<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; color: rgb(0, 0, 0); font-family: Calibri, sans-serif; "><div><div><div style="font-family: Calibri, sans-serif; ">Hi Christian, Bruno, Roland.</div><div style="font-family: Calibri, sans-serif; "><br></div><div style="font-family: Calibri, sans-serif; ">h5ls seemed to indicate that the file wasn't corrupted )though perhaps I don't know what HDF5 corruption looks like):</div><div style="font-family: Calibri, sans-serif; "><br></div><div style="font-family: Calibri, sans-serif; ">----------------------------------------------------------------------------</div><div style="font-family: Calibri, sans-serif; "><div style="font-family: Calibri, sans-serif; ">> h5ls hahndol\:\:hahndol_coulomb.h5 </div><div style="font-family: Calibri, sans-serif; "><br></div><div style="font-family: Calibri, sans-serif; ">HAHNDOL::Im_Coulomb\ it=0\ tl=0\ rl=0 Dataset {34, 61, 61}</div><div style="font-family: Calibri, sans-serif; ">HAHNDOL::Re_Coulomb\ it=0\ tl=0\ rl=0 Dataset {34, 61, 61}</div><div style="font-family: Calibri, sans-serif; ">Parameters\ and\ Global\ Attributes Group</div><div>----------------------------------------------------------------------------</div></div><div style="font-family: Calibri, sans-serif; "><br></div><div style="font-family: Calibri, sans-serif; ">Originally my Visit and plugins were compiled with slightly different versions of HDF5 (1.8.6 vs 1.8.7). I tried the <span class="Apple-style-span" style="font-family: Calibri; ">HDF5_IGNORE_VERSION_CHECK variable, but it made no difference.</span></div><div style="font-family: Calibri, sans-serif; "><span class="Apple-style-span" style="font-family: Calibri; "><br></span></div><div style="font-family: Calibri, sans-serif; "><span class="Apple-style-span" style="font-family: Calibri; ">I've now moved to the 1.8.7 for both, but it doesn't help (apart from removing warnings about HDF5_</span><span class="Apple-style-span" style="font-family: Calibri; ">IGNORE_VERSION_CHECK). The terminal output from Visit is:</span></div><div style="font-family: Calibri, sans-serif; "><span class="Apple-style-span" style="font-family: Calibri; "><br></span></div><div style="font-family: Calibri, sans-serif; "><span class="Apple-style-span" style="font-family: Calibri; ">---------------------------------------------------</span></div><div style="font-family: Calibri, sans-serif; "><span class="Apple-style-span" style="font-family: Consolas; "><div><span style="font-family: Calibri; ">Running: gui2.4.2</span></div><div><span style="font-family: Calibri; ">Running: viewer2.4.2 -host 127.0.0.1 -port 5600 -geometry 875x778+405+0 -borders 20,0,0,1 -shift 0,0 -preshift 0,0 -defer</span></div><div><span style="font-family: Calibri; ">Running: mdserver2.4.2 -host 127.0.0.1 -port 5601</span></div><div><span style="font-family: Calibri; ">mdserver(17278) malloc: *** error for object 0x7fff70bc2500: pointer being freed was not allocated</span></div><div><span style="font-family: Calibri; ">*** set a breakpoint in malloc_error_break to debug</span></div><div><span style="font-family: Calibri; ">Running: mdserver2.4.2 -host 127.0.0.1 -port 5601</span></div><div><span style="font-family: Calibri; ">mdserver(17341) malloc: *** error for object 0x7fff70bc2500: pointer being freed was not allocated</span></div><div><span style="font-family: Calibri; ">*** set a breakpoint in malloc_error_break to debug</span></div><div><span style="font-family: Calibri; ">Running: mdserver2.4.2 -host 127.0.0.1 -port 5601</span></div><div><span style="font-family: Calibri; ">mdserver(17362) malloc: *** error for object 0x7fff70bc2500: pointer being freed was not allocated</span></div><div><span style="font-family: Calibri; ">*** set a breakpoint in malloc_error_break to debug</span></div><div><span style="font-family: Calibri; ">Running: mdserver2.4.2 -host 127.0.0.1 -port 5600</span></div><div><span style="font-family: Calibri; ">mdserver(17383) malloc: *** error for object 0x7fff70bc2500: pointer being freed was not allocated</span></div><div><span style="font-family: Calibri; ">*** set a breakpoint in malloc_error_break to debug</span></div><div><span style="font-family: Calibri; ">Running: mdserver2.4.2 -host 127.0.0.1 -port 5600</span></div></span><span class="Apple-style-span" style="font-family: Calibri; ">---------------------------------------------------</span></div><div style="font-family: Calibri, sans-serif; "><span class="Apple-style-span" style="font-family: Calibri; "><br></span></div><div style="font-family: Calibri, sans-serif; "><span class="Apple-style-span" style="font-family: Calibri; ">I'm not sure it's not my Visit installation itself. I got the pre-compiled Mac package. I'm trying a from-source installation instead, but am briefly hung up getting the pre-requisite VTK on my machine.