-30 Thread Thorsten Alteholz
Hi Bhaskar, On Mon, 29 Sep 2014, Bhaskar, K.S wrote: GT.M does not require OpenSSL, does not statically link to it, and does not in a strict sense, depend on OpenSSL. But there is a looser relationship / dependency. hmm, while looking at the Debian package, I found the following comment: "Th

Re: Updating the fis-gtm package to V6.2-000

2014-10-06 Thread Thorsten Alteholz
Hi Bhaskar, On Thu, 2 Oct 2014, Bhaskar, K.S wrote: [KSB] Those *openssl* files are versions of the reference implementation of the plugin compiled with #include, #if, etc. configured to call call OpenSSL.  They are not actually linked to OpenSSL or other libraries - linking happens dynamically.

Re: Updating the fis-gtm package to V6.2-000

2014-10-09 Thread Thorsten Alteholz
On Mon, 6 Oct 2014, Bhaskar, K.S wrote: [KSB2] Adding a license exception to the COPYING file would probably require me to go through Legal and that may add delays that increase the risk of pushing us past the deadline. Aah, ok. Would removing the claim of copyright to the reference impleme

Re: Updating the fis-gtm package to V6.2-000

2014-10-09 Thread Thorsten Alteholz
On Thu, 9 Oct 2014, Andreas Tille wrote: Does it matter that the bug was submitted against 6.1-000 and we are working on V6.2-000? No. We *could* have fixed 6.1-000 before (and it would have migrated to testing then) but since you immediately started working on 6.2 I considered it more sens

Re: Updating the fis-gtm package to V6.2-000

2014-10-09 Thread Thorsten Alteholz
Hi Andreas, On Thu, 9 Oct 2014, Andreas Tille wrote: No. We *could* have fixed 6.1-000 before (and it would have migrated to testing then) but since you immediately started working on 6.2 I considered it more sensible to fix it in 6.2 which can close the bug in the same manner. Hmm, strictly

Re: Updating the fis-gtm package to V6.2-000

2014-10-10 Thread Thorsten Alteholz
Hi Andreas, On Thu, 9 Oct 2014, Andreas Tille wrote: really sense - I'm no fis-gtm user. However, we agreed that for a low popcon package it is not possible to maintain several versions officially. Does this clarify my idea why fixing the licensing issue in fis-gtm-6.2-000 would be sufficient?

Re: [fastaq_1.6.0] - New upstream release

2014-11-19 Thread Thorsten Alteholz
Hi Jorge, On Tue, 18 Nov 2014, Jorge Sebastião Soares wrote: I have just finished packaging the new upstream version of fastaq. "UNRELEASED" in debian/changelog should be better "experimental". Thorsten

Re: [KMC + asmlib] KMC Debian package progress

2014-11-19 Thread Thorsten Alteholz
Hi Jorge, On Tue, 18 Nov 2014, Jorge Sebastião Soares wrote: KMC packaging is done. the Copright:-line in your debian/copyright needs some attention. Thorsten

Re: kmc and fastaq - New upstream release

2014-11-20 Thread Thorsten Alteholz
Hi Jorge, On Wed, 19 Nov 2014, Jorge Sebastião Soares wrote: Does this mean that you'll sponsor the two packages? :) for kmc you need to take two hurdles: finding a sponsor and pass through the NEW queue. I can only help you with one of them (conflict of interest and stuff like that). So you

Re: kmc and fastaq - New upstream release

2014-11-20 Thread Thorsten Alteholz
Hi Jorge, On Thu, 20 Nov 2014, Jorge Sebastião Soares wrote: It would be wonderful to get kmc in as soon as possible. I would be able to finish the IVA package (kmc and fastaq being a dependency) sooner. is there a reason why kmc depends on libboost1.54-all-dev whereas 1.55 is already availa

Re: kmc and fastaq - New upstream release

2014-11-20 Thread Thorsten Alteholz
Hi Jorge, in fastaq you added the .pc directory to the repository. This doesn't look good. Thorsten -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: https://lists.debian.org/alpine.deb.2.

