[BioBrew Users] Compiling with BioBrew EMBOSS

[Glen Otero]

Congratulations! That sounded very painful.

Where did you get the libs and devel packages for EMBOSS? Did you  
install them and then build the emnu package by hand?
How are you going to install emnu so that the user can access it?  
Just install it on the head node?

Glen

On May 23, 2006, at 10:01 AM, Jeremy Mann wrote:

> Thanks for the reply Glen. I finally compiled it by hand in 32bit  
> mode with:
>
> gcc -m32 -O2 -o emnu emnu.o  -L/usr/lib -lmenu -lform -L/usr/X11R6/lib
> -lX11 -lm -lncurses -Wl,--rpath -Wl,/usr/lib -Wl,--rpath -Wl,/usr/lib
>
> Its for this one researcher who wants to just type the menu (emnu) and
> select his EMBOSS program.
>
> On 5/23/06, Glen Otero <glen at callident.com> wrote:
>> Hmmm... this makes me think that there is a good reason why emnu
>> isn't included in the EMBOSS package ; )
>>
>> Where did you get the devel and libs packages? Point me to them, and
>> I can take a crack at building them.
>> You might look for help about building these packages together on any
>> EMBOSS lists that you can find .
>> It looks like emnu has a not so clear relationship with EMBOSS and
>> EMBASSY.
>>
>> Are you trying to build this for x86_64?
>>
>> Glen
>>
>> On May 23, 2006, at 8:31 AM, Jeremy Mann wrote:
>>
>> > I've installed the EMBOSS-libs and EMBOSS-devel packages and I'm
>> > trying to compile EMNU against it. The problem is the configure  
>> script
>> > runs embossversion and it inserts the InstallDirectory variable for
>> > embprefix which is /var/tmp/EMBOSS-build. I can't seem to get  
>> around
>> > this. I've tried to edit the two Makefiles for EMNU and I've tried
>> > compiling it in 64 and 32 bit modes. The 64bit mode errors  
>> because it
>> > can't link against the 32bit static libs and the 32bit mode errors
>> > with:
>> >
>> > emnu.o(.text+0x1a58): In function `populate_program_menus':
>> > : undefined reference to `ajListIterRead'
>> > emnu.o(.text+0x1a63): In function `populate_program_menus':
>> > : undefined reference to `ajListIterNext'
>> > emnu.o(.text+0x1a76): In function `populate_program_menus':
>> > : undefined reference to `ajStrLen'
>> >
>> > and on and on.
>> >
>> > Thanks for any help!
>> >
>> > --
>> > Jeremy
>> > _______________________________________________
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>> > BioBrew-Users at bioinformatics.org
>> > https://bioinformatics.org/mailman/listinfo/BioBrew-Users
>> >
>> >
>>
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>
>
> -- 
> Jeremy
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