Bug#487026: ITP: velvet -- Sequence assembler for very short reads

2008-06-19 Thread Charles Plessy
Package: wnpp Severity: wishlist Owner: Charles Plessy [EMAIL PROTECTED] Package name: velvet Version : 0.6.03 Upstream Author : Daniel Zerbino URL : http://www.ebi.ac.uk/~zerbino/velvet/ License : GPL-2+ Programming Lang: C Description : Sequence

Re: Bug#487026: ITP: velvet -- Sequence assembler for very short reads

2008-06-19 Thread Charles Plessy
Le Thu, Jun 19, 2008 at 01:38:38PM +0200, Andreas Tille a écrit : On Thu, 19 Jun 2008, Charles Plessy wrote: A private preliminary package that I made for work is available upon request. Unless somebody asks for fast-tracking, Perhaps you inject your preliminary work in SVN Well, it is

Re: Bug#487026: ITP: velvet -- Sequence assembler for very short reads

2008-06-19 Thread Manuel Prinz
Hi Charles! Am Donnerstag, 19. Juni 2008 17:08:01 schrieb Charles Plessy: The program is designed to be linked on a local copy of zlib. Through Google, I figured out that adding -lm and -lz it helps to build it against Debian's -dev package, but I really do not understand what I did (I am not

Re: Bug#487026: ITP: velvet -- Sequence assembler for very short reads

2008-06-19 Thread Andreas Tille
On Fri, 20 Jun 2008, Charles Plessy wrote: Well, it is that I have caught a kind of strange disease: I spend half of my time at work reading git manpages pretending that it will increase my productivity, and this package is in a git repository... Well, I have no problem with Git - I just

Re: Bug#487026: ITP: velvet -- Sequence assembler for very short reads

2008-06-19 Thread Charles Plessy
Hi all, velvet is now in Debian-Med's repository. http://svn.debian.org/wsvn/debian-med/trunk/packages/velvet/trunk/?rev=0sc=0 A historical copy of the git original repository can be found at http://charles.plessy.org/debian/velvet Basically what I did was to disable the building of local zlib,

Re: Bug#487026: ITP: velvet -- Sequence assembler for very short reads

2008-06-19 Thread Nelson A. de Oliveira
Hi! On Thu, Jun 19, 2008 at 11:40 PM, Charles Plessy [EMAIL PROTECTED] wrote: Basically what I did was to disable the building of local zlib, include the zlib.h from /usr/include instead of the local one, and add -lm and -lz to CFLAGS from CDBS. Any idea what -lm and -lz mean? You are linking

Re: Bug#487026: ITP: velvet -- Sequence assembler for very short reads

2008-06-19 Thread Charles Plessy
Le Thu, Jun 19, 2008 at 11:52:37PM -0300, Nelson A. de Oliveira a écrit : Hi! On Thu, Jun 19, 2008 at 11:40 PM, Charles Plessy [EMAIL PROTECTED] wrote: Basically what I did was to disable the building of local zlib, include the zlib.h from /usr/include instead of the local one, and add

Re: Bug#487026: ITP: velvet -- Sequence assembler for very short reads

2008-06-19 Thread Andreas Tille
On Fri, 20 Jun 2008, Charles Plessy wrote: the zlib.h from /usr/include instead of the local one, and add -lm and -lz to CFLAGS from CDBS. Any idea what -lm and -lz mean? You are linking against the math library (-lm) and zlib (-lz). Yes. Aaah thank you Nelson, now I understand :) -lm and