Re: [Debian-med-packaging] Bug#609038: ITP: biomaj -- a biological databank update and processing tool

2011-02-14 Thread Olivier Sallou
Hi, the issue is commons-cli-2 never released an "official" release. Version is stable, but project dropped on snapshot release. The version 1 is not compatible (new features were added to version 2). I can get the commons-cli2 sources, and get it compiled with biomaj, but I don't know if it s

Re: [Debian-med-packaging] Bug#609038: ITP: biomaj -- a biological databank update and processing tool

2011-02-14 Thread Andreas Tille
On Mon, Feb 14, 2011 at 09:41:00AM +0100, Olivier Sallou wrote: > Hi, > the issue is commons-cli-2 never released an "official" release. Version > is stable, but project dropped on snapshot release. > The version 1 is not compatible (new features were added to version 2). > > I can get the common

Re: Help wanted in Java library packaging (JEBL2)

2011-02-14 Thread Andreas Tille
On Sun, Feb 13, 2011 at 11:32:55PM +0100, Giovanni Mascellani wrote: > I would try to debug it, but your package wants to depend against > libjam-java and I don't know where to find it. Searching on your page on > p.d.o didn't help. Ahh, I added it for completenes now to http://people.debian.o

Re: Help wanted in Java library packaging (JEBL2)

2011-02-14 Thread Andreas Tille
On Sun, Feb 13, 2011 at 07:46:27PM -0500, Scott Howard wrote: > I added: > > /usr/share/maven-repo/org/freehep/freehep-graphicsio-swf/2.1.1/freehep-graphicsio-swf-2.1.1.jar > /usr/share/maven-repo/org/freehep/freehep-graphicsio-emf/2.1.1/freehep-graphicsio-emf-2.1.1.jar > /usr/share/maven-repo/org

Re: Help wanted in Java library packaging (JEBL2)

2011-02-14 Thread Andreas Tille
On Sun, Feb 13, 2011 at 07:46:27PM -0500, Scott Howard wrote: > Giovanni: can you help me out with this? Do you know why the links for > -swf -emf -svg don't work but the links for -pdf -ps do work? > The libraries you are looking for are located at: > http://people.debian.org/~tille/packages/figtr

fakeroot and maven

2011-02-14 Thread Olivier Sallou
Hi, I want to build a lib with maven in my packaging process. I have an issue though with fakeroot. Maven requires a repository (under debian is /usr/share/maven-repo. I do not have the rights (unless being root) to write in this dir, so it fails with fakeroot. I tried to use a specific sett

Re: fakeroot and maven

2011-02-14 Thread Andreas Tille
On Mon, Feb 14, 2011 at 06:32:16PM +0100, Olivier Sallou wrote: > Hi, > I want to build a lib with maven in my packaging process. > I have an issue though with fakeroot. Maven requires a repository (under > debian is /usr/share/maven-repo. > > I do not have the rights (unless being root) to write

Re: vienna-rna is almost ready

2011-02-14 Thread Alex Mestiashvili
On 02/10/2011 09:55 PM, Manuel Prinz wrote: Hi Alex! On Thu, Feb 03, 2011 at 05:04:34PM +0100, Alex Mestiashvili wrote: What else should be done to process this package ? Sorry for replying late! I had a quick look at your package. It's looks very good given that you just started to

GNUmed - salaam.homeunix.com

2011-02-14 Thread Sebastian Hilbert
Hi all, Due to the unexpected loss of the (dyndns) domain salaam.homeunix.com the public database cannot be reached under this domain any more. The new domain is publicdb.gnumed.de. This needs to be fixed in the config files and will be in gnumed-client 0.8.7 and 0.9.0. Until those versions ar

Re: vienna-rna is almost ready

2011-02-14 Thread Andreas Tille
On Mon, Feb 14, 2011 at 07:18:42PM +0100, Alex Mestiashvili wrote: > > another thing is that we don't touch RNAforester/g2-0.70/ which is > excluded by one of the patches . > So I don't understand how dh --with autotools_dev $@ should help . It will most probably not help in this specific case (