Re: aegean

2014-11-20 Thread Thorsten Alteholz
Hi Sascha, On Thu, 20 Nov 2014, Sascha Steinbiss wrote: may I kindly ask if you could consider into sponsoring aegean as well, not yet, data/share/vendor/jquery.dataTables.js data/misc/amel-ogs-vs-ncbi-parseval-html/vendor/jquery.dataTables.js are under GPLv2 as well and missing in your debi

Re: New package of GWAMA

2014-11-22 Thread Thorsten Alteholz
Hi Dylan, On Sat, 22 Nov 2014, Dylan wrote: I use the Files-Excluded field in copyright file to remove the __MACOSX upstream folder with uscan but I don't know why it doesn't work. one empty line and one "/" too much. Files-Excluded: belongs to the header. commandLine.cpp says: cout <<

December is near

2014-11-26 Thread Thorsten Alteholz
Hi, in order to carry on a tradition, I want to remind everybody of our combined efforts to take care of some poor souls at this time of the year. The days are closing in, the year is drawing to an end and we should think of all those, that are not around with their own kind. Again, during th

Re: python-pbcore's rejection

2015-07-11 Thread Thorsten Alteholz
Hi Afif, On Sat, 11 Jul 2015, Andreas Tille wrote: On Fri, Jul 10, 2015 at 06:42:35PM -0700, Afif Elghraoui wrote: Hi, Andreas, I believe I've corrected the copyright file. My only question is whether I can still call it a BSD-3-clause license if it's slightly modified: the three clauses are vi

Re: python-dendropy_4.0.3-1_amd64.changes REJECTED

2015-10-14 Thread Thorsten Alteholz
Hi everybody, as Andreas seems to have problems with my emails, can someone else please tell him that his long awaiting answer can be found at [1]. Thorsten [1] http://lists.alioth.debian.org/pipermail/debian-med-packaging/2015-October/035277.html

December

2015-12-01 Thread Thorsten Alteholz
Hi everybody, the time has come and in order to carry on a tradition, I want to remind everybody of our combined efforts to take care of some poor souls at this time of the year. The days are closing in, the year is drawing to an end and we should think of all those, that are not around with

Re: December

2015-12-25 Thread Thorsten Alteholz
Hi everybody, Christmas finally arrived and the Advent calendar has been filled with lots of closed bugs. I am really impressed with the achievement of all participants. After the rather small quantity last year, the incredible number of 150 bugs have been closed this year! Thanks alot! Now

smile

2011-05-19 Thread Thorsten Alteholz
Hi, I did some work on smile (which I had to rename to biosmile, as there are other (not yet official) packages already named smile). From my point of view it is lintian clean and buildable by pbuilder. Can one of you please have a look and tell me what things can be improved? Thorsten --

Re: smile

2011-05-20 Thread Thorsten Alteholz
Hi Charles, On Fri, 20 May 2011, Charles Plessy wrote: first of all, welcome to Debian Med and thanks for your contribution ! thanks for the welcoming. I hope there will be lots of contributions to follow. You can probably simplify a lot debian/rules by using the dh command from Debhelper.

Re: smile

2011-05-20 Thread Thorsten Alteholz
On Fri, 20 May 2011, Nelson A. de Oliveira wrote: http://lists.debian.org/debian-infrastructure-announce/2011/05/msg0.html ;-) Oh great, thanks alot for that link. Thorsten -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Cont

Re: [debian-med] Install on ubuntu 10.04.2 or debian 6

2011-05-22 Thread Thorsten Alteholz
On Sun, 22 May 2011, Steffen Möller wrote: There are just too many other bits for me to finish first ... is anybody on this list prepared to jump at it, possibly? At least I will have a look at it. Thorsten

