[Dock-fans] Dock-fans Digest, Vol 60, Issue 7

Prashant Kumar prashantkbio at gmail.com
Thu May 21 06:50:30 PDT 2009


Hi Aurum,
               I thing you are trying to compile to dock 6.2 with the newer
version of ZAP which is available at open eye site. Try to get the older
version of zap (it need only two file ie libOEZAP.a and oe_zap_lib.h )and
note that it won't support to 64bit machine.

On Fri, May 8, 2009 at 12:30 AM, <dock-fans-request at docking.org> wrote:

> Send Dock-fans mailing list submissions to
>        dock-fans at docking.org
>
> To subscribe or unsubscribe via the World Wide Web, visit
>        http://blur.compbio.ucsf.edu/mailman/listinfo/dock-fans
> or, via email, send a message with subject or body 'help' to
>        dock-fans-request at docking.org
>
> You can reach the person managing the list at
>        dock-fans-owner at docking.org
>
> When replying, please edit your Subject line so it is more specific
> than "Re: Contents of Dock-fans digest..."
>
>
> Today's Topics:
>
>   1. Re: About compile dock6.2 with "gnu.parallel.pbsa" (Aurum Bai)
>   2. Re: About compile dock6.2 with "gnu.parallel.pbsa" (Aurum Bai)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Thu, 7 May 2009 11:44:42 +0800 (CST)
> From: Aurum Bai <javacfish at yahoo.com.cn>
> Subject: Re: [Dock-fans] About compile dock6.2 with
>        "gnu.parallel.pbsa"
> To: Aurum Bai <javacfish at yahoo.com.cn>
> Cc: dock-fans at docking.org
> Message-ID: <522917.33499.qm at web15007.mail.cnb.yahoo.com>
> Content-Type: text/plain; charset=iso-8859-1
>
>
> I have found this problem,I can compile on the "gnu.parallel.pbsa" on 32bit
> computer, but not on the 64 bit computer.
>
> In addition, I have search the question by google,I fllow this method (
> http://blur.compbio.ucsf.edu/pipermail/dock-fans/2006-October/000752.html).
> But I still conld compile dock program.
>
> The question still focus on the "libOEZAP.a", which it only support the 32
> bit computers.
>
> Who can send the 64 bit "libOEZAP.a" to me? Or who can the good way to
> solve this problem?
>
> Thanks
> Aurum bai
>
> --- On Wed, 5/6/09, Aurum Bai <javacfish at yahoo.com.cn> wrote:
>
> > From: Aurum Bai <javacfish at yahoo.com.cn>
> > Subject: About compile dock6.2 with "gnu.parallel.pbsa"
> > To: dock-fans at docking.org
> > Date: Wednesday, May 6, 2009, 7:26 PM
> > Hello,everyone!
> >
> > I compile the dock6.2 by confiugre "gnu.parallel.pbsa".When
> > I do "make all"
> > Some wrong happen as below:
> > "
> > make[3]: Leaving directory
> > `/home/bai/soft/dock6/src/dock/nab'
> > /home/bai/soft/mpich2/bin/mpicxx -DBUILD_DOCK_WITH_MPI
> > -DMPICH_IGNORE_CXX_SEEK -I/home/bai/soft/mpich2/include
> > -DBUILD_DOCK_WITH_ZAP -I/home/bai/soft/zap -O2 -o
> > dock6.pbsa_mpi amber_typer.o base_grid.o base_mpi.o
> > base_score.o conf_gen.o dock.o dockmol.o grid.o
> > library_file.o master_score.o orient.o score.o simplex.o
> > sphere.o score_solvent.o score_amber.o sasa.o
> > score_chemgrid.o utils.o trace.o nab/nab.a -lm
> > -L/home/bai/soft/zap -lOEZAP
> > /usr/bin/ld: skipping incompatible
> > /home/bai/soft/zap/libOEZAP.a when searching for -lOEZAP
> > /usr/bin/ld: cannot find -lOEZAP
> > collect2: ld returned 1 exit status
> > make[2]: *** [dock6.pbsa_mpi] Error 1
> > make[2]: Leaving directory `/home/bai/soft/dock6/src/dock'
> > make[1]: *** [dock6] Error 2
> > make[1]: Leaving directory `/home/bai/soft/dock6/src'
> > make: *** [install] Error 2
