you need to run:
ldd /usr/local/freesurfer/bin/freeview | grep not
cheers
Bruce
On Fri, 12 Jul 2019, Juan
Rivas wrote:
External Email - Use Caution
It does not work:jcrn12@jcrn12-VirtualBox:/usr/local/bin$ which freeview
/usr/local/freesurfer/bin/freeview
jcrn12@jcrn12-VirtualBox:/usr/local/bin$ ldd freeview | grep not
ldd: ./freeview: No such file or directory
JC
---------- Forwarded message ---------
De: fsbuild <fsbu...@contbay.com>
Date: lun., 15 jul. 2019 a las 15:19
Subject: Re: [Freesurfer] Fwd: Freeview
To: <freesurfer@nmr.mgh.harvard.edu>
Cc: <jcr...@gmail.com>
Sorry - from your previous mail, I mistakenly thought “which freeview”
returned /usr/local/bin/freeview.
If you can reproduce what you did before to run freeview from the command
line where it tells you that it was not finding libgfortran, then “which
freeview” will likely tell you where the binary is. You should have already
set FREESURFER_HOME to point to the freesurfer installation and then did
the source of the shell init file (SetUpFreeSurfer.sh for bash or sh,
SetUpFreeSurfer.csh for csh). See the wiki page here under setup
andconfiguration, https://surfer.nmr.mgh.harvard.edu/fswiki/DownloadAndInstall
That should have put freeview in your PATH so that “which freeview” works.
What you want to do is to cd into the directory where the freeview binary
lives and run ldd on it. If “which freeview” returned
/usr/local/bin/freeview then you could “cd /usr/local/bin” and from there
directly run “ldd freeview | grep not”.
- R.
On Jul 12, 2019, at 07:32, Juan Rivas <jcr...@gmail.com> wrote:
External Email - Use Caution
That is what happened:
$ ldd /usr/local/bin/freeview | grep not
ldd: /usr/local/bin/freeview: No such file or directory
$ bash
jcrn12@jcrn12-VirtualBox:~$ ldd /usr/local/bin/freeview | grep not
ldd: /usr/local/bin/freeview: No such file or directory
JC.
---------- Forwarded message ---------
De: fsbuild <fsbu...@contbay.com>
Date: lun., 15 jul. 2019 a las 14:19
Subject: Re: [Freesurfer] Freeview
To: <freesurfer@nmr.mgh.harvard.edu>
Cc: <jcr...@gmail.com>
Hello JC,
Try this to see what libs are missing,
$ ldd /usr/local/bin/freeview | grep not
- R.
On Jul 12, 2019, at 06:19, Juan Rivas <jcr...@gmail.com>
wrote:
External Email - Use Caution
Hi, thank you for your help.
I tried again and once again it did not work. I am using Ubuntu
18
This is the message I get:
$ freeview
sh: 8: freeview: not found
$ which freeview
$ /usr/local/bin/freeview
sh: 10: /usr/local/bin/freeview: not found
$ which ldd
/usr/bin/ldd
$ ldd `which freeview` | grep not
ldd: missing file arguments
Try `ldd --help' for more information.
Thank you very much,
JC.
El lun., 15 jul. 2019 a las 12:50, fsbuild
(<fsbu...@contbay.com>) escribió:
Hello Juan,
For CentOS try:
$ sudo yum install gcc-gfortran.x86_64
… if that does not work then,
$ sudo yum install libgfortran.x86_64
For Ubuntu,
$sudo apt-get install gfortran
One thing you might want to try first is to run the “ldd”
command on the freeview binary to see all/any libraries
that are missing....
This should return the path to freeview, e.g.,
/usr/local/bin/freeview, though your path may differ.
$ which freeview
/usr/local/bin/freeview
- then check you have the ldd command,
$ which ldd
/usr/bin/ldd
If the above returned paths for freeview and ldd, then run
the ldd command followed by the grep command to see what
libraries are missing. Prior to doing the install of
libgfortran above, it should list libgfortran is missing.
$ ldd `which freeview` | grep not
Also it would be good to know what linux you are running,
e.g., CentOS 7, Ubuntu 18, etc.
- R.
On Jul 15, 2019, at 12:39, Juan Rivas
<jcr...@gmail.com> wrote:
External Email - Use Caution
---------- Forwarded message ---------
De: Juan Rivas <jcr...@gmail.com>
Date: vie., 12 jul. 2019 a las 3:02
Subject: Re: [Freesurfer] Freeview
To: fsbuild <fsbu...@contbay.com>
Hi, thank you for your answer.I did what you
recommended to me, and I get this message:freeview:
error while loading shared libraries:
libgfortran.so.3: cannot open shared object file: No
such file or directory.
What could be the next step?
JC.
El lun., 15 jul. 2019 a las 9:57, fsbuild
(<fsbu...@contbay.com>) escribió:
Hello JC,
Your machine could be missing the qt5
libraries/files.
On Ubuntu linux you can try installing them
with,
$ sudo apt-get install qt5-default
qtcreator libqt5x11extras5-dev
On CentOS linux,
$ sudo yum install qt-create qt-config.x86_64
$ sudo yum install qt5-qtx11extras.x86_64
qt5-qtx11extras-devel...x86_64
- R.
On Jul 12, 2019, at 02:28, Juan
Rivas <jcr...@gmail..com> wrote:
External Email - Use
Caution
Hello, I am trying to use freeview, but
everytime I try I get this
message:freeview: error while loading
shared libraries: libQt5Widgets.so.5:
cannot open shared object file: No such
file or directory.
How can I fix it?
Thanks a lot,
JC.
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