<div dir="ltr">Dear all,<div>thank you for your advice.</div><div><br></div><div style>Vladimir: yes, this is the right file. However, my 64bit system machine has 96GB of memory, so RAM is not a problem. Actually, no RAM is being used, since it seems that the file is not even opened.</div>
<div style><br></div><div style>Bill: Would you still like a pointer to the file?</div><div style><br></div><div style>Best Regards,</div><div style>Panagiotis</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">
On Wed, Jul 10, 2013 at 5:09 PM, Bill Lorensen <span dir="ltr"><<a href="mailto:bill.lorensen@gmail.com" target="_blank">bill.lorensen@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div dir="ltr"><div><div><span name="Vladimir S. FONOV">Vladimir,<br><br></span></div><span name="Vladimir S. FONOV">I suspect that you are correct. This huge dataset will require special processing.<span class="HOEnZb"><font color="#888888"><br>
<br>
</font></span></span></div><span class="HOEnZb"><font color="#888888"><span name="Vladimir S. FONOV">Bill<br><br></span></font></span></div><div class="gmail_extra"><div><div class="h5"><br><br><div class="gmail_quote">On Wed, Jul 10, 2013 at 5:06 PM, Vladimir S. FONOV <span dir="ltr"><<a href="mailto:vladimir.fonov@gmail.com" target="_blank">vladimir.fonov@gmail.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hello,<br>
<br>
if it is the same file as the one from the bigbrain project, it has dimensions of 1970x2330x1890 , stored as unsigned short (2bytes per voxel), and required approximately 32Gb of ram to load it in memory - MINCImageIO will load the whole volume into memory as array of floats.<br>
<br>
Also, the volume is stored in YZX order , with Y fastest varying, because ITK only allows using XYZ order the MINCImageIO transposes the volume as part of loading it into memory.<br>
<br>
I have tried to load the whole volume into memory on a 64bit machine with 128Gb of ram using ITK-4.4 version and the test worked properly, although took a bit of time.<br>
<br>
Maybe the error appears when the machine does not have RAM?<div><br>
<br>
On 13-07-10 02:38 PM, Panagiotis Foteinos wrote:<br>
</div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div>
It is the first mnc file I have ever worked on.<br>
<br>
Let me see how other software behaves, and I will report back.<br>
<br>
Thank you,<br>
Panagiotis<br>
<br>
<br>
On Wed, Jul 10, 2013 at 2:35 PM, Bill Lorensen <<a href="mailto:bill.lorensen@gmail.com" target="_blank">bill.lorensen@gmail.com</a><br></div><div>
<mailto:<a href="mailto:bill.lorensen@gmail.com" target="_blank">bill.lorensen@gmail.<u></u>com</a>>> wrote:<br>
<br>
Have you ever read this file with other software? Have you tried<br>
other mnc files?<br>
<br>
<br>
On Wed, Jul 10, 2013 at 2:25 PM, Panagiotis Foteinos<br>
<<a href="mailto:panagiotis.foteinos@gmail.com" target="_blank">panagiotis.foteinos@gmail.com</a><br></div><div>
<mailto:<a href="mailto:panagiotis.foteinos@gmail.com" target="_blank">panagiotis.foteinos@<u></u>gmail.com</a>>> wrote:<br>
<br>
I have given all the permissions to the file in question.<br>
<br>
The error I am getting is:<br>
<br>
*********************<br>
/home/pfoteino/local/bin/itk-<u></u>4.4.0-bin/release/Modules/<u></u>ThirdParty/MINC/ITKMINC2_<u></u>ExternalProject/libsrc2/<u></u>volume.c:142<br>
(from MINC2): Unable to open file<br>
'/home/pfoteino/ITK_Images/<u></u>BigBrain/full16_100um_2009b_<u></u>sym.mnc'<br>
ExceptionObject caught!<br>
<br>
itk::ExceptionObject (0x28ab790)<br>
Location: "unknown"<br>
File:<br>
/home/pfoteino/local/src/ITK-<u></u>4.4.0/Modules/IO/ImageBase/<u></u>src/itkImageIOBase.cxx<br>
Line: 366<br>
Description: itk::ERROR: MINCImageIO(0x28aecf0): Unknown<br>
component type: 0<br>
<br>
</div></blockquote><span><font color="#888888">
<br>
-- <br>
Best regards,<br>
<br>
Vladimir S. FONOV ~ vladimir.fonov <at> <a href="http://gmail.com" target="_blank">gmail.com</a></font></span><div><div><br>
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