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<div>Hello NeuroDebian Developers,</div>
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<div>There has been an email thread on the FSL list that Michael Hanke helped with but hasn't commented on the response recently. So I thought he might be away from the office at the moment and wondered if one of you could help instead. As you can see in
the thread below, the issue is about the LD_LIBRARY_PATH and I suspect that the user's environment is not setup correctly, but I don't know enough about Debian/Ubuntu setup to help more. So I'm hoping that one of you can help. I'm cc'ing the user (Mohammad)
in here so that you can communicate directly if necessary, but I'd appreciate being kept in the loop.</div>
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<div>Best wishes and thanks for your help,</div>
<div><span class="Apple-tab-span" style="white-space:pre"></span>Mark</div>
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<div><font>Dr Mark Jenkinson</font></div>
<div><font>University Research Lecturer</font></div>
<div><font>Head of Structural Image Analysis</font></div>
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<div><font>FMRIB Centre, University of Oxford,</font></div>
<div><font>John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK</font></div>
<div><font>+44 (0) 1865 222782 (fax 222717)</font></div>
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<div><font><a href="mailto:mark@fmrib.ox.ac.uk">mark@fmrib.ox.ac.uk</a> <a href="http://www.fmrib.ox.ac.uk/~mark">http://www.fmrib.ox.ac.uk/~mark</a></font></div>
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Hi again</div>
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<div style="font-family: 'times new roman', 'new york', times, serif; font-size: 19px; ">
I copied "export LD_LIBRARY_PATH=/usr/share/fsl/5.0/bin:$LD_LIBRARY_PATH" into terminal, and I can run PET and FEAT once. But, for the next time the same problem pops up again. I have to do it everytime I want to use fsl. Do you think it might manipulate the
results in anyway?</div>
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Thanks</div>
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Mohammad</div>
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<b>From:</b> M.Momenian <<a href="mailto:momenian21@YAHOO.COM">momenian21@YAHOO.COM</a>><br>
<b>To:</b> <a href="mailto:FSL@JISCMAIL.AC.UK">FSL@JISCMAIL.AC.UK</a> <br>
<b>Sent:</b> Friday, March 15, 2013 3:06 PM<br>
<b>Subject:</b> Re: [FSL] libfslvtkio.so error<br>
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<div>Hi</div>
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<div style="background-color: transparent; ">I wrote "<span style="font-size: 16px; ">echo $LD_LIBRARY_PATH" into terminal, but nothing turns out. Should I write something before that or exactly copy the same message? Thanks for your kind reply.</span></div>
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<div style="font-size: 16px; background-color: transparent; ">Mohammad</div>
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<b>From:</b> Michael Hanke <<a href="mailto:michael.hanke@GMAIL.COM">michael.hanke@GMAIL.COM</a>><br>
<b>To:</b> <a href="mailto:FSL@JISCMAIL.AC.UK">FSL@JISCMAIL.AC.UK</a> <br>
<b>Sent:</b> Friday, March 15, 2013 1:37 PM<br>
<b>Subject:</b> Re: [FSL] <a target="_blank" href="http://libfslvtkio.so/">libfslvtkio.so</a> error<br>
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<div dir="ltr">Hi,
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<div>this looks good so far. Can you also please post the output of</div>
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<div>echo $LD_LIBRARY_PATH<br>
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<div>Thanks,</div>
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<div>Michael</div>
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<div class="yiv779630701gmail_quote">On Fri, Mar 15, 2013 at 10:17 AM, M.Momenian <span dir="ltr"><<a rel="nofollow" ymailto="mailto:momenian21@yahoo.com" target="_blank" href="mailto:momenian21@yahoo.com">momenian21@yahoo.com</a>></span> wrote:<br>
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<div style="font-size: 14pt; ">Dear David</div>
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<div style="background-color: transparent; ">I ran it in the terminal which came up with the following:</div>
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<div style="background-color: transparent; ">FSLBROWSER=/etc/alternatives/x-www-browser</div>
<div style="background-color: transparent; ">FSLDIR=/usr/share/fsl/5.0</div>
<div style="background-color: transparent; ">FSLLOCKDIR=</div>
<div style="background-color: transparent; ">FSLMACHINELIST=</div>
<div style="background-color: transparent; ">FSLMULTIFILEQUIT=TRUE</div>
<div style="background-color: transparent; ">FSLOUTPUTTYPE=NIFTI_GZ</div>
<div style="background-color: transparent; ">FSLREMOTECALL=</div>
<div style="background-color: transparent; ">FSLTCLSH=/usr/bin/tclsh</div>
<div style="background-color: transparent; ">FSLWISH=/usr/bin/wish</div>
<div style="background-color: transparent; ">I am using windows 7 32 bit. I installed the virtual neurodebian, and then through terminal downloaded fsl. I am working on the problem for a couple of days, but I am exhausted. I followed all the steps once agian,
but it did not work out :( I think the problem is with my OS rather than fsl itself since I surfed the net for the problem and came across with the same problems in Linux. What do you think?</div>
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<div style="background-color: transparent; ">thanks</div>
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<b>From:</b> David Flitney <<a rel="nofollow" ymailto="mailto:flitney@FMRIB.OX.AC.UK" target="_blank" href="mailto:flitney@FMRIB.OX.AC.UK">flitney@FMRIB.OX.AC.UK</a>><br>
<b>To:</b> <a rel="nofollow" ymailto="mailto:FSL@JISCMAIL.AC.UK" target="_blank" href="mailto:FSL@JISCMAIL.AC.UK">FSL@JISCMAIL.AC.UK</a> <br>
<b>Sent:</b> Friday, March 15, 2013 11:19 AM<br>
<b>Subject:</b> Re: [FSL] <a rel="nofollow" target="_blank" href="http://libfslvtkio.so/">libfslvtkio.so</a> error<br>
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<div>Hi,</div>
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<div>It sounds like your environment hasn't been set correctly consequently the bundled libraries aren't being found.</div>
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<div>Double check that you've followed all the install instructions...</div>
<div>Run "set | grep FSL" and post the output.</div>
<div>Let us know which platform you're running on.<br>
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<div>IT Manager, FMRIB Centre</div>
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On 14 Mar 2013, at 19:09, "M.Momenian" <<a rel="nofollow" ymailto="mailto:momenian21@YAHOO.COM" target="_blank" href="mailto:momenian21@YAHOO.COM">momenian21@YAHOO.COM</a>> wrote:<br>
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<div style="font-size: 14pt; ">Dear all</div>
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<div><font face="times new roman, new york, times, serif">I have just started using fsl recently :) When I want to start BET or FEAT, the following message appears: </font><font face="times new roman, new york, times, serif"><span style="font-style: italic; ">error
while loading shared libraries: <a rel="nofollow" target="_blank" href="http://libfslvtkio.so/">libfslvtkio.so</a>: cannot open shared object file: No such file or directory. </span>Does anyone know about this error? Thanks in advance</font></div>
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<div><font face="times new roman, new york, times, serif">Best</font></div>
<div><font face="times new roman, new york, times, serif">Mohammad</font></div>
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<div>Michael Hanke</div>
<div><a href="http://mih.voxindeserto.de">http://mih.voxindeserto.de</a></div>
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