<div dir="ltr"><div><font face="'courier new', monospace">Thank you for helping me walk through this! Here are the outputs:</font></div><div><font face="'courier new', monospace"><br></font></div><div><font face="'courier new', monospace"><br>
</font></div><div><font face="'courier new', monospace"><br></font></div><div><font face="'courier new', monospace">$ ls -l /srv/chroots/squeeze/usr/share/fsl/data/atlases/</font></div><div><font face="'courier new', monospace">total 20</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 48 Jul 31 15:47 Cerebellum -> ../../../data/bangor-cerebellar-atlas/Cerebellum</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 61 Jul 31 15:47 Cerebellum_MNIflirt.xml -> ../../../data/bangor-cerebellar-atlas/Cerebellum_MNIflirt.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 61 Jul 31 15:47 Cerebellum_MNIfnirt.xml -> ../../../data/bangor-cerebellar-atlas/Cerebellum_MNIfnirt.xml</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 50 Jul 31 15:47 HarvardOxford -> ../../../data/harvard-oxford-atlases/HarvardOxford</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 63 Jul 31 15:47 HarvardOxford-Cortical.xml -> ../../../data/harvard-oxford-atlases/HarvardOxford-Cortical.xml</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 66 Jul 31 15:47 HarvardOxford-Subcortical.xml -> ../../../data/harvard-oxford-atlases/HarvardOxford-Subcortical.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 43 Jul 31 15:47 JHU -> ../../../data/jhu-dti-whitematter-atlas/JHU</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 43 Jul 31 16:28 JHU_bak -> ../../../data/jhu-dti-whitematter-atlas/JHU</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 54 Jul 31 15:47 JHU-labels.xml -> ../../../data/jhu-dti-whitematter-atlas/JHU-labels.xml</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 54 Jul 31 15:47 JHU-tracts.xml -> ../../../data/jhu-dti-whitematter-atlas/JHU-tracts.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 48 Jul 31 15:47 Juelich -> ../../../data/juelich-histological-atlas/Juelich</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 52 Jul 31 15:47 Juelich.xml -> ../../../data/juelich-histological-atlas/Juelich.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 38 Jul 31 15:47 MNI -> ../../../data/mni-structural-atlas/MNI</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 42 Jul 31 15:47 MNI.xml -> ../../../data/mni-structural-atlas/MNI.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 46 Jul 31 15:47 Talairach -> ../../../data/talairach-daemon-atlas/Talairach</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 50 Jul 31 15:47 Talairach.xml -> ../../../data/talairach-daemon-atlas/Talairach.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 57 Jul 31 15:47 Thalamus -> ../../../data/oxford-thalamic-connectivity-atlas/Thalamus</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 61 Jul 31 15:47 Thalamus.xml -> ../../../data/oxford-thalamic-connectivity-atlas/Thalamus.xml</font></div>
<div><br></div><div><br></div><div><br></div><div><div><font face="'courier new', monospace">$ schroot -c squeeze -- ls -l /usr/share/fsl/data/atlases/</font></div><div><font face="'courier new', monospace">total 20</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 48 Jul 31 20:47 Cerebellum -> ../../../data/bangor-cerebellar-atlas/Cerebellum</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 61 Jul 31 20:47 Cerebellum_MNIflirt.xml -> ../../../data/bangor-cerebellar-atlas/Cerebellum_MNIflirt.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 61 Jul 31 20:47 Cerebellum_MNIfnirt.xml -> ../../../data/bangor-cerebellar-atlas/Cerebellum_MNIfnirt.xml</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 50 Jul 31 20:47 HarvardOxford -> ../../../data/harvard-oxford-atlases/HarvardOxford</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 63 Jul 31 20:47 HarvardOxford-Cortical.xml -> ../../../data/harvard-oxford-atlases/HarvardOxford-Cortical.xml</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 66 Jul 31 20:47 HarvardOxford-Subcortical.xml -> ../../../data/harvard-oxford-atlases/HarvardOxford-Subcortical.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 43 Jul 31 20:47 JHU -> ../../../data/jhu-dti-whitematter-atlas/JHU</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 54 Jul 31 20:47 JHU-labels.xml -> ../../../data/jhu-dti-whitematter-atlas/JHU-labels.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 54 Jul 31 20:47 JHU-tracts.xml -> ../../../data/jhu-dti-whitematter-atlas/JHU-tracts.xml</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 43 Jul 31 21:28 JHU_bak -> ../../../data/jhu-dti-whitematter-atlas/JHU</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 48 Jul 31 20:47 Juelich -> ../../../data/juelich-histological-atlas/Juelich</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 52 Jul 31 20:47 Juelich.xml -> ../../../data/juelich-histological-atlas/Juelich.