> > "
> > Why did it come this err?
> > Why did it show :"/usr/bin/ld: skipping incompatible
> > /home/bai/soft/zap/libOEZAP.a when searching for -lOEZAP"?
> >
> > How could sovle it?
> > Thanks!
> > Aurum
> >
> >
> > ? ? ?
> >
>
>
>
>
>
> ------------------------------
>
> Message: 2
> Date: Thu, 7 May 2009 11:47:04 +0800 (CST)
> From: Aurum Bai <javacfish at yahoo.com.cn>
> Subject: Re: [Dock-fans] About compile dock6.2 with
>        "gnu.parallel.pbsa"
> To: Aurum Bai <javacfish at yahoo.com.cn>
> Cc: dock-fans at docking.org
> Message-ID: <663501.4152.qm at web15002.mail.cnb.yahoo.com>
> Content-Type: text/plain; charset=iso-8859-1
>
>
> I have found this problem,I can compile on the "gnu.parallel.pbsa" on 32bit
> computer, but not on the 64 bit computer.
>
> In addition, I have search the question by google,I fllow this method (
> http://blur.compbio.ucsf.edu/pipermail/dock-fans/2006-October/000752.html).
> But I  conld not still compile dock program.
>
> The question still focus on the "libOEZAP.a", which it only support the 32
> bit computers.
>
> Who can send the 64 bit "libOEZAP.a" to me? Or who have the good way to
> solve this problem?
>
> Thanks
> Aurum bai
>
>
> --- On Wed, 5/6/09, Aurum Bai <javacfish at yahoo.com.cn> wrote:
>
> > From: Aurum Bai <javacfish at yahoo.com.cn>
> > Subject: About compile dock6.2 with "gnu.parallel.pbsa"
> > To: dock-fans at docking.org
> > Date: Wednesday, May 6, 2009, 7:26 PM
> > Hello,everyone!
> >
> > I compile the dock6.2 by confiugre "gnu.parallel.pbsa".When
> > I do "make all"
> > Some wrong happen as below:
> > "
> > make[3]: Leaving directory
> > `/home/bai/soft/dock6/src/dock/nab'
> > /home/bai/soft/mpich2/bin/mpicxx -DBUILD_DOCK_WITH_MPI
> > -DMPICH_IGNORE_CXX_SEEK -I/home/bai/soft/mpich2/include
> > -DBUILD_DOCK_WITH_ZAP -I/home/bai/soft/zap -O2 -o
> > dock6.pbsa_mpi amber_typer.o base_grid.o base_mpi.o
> > base_score.o conf_gen.o dock.o dockmol.o grid.o
> > library_file.o master_score.o orient.o score.o simplex.o
> > sphere.o score_solvent.o score_amber.o sasa.o
> > score_chemgrid.o utils.o trace.o nab/nab.a -lm
> > -L/home/bai/soft/zap -lOEZAP
> > /usr/bin/ld: skipping incompatible
> > /home/bai/soft/zap/libOEZAP.a when searching for -lOEZAP
> > /usr/bin/ld: cannot find -lOEZAP
> > collect2: ld returned 1 exit status
> > make[2]: *** [dock6.pbsa_mpi] Error 1
> > make[2]: Leaving directory `/home/bai/soft/dock6/src/dock'
> > make[1]: *** [dock6] Error 2
> > make[1]: Leaving directory `/home/bai/soft/dock6/src'
> > make: *** [install] Error 2
> > "
> > Why did it come this err?
> > Why did it show :"/usr/bin/ld: skipping incompatible
> > /home/bai/soft/zap/libOEZAP.a when searching for -lOEZAP"?
> >
> > How could sovle it?
> > Thanks!
> > Aurum
> >
> >
> > ? ? ?
> >
>
>
>
>
>
> ------------------------------
>
> _______________________________________________
> Dock-fans mailing list
> Dock-fans at docking.org
> http://blur.compbio.ucsf.edu/mailman/listinfo/dock-fans
>
>
> End of Dock-fans Digest, Vol 60, Issue 7
> ****************************************
>



-- 
Prashant Kumar
Centre For Computational Biology and Bioinformatics
School of Information Technology
Jawaharlal Nehru University , New Delhi
Cell +91-9212136815
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://blur.compbio.ucsf.edu/pipermail/dock-fans/attachments/20090521/4625f797/attachment.html 


More information about the Dock-fans mailing list