[Biococoa-dev] ultraconserved sarray info

paolo siniselli paolo_siniselli at yahoo.it
Wed Jul 16 17:40:13 EDT 2008

Hi Scott,
How can I combine all the suffix array files for an organism into a single suffix array so that mcp_sarray is just run once?
I'd like to compare two sarray files for each two organisms comparison such as human vs mouse...

--- Lun 14/7/08, Scott Christley <schristley at mac.com> ha scritto:
Da: Scott Christley <schristley at mac.com>
Oggetto: Re: [Biococoa-dev] Biococoa2 Install issue
A: paolo_siniselli at yahoo.it
Cc: "biococoa" <biococoa-dev at bioinformatics.org>
Data: Lunedì 14 luglio 2008, 23:27

Hello Paolo,
There is an environment configuration script that comes with GNUstep, you need to "source" this script to setup the GNUstep environment before compiling or running applications.  Maybe something like this:
. /usr/share/GNUstep/Makefiles/GNUstep.sh

As a side note, some of the reports I've heard from people is that the GNUstep which comes with Debian is old and has bugs, I cannot say how well it will work with BioCocoa.

On Jul 14, 2008, at 2:06 PM, paolo siniselli wrote:
I'm trying to install BioCocoa2 on my Linux Debian (Lenny)
I've already installed GNUstep
So I went into truck/GNUstep folder and I typed "make install" but I received an error back:
GNUmakefile:27: *** You need to run the GNUstep configuration script before compiling!.  Stop.

Those are the files in GNUstep directory:
aminoacids.plist  GNUmakefile.postamble  GNUmakefile.subproj
GNUmakefile       GNUmakefile.preamble   nucleotides.plist

And those are the file in truck direcotry:
BCAppKit           BioCocoa.xcodeproj  Examples     Publications.txt
BCFoundation       Copying.txt         GNUstep      Readme.txt
BC.icns            DeveloperDocs       license.txt  Resources
BioCocoa_Prefix.h  Documentation       main.c       Tests


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