<div dir="ltr">Hi,<div><br></div><div>This reply is based on a long back and forth that I had with Donald Tournier, in which he helped me to install MRtrix 2.13. There are 2 main issues that need to be addressed:</div><div><br></div><div><ol><li>MRtrix version: the latest release on NITRC (MRtrix 0.2.12) wasn't quite up to date, so Donald was kind enough to upload an updated version (0.2.13). Make sure you're using the latest version, which can be found <a href="https://www.nitrc.org/frs/?group_id=128&release_id=3487">here</a>.</li><li>GSL Version</li></ol></div></div><div class="gmail_extra"><br><div class="gmail_quote">On Thu, Mar 23, 2017 at 9:20 AM, J-Donald Tournier <span dir="ltr"><<a href="mailto:jdtournier@gmail.com" target="_blank">jdtournier@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">Hi Shereif,<div><br></div><div>I've already answered your question on the MRtrix3 forum, but if you need more advice, please carry on the conversation here, since this is about the old version of MRtrix. </div><div><br></div><div>Just in case others are looking for my answer, it was:</div><div><br></div><div><p style="color:rgb(34,34,34);font-family:helvetica,arial,sans-serif;font-size:14px">I think it's just that the instructions aren't quite up to date with the version you downloaded. Have you tried:<br></p><p style="color:rgb(34,34,34);font-family:helvetica,arial,sans-serif;font-size:14px"></p><pre style="overflow:auto;font-family:consolas,menlo,monaco,"lucida console","liberation mono","dejavu sans mono","bitstream vera sans mono","courier new",monospace;font-size:14px;color:rgb(34,34,34)"><code class="m_3939103451338127552inbox-inbox-hljs m_3939103451338127552inbox-inbox-bash" style="font-family:consolas,menlo,monaco,"lucida console","liberation mono","dejavu sans mono","bitstream vera sans mono","courier new",monospace;font-size:1em;overflow:auto;color:rgb(51,51,51);background-image:initial;background-position:initial;background-size:initial;background-repeat:initial;background-origin:initial;background-clip:initial;background-color:rgb(248,248,248);word-wrap:normal;display:block;padding:0.5em;max-height:500px">$ <span class="m_3939103451338127552inbox-inbox-hljs-built_in" style="color:rgb(0,134,179)">cd</span> mrtrix-0.2.12</code></pre>instead...?<br><br>Cheers,<br>Donald.</div></div><div class="HOEnZb"><div class="h5"><br><div class="gmail_quote"><div dir="ltr">On Wed, 22 Mar 2017 at 15:29 Luis Concha <<a href="mailto:lconcha@unam.mx" target="_blank">lconcha@unam.mx</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr" class="m_3939103451338127552gmail_msg">Hi Shereif.<div class="m_3939103451338127552gmail_msg"><br class="m_3939103451338127552gmail_msg"></div><div class="m_3939103451338127552gmail_msg">Unless you have a very specific reason to stick to mrtrix version 2, I strongly suggest you install mrtrix3 available <a href="http://www.mrtrix.org/" class="m_3939103451338127552gmail_msg" target="_blank">here</a>. Installation instructions are very clear and straightforward so you should not bump into any troubles.</div><div class="m_3939103451338127552gmail_msg"><br class="m_3939103451338127552gmail_msg"></div><div class="m_3939103451338127552gmail_msg">Make sure you subscribe to the new mailing list, as this one is merely historical by now.</div><div class="m_3939103451338127552gmail_msg"><br class="m_3939103451338127552gmail_msg"></div><div class="m_3939103451338127552gmail_msg">Cheers.</div></div><div class="gmail_extra m_3939103451338127552gmail_msg"><br clear="all" class="m_3939103451338127552gmail_msg"><div class="m_3939103451338127552gmail_msg"><div class="m_3939103451338127552m_199742467427794823gmail_signature m_3939103451338127552gmail_msg" data-smartmail="gmail_signature"><div dir="ltr" class="m_3939103451338127552gmail_msg">Dr. Luis Concha<br class="m_3939103451338127552gmail_msg">Instituto de Neurobiología<br class="m_3939103451338127552gmail_msg">Laboratorio C-13<br class="m_3939103451338127552gmail_msg">UNAM, Campus Juriquilla<br class="m_3939103451338127552gmail_msg">Boulervard Juriquilla 3001<br class="m_3939103451338127552gmail_msg">Juriquilla, Querétaro.<br class="m_3939103451338127552gmail_msg">C.P. 76230<br class="m_3939103451338127552gmail_msg">México<br class="m_3939103451338127552gmail_msg">Tel (442) 2 38 10 54<br class="m_3939103451338127552gmail_msg">Fax (442) 2 38 10 46<br class="m_3939103451338127552gmail_msg"><a href="http://personal.inb.unam.mx/lconcha/" class="m_3939103451338127552gmail_msg" target="_blank">http://personal.inb.unam.mx/<wbr>lconcha/</a><br class="m_3939103451338127552gmail_msg"></div></div></div></div><div class="gmail_extra m_3939103451338127552gmail_msg">