Re: Ginkgo-CADx package - was: Install on ubuntu 10.04.2 or debian 6

2011-05-25 Thread Thorsten Alteholz
On Wed, 25 May 2011, Sebastian Hilbert wrote: Indeed an initial package is already there. I applied some patch, but lintian still complain about a rpath for mpi. Apparently rpath is needed to go pass a lintian error already... Could you please elaborate on what that means ? Is this something up

Re: [debian-med] Install on ubuntu 10.04.2 or debian 6

2011-05-25 Thread Thorsten Alteholz
On Wed, 25 May 2011, Sebastian Hilbert wrote: I think the cmake issue has been taken care of after an hint from upstream. Yes, at least it compiled with only a small patch under sid. But this is a huge beast, it needed more than an hour to build on my small VM... Thorsten -- To UNSUBS

Re: Ginkgo-CADx package - was: Install on ubuntu 10.04.2 or debian 6

2011-05-25 Thread Thorsten Alteholz
On Wed, 25 May 2011, Andreas Tille wrote: I'd say for a first shot on this package which might go to experimental this rpath issue might be ignorable. Are you sure that a package with such an error can be uploaded? Usually it is ugly to have upstream provided debian/ dirs and I always try to

Re: Ginkgo-CADx package - was: Install on ubuntu 10.04.2 or debian 6

2011-05-26 Thread Thorsten Alteholz
On Wed, 25 May 2011, Andreas Tille wrote: Unfortunately I am not yet able to commit anything after the alioth rework. There is still an error: svn: Can't create directory '/svn/debian-med/db/transactions/6851-1.txn': Read-only file system Uhmm. :-( Any location for http download might do fo

Re: Ginkgo-CADx package - was: Install on ubuntu 10.04.2 or debian 6

2011-05-26 Thread Thorsten Alteholz
On Thu, 26 May 2011, Steffen Möller wrote: E: ginkgocadx: binary-or-shlib-defines-rpath usr/lib/ginkgocadx/Plugins/libvisualizator.so.2.4.1.1 /usr/lib/openmpi/lib So this is really an issue. But I think lintian is wrong here. The error should just be overridden. No, the rpath is really adde

Re: Ginkgo-CADx package - was: Install on ubuntu 10.04.2 or debian 6

2011-05-27 Thread Thorsten Alteholz
On Thu, 26 May 2011, Andreas Tille wrote: What exactly is the problem / error message if you try to commit? It is still something like: (...) Sendingtrunk/debian/rules Transmitting file data .svn: Commit failed (details follow): svn: Can't create directory '/svn/debian-med/db/

Re: Ginkgo-CADx package - was: Install on ubuntu 10.04.2 or debian 6

2011-05-27 Thread Thorsten Alteholz
On Fri, 27 May 2011, Steffen Möller wrote: They have somehow changed to some role based stuff ... strange ... I took the role away and added it. Give it a try, please. *sigh* that is really strange. I still get this error. Sounds great! I am just having some ssh key issue myself and will (if

Re: Ginkgo-CADx package - was: Install on ubuntu 10.04.2 or debian 6

2011-05-30 Thread Thorsten Alteholz
On Thu, 26 May 2011, Thorsten Alteholz wrote: Unfortunately I am not yet able to commit anything after the alioth rework. There is still an error: svn: Can't create directory '/svn/debian-med/db/transactions/6851-1.txn': Read-only file system Ok, it seems to be that I am

Re: rev 6863 (Re: Ginkgo-CADx package - was: Install on ubuntu 10.04.2 or debian 6)

2011-05-30 Thread Thorsten Alteholz
On Mon, 30 May 2011, Andreas Tille wrote: Hoping for somebody who cares about the copyright file now ... There are about 1800 files to be checked. Are there any tools to make this task a bit easier? Thorsten -- To UNSUBSCRIBE, email to debian-med-requ...@lists.d

Re: smile

2011-05-31 Thread Thorsten Alteholz
Hi everybody, from my point of view package smile is ready to be uploaded now. Although it might not be the most popular one, it is still on the tasks list and somebody else might want to use it. What will be the next steps? Shall I build the package and upload it somewhere? What about the svn

