<div dir="ltr">Hi Nathan and Matt,<div><br></div><div>Thanks for your help (both via email and IRC chat) yesterday. I suspect (as I think you do) that it was an issue with my environment.</div><div><br></div><div>I ended up resetting my environment to bash, and simplifying my bashrc (again, this is a test computer, so it's no big deal to experiment) to the point where I only have the following (yt is the only thing I'm trying to install):</div>
<div><br></div><div><div>export CC=cc</div><div>export CXX=g++</div></div><div><br></div><div style>and of course</div><div style><br></div><div style><div>longtrail:~ desika$ echo $PATH</div><div>/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/X11/bin</div>
<div><br></div><div style>when installing the red (bleeding edge; but I get the same problem trying the yellow development version), I get the following errors at the time of HDF5 installation. Have these been seen before? I post the entire output file at:</div>
<div style><br></div><div style><a href="http://ajax.as.arizona.edu/~desika/yt_install.log">http://ajax.as.arizona.edu/~desika/yt_install.log</a><br></div><div style><br></div><div style><br></div><div style>thanks,</div>
<div style>Desika</div><div style><br></div><div style><br></div><div style><br></div><div style><div>Installing HDF5</div><div>********************************************</div><div> FAILURE REPORT:</div><div>********************************************</div>
<div><br></div><div><span class="" style="white-space:pre"> </span>sed -e 's/-L/:/g' -e 's/ //g'`" \</div><div><span class="" style="white-space:pre"> </span> ./H5make_libsettings > H5lib_settings.c || \</div>
<div><span class="" style="white-space:pre"> </span> (test $HDF5_Make_Ignore && echo "*** Error ignored") || \</div><div><span class="" style="white-space:pre"> </span> (rm -f H5lib_settings.c ; exit 1)</div>
<div>dyld: Library not loaded: libz.so.1.2.8</div><div> Referenced from: /Users/desika/yt-x86_64/src/hdf5-1.8.11/src/./H5make_libsettings</div><div> Reason: image not found</div><div>/bin/sh: line 1: 61656 Trace/BPT trap: 5 LD_LIBRARY_PATH="$LD_LIBRARY_PATH`echo -L/Users/desika/yt-x86_64/lib/ -L/Users/desika/yt-x86_64/lib64/ -L/Users/desika/yt-x86_64/lib/ -L/Users/desika/yt-x86_64/lib64/ -L/Users/desika/yt-x86_64/lib/ -L/Users/desika/yt-x86_64/lib64/ -L/Users/desika/yt-x86_64/lib/ -L/Users/desika/yt-x86_64/lib64/ | <span class="" style="white-space:pre"> </span>sed -e 's/-L/:/g' -e 's/ //g'`" ./H5make_libsettings > H5lib_settings.c</div>
<div>make[1]: *** [H5lib_settings.c] Error 1</div><div>make: *** [install-recursive] Error 1</div><div><br></div><div>********************************************</div><div>********************************************</div>
<div>Failure. Check /Users/desika/yt-x86_64/yt_install.log. The last 10 lines are above.</div><div><br></div></div></div><div><br></div><div><br></div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On Wed, Nov 20, 2013 at 12:56 PM, Nathan Goldbaum <span dir="ltr"><<a href="mailto:nathan12343@gmail.com" target="_blank">nathan12343@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 style="word-wrap:break-word"><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">
Hi Desika,</div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto"><br></div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">
Is the yt bin directory in your $PATH after running the activate script?</div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto"><br></div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">
I know not many of us are csh/tcsh users - it’s possible there’s a bug in activate.csh.</div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto"><br></div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">
-Nathan</div><div><div class="h5"> <div></div> <br><p style="color:#a0a0a8">On November 20, 2013 at 11:41:11 AM, Desika Narayanan (<a href="mailto://dnarayan@haverford.edu" target="_blank">dnarayan@haverford.edu</a>) wrote:</p>
</div></div><blockquote type="cite"><span><div><div><div><div class="h5">
<div dir="ltr">Hey Team,<br>
<div><br></div>
<div>I'm trying a fresh install of yt on mac os x
(mountain lion). I've done this before successfully a few
times, so am surprised at my problems. I'm downloading the
bleeding edge version.</div>
<div><br></div>
<div>The install script ran fine, but then nothing in the
bin directory actually runs. For example:</div>
<div><br></div>
<div>
<div>longtrail:~] desika% which pip</div>
<div>/Users/desika/yt-3.0/yt-x86_64/bin/pip</div>
<div>[longtrail:~] desika% which python</div>
<div>/Users/desika/yt-3.0/yt-x86_64/bin/python</div>
<div>[longtrail:~] desika% pip install scipy</div>
<div>pip: Command not found.</div>
<div><br></div>
<div>So - maybe I should run 'activate', right? So,
then I do (I'm in csh):</div>
<div><br></div>
<div>
<div>longtrail:~] desika% echo $YT_DST</div>
<div>YT_DST: Undefined variable.</div>
<div>[longtrail:~] desika% echo $SHELL</div>
<div>/bin/csh</div>
<div>[longtrail:~] desika% echo $YT_DEST</div>
<div>/Users/desika/yt-3.0/yt-x86_64/</div>
<div>[longtrail:~] desika% source $YT_DEST/bin/activate.csh</div>
<div>[yt-x86_64] [longtrail:~] desika% </div>
<div>[yt-x86_64] [longtrail:~] desika% which pip</div>
<div>/Users/desika/yt-3.0/yt-x86_64/bin/pip</div>
<div>[yt-x86_64] [longtrail:~] desika% pip install scipy</div>
<div>pip: Command not found.</div>
<div>[yt-x86_64] [longtrail:~] desika% ipython</div>
<div>ipython: Command not found.</div>
<div><br></div>
<div><br></div>
<div>So then I try doing things manually....</div>
<div><br></div>
<div>
<div>yt-x86_64] [longtrail:~] desika% echo $LD_LIBRARY_PATH</div>
<div>/Users/desika/yt-3.0/yt-x86_64/lib:</div>
<div>[yt-x86_64] [longtrail:~] desika% echo $PYTHONPATH</div>
<div>
/Users/desika/python_packages/dn_python_packages:/Users/desika/hyperion-dust-0.1.0/dust_files:/Users/desika/powderday/:/Users/desika/toolbox/python_tools:/Users/desika/yt-3.0/yt-x86_64/bin/:/Users/desika/yt-3.0/yt-x86_64/lib/python2.7/site-packages/</div>
<div>[yt-x86_64] [longtrail:~] desika% </div>
<div>[yt-x86_64] [longtrail:~] desika% pip install sicpy</div>
<div>pip: Command not found.</div>
<div><br></div>
<div><br></div>
<div>So now I'm super confused....am I missing something
obvious?</div>
<div><br></div>
<div>thanks,</div>
<div>desika</div>
<div><br></div>
<div><br></div>
<div><br></div>
</div>
</div>
<div><br></div>
</div>
</div></div></div>
_______________________________________________
<br>yt-users mailing list
<br><a href="mailto:yt-users@lists.spacepope.org" target="_blank">yt-users@lists.spacepope.org</a>
<br><a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" target="_blank">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>
<br></div></div></span></blockquote></div></blockquote></div><br></div>