<br class="m_3939103451338127552gmail_msg"><div class="gmail_quote m_3939103451338127552gmail_msg">On Wed, Mar 22, 2017 at 8:34 AM, Haykal, S.A.M.M. <span dir="ltr" class="m_3939103451338127552gmail_msg"><<a href="mailto:s.a.m.m.haykal@rug.nl" class="m_3939103451338127552gmail_msg" target="_blank">s.a.m.m.haykal@rug.nl</a>></span> wrote:<br class="m_3939103451338127552gmail_msg"><blockquote class="gmail_quote m_3939103451338127552gmail_msg" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr" class="m_3939103451338127552gmail_msg"><span style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg">Hello,</span><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg"><br class="m_3939103451338127552gmail_msg"></div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg">I'm trying to install MRtrix 0.2.12 on a macOS Sierra 10.12.3, but for some reason I can't manage to compile it. I installed both Xcode and Xquartz (the X11 substitute), and I successfully installed the dependencies using both Macports and Homebrew (on 2 separate occasions), but when try to compile it using:</div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg"><pre style="white-space:pre-wrap;padding-left:1em;padding-top:0.5em;padding-bottom:0.5em;background-color:rgb(224,224,224);border:1px solid black;color:rgb(0,0,0)" class="m_3939103451338127552gmail_msg">$ cd mrtrix-0.2.10
$ ./build</pre></div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg"><br class="m_3939103451338127552gmail_msg"></div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg">I get the following error: </div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg"><span style="color:rgb(0,0,0);font-family:menlo;font-size:11px" class="m_3939103451338127552gmail_msg"><br class="m_3939103451338127552gmail_msg"></span></div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg"><span style="color:rgb(0,0,0);font-family:menlo;font-size:11px" class="m_3939103451338127552gmail_msg">-bash: cd: mrtrix-0.2.10: No such file or directory</span></div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg"><br class="m_3939103451338127552gmail_msg"></div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg">Same error with both methods. I can't even find a directory named "mrtrix-0.2.10", so I completely understand the error message.</div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg"><br class="m_3939103451338127552gmail_msg"></div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg">What am I missing? I'm quite new to coding, so forgive me if my question is more on the novice side of things. I feel like the solution to my problem is really simple, but I just can't figure it out! I'd be very grateful if someone can help me out. Thanks!</div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg"><br class="m_3939103451338127552gmail_msg"></div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg">Best,</div><div style="font-size:12.800000190734863px" class="m_3939103451338127552gmail_msg">Shereif</div></div>
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</blockquote></div></div></div><span class="HOEnZb"><font color="#888888"><div dir="ltr">-- <br></div><div data-smartmail="gmail_signature"><div dir="ltr"><div style="color:rgb(136,136,136);font-family:arial,sans-serif;font-size:12.8px"><div dir="ltr"><b><font color="#990000">Dr J-Donald Tournier (PhD)</font></b><br><div><font color="#990000"><br></font></div><i><font color="#990000">Senior Lecturer, </font></i><i><font color="#990000">Biomedical Engineering</font></i><div><i><font color="#990000">Division of Imaging Sciences & Biomedical Engineering<br>King's College London</font></i><div><i><font color="#990000"><br></font></i></div><div><i><font color="#990000"><b style="font-family:calibri,sans-serif;font-size:15px"><span style="font-size:10pt">A:</span></b><span style="font-family:calibri,sans-serif;font-size:10pt"> Department of Perinatal Imaging & Health, 1<sup>st</sup> Floor South Wing, St Thomas' Hospital, London. SE1 7EH</span><br></font></i></div><div><i><font color="#990000"><b>T:</b><span class="m_3939103451338127552inbox-inbox-inbox-inbox-inbox-inbox-inbox-inbox-inbox-inbox-inbox-inbox-inbox-inbox-Apple-converted-space"> </span>+44 (0)20 7188 7118 ext 53613</font></i></div></div><div><i><font color="#990000"><b>W:</b> <a href="http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering" style="color:rgb(17,85,204)" target="_blank">http://www.kcl.ac.uk/<wbr>medicine/research/divisions/<wbr>imaging/departments/<wbr>biomedengineering</a></font></i></div></div></div></div></div>
</font></span></blockquote></div><br></div>