<html><head><meta http-equiv="Content-Type" content="text/html charset=us-ascii"><meta http-equiv="Content-Type" content="text/html charset=us-ascii"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Just checking if anyone has figure the problem with installation of 0.3 on a mac out, I run into the same problem on 10.7.5.<div><br><div apple-content-edited="true">
<span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: -webkit-auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: -webkit-auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: -webkit-auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: -webkit-auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: -webkit-auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Thank you.</div><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><br></div></span></div></span></div></span></div></span></span></div><div><div>On Jul 11, 2014, at 12:00 PM, <a href="mailto:mrtrix-discussion-request@www.nitrc.org">mrtrix-discussion-request@www.nitrc.org</a> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">Send Mrtrix-discussion mailing list submissions to<br><span class="Apple-tab-span" style="white-space:pre"> </span><a href="mailto:mrtrix-discussion@www.nitrc.org">mrtrix-discussion@www.nitrc.org</a><br><br>To subscribe or unsubscribe via the World Wide Web, visit<br><span class="Apple-tab-span" style="white-space:pre"> </span><a href="http://www.nitrc.org/mailman/listinfo/mrtrix-discussion">http://www.nitrc.org/mailman/listinfo/mrtrix-discussion</a><br>or, via email, send a message with subject or body 'help' to<br><span class="Apple-tab-span" style="white-space:pre"> </span>mrtrix-discussion-request@www.nitrc.org<br><br>You can reach the person managing the list at<br><span class="Apple-tab-span" style="white-space:pre"> </span>mrtrix-discussion-owner@www.nitrc.org<br><br>When replying, please edit your Subject line so it is more specific<br>than "Re: Contents of Mrtrix-discussion digest..."<br><br><br>Today's Topics:<br><br> 1. Mrtrix3 install problem on mac (Daniel Lumsden)<br><br><br>----------------------------------------------------------------------<br><br>Message: 1<br>Date: Fri, 11 Jul 2014 14:51:37 +0000<br>From: Daniel Lumsden <doclumsden@hotmail.com><br>To: "mrtrix-discussion@www.nitrc.org"<br><span class="Apple-tab-span" style="white-space:pre"> </span><mrtrix-discussion@www.nitrc.org><br>Subject: [Mrtrix-discussion] Mrtrix3 install problem on mac<br>Message-ID: <DUB123-W39AC1DB4E16B0111EAEB7DCF090@phx.gbl><br>Content-Type: text/plain; charset="iso-8859-1"<br><br>Dear All<br><br>I was hoping some one might have a bit of advise about installation of mrtrix3 on Max OSX 10.85.<br><br>Following the instructions on the wiki I get to the ./configure stage and then get the message below:<br><br><br><br>MRtrix build type requested: release<br><br>Checking C++ compiler [g++]: 4.2.1 - tested ok<br>Detecting OS: darwin<br>Detecting pointer size: 64 bit<br>Detecting byte order: little-endian<br>Checking for unordered_map: no<br><br><br>Checking for TR1 unordered_map: present<br>Checking for 64-bit integer type: yes<br>Checking for variable-length array support: yes<br>Checking for non-POD variable-length array support: no<br>Checking for zlib compression library: 1.2.5<br>Checking for POSIX threads: yes<br>Checking for GNU Scientific Library: Traceback (most recent call last):<br> File "./configure", line 664, in <module><br> ''', cpp_flags + gsl_cflags, ld_flags + gsl_ldflags)<br> File "./configure", line 320, in compile<br> execute (cmd, CompileError)<br> File "./configure", line 287, in execute<br> process = subprocess.Popen (cmd, stdout=subprocess.PIPE, stderr=subprocess.PIPE, cwd=cwd)<br> File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/subprocess.py", line 679, in __init__<br> errread, errwrite)<br> File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/subprocess.py", line 1228, in _execute_child<br> raise child_exception<br>TypeError: execv() arg 2 must contain only strings<br><br><br><br>Can anywhere suggestion where it's going wrong? <br><br>The full configure.log reads:<br><br><br>REPORT: <br>MRtrix build type requested:<br><br>REPORT: release<br><br>REPORT: <br><br>REPORT: Checking C++ compiler [g++]:<br>EXEC <<<br>CMD: g++ -dumpversion<br>EXIT: 0<br>STDOUT:<br>4.2.1<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br><br>REPORT: 