[EMBOSS] error in ajacd.c

[Bent Terp]

On Mon, 2004-07-26 at 08:57, kenix y wrote:
> Hi,
> 
> Thanks for replying.
> I don't seems to have EMBOSS in /usr/share, it's in /opt/BioBrew.
> And the paths you gave me
> >declare -x EMBOSS_ACDROOT="/usr/share/EMBOSS/acd"
> >declare -x EMBOSS_DATA="/usr/share/EMBOSS/data"
> >declare -x EMBOSS_DATABASE_DIR="/usr/share/EMBOSS/data"
> >declare -x EMBOSS_DOCROOT="/usr/share/EMBOSS/doc"
> 
> I find them in /opt/BioBrew/EMBOSS/2.6.0/share/EMBOSS
> 
> Should the paths be changed to
> >declare -x EMBOSS_ACDROOT="/opt/BioBrew/EMBOSS/2.6.0/share/EMBOSS/acd"
> >declare -x EMBOSS_DATA="/opt/BioBrew/EMBOSS/2.6.0/share/EMBOSS/data"
> >declare -x 
> >EMBOSS_DATABASE_DIR="/opt/BioBrew/EMBOSS/2.6.0/share/EMBOSS/data"
> >declare -x EMBOSS_DOCROOT="/opt/BioBrew/EMBOSS/2.6.0/share/EMBOSS/doc"
> 
> in my case?

If you have a dir called /opt/BioBrew/EMBOSS/2.6.0/share/EMBOSS/acd then
yes

Out of sheer curiosity, what else have you got installed in
/opt/BioBrew? Merely interested to know of other apps I should add to
BioRPMS....

> 
> Thank you.
> 
> >From: Bent Terp <Bent.Terp at biosci.ki.se>
> >To: EMBOSS list <emboss at hgmp.mrc.ac.uk>
> >Subject: Re: [EMBOSS] error in ajacd.c
> >Date: Mon, 26 Jul 2004 08:26:52 +0200
> >
> >On Mon, 2004-07-26 at 05:51, kenix y wrote:
> > > Hi,
> > >
> > > When I try to run any emboss application, I got the following error:
> > > error while loading shared libraries: libnucleus.so.0: cannot open 
> >shared
> > > object file: no such file or directory.
> > > But the file is located at /opt/BioBrew/EMBOSS/2.6.0/lib/
> > >
> > > After I tried to set up the environment for using EMBOSS in ~/.bashrc
> > > export LD_LIBRARY_PATH=/opt/BioBrew/EMBOSS/2.6.0/lib:$LD_LIBRARY_PATH
> > >
> > > the error changed to
> > > EMBOSS An error in ajacd.c at line 1534: acdfile
> > > '/home/build/BuildRoot-ia32/BUILD/EMBOSS-2.6.0/emboss/acd/wossname.acd' 
> >not
> > > opened.
> > >
> > > Does anyone knows how to solve this?
> >
> >You need your environment set up as in the installation docs. Basically
> >add this to your .bashrc:
> >declare -x EMBOSS_ACDROOT="/usr/share/EMBOSS/acd"
> >declare -x EMBOSS_DATA="/usr/share/EMBOSS/data"
> >declare -x EMBOSS_DATABASE_DIR="/usr/share/EMBOSS/data"
> >declare -x EMBOSS_DOCROOT="/usr/share/EMBOSS/doc"
> >
> >substituting /opt/BioBrew/EMBOSS for /usr/share/EMBOSS
> >
> ><shameless self-plug> alternatively, if you're using redhat, you can
> >install EMBOSS through <a href="http://apt.bea.ki.se>BioRPMS</a>
> ></shameless self-plug>
> >
> > >
> > > Thank you
> > >
> > > Rgds,
> > > kenix
> > >
> > > _________________________________________________________________
> > > Get 10mb of inbox space with MSN Hotmail Extra Storage
> > > http://join.msn.com/?pgmarket=en-sg
> >--
> >MVH / With kind regards,
> >         Bent Terp <Bent.Terp at biosci.ki.se>
> >         System Administrator
> >         Bioinformatics and Expression Analysis Core Facility
> >         Karolinska Institute, Department of Biosciences
> >         Hlsovagen 7-9, 141 57 Huddinge, Sweden
> 
> _________________________________________________________________
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-- 
/Benty