Here you are Gwena<font face="arial, helvetica, sans-serif">ëlle.</font><div><font face="arial, helvetica, sans-serif">Thanks for looking into this.</font></div><div><font face="arial, helvetica, sans-serif"><br></font></div>
<div><font face="arial, helvetica, sans-serif">Daniel</font></div><div><font face="arial, helvetica, sans-serif"><br></font><div><br><div class="gmail_quote">On Tue, Nov 20, 2012 at 12:17 PM, Gwenaëlle DOUAUD <span dir="ltr">&lt;<a href="mailto:[log in to unmask]" target="_blank"><a href="/cgi-bin/wa-jisc.exe?LOGON=A3%3Dind1211%26L%3DFSL%26E%3Dquoted-printable%26P%3D5117114%26B%3D--e89a8fb20760c2234f04cef0d019%26T%3Dtext%252Fhtml%3B%2520charset%3DISO-8859-1%26pending%3D" target="_parent" >[log in to unmask]</a></a>&gt;</span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div><div style="font-size:12pt;font-family:times new roman,new york,times,serif"><div><span>Hi Daniel,</span></div><div style="font-style:normal;font-size:16px;background-color:transparent;font-family:times new roman,new york,times,serif">
<br><span></span></div><div style="font-style:normal;font-size:16px;background-color:transparent;font-family:times new roman,new york,times,serif"><span>could you please give me exactly the output for an &#39;ls -al&#39; in your vbm home directory, an &#39;ls -al struc/fslvbm2c*&#39;, &#39;ls -al struc/*_struc_GM_to_T.*&#39; as well as a</span><span> &#39;more template_list&#39;</span><span>?</span></div>
<div style="font-style:normal;font-size:16px;background-color:transparent;font-family:times new roman,new york,times,serif"><br><span></span></div><div style="font-style:normal;font-size:16px;background-color:transparent;font-family:times new roman,new york,times,serif">
<span>Cheers,</span></div><div style="font-style:normal;font-size:16px;background-color:transparent;font-family:times new roman,new york,times,serif">Gwenaëlle</div><div> </div><div>--------------------------------------------------------------------<br>
Gwenaëlle Douaud, PhD<br>FMRIB Centre, University of Oxford<br>John Radcliffe Hospital, Headington <br>OX3 9DU  Oxford  UK<br>Tel: <a href="tel:%2B44%20%280%29%201865%20222%20523" value="+441865222523" target="_blank">+44 (0) 1865 222 523</a> <br>
Fax: <a href="tel:%2B44%20%280%29%201865%20222%20717" value="+441865222717" target="_blank">+44 (0) 1865 222 717</a><br><a href="http://www.fmrib.ox.ac.uk/~douaud" target="_blank">www.fmrib.ox.ac.uk/~douaud</a><br>--------------------------------------------------------------------<br>
</div>  <div style="font-family:times new roman,new york,times,serif;font-size:12pt"> <div style="font-family:times new roman,new york,times,serif;font-size:12pt"> <div dir="ltr"> <font face="Arial"> <hr size="1">  <b><span style="font-weight:bold">De :</span></b> Daniel Cole
 &lt;<a href="mailto:[log in to unmask]" target="_blank"><a href="/cgi-bin/wa-jisc.exe?LOGON=A3%3Dind1211%26L%3DFSL%26E%3Dquoted-printable%26P%3D5117114%26B%3D--e89a8fb20760c2234f04cef0d019%26T%3Dtext%252Fhtml%3B%2520charset%3DISO-8859-1%26pending%3D" target="_parent" >[log in to unmask]</a></a>&gt;<br> <b><span style="font-weight:bold">À :</span></b> <a href="mailto:[log in to unmask]" target="_blank"><a href="/cgi-bin/wa-jisc.exe?LOGON=A3%3Dind1211%26L%3DFSL%26E%3Dquoted-printable%26P%3D5117114%26B%3D--e89a8fb20760c2234f04cef0d019%26T%3Dtext%252Fhtml%3B%2520charset%3DISO-8859-1%26pending%3D" target="_parent" >[log in to unmask]</a></a> <br>
 <b><span style="font-weight:bold">Envoyé le :</span></b> Mardi 20 novembre 2012 14h56<br> <b><span style="font-weight:bold">Objet :</span></b> [FSL] fslvbm_2_template - not reading struc_GM_to_T<br> </font> </div><div><div class="h5">
 <br><div>Hello FSLers,<div><br></div><div>I am rerunning template creation for VBM on Macaque monkeys.  However my fslvbm_2_template contains an error in the &quot;fslvbm2c.e70552&quot; file.  Here is the error message:</div>
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</div><div>(directories removed)</div><div>&quot;<font size="1">** ERROR (nifti_image_read): failed to find header file for &#39;.../.../num_19_20110923_struc_GM_to_T&#39;</font><div><font size="1">** ERROR: nifti_image_open(</font><span style="font-size:x-small">.../...</span><font size="1">/num_19_20110923_struc_GM_to_T): bad header info</font></div>

<div><font size="1">ERROR: failed to open file </font><span style="font-size:x-small">.../...</span><font size="1">/19_20_test/num_19_20110923_struc_GM_to_T</font></div><div><font size="1">Cannot open volume </font><span style="font-size:x-small">.../...</span><font size="1">/19_20_test/num_19_20110923_struc_GM_to_T for reading!</font></div>

<div><font size="1">** ERROR (nifti_image_read): failed to find header file for &#39;template_4D_GM&#39;</font></div><div><font size="1">** ERROR: nifti_image_open(template_4D_GM): bad header info</font></div><div><font size="1">ERROR: failed to open file template_4D_GM</font></div>

<div><font size="1">Cannot open volume template_4D_GM for reading!</font></div><div><font size="1">** ERROR (nifti_image_read): failed to find header file for &#39;template_GM&#39;</font></div><div><font size="1">** ERROR: nifti_image_open(template_GM): bad header info</font></div>

<div><font size="1">ERROR: failed to open file template_GM</font></div><div><font size="1">ERROR: Could not open file</font>&quot;</div><div><br></div><div>I find this error message particularly strange since the &quot;num_19_20110923_struc_GM_to_T&quot; .mat and .nii.gz files exist.  This is the first file in my template_list (which I will upload) so for some reason the first call is failing and causing the others to fail as well.  My template_list is the same as it was before when I had the template creation step working and is in my base fslvbm directory.</div>

<div><br></div><div>Any hints or suggestions would be much appreciated,</div><div>Daniel</div><div><br></div><div><br></div>-- <br><div>Daniel Cole</div><div>University of Rochester</div><div>Brain and Cognitive Sciences</div>

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</div><br><br> </div></div></div> </div>  </div></div></blockquote></div><br><br clear="all"><div><br></div>-- <br><div>Daniel Cole</div><div>University of Rochester</div><div>Brain and Cognitive Sciences</div><div><a href="mailto:[log in to unmask]" target="_blank"><a href="/cgi-bin/wa-jisc.exe?LOGON=A3%3Dind1211%26L%3DFSL%26E%3Dquoted-printable%26P%3D5117114%26B%3D--e89a8fb20760c2234f04cef0d019%26T%3Dtext%252Fhtml%3B%2520charset%3DISO-8859-1%26pending%3D" target="_parent" >[log in to unmask]</a></a></div>
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