Re: smile

2011-06-01 Thread Thorsten Alteholz
Hi Andreas, On Wed, 1 Jun 2011, Andreas Tille wrote: to pay some respect to your efforts as a newcomer I spended some minuted (the package was really well prepared so it did not needed more than a small break from my usual work) to finally upload. great, thanks alot. Thorsten -- To UNSUB

Re: rev 6863 (Re: Ginkgo-CADx package - was: Install on ubuntu 10.04.2 or debian 6)

2011-06-04 Thread Thorsten Alteholz
Hi everybody, thanks for all your tips. I think I am almost finished now with the copyright file. The only open issue is with file src/cadxcore/xmlrpc/base64.h The author of this file is listed but there is no license mentioned. Strictly speaking one may not do anything with such a file. So whe

Re: rev 6863 (Re: Ginkgo-CADx package - was: Install on ubuntu 10.04.2 or debian 6)

2011-06-04 Thread Thorsten Alteholz
On Fri, 3 Jun 2011, Sebastian Hilbert wrote: Is there any special formatting or is it more or less "mention license(s) for any file distributed in the package" ? It should be in some kind of DEP-5 format. I am not sure whether this format has to be applied yet. Is this enough or is there

Re: rev 6863 (Re: Ginkgo-CADx package - was: Install on ubuntu 10.04.2 or debian 6)

2011-06-04 Thread Thorsten Alteholz
On Sat, 4 Jun 2011, Steffen Möller wrote: Formally there may be a problem. But I'd say it is fair to assume the dominating license of the package or of that folder. Is it the only contribution from that author? Yes, it is only one file. Just come up with your in

dotur

2011-06-04 Thread Thorsten Alteholz
Hi, as I really don't like incomplete stuff, I did some work on dotur. In case it shall become a real package, we need an ITP. In case this software is useless now, it can be removed from the list of tasks. What are your opinions? Thorsten -- To UNSUBSCRIBE, email to debian-med-requ...@lis

Re: svn alioth issue

2011-06-06 Thread Thorsten Alteholz
Hi Olivier, On Mon, 6 Jun 2011, Olivier Sallou wrote: I tried to rename one dir (ncbi-blast-plus to ncbi-blast+) with svn rename. On commit I have an error: can you please check whether you try to commit to alioth.debian.org or svn.debian.org? In case it is alioth, you will get this error. On

Re: Bug#629344: ITP: plastimatch -- medical image reconstruction and registration

2011-06-06 Thread Thorsten Alteholz
Hi Gregory, On Sun, 5 Jun 2011, Gregory Sharp wrote: Finally I got the Alioth ssh keys to work, but I had a trouble uploading the directory into debian-med. Any idea what I did wrong? from which host did you checkout your repository? If it is alioth, you need to 'svn switch' to svn.debian.or

Re: svn alioth issue

2011-06-06 Thread Thorsten Alteholz
On Mon, 6 Jun 2011, Olivier Sallou wrote: I have: URL: svn+ssh://osallou-gu...@scm.alioth.debian.org/svn/debian-med/trunk/packages Repository Root: svn+ssh://osallou-gu...@scm.alioth.debian.org/svn/debian-med Everything.alioth.debian.org is equal to alioth.debian.org and now points to wagne

Re: dotur

2011-06-07 Thread Thorsten Alteholz
On Sat, 4 Jun 2011, Andreas Tille wrote: it is included in BioLinux is a sign that it is used in practice. So if nobody insists filing an ITP bug seems reasonable. Ok, the bugnumber of the ITP is added to debian/changelog now. Thorsten -- To UNSUBSCRIBE, email to debian-med-requ...@list