Re: GNUmed - salaam.homeunix.com

2011-02-14 Thread Andreas Tille
On Mon, Feb 14, 2011 at 08:01:51PM +0100, Sebastian Hilbert wrote: > Hi all, > > Due to the unexpected loss of the (dyndns) domain salaam.homeunix.com the > public database cannot be reached under this domain any more. > > The new domain is publicdb.gnumed.de. This needs to be fixed in the confi

Re: GNUmed - salaam.homeunix.com

2011-02-14 Thread Sebastian Hilbert
On Monday 14 February 2011 20:16:02 Andreas Tille wrote: > On Mon, Feb 14, 2011 at 08:01:51PM +0100, Sebastian Hilbert wrote: > > Hi all, > > > > Due to the unexpected loss of the (dyndns) domain salaam.homeunix.com the > > public database cannot be reached under this domain any more. > > > > The

Proposal of two new programs: FinchTV and TraceEdit

2011-02-14 Thread Tomasz Makarewicz
Hi, There are two free of charge (unfortunately not open source) programs for Linux which I found very usefull in analysing DNA sequence from chromatogram. The first one is FinchTV: http://www.geospiza.com/Products/finchtv.shtml And the second one is: Ridom TraceEdit: http://www.ridom.de/traceedit/

Proposal of two new programs: FinchTV and TraceEdit

2011-02-14 Thread Tomasz Makarewicz
Hi, There are two free of charge (unfortunately not open source) programs for Linux which I found very usefull in analysing DNA sequence from chromatogram. The first one is FinchTV: http://www.geospiza.com/Products/finchtv.shtml And the second one is: Ridom TraceEdit: http://www.ridom.de/traceedit/

FYI: Open source EMR CMS 3.0

2011-02-14 Thread Sebastian Hilbert
CMS 3.0 http://www.hkma.org/taoyuan/index.htm Regards, Sebastian Hilbert -- 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/201102142206.44415.sebastian.hilb...@gmx.net

Re: Proposal of two new programs: FinchTV and TraceEdit

2011-02-14 Thread Andreas Tille
On Mon, Feb 14, 2011 at 09:16:01PM +0100, Tomasz Makarewicz wrote: > There are two free of charge (unfortunately not open source) programs for > Linux which I found very usefull in analysing DNA sequence from > chromatogram. > The first one is FinchTV: http://www.geospiza.com/Products/finchtv.shtml

Re: FYI: Open source EMR CMS 3.0

2011-02-14 Thread Andreas Tille
On Mon, Feb 14, 2011 at 10:06:44PM +0100, Sebastian Hilbert wrote: > http://www.hkma.org/taoyuan/index.htm Thanks for the hint - added to HIS task Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Co

Re: Help wanted in Java library packaging (JEBL2)

2011-02-14 Thread Scott Howard
On Mon, Feb 14, 2011 at 7:45 AM, Andreas Tille wrote: > $ figtree > Exception in thread "main" java.lang.NoClassDefFoundError: > jam/framework/MultiDocApplication >        at java.lang.ClassLoader.defineClass1(Native Method) >        at java.lang.ClassLoader.defineClass(ClassLoader.java:634) >  

Bug#613486: ITP: libgtextutils -- Gordon Text_utils library

2011-02-14 Thread Charles Plessy
Package: wnpp Severity: wishlist Owner: Charles Plessy Hello everybody, I will package some bioinformatics tools called FASTX-Toolkit, and they require a separate library, gtextutils, which is used only by them. But since it is distributed as a separate tarball, the simplest is still to distribt

Re: Help wanted in Java library packaging (JEBL2)

2011-02-14 Thread Giovanni Mascellani
On 14/02/2011 10:12, Andreas Tille wrote: >> Giovanni: can you help me out with this? Do you know why the links for >> -swf -emf -svg don't work but the links for -pdf -ps do work? >> The libraries you are looking for are located at: >> http://people.debian.org/~tille/packages/figtree-help-wanted/