</span></div><div style="font-family: Calibri, sans-serif; "><span class="Apple-style-span" style="font-family: Calibri; "><br></span></div><div><font class="Apple-style-span" face="Consolas"><span style="font-family: Calibri; ">Thanks,</span></font></div><div><font class="Apple-style-span" face="Consolas"><span style="font-family: Calibri; "><br></span></font></div><div><font class="Apple-style-span" face="Consolas"><span style="font-family: Calibri; ">Bernard</span></font></div><div style="font-family: Calibri, sans-serif; "><span class="Apple-style-span" style="font-family: Calibri; "><br></span></div><div style="font-family: Calibri, sans-serif; "><div><div><div>----------------------------------------------------------------------------- </div><div>Bernard Kelly -- CRESST Research Associate, NASA/GSFC</div><div> </div><div>Phone: +1 (301) 286-7243</div><div>E-Mail: bernard.j.kelly@nasa.gov</div><div>Web: http://science.gsfc.nasa.gov/sed/index.cfm?fuseAction=people.jumpBio&iphonebookid=13052</div><div>-----------------------------------------------------------------------------</div></div><div><br></div></div></div></div></div><div style="font-family: Calibri, sans-serif; "><br></div><span id="OLK_SRC_BODY_SECTION" style="font-family: Calibri, sans-serif; "><div style="font-family: Calibri; text-align: left; color: black; border-bottom-width: medium; border-bottom-style: none; border-bottom-color: initial; border-left-width: medium; border-left-style: none; border-left-color: initial; padding-bottom: 0in; padding-left: 0in; padding-right: 0in; border-top-color: rgb(181, 196, 223); border-top-width: 1pt; border-top-style: solid; border-right-width: medium; border-right-style: none; border-right-color: initial; padding-top: 3pt; "><span style="font-weight:bold">From: </span> Bruno Giacomazzo <<a href="mailto:bruno.giacomazzo@jila.colorado.edu">bruno.giacomazzo@jila.colorado.edu</a>><br><span style="font-weight:bold">Date: </span> Tue, 10 Apr 2012 15:27:39 -0500<br><span style="font-weight:bold">To: </span> Bernard Kelly <<a href="mailto:bernard.j.kelly@nasa.gov">bernard.j.kelly@nasa.gov</a>><br><span style="font-weight:bold">Cc: </span> Einstein Toolkit Users <<a href="mailto:users@einsteintoolkit.org">users@einsteintoolkit.org</a>><br><span style="font-weight:bold">Subject: </span> Re: [Users] Visit & CarpetHDF5 mismatch?<br></div><div><br></div><div><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Beany,<div><span class="Apple-tab-span" style="white-space:pre"> </span>I use VisIt without problems with the Maxwell version of the Einstein Toolkit. Was your plugin compiled with the same HDF5 library version used to compile VisIt? Did you use h5ls to check the file is not corrupted?</div><div><br></div><div>Cheers,</div><div>Bruno</div><div><br></div><div><br><div><div>On Apr 10, 2012, at 2:21 PM, Kelly, Bernard J. (GSFC-660.0)[UNIVERSITY OF MARYLAND BALTIMORE COUNTY] wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div>Hi all. I'd like to visualise some 3D data produced by an initial-data run<br>of the EinsteinToolkit (Maxwell).<br><br><br>I'm outputting using CarpetIOHDF5; I have an output file<br>"hahndol::hahndol_coulomb.h5", and decided to use Visit, as recommended by<br>cactuscode, etc.<br><br>I grabbed the CarpetHDF5 plugin code from svn, and installed as per<br>instructions (pointing at the ETK-installed HDF5 in my<br>Cactus/configs/<config-name>/scratch/external directory).<br><br>Starting Visit (2.4.2) , and trying to load a .h5 file yields the<br>following error:<br><br>---------------------------------------------------------------------------<br>----<br>The metadata server running on host localhost has exited abnormally. VisIt<br>is trying to restart it.