Re: First upload of ncbi-blast+

2011-06-07 Thread Thorsten Alteholz
Hi Olivier, On Tue, 7 Jun 2011, Olivier Sallou wrote: Can someone have a look and upload to ftp master ? I have to admit that I am not a blast expert so please excuse if I am asking strange questions. While building your package I got some output that I don't understand completely. Could the

Re: Ginkgo-CADx arrived in Debian

2011-06-18 Thread Thorsten Alteholz
On Sat, 18 Jun 2011, Sebastian Hilbert wrote: architecture seems to be amd64. No, it is not. Is there a reason why architecture is not 'all' From the control-file: "Architecture: any" But amd64 is the only architecture where this package builds up to now. Or in other words, due to the

Wiki

2011-06-21 Thread Thorsten Alteholz
Hi, on http://www.debian.org/devel/debian-med/index.en.html in the Links section is something written about Wikiomics. Is the link to that website really added intentionally? Thorsten -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble?

Re: Fwd Fed-Med: toothchart has been packaged

2011-07-06 Thread Thorsten Alteholz
Hi, On Mon, 4 Jul 2011, Andreas Tille wrote: I'm not specifically convinced that this is one that we should rank high on top of our priority list. Anybody wants to prove me wrong? it is just one index.php and some images of teeth. If you want to add a date of a new tooth, you have to manuall

ITP: vcftools -- designed for working with VCF files

2011-07-08 Thread Thorsten Alteholz
Package: wnpp Severity: wishlist * Package name: vcftools Version : 0.1.5 Upstream Author : Adam Auton, Petr Danecek * URL : http://vcftools.sourceforge.net * License : GPL-3.0 Description : designed for working with VCF files VCFtools is a program packa

Re: License of Prism

2011-07-14 Thread Thorsten Alteholz
On Wed, 13 Jul 2011, Karsten Hilbert wrote: I do see packages compiling Lisp in postinst. Can you please give me an example and do you know why they do it? Thorsten -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas.

Re: License of Prism

2011-07-14 Thread Thorsten Alteholz
(I would love if some volunteer would prove me wrong and starts That is my prompt. I sticked by the user reference manual and ignored the requirement of Allegro Common Lisp. I used clisp and was able to load the config file. During (mk:compile-system :prism) lots of warnings like: ;

Re: Prism build attempts

2011-07-15 Thread Thorsten Alteholz
On Thu, 14 Jul 2011, Ira Kalet wrote: I'm responding to Thorsten's attempt to build Prism in CLISP. It has been done, but at this point you have to really know more about Lisp. Ok, so I will help as far as I can and hope that there is a LISP expert who can step in. I will work on this - th

fis-gtm

2011-07-20 Thread Thorsten Alteholz
Hi everybody, it should be possible to build three packages for fis-gtm now. One is just a meta-package, one is a package with the initial (precompiled) software and one is a package that allows the binaries to be built from source. If anybody wants to have a look, I would be happy to get som

Re: fis-gtm

2011-07-21 Thread Thorsten Alteholz
On Thu, 21 Jul 2011, Bhaskar, K.S wrote: I replied on-list to Thorsten's e-mail yesterday, but my reply never showed up in my Inbox. Did others receive it? No, your first attempt didn't arrive here. Thorsten -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject

Re: fis-gtm

2011-07-21 Thread Thorsten Alteholz
Hi Andreas, On Thu, 21 Jul 2011, Andreas Tille wrote: For the packaging itself I wonder if there is really a need for asking for a user and group name for the fisgtm user. I'd say this is not common (apache uses www-data, postgresql is using postgres both without asking the user for a n

Re: fis-gtm

2011-07-21 Thread Thorsten Alteholz
Hi Bhaskar, On Wed, 20 Jul 2011, Bhaskar, K.S wrote: I manage the upstream FIS GT.M project. good to have you here on the list, so I can pelt you with questions :-). One of our developers, Laurent Parenteau (a member of Debian Med) has volunteered to

