[Mrtrix-discussion] Unable to build on RedHat 6.x

Tue Jul 29 03:59:55 PDT 2014

Hi Donald,

Thanks for your response.

These are the libGLU packages installed:

mesa-libGLU.i686                                                    9.2-0.5.el6_5.2                                            @rhel-x86_64-workstation-6
mesa-libGLU.x86_64                                                  9.2-0.5.el6_5.2                                            @rhel-x86_64-workstation-6
mesa-libGLU-devel.i686                                              9.2-0.5.el6_5.2                                            @rhel-x86_64-workstation-6
mesa-libGLU-devel.x86_64                                            9.2-0.5.el6_5.2                                            @rhel-x86_64-workstation-6

I believe both architectures are required for compatibility reasons.

I was pointed to try and build mrtrix3 by the person who’s machine this is, but when trying to build that I get the message that g++ cannot be found, even though it is installed and located in /usr/bin.

Many Thanks,

--
Stuart Luscombe
Systems Administrator
Dementia Research Centre / NIHR Queen Square Dementia Biomedical Research Unit
8-11 Queen Square
London, WC1N 3BG

E-mail: s.luscombe at ucl.ac.uk<mailto:s.luscombe at ucl.ac.uk>
Phone: 0203 448 3875

From: J-Donald Tournier [mailto:jdtournier at gmail.com]
Sent: Tuesday, July 29, 2014 11:10 AM
To: Luscombe, Stuart
Cc: mrtrix mailinglist
Subject: Re: [Mrtrix-discussion] Unable to build on RedHat 6.x

Hi Stuart,

Looks like the version of the GLU (GL utilities) library you have installed on that system isn't the right one for your architecture - maybe you're trying to build a 64-bit version of MRtrix, but you only have the 32-bit version of libGLU installed? Can you have a look through your list of installed packages and make sure you have the necessary version of libglu installed?

Cheers,
Donald

--
Dr J-Donald Tournier (PhD)

Senior Lecturer, Biomedical Engineering
Division of Imaging Sciences & Biomedical Engineering
King's College London

A: Department of Perinatal Imaging & Health, 1st Floor South Wing, St Thomas' Hospital, London. SE1 7EH
T: +44 (0)20 7188 7118 ext 53613
W: http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering

On 28 Jul 2014 11:42, "Luscombe, Stuart" <s.luscombe at ucl.ac.uk<mailto:s.luscombe at ucl.ac.uk>> wrote:
Hi,

I am trying to build mrtrix for one of my users who is running Red Hat Enterprise 6.5. It keeps failing with the following error:

[LB] bin/disp_profile
[LB] bin/mrview

ERROR: [LB] bin/disp_profile

g++ -Wl,-rpath,$ORIGIN/../lib -Llib src/icon.o cmd/disp_profile.o src/dwi/renderer.o src/dwi/SH.o src/dwi/render_frame.o -lmrtrix-0_2_12 -lgsl -lgslcblas -Wl,--export-dynamic -lgtkmm-2.4 -latkmm-1.6 -lgdkmm-2.4 -lgiomm-2.4 -lpangomm-1.4 -lglibmm-2.4 -lcairomm-1.0 -lsigc-2.0 -lgtkglext-x11-1.0 -lgdkglext-x11-1.0 -lGLU -lGL -lXmu -lXt -lSM -lICE -lgtk-x11-2.0 -lpangox-1.0 -lX11 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -lcairo -lpango-1.0 -lfreetype -lfontconfig -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -lz -o bin/disp_profile

failed with output:

/usr/bin/ld: skipping incompatible /usr/lib/gcc/x86_64-redhat-linux/4.4.6/../../../libGLU.so when searching for -lGLU
/usr/bin/ld: skipping incompatible /usr/lib/libGLU.so when searching for -lGLU
/usr/bin/ld: cannot find -lGLU
collect2: ld returned 1 exit status

STOP

ERROR: [LB] bin/mrview

g++ -Wl,-rpath,$ORIGIN/../lib -Llib src/mrview/display_area.o src/mrview/mode/normal.o src/mrview/window.o src/mrview/dialog/progress.o src/mrview/sidebar/roi_analysis.o src/mrview/sidebar/roi_analysis/roi_list.o src/mrview/texture.o src/dialog/file.o src/mrview/mode/base.o src/mrview/sidebar/tractography/roi_list.o src/icon.o src/dwi/tractography/mds.o src/mrview/dialog/opengl.o src/mrview/pane.o cmd/mrview.o src/mrview/sidebar/tractography/track_list_item.o src/mrview/sidebar/overlay.o src/mrview/sidebar/orientation_plot.o src/mrview/slice.o src/dwi/renderer.o src/mrview/sidebar/tractography/track_list.o src/mrview/sidebar/screen_capture.o src/dwi/tractography/file.o src/mrview/dialog/error.o src/mrview/sidebar/tractography.o src/mrview/dialog/properties.o src/dwi/render_frame.o src/dwi/SH.o src/mrview/sidebar/main.o src/mrview/image.o -lmrtrix-0_2_12 -lgsl -lgslcblas -Wl,--export-dynamic -lgtkmm-2.4 -latkmm-1.6 -lgdkmm-2.4 -lgiomm-2.4 -lpangomm-1.4 -lglibmm-2.4 -lcairomm-1.0 -lsigc-2.0 -lgtkglext-x11-1.0 -lgdkglext-x11-1.0 -lGLU -lGL -lXmu -lXt -lSM -lICE -lgtk-x11-2.0 -lpangox-1.0 -lX11 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -lcairo -lpango-1.0 -lfreetype -lfontconfig -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -lz -o bin/mrview

failed with output:

/usr/bin/ld: skipping incompatible /usr/lib/gcc/x86_64-redhat-linux/4.4.6/../../../libGLU.so when searching for -lGLU
/usr/bin/ld: skipping incompatible /usr/lib/libGLU.so when searching for -lGLU
/usr/bin/ld: cannot find -lGLU
collect2: ld returned 1 exit status

STOP

All of the mesa-libGL* packages are up to date.

I have also tried building on a machine running an older version of Red Hat, which did get a bit further initially but ultimately came back with the same error. Both machines are running proprietary AMD/Nvidia drivers.

Many Thanks,

--
Stuart Luscombe
Systems Administrator
Dementia Research Centre / NIHR Queen Square Dementia Biomedical Research Unit
8-11 Queen Square
London, WC1N 3BG

E-mail: s.luscombe at ucl.ac.uk<mailto:s.luscombe at ucl.ac.uk>
Phone: 0203 448 3875

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