Re: [ccp4bb] CCP4 / Ubuntu 9.04 64-bit

- Protein crystallography

Main steps:

- Protein purification
- Crystallisation

Special:

- Programs for crystallography
- X-ray detectors

Basic tutorials:

   - Chemistry
   - Protein
   - Peptide
   - Amino Acids

Xtal community:

- CCP4BB

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: How to express a >95KD FAD protein
From: Kn Ly kn {- dot -} ly {- at -} AUCKLAND {- dot -} AC {- dot -} NZ
Date: 2009-07-04

Next message:
Subject: Re: CCP4 / Ubuntu 9.04 64-bit
From: Paul Emsley paul {- dot -} emsley {- at -} BIOCH {- dot -} OX {- dot -} AC {- dot -} UK
Date: 2009-07-04

Subject: Re: CCP4 / Ubuntu 9.04 64-bit
From: Tim Gruene tg {- at -} SHELX {- dot -} UNI-AC {- dot -} GWDG {- dot -} DE
Date: 2009-07-04

The 64bit version of Ubuntu should come with 32-bit versions of all
libraries. These are extra packages, if you search the repositories, you
should find them.

--
Tim Gruene
Institut fuer anorganische Chemie
Tammannstr. 4
D-37077 Goettingen

GPG Key ID = A46BEE1A

On Fri, 3 Jul 2009, Thomas J Magliery PhD wrote:

> Hi, I just installed the 64-bit version of Ubuntu 9.04 Desktop, and then I
> installed CCP4 6.1.1 using the standard package and installation script. I
> can run ccp4i successfully. However, when I try to run Coot, I get a bunch
> of errors. I think the problem is that Coot was compiled with 32-bit
> libraries, which I don't have.
>
> Is there some way to fix this without compiling Coot or re-installing with
> 32-bit Ubuntu? Who knows how, but I have CCP4 (6.0.2) and Coot (0.5-pre-1)
> working on my 64-bit FC8 laptop.
>
> Thanks,
> Tom
>
> ===
> COOT_PREFIX is /usr/local/CCP4/Coot-0.5.2
> /usr/local/CCP4/Coot-0.5.2/bin/coot-real
> Acquiring application resources from
> /usr/local/CCP4/Coot-0.5.2/share/coot/cootrc
> Gtk-Message: Failed to load module "canberra-gtk-module":
> /usr/lib/gtk-2.0/modules/libcanberra-gtk-module.so: wrong ELF class:
> ELFCLASS64
> INFO:: splash_screen_pixmap_dir /usr/local/CCP4/Coot-0.5.2/share/coot/pixmaps
> INFO:: Colours file: /usr/local/CCP4/Coot-0.5.2/share/coot/colours.def loaded
> INFO:: Using Standard CCP4 Refmac dictionary from CLIBD_MON:
> /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers/
> There are 118 data in
> /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//list/mon_lib_list.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//a/ALA.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//a/ASP.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//a/ASN.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//c/CYS.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//g/GLN.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//g/GLY.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//g/GLU.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//p/PHE.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//h/HIS.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//i/ILE.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//l/LYS.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//l/LEU.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//m/MET.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//m/MSE.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//p/PRO.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//a/ARG.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//s/SER.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//t/THR.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//v/VAL.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//t/TRP.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//t/TYR.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//p/PO4.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//s/SO4.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//g/GOL.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//e/ETH.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//c/CIT.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//a/AR.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//a/AD.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//c/CR.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//c/CD.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//g/GR.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//g/GD.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//t/TD.cif
> There are 2 data in /usr/local/CCP4/ccp4-6.1.1/lib/data/monomers//u/UR.cif
> Reading coordinate file:
> /usr/local/CCP4/Coot-0.5.2/share/coot/standard-residues.pdb
> PDB file /usr/local/CCP4/Coot-0.5.2/share/coot/standard-residues.pdb has been
> read.
> Spacegroup: P 1
> Cell: 40.631 109.18 93.243 90 90 90
> /usr/lib/gio/modules/libgioremote-volume-monitor.so: wrong ELF class:
> ELFCLASS64
> Failed to load module: /usr/lib/gio/modules/libgioremote-volume-monitor.so
> /usr/lib/gio/modules/libgvfsdbus.so: wrong ELF class: ELFCLASS64
> Failed to load module: /usr/lib/gio/modules/libgvfsdbus.so
> /usr/lib/gio/modules/libgiogconf.so: wrong ELF class: ELFCLASS64
> Failed to load module: /usr/lib/gio/modules/libgiogconf.so
> initalize graphics molecules...done.
> (filter-fileselection-filenames-state)
> (get-active-map-drag-flag)
> (use-graphics-interface-state)
> ERROR: In procedure dynamic-link:
> ERROR: file: "libguile-srfi-srfi-1-v-3", message:
> "/usr/lib/libguile-srfi-srfi-1-v-3.so.3: wrong ELF class: ELFCLASS64"
> Gtk-Message: Failed to load module "canberra-gtk-module":
> /usr/lib/gtk-2.0/modules/libcanberra-gtk-module.so: wrong ELF class:
> ELFCLASS64
> coot-exe: "/usr/local/CCP4/Coot-0.5.2/bin/coot-real"
> coot-version:
> /usr/local/CCP4/Coot-0.5.2/bin/coot-real
> core: #f
> No core file found. No debugging
> ===
>
> P.S. Hi Paul.
>
> --
> Thomas J. Magliery, Ph.D.
> Assistant Professor
> Department of Chemistry
> & Department of Biochemistry
> The Ohio State University
> 1043 Evans Laboratory
> 100 West 18th Ave.
> Columbus, OH 43210-1185
>
> (614) 247-8425 office
> (614) 292-1685 fax
> magliery@chemistry.ohio-state.edu
> http://www.chemistry.ohio-state.edu/~magliery
>

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: How to express a >95KD FAD protein
From: Kn Ly kn {- dot -} ly {- at -} AUCKLAND {- dot -} AC {- dot -} NZ
Date: 2009-07-04

Next message:
Subject: Re: CCP4 / Ubuntu 9.04 64-bit
From: Paul Emsley paul {- dot -} emsley {- at -} BIOCH {- dot -} OX {- dot -} AC {- dot -} UK
Date: 2009-07-04