<div dir="ltr"><div><div><div>Hi Fernando,<br></div>thank you very much for your suggestions! Now i have installed MRtrix in Ubuntu and it seems to work great. I used 4M but now i know that i could add more tracks instead repeat the entire estimation. :)<br>
</div>Cheers<br><br></div>Matteo<br></div><div class="gmail_extra"><br><br><div class="gmail_quote">2013/5/8 Fernando Calamante <span dir="ltr"><<a href="mailto:fercala@brain.org.au" target="_blank">fercala@brain.org.au</a>></span><br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Oops, sorry I forgot to add a practical issue to have in mind: mradd needs that all the TDIs must have the same FOV. Therefore, if you do the first TDI with the -vox option (in tracks2prob), and all the other ones using this first TDI for the -template option (in tracks2prob), then it should be okay.<span class="HOEnZb"><font color="#888888"><div>
Fernando</div></font></span></div><div class="gmail_extra"><div class="im"><br clear="all"><div><div>----------------------------------------</div><div><font size="1"><b>A/Prof. Fernando Calamante</b><br>The Florey Institute of Neuroscience and Mental Health</font></div>
<div><font size="1">Melbourne Brain Centre - Austin Campus</font></div><div><font size="1">245 Burgundy Street<br>Heidelberg, Victoria 3084<br>Australia<br>Ph: <a href="tel:%28%2B61%203%29%209035%207041" value="+61390357041" target="_blank">(+61 3) 9035 7041</a><br>
Fax: <a href="tel:%28%2B61%203%29%209035%207307" value="+61390357307" target="_blank">(+61 3) 9035 7307</a><br>Email: <a href="mailto:fercala@brain.org.au" target="_blank">fercala@brain.org.au</a></font><br>
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<br><br></div><div><div class="h5"><div class="gmail_quote">On Wed, May 8, 2013 at 9:45 AM, Fernando Calamante <span dir="ltr"><<a href="mailto:fercala@brain.org.au" target="_blank">fercala@brain.org.au</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">Hi Matteo, <div>To add my two cents, if what you are interested is in doing TDI, then you can just break your tracking in smaller chunks and then use mradd to add the TDIs. In other words, (for example) the results for these 2 cases should be exactly the same:</div>
<div>1) create 5M tracks and then do TDI of the 5M file, or</div><div>2) create 5 separate 1M track files, create their 1M TDIs, and then add the 5 TDIs.</div><div>So, although this doesn't solve the problem of the 2GB limit you have, it is just a work around for the specific case of TDI :)</div>
<div>In fact, that is exactly what I do when I have to decide how many tracks to use for a given super-resolution (I keep on adding extra TDIs, until I get to a contrast-to-noise ratio that is okay for my application).</div>
<div>Good luck!</div><div>Fernando</div><div><br></div><div><br></div></div><div class="gmail_extra"><br clear="all"><div><div>----------------------------------------</div><div><font size="1"><b>A/Prof. Fernando Calamante</b><div>
<br>
The Florey Institute of Neuroscience and Mental Health</div></font></div><div><div><font size="1">Melbourne Brain Centre - Austin Campus</font></div></div><div><font size="1">245 Burgundy Street<br>Heidelberg, Victoria 3084<br>
Australia<br>
Ph: <a href="tel:%28%2B61%203%29%209035%207041" value="+61390357041" target="_blank">(+61 3) 9035 7041</a><br>Fax: <a href="tel:%28%2B61%203%29%209035%207307" value="+61390357307" target="_blank">(+61 3) 9035 7307</a><br>
Email: <a href="mailto:fercala@brain.org.au" target="_blank">fercala@brain.org.au</a></font><br></div></div><div><div>
<br><br><div class="gmail_quote">On Tue, May 7, 2013 at 6:21 PM, Matteo Diano <span dir="ltr"><<a href="mailto:matteo.diano@gmail.com" target="_blank">matteo.diano@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><div>Hi Jeurissen and Donald,<br></div>thank you very much for your helpfulness. I am going to try to install MRtrix in Centos.<br></div>Cheers<span><font color="#888888"><br><br></font></span></div>
<span><font color="#888888">Matteo<br><div><div><div><br></div></div>
</div></font></span></div><div><div><div class="gmail_extra"><br><br><div class="gmail_quote">2013/5/7 Jeurissen Ben <span dir="ltr"><<a href="mailto:Ben.Jeurissen@ua.ac.be" target="_blank">Ben.Jeurissen@ua.ac.be</a>></span><br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
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<div>As Donald explained, MRtrix on Windows is compiled as a 32-bit executable. A default 64-bit Windows installation will only allow you to address 2 GB of ram (<a href="http://msdn.microsoft.com/en-us/library/windows/desktop/aa366778(v=vs.85).aspx" target="_blank">http://msdn.microsoft.com/en-us/library/windows/desktop/aa366778(v=vs.85).aspx</a>).