4.2.1<br><br>COMPILE /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmp3BM9Ed.cpp:<br>---<br>int main() { return (0); }<br>---<br>EXEC <<<br>CMD: g++ -c /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmp3BM9Ed.cpp -o /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmp3BM9Ed.o<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: g++ /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmp3BM9Ed.o -o ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br><br>REPORT: - tested ok<br><br>REPORT: Detecting OS: darwin<br><br>REPORT: Detecting pointer size:<br><br>COMPILE /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmp0faCCk.cpp:<br>---<br><br>#include <iostream><br>int main() { <br> std::cout << sizeof(void*); <br> return (0);<br>}<br><br>---<br>EXEC <<<br>CMD: g++ -c -DMRTRIX_MACOSX -fPIC /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmp0faCCk.cpp -o /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmp0faCCk.o<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: g++ /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmp0faCCk.o -o ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: ./a.out<br>EXIT: 0<br>STDOUT:<br>8<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br><br>REPORT: 64 bit<br><br>REPORT: Detecting byte order:<br><br>REPORT: little-endian<br><br>REPORT: Checking for unordered_map:<br><br>COMPILE /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpsepkJK.cpp:<br>---<br><br>#include <unordered_map><br><br>int main() { <br> std::unordered_map<int,int> map; <br> return (map.size());<br>}<br><br>---<br>EXEC <<<br>CMD: g++ -c -DMRTRIX_MACOSX -fPIC -DMRTRIX_WORD64 /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpsepkJK.cpp -o /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpsepkJK.o<br>EXIT: 1<br>STDERR:<br>/var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpsepkJK.cpp:2:10: fatal error: 'unordered_map' file not found<br>#include <unordered_map><br> ^<br>1 error generated.<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>error deleting temporary file "/var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpsepkJK.o": No such file or directory<br>REPORT: no<br><br>REPORT: Checking for TR1 unordered_map:<br><br>COMPILE /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpmO11Nk.cpp:<br>---<br><br>#include <tr1/unordered_map><br><br>int main() { <br> std::tr1::unordered_map<int,int> map; <br> return (map.size());<br>}<br><br>---<br>EXEC <<<br>CMD: g++ -c -DMRTRIX_MACOSX -fPIC -DMRTRIX_WORD64 /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpmO11Nk.cpp -o /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpmO11Nk.o<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: g++ /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpmO11Nk.o -o ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br><br>REPORT: present<br><br>REPORT: Checking for 64-bit integer type:<br><br>COMPILE /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpBYDEbz.cpp:<br>---<br><br>#include <stdint.h><br><br>int main() { <br> int64_t t = 0; <br> return (t); <br>}<br><br>---<br>EXEC <<<br>CMD: g++ -c -DMRTRIX_MACOSX -fPIC -DMRTRIX_WORD64 -DMRTRIX_USE_TR1 /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpBYDEbz.cpp -o /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpBYDEbz.o<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: g++ /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpBYDEbz.o -o ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br><br>REPORT: yes<br><br>REPORT: Checking for variable-length array support:<br><br>COMPILE /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpBp048Z.cpp:<br>---<br><br><br>int main(int argc, char* argv[]) { <br> int x[argc];<br> return 0; <br>}<br><br>---<br>EXEC <<<br>CMD: g++ -c -DMRTRIX_MACOSX -fPIC -DMRTRIX_WORD64 -DMRTRIX_USE_TR1 /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpBp048Z.cpp -o /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpBp048Z.o<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: g++ /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpBp048Z.o -o ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br><br>REPORT: yes<br><br>REPORT: Checking for non-POD variable-length array support:<br><br>COMPILE /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpyT8mR_.cpp:<br>---<br><br>#include <string><br><br>class X {<br> int x;<br> double y;<br> std::string s;<br>};<br><br>int main(int argc, char* argv[]) { <br> X x[argc];<br> return 0; <br>}<br><br>---<br>EXEC <<<br>CMD: g++ -c -DMRTRIX_MACOSX -fPIC -DMRTRIX_WORD64 -DMRTRIX_USE_TR1 /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpyT8mR_.cpp -o /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpyT8mR_.o<br>EXIT: 1<br>STDERR:<br>/var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpyT8mR_.cpp:11:6: error: variable length array of non-POD element type 'X'<br> X x[argc];<br> ^<br>1 error generated.