[Mrtrix-discussion] having trouble building on CentOS 6
Luis Concha
lconcha at unam.mx
Tue Mar 19 16:24:08 PDT 2013
I really hope you do get it compiled natively, but I thought I'd clarify my
previous post. I am not suggesting that you install ubuntu, but rather that
you have a schroot debian environment _inside_ your CentOS.
Sort of this:
http://neuro.debian.net/blog/2011/2011-12-12_schroot_fslview.html
This way, you have your debian binaries running alongside the RHEL ones,
and both of them are native. Consider this a tentative plan B.
Luis
Dr. Luis Concha
Instituto de Neurobiología
Laboratorio C-12
UNAM, Campus Juriquilla
Boulervard Juriquilla 3001
Juriquilla, Querétaro.
C.P. 76230
México
Tel (442) 2 38 10 53
Fax (442) 2 38 10 46
www.inb.unam.mx
On Tue, Mar 19, 2013 at 5:19 PM, Henry Mensch <Henry.Mensch at va.gov> wrote:
> That's what I expected, too, but RHEL doesn't come with the -devel bundles
> for this stuff:
>
> [root at musca dx-4.4.4]# yum -y install gtkmm24-devel
> Loaded plugins: refresh-packagekit, rhnplugin
> This system is receiving updates from RHN Classic or RHN Satellite.
> Setting up Install Process
> No package gtkmm24-devel available.
> Error: Nothing to do
> [root at musca dx-4.4.4]# yum -y install gtkmm24-devel-2.18.2-1
> Loaded plugins: refresh-packagekit, rhnplugin
> This system is receiving updates from RHN Classic or RHN Satellite.
> Setting up Install Process
> No package gtkmm24-devel-2.18.2-1 available.
> Error: Nothing to do
> [root at musca dx-4.4.4]# yum -y list gtkmm\*
> Loaded plugins: refresh-packagekit, rhnplugin
> This system is receiving updates from RHN Classic or RHN Satellite.
> Installed Packages
> gtkmm24.x86_64 2.18.2-1.el6
> @anaconda-RedHatEnterpriseLinux-201009221801.x86_64/6.0
>
> so it's not clear to me where what you found actually comes from.
>
> On Mar 19, 2013, at 4:10 PM, Donald Tournier wrote:
>
> > OK, I just did a very quick search and I think I know where the problem
> is. These packages typically come in pairs: runtime and development. The
> runtime would only contain the libraries, and the development package
> should contain everything needed to compile against it, including headers
> and hopefully the relevant pkg-config file. I came across this on my
> search:
> http://pkgs.org/centos-6-rhel-6/centos-rhel-i386/gtkmm24-devel-2.18.2-1.el6.i686.rpm.html- looks like it might fit the bill...?
> >
> > Cheers,
> >
> > Donald.
> >
> >
> >
> > On 20 March 2013 09:44, Henry Mensch <Henry.Mensch at va.gov> wrote:
> > No, they don't. The files aren't there, and they're not in the packages.
> >
> > On Mar 19, 2013, at 3:35 PM, Donald Tournier wrote:
> >
> > > Assuming these files do exist, then it should be a simple matter of
> making sure pkg-config knows where to look for them - you should be able to
> set the PKG_CONFIG_PATH to achieve that, at least according the pkg-config
> man page.
> > > On Tue, Mar 19, 2013 at 3:40 PM, Henry Mensch <Henry.Mensch at va.gov>
> wrote:
> > > I'm on a CentOS 6 system:
> > >
> > > Linux musca 2.6.32-358.0.1.el6.x86_64 #1 SMP Wed Feb 20 11:05:23 EST
> 2013 x86_64 x86_64 x86_64 GNU/Linux
> > >
> > > and I'm trying to build … the build fails early with these errors:
> > >
> > > [root at musca mrtrix-0.2.10]# ./build
> > > Package glibmm-2.4 was not found in the pkg-config search path.
> > > Perhaps you should add the directory containing `glibmm-2.4.pc'
> > > to the PKG_CONFIG_PATH environment variable
> > > No package 'glibmm-2.4' found
> > > WARNING: unable to find glibmm-2.4,gthread-2.0 configuration
> > > Package gtkmm-2.4 was not found in the pkg-config search path.
> > > Perhaps you should add the directory containing `gtkmm-2.4.pc'
> > > to the PKG_CONFIG_PATH environment variable
> > > No package 'gtkmm-2.4' found
> > > WARNING: unable to find gtkmm-2.4 configuration
> > > Package gtkmm-2.4 was not found in the pkg-config search path.
> > > Perhaps you should add the directory containing `gtkmm-2.4.pc'
> > > to the PKG_CONFIG_PATH environment variable
> > > No package 'gtkmm-2.4' found
> > > Package gtkglext-1.0 was not found in the pkg-config search path.
> > > Perhaps you should add the directory containing `gtkglext-1.0.pc'
> > > to the PKG_CONFIG_PATH environment variable
> > > No package 'gtkglext-1.0' found
> > > WARNING: unable to find gtkmm-2.4 configuration
> > > Package glibmm-2.4 was not found in the pkg-config search path.
> > > Perhaps you should add the directory containing `glibmm-2.4.pc'
> > > to the PKG_CONFIG_PATH environment variable
> > > No package 'glibmm-2.4' found
> > > WARNING: unable to find glibmm-2.4,gthread-2.0 configuration
> > > Package gtkmm-2.4 was not found in the pkg-config search path.