<br>Shortly thereafter, the following occured...<br>VisIt was unable to open<br>"/Users/bjkelly1/Projects/CODES/Cactus/exe/BL_IJS_test/hahndol::hahndol_cou<br>lomb.h5". Each attempt to open it caused VisIt's metadata server to<br>crash. This can occur when the file is corrupted, or when the underlying<br>file format has changed and VisIt's readers have not been updated yet, or<br>when the reader VisIt is using for your file format is not robust. Please<br>check whether the file is corrupted and, if not, contact a VisIt developer.<br>---------------------------------------------------------------------------<br>----<br><br><br>I have no idea whether the file is corrupted, but wanted to know: is the<br>CarpetHDF5 plugin up-to-date with the output of Maxwell's CarpetIOHDF5?<br><br>Any basic ideas where I might have gone wrong?<br><br>Thanks,<br><br>Bernard<br><br><br>---------------------------------------------------------------------------<br>-- <br>Bernard Kelly -- CRESST Research Associate, NASA/GSFC<br><br>Phone: +1 (301) 286-7243<br>E-Mail: <a href="mailto:bernard.j.kelly@nasa.gov">bernard.j.kelly@nasa.gov</a><br>Web: <br><a href="http://science.gsfc.nasa.gov/sed/index.cfm?fuseAction=people.jumpBio&iphone">http://science.gsfc.nasa.gov/sed/index.cfm?fuseAction=people.jumpBio&iphone</a><br>bookid=13052<br>---------------------------------------------------------------------------<br>--<br><br><br><br><br><br>_______________________________________________<br>Users mailing list<br><a href="mailto:Users@einsteintoolkit.org">Users@einsteintoolkit.org</a><br><a href="http://lists.einsteintoolkit.org/mailman/listinfo/users">http://lists.einsteintoolkit.org/mailman/listinfo/users</a><br></div></blockquote></div><br><div apple-content-edited="true"><span class="Apple-style-span" style="font-family: Helvetica; "><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-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; "><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-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; "><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-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; "><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-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; "><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-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; "><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-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; "><div><div><span style="font-family: Calibri; ">Dr. Bruno Giacomazzo</span></div><div><span style="font-family: Calibri; ">JILA - University of Colorado</span></div><div><span style="font-family: Calibri; ">440 UCB</span><span style="font-family: Calibri; "><br></span><span style="font-family: Calibri; ">Boulder, CO 80309</span></div><div><span style="font-family: Calibri; ">USA</span></div><div><span style="font-family: Calibri; "><br></span></div><div><span style="font-family: Calibri; ">Tel. : +1 303-492-0389</span></div><div><div><span style="font-family: Calibri; ">Fax : +1 303-492-5235</span></div></div><div><span style="font-family: Calibri; ">email : </span><a href="mailto:bruno.giacomazzo@jila.colorado.edu"><span style="font-family: Calibri; ">bruno.giacomazzo@jila.colorado.edu</span></a></div><div><span style="font-family: Calibri; ">web: </span><a href="http://www.brunogiacomazzo.org"><span style="font-family: Calibri; ">http://www.brunogiacomazzo.org</span></a></div><div><span style="font-family: Calibri; "><br></span></div><div><span style="font-family: Calibri; ">----------------------------------------------------------------------</span></div><div><span style="font-family: Calibri; ">There are only 10 types of people in the world:</span></div><div><span style="font-family: Calibri; ">Those who understand binary, and those who don't</span></div><div><span style="font-family: Calibri; ">----------------------------------------------------------------------</span></div></div></span></span></span></div></span></div></span></div></span></div></span></div><br></div></div></div></span></body></html>