[EMBOSS] jemboss

[Beny Spira]

Thanks Charles

I've installed Sun's jdk and pointed the path as you recommended, but the
install program jut ignored it. It kept asking where java is installed, and
when pointed to /usr/lib/jvm/java-
>
> 6-sun-1.6.0.07/include  or to usr/lib/jvm/java-6-sun-1.6.0.07/include/linux
> it did not accept it.
>
I am not sure about which java is installed by default in Debian, as there
appears to be more than one (gcj, eclipse and now sun's jre and jdk).
Is there anything else that may be done to install Jemboss?

Beny

Le Fri, Aug 29, 2008 at 12:21:43PM -0300, Beny Spira a écrit :
> > Thanks for the answers. The libgd2-devel package was indeed missing. I
> > installed libgd2-xpm-dev and jemboss installation went smoothly.
> > However, I can't run jemboss, there is no response to the command
> > ./runJemboss.sh
> > I checked the permissions and it is OK.
> > I even installed the entire EMBOSS package again, but still cannot make
> it
> > work.
> > Any clue what might be wrong?
>
> Maybe you forgot to give the path to the jdk when calling the configure
> script?
>
> If you use the non-free Sun Java package distributed by Debian (Lenny
> release), the following option should do the job:
>
> --with-java=/usr/lib/jvm/java-6-sun-1.6.0.07/include
> --with-javaos=/usr/lib/jvm/java-6-sun-1.6.0.07/include/linux
>
> The freed version of Sun Java is unfortunately not ready yet, and I do
> not know if jemboss works with alternatives (gcj, ...). If it were so,
> please contact me, and I will make an official jemboss package for
> Debian. If not, we will have to wait for "IcedTea" to be ready.
>
> Have a nice day,
>
> --
> Charles Plessy
> Debian Med packaging team,
> Tsurumi, Kanagawa, Japan
> _______________________________________________
> EMBOSS mailing list
> EMBOSS at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/emboss
>



-- 
Beny Spira
Departamento de Microbiologia
Instituto de Ciências Biomédicas
Universidade de São Paulo
Av. Prof. Lineu Prestes 1374
São Paulo-SP CEP:05508-900
Brasil
Tel: 5511-3091-7347
FAX: 5511-3091-7354
E-mail: benys at usp.br
Homepage: www.icb.usp.br/~benys