This is why streamtrack fails as soon as your file reaches 2GB of size. </div>
<div><br>
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<div>A 64-bit Windows executable would solve this issue, but unfortunately I haven't been able to get the visualization part of mrtrix working properly in a 64-bit version on Windows...</div>
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<div>Currently, the only way around this is to use the 64-bit Linux or MacOS version.</div>
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<div>Hopefully, future releases will include a 64-bit version on Windows.</div>
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<div style="direction:ltr"><font face="Tahoma" color="#000000"><b>From:</b> <a href="mailto:mrtrix-discussion-bounces@public.nitrc.org" target="_blank">mrtrix-discussion-bounces@public.nitrc.org</a> [<a href="mailto:mrtrix-discussion-bounces@public.nitrc.org" target="_blank">mrtrix-discussion-bounces@public.nitrc.org</a>] on behalf of Matteo Diano [<a href="mailto:matteo.diano@gmail.com" target="_blank">matteo.diano@gmail.com</a>]<br>
<b>Sent:</b> 07 May 2013 09:37<br>
<b>To:</b> Donald Tournier<br>
<b>Cc:</b> mrtrix mailinglist<br>
<b>Subject:</b> Re: [Mrtrix-discussion] Sreamtrack error<br>
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<div>Hi Donald,<br>
</div>
thank you for your answer. I am working on SSD formatted in NTFS with 16G of RAM and the size of the file is around 2G. So I have no idea about this issue.<br>
</div>
Cheers<br>
<br>
</div>
Matteo<br>
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<div class="gmail_extra"><br>
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<div class="gmail_quote">2013/5/7 Donald Tournier <span dir="ltr"><<a href="mailto:d.tournier@brain.org.au" target="_blank">d.tournier@brain.org.au</a>></span><br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div dir="ltr">Hi Matteo,
<div><br>
</div>
<div>Sounds to me like you've hit a file size limit. What is the size of the tracks file when it fails? It might be due to the 32-bit 4GB boundary (MRtrix on Windows is compiled as a 32-bit executable, as far as I know), but it could also be due to a limitation
of your filesystem. Are you writing the tracks to a NTFS partition, or a FAT partition? If the latter, you'll definitely encounter issues like you describe...</div>
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<div>Hope this helps,</div>
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<div>Donald.</div>
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<div>On 7 May 2013 16:49, Matteo Diano <span dir="ltr"><<a href="mailto:matteo.diano@gmail.com" target="_blank">matteo.diano@gmail.com</a>></span> wrote:<br>
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<div>Dear MRtrix experts,<br>
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I tried to use streamtrack SB_PROB to obtain the whole brain tracking to fed into the TDI processing (so more than 1 million fibers). Every time I got this error: "973180 generated, 772168 selected [ 19%]streamtrack: error writing to tracks file: Invalid
argument". I tried to change data but i had the same problem and it always stops around 18 percent. I am using MRtrix on win 7 64b.<br>
</div>
Thank you very much!<br>
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Regards<span><font color="#888888"><br>
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<span><font color="#888888">Matteo<br>
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<span><font color="#888888"><br>
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-- <br>
<font size="1" color="#ff6600"><b>Dr Jacques-Donald Tournier<br>
</b></font>
<div><font size="1" color="#ff6600">Research Fellow</font></div>
<div><font size="1"><br>
</font></div>
<div><font size="1">The Florey Institute of Neuroscience and Mental Health</font></div>
<div><font size="1">Melbourne Brain Centre - Austin Campus</font></div>
<div><font size="1">245 Burgundy Street</font></div>
<div><font size="1">Heidelberg Vic 3084</font></div>
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