Re: fis-gtm

2011-07-21 Thread Thorsten Alteholz
On Thu, 21 Jul 2011, Andreas Tille wrote: Well, there is no written law that we have to stick to this. While it is a usual thing to do to follow upstream with his file layout of the release tarballs, there are several examples where we derive from this. There just should be good reasons to do

Re: fis-gtm

2011-07-22 Thread Thorsten Alteholz
Hi Laurent, On Thu, 21 Jul 2011, Laurent Parenteau wrote: I think it would be better if the packages would have the version number in the name, and maybe have fis-gtm depend on the latest release.  This way, one could install multiple different versions of GT.M if needed. you could already do

Re: fis-gtm

2011-07-22 Thread Thorsten Alteholz
On Fri, 22 Jul 2011, Andreas Tille wrote: I do not know about examples, but I think the watch file would be perfectly the same. Just fetch the amd64 file in the get-orig-source as well. Ok, I committed my first attempt of a combined package. If everything works, the root dir has to be changed

Re: fis-gtm

2011-07-23 Thread Thorsten Alteholz
Hi Laurent, On Fri, 22 Jul 2011, Laurent Parenteau wrote: On Thu, 21 Jul 2011, Laurent Parenteau wrote: I think it would be better if the packages would have the version number in the name, and maybe have fis-gtm depend on the latest release. This way, one could install multiple different vers

Re: ginkgocadx-2.5.1.0.tgz released. was: (ginkgocadx-2.5.0.1.tgz released)

2011-07-24 Thread Thorsten Alteholz
On Sun, 24 Jul 2011, Andreas Tille wrote: Thus pinging the list if it is important to you might always help. It does not build here. /usr/lib/libpng.so is needed but only /usr/lib/i386-linux-gnu/libpng.so is available. The multiarch support was added on 19.07. in libpng ... Thorsten -- To

Re: fis-gtm

2011-07-25 Thread Thorsten Alteholz
Hi Bhaskar, sorry that I have so much questions, but I really want to understand your philosophy. I copied paragraphs from some of your latest mails and put my question/comment below: [KSB] I am not sure what you mean by "what other people choose". (...) So, there is no special GT.M user. Pe

Re: fis-gtm

2011-08-02 Thread Thorsten Alteholz
Hi Bhaskar, On Mon, 25 Jul 2011, Bhaskar, K.S wrote: For Linux, root.root is preferred and bin.bin is acceptable. Also, the norm should be to allow world execution of GT.M. ok, finally I have got it ;-). [KSB2] I don't understand the part about calling the configure script twice. Oh, I th

Re: Ginkgo-CADx - we are not there (Was: CMake library dependency files; ginkgocadx experimental build, testers wanted!)

2011-08-08 Thread Thorsten Alteholz
On Sun, 7 Aug 2011, Andreas Tille wrote: I just tried another test but things did not changed regarding the Socket.cpp.o -c /tmp/buildd/ginkgocadx-2.5.2.0/src/cadxcore/xmlrpc/XmlRpcSocket.cpp make[3]: *** No rule to make target `/usr/lib/libpng.so', needed by `src/cadxcore/libCADxCore.so.2

Re: duplicate-changelog-files

2011-08-23 Thread Thorsten Alteholz
Hi Mathieu, On Tue, 23 Aug 2011, Mathieu Malaterre wrote: lintian /home/mathieu/debian/debian-med/trunk/packages/dcmtk/build-area/dcmtk_3.6.0-8_amd64.changes W: dcmtk: duplicate-changelog-files usr/share/doc/dcmtk/CHANGES.360.gz usr/share/doc/dcmtk/changelog.gz did you do an update lately? Ma

Re: Communication channels: Please raise your opinion

2011-08-24 Thread Thorsten Alteholz
Hi everybody, On Wed, 24 Aug 2011, Andreas Tille wrote: To see if this might work I would like to propose a first IRC meeting next Monday 29.8. at 17:00 GMT in #debian-med. I thought I could break with IRC but it seems to track me :-). Anyway, depending on the weather conditions on that day,

  1   2   >