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 38 Jul 31 20:47 MNI -> ../../../data/mni-structural-atlas/MNI</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 42 Jul 31 20:47 MNI.xml -> ../../../data/mni-structural-atlas/MNI.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 46 Jul 31 20:47 Talairach -> ../../../data/talairach-daemon-atlas/Talairach</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 50 Jul 31 20:47 Talairach.xml -> ../../../data/talairach-daemon-atlas/Talairach.xml</font></div>
<div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 57 Jul 31 20:47 Thalamus -> ../../../data/oxford-thalamic-connectivity-atlas/Thalamus</font></div><div><font face="'courier new', monospace">lrwxrwxrwx 1 root root 61 Jul 31 20:47 Thalamus.xml -> ../../../data/oxford-thalamic-connectivity-atlas/Thalamus.xml</font></div>
</div><div><br></div><div><br></div><div><br></div><div><br></div><div><div><font face="'courier new', monospace">$ grep -H . ~/.qt/fsl*</font></div></div><div><font face="'courier new', monospace">/home/ansari/.qt/fslviewrc:[geometry]</font></div>
<div><div><font face="'courier new', monospace">/home/ansari/.qt/fslviewrc:height=945</font></div><div><font face="'courier new', monospace">/home/ansari/.qt/fslviewrc:width=756</font></div><div><font face="'courier new', monospace">/home/ansari/.qt/fslviewrc:x=69</font></div>
<div><font face="'courier new', monospace">/home/ansari/.qt/fslviewrc:y=104</font></div></div><div><font face="'courier new', monospace"><br></font></div><div><br></div><div><br></div><br><div class="gmail_quote">
On Wed, Aug 1, 2012 at 1:56 PM, Yaroslav Halchenko <span dir="ltr"><<a href="mailto:yoh@dartmouth.edu" target="_blank">yoh@dartmouth.edu</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
ok -- I just did all the steps in NeuroDebian VM -- seems to work as<br>
expected... what is the output of following commands?<br>
<br>
ls -l /srv/chroots/squeeze/usr/share/fsl/data/atlases/<br>
schroot -c squeeze -- ls -l /usr/share/fsl/data/atlases/<br>
grep -H . ~/.qt/fsl*<br>
<br>
P.S. Mention the corrected address in CC for the neurodebian-users<br>
mailing list. You can subscribe at<br>
<a href="http://lists.alioth.debian.org/mailman/listinfo/neurodebian-users" target="_blank">http://lists.alioth.debian.org/mailman/listinfo/neurodebian-users</a><br>
<div class="im"><br>
On Wed, 01 Aug 2012, Hidayath Ansari wrote:<br>
<br>
</div><div class="im">> In response to your question, yes I followed those instructions exactly. I<br>
> installed fsl-atlases as root within the schroot environment.<br>
<br>
> �Hi<br>
> I followed the instructions at<br>
</div>> [1]<a href="http://neuro.debian.net/blog/2011/2011-12-12_schroot_fslview.html" target="_blank">http://neuro.debian.net/blog/2011/2011-12-12_schroot_fslview.html</a> to<br>
<div class="im HOEnZb">> set up a chroot-ed environment in which to run fslview using an older<br>
> version of Debian. I've also installed the fsl-atlases package in that<br>
> environment and I can see the atlas data in /usr/share/fsl/data/atlases<br>
> . When I fire up fslview though, the atlases toolbar is empty!<br>
> Additionally, when I click on the Structures button in that toolbar, the<br>
> whole thing just dies:<br>
> QComboBox::setCurrentItem: (m_atlasSelection) Index 1 out of range<br>
> fslview: /usr/include/boost/smart_ptr/shared_ptr.hpp:418: T*<br>
> boost::shared_ptr< <template-parameter-1-1> >::operator->() const [with<br>
> T = Atlas]: Assertion `px != 0' failed.<br>
> [1]+ �Aborted � � � � � � � � (core dumped) fslview<br>
> Any ideas?<br>
> Thanks!<br>
> M. Hidayath Ansari<br>
> Graduate Student<br>
> University of Wisconsin-Madison<br>
<br>
</div><div class="im HOEnZb">> References<br>
<br>
> Visible links<br>
> 1. <a href="http://neuro.debian.net/blog/2011/2011-12-12_schroot_fslview.html" target="_blank">http://neuro.debian.net/blog/2011/2011-12-12_schroot_fslview.html</a><br>
<br>
</div><div class="HOEnZb"><div class="h5">--<br>
Yaroslav O. Halchenko<br>
Postdoctoral Fellow, Department of Psychological and Brain Sciences<br>
Dartmouth College, 419 Moore Hall, Hinman Box 6207, Hanover, NH 03755<br>
Phone: <a href="tel:%2B1%20%28603%29%20646-9834" value="+16036469834">+1 (603) 646-9834</a> Fax: <a href="tel:%2B1%20%28603%29%20646-1419" value="+16036461419">+1 (603) 646-1419</a><br>
WWW: <a href="http://www.linkedin.com/in/yarik" target="_blank">http://www.linkedin.com/in/yarik</a><br>
</div></div></blockquote></div><br></div>