<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>error deleting temporary file "/var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpyT8mR_.o": No such file or directory<br>REPORT: no<br><br>REPORT: Checking for zlib compression library:<br><br>COMPILE /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpZp0WEo.cpp:<br>---<br><br>#include <iostream><br>#include <zlib.h><br><br>int main() { <br> std::cout << zlibVersion(); <br> return (0);<br>}<br><br>---<br>EXEC <<<br>CMD: g++ -c -DMRTRIX_MACOSX -fPIC -DMRTRIX_WORD64 -DMRTRIX_USE_TR1 -DMRTRIX_NO_NON_POD_VLA /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpZp0WEo.cpp -o /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpZp0WEo.o<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: g++ /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpZp0WEo.o -lz -o ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: ./a.out<br>EXIT: 0<br>STDOUT:<br>1.2.5<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br><br>REPORT: 1.2.5<br><br>REPORT: Checking for POSIX threads:<br><br>COMPILE /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpVgCVmZ.cpp:<br>---<br><br>#include <pthread.h><br><br>void* func (void*) { return (NULL); } <br><br>int main() { <br> pthread_t t; <br> if (pthread_create(&t, NULL, func, NULL)) return (1);<br> pthread_exit (NULL); <br> return (0); <br>}<br><br>---<br>EXEC <<<br>CMD: g++ -c -DMRTRIX_MACOSX -fPIC -DMRTRIX_WORD64 -DMRTRIX_USE_TR1 -DMRTRIX_NO_NON_POD_VLA /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpVgCVmZ.cpp -o /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpVgCVmZ.o<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: g++ /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpVgCVmZ.o -lz -lpthread -o ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: ./a.out<br>EXIT: 0<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br><br>REPORT: yes<br><br>REPORT: Checking for GNU Scientific Library:<br>EXEC <<<br>CMD: gsl-config --cflags<br>EXIT: 0<br>STDOUT:<br>-I/opt/local/include<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br>EXEC <<<br>CMD: gsl-config --libs<br>EXIT: 0<br>STDOUT:<br>-L/opt/local/lib -lgsl -lgslcblas<br><blockquote type="cite"><blockquote type="cite"><br></blockquote></blockquote><br><br>COMPILE /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpb6eI_g.cpp:<br>---<br><br>#include <iostream><br>#include <gsl/gsl_version.h><br>#include <gsl/gsl_matrix.h><br><br>int main() { <br> std::cout << gsl_version; <br> gsl_matrix* M = gsl_matrix_alloc (3,3); <br> return (M->size1 != 3);<br>}<br><br>---<br>EXEC <<<br>CMD: g++ -c -DMRTRIX_MACOSX -fPIC -DMRTRIX_WORD64 -DMRTRIX_USE_TR1 -DMRTRIX_NO_NON_POD_VLA -I/opt/local/include /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpb6eI_g.cpp -o /var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpb6eI_g.o<br>error deleting temporary file "/var/folders/s3/4fmdnjr133j55ws3y7pl7c_h0000gn/T/tmpb6eI_g.o": No such file or directory <br><br><br>Many thanks in advance and apologies for the long post<br><br>Dan<br> <span class="Apple-tab-span" style="white-space:pre"> </span><span class="Apple-tab-span" style="white-space:pre"> </span> <span class="Apple-tab-span" style="white-space:pre"> </span> <span class="Apple-tab-span" style="white-space:pre"> </span><span class="Apple-tab-span" style="white-space:pre"> </span> <br>-------------- next part --------------<br>An HTML attachment was scrubbed...<br>URL: <http://www.nitrc.org/pipermail/mrtrix-discussion/attachments/20140711/3f50e2de/attachment-0001.html><br><br>------------------------------<br><br>_______________________________________________<br>Mrtrix-discussion mailing list<br>Mrtrix-discussion@www.nitrc.org<br>http://www.nitrc.org/mailman/listinfo/mrtrix-discussion<br><br><br>End of Mrtrix-discussion Digest, Vol 66, Issue 3<br>************************************************<br></blockquote></div><br></div></body></html>