> > > Perhaps you should add the directory containing `gtkmm-2.4.pc'
> > > to the PKG_CONFIG_PATH environment variable
> > > No package 'gtkmm-2.4' found
> > > WARNING: unable to find gtkmm-2.4 configuration
> > > Package gtkmm-2.4 was not found in the pkg-config search path.
> > > Perhaps you should add the directory containing `gtkmm-2.4.pc'
> > > to the PKG_CONFIG_PATH environment variable
> > > No package 'gtkmm-2.4' found
> > > Package gtkglext-1.0 was not found in the pkg-config search path.
> > > Perhaps you should add the directory containing `gtkglext-1.0.pc'
> > > to the PKG_CONFIG_PATH environment variable
> > > No package 'gtkglext-1.0' found
> > > WARNING: unable to find gtkmm-2.4 configuration
> > > Traceback (most recent call last):
> > > File "./build", line 968, in <module>
> > > [ Entry(item) for item in targets ]
> > > File "./build", line 245, in __init__
> > > if is_executable (self.name): self.set_executable()
> > > File "./build", line 276, in set_executable
> > > '$bin$': [ self.name ] })
> > > File "./build", line 375, in fillin
> > > if item in keyvalue: cmd += keyvalue[item]
> > > TypeError: 'NoneType' object is not iterable
> > > [root at musca mrtrix-0.2.10]# rpm -q -a | grep -i glibmm
> > > glibmm24-2.22.1-1.el6.x86_64
> > > ^P[root at musca mrtrix-0.2.10]# rpm -q -a | grep -i gtkmm
> > > gtkmm24-2.18.2-1.el6.x86_64
> > > [root at musca mrtrix-0.2.10]# rpm -q -a | grep glibmm
> > > glibmm24-2.22.1-1.el6.x86_64
> > >
> > > You can see that the libraries it seems to want have RPMs installed …
> > >
> > > and the libraries are actually present:
> > >
> > > [root at musca mrtrix-0.2.10]# find /usr -name libglibmm\* -print
> > > /usr/lib64/libglibmm-2.4.so.1
> > > /usr/lib64/libglibmm-2.4.so.1.2.0
> > > /usr/lib64/libglibmm_generate_extra_defs-2.4.so.1
> > > /usr/lib64/libglibmm_generate_extra_defs-2.4.so.1.2.0
> > >
> > > so it looks like the real problem is that there are no entries in
> /usr/lib64/pkgconfig for these libraries.
> > >
> > > SO: how do I get around this?
> > >
> > > --
> > > Henry Mensch / Systems and Storage Manager
> > > Center for Imaging of Neurodegenerative Diseases
> > > VA Medical Center, San Francisco CA USA
> > > a: +1.415.221.4810 x6466 / : +1.415.668.2864
> > > :: henry.mensch at va.gov
> > > w: http://www.cind.research.va.gov/
> > >
> > >
> > >
> > >
> > > _______________________________________________
> > > Mrtrix-discussion mailing list
> > > Mrtrix-discussion at www.nitrc.org
> > > http://www.nitrc.org/mailman/listinfo/mrtrix-discussion
> > >
> > >
> > > _______________________________________________
> > > Mrtrix-discussion mailing list
> > > Mrtrix-discussion at www.nitrc.org
> > > http://www.nitrc.org/mailman/listinfo/mrtrix-discussion
> > >
> > >
> > >
> > >
> > > --
> > > Dr Jacques-Donald Tournier
> > > Research Fellow
> > >
> > > The Florey Institute of Neuroscience and Mental Health
> > > Melbourne Brain Centre - Austin Campus
> > > 245 Burgundy Street
> > > Heidelberg Vic 3084
> > > Ph: +61 3 9035 7033
> > > Fax: +61 3 9035 7307
> > > www.florey.edu.au
> > >
> > > _______________________________________________
> > > Mrtrix-discussion mailing list
> > > Mrtrix-discussion at www.nitrc.org
> > > http://www.nitrc.org/mailman/listinfo/mrtrix-discussion
> >
> > --
> > Henry Mensch / Systems and Storage Manager
> > Center for Imaging of Neurodegenerative Diseases
> > VA Medical Center, San Francisco CA USA
> > a: +1.415.221.4810 x6466 / : +1.415.668.2864
> > :: henry.mensch at va.gov
> > w: http://www.cind.research.va.gov/
> >
> >
> >
> >
> >
> >
> >
> >
> > --
> > Dr Jacques-Donald Tournier
> > Research Fellow
> >
> > The Florey Institute of Neuroscience and Mental Health
> > Melbourne Brain Centre - Austin Campus
> > 245 Burgundy Street
> > Heidelberg Vic 3084
> > Ph: +61 3 9035 7033
> > Fax: +61 3 9035 7307
> > www.florey.edu.au
> >
>
> --
> Henry Mensch / Systems and Storage Manager
> Center for Imaging of Neurodegenerative Diseases
> VA Medical Center, San Francisco CA USA
> a: +1.415.221.4810 x6466 / : +1.415.668.2864
> :: henry.mensch at va.gov
> w: http://www.cind.research.va.gov/
>
>
>
>
>
> _______________________________________________
> Mrtrix-discussion mailing list
> Mrtrix-discussion at www.nitrc.org
> http://www.nitrc.org/mailman/listinfo/mrtrix-discussion
>
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