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<p>Dear Zach,</p>
<p>Sorry there is another question besides generating .h5 file in the previous email. I try to continue my simulation by checkpoint so I have <span>IOUtil::checkpoint_on_terminate = "yes", but it seems no checkpoints being made. So even the restart id is 1
or 2 , the simulation stars from the beginning . How can I continue the simulation ? The attached file is the parameter file I use which is only a little bit different from the original one.</span></p>
<p><span>Thanks a lot.</span></p>
<p><span><br>
</span></p>
<p>Best regards,</p>
<p>Chia-Hui</p>
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<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>寄件者:</b> Zach Etienne <zachetie@gmail.com><br>
<b>寄件日期:</b> 2018年7月20日 上午 04:41:38<br>
<b>收件者:</b> 林家暉<br>
<b>副本:</b> Einstein Toolkit Users<br>
<b>主旨:</b> Re: [Users] error after activating IllinoisGRMHD and VolumeIntegrals_GRMHD</font>
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<div dir="ltr">Dear Chia-Hui,
<div><br>
</div>
<div>I noticed at the bottom of your .out file the following line:</div>
<div><br>
</div>
<div>> INFO (TerminationTrigger): Remaining wallclock time for your job is 57.5667 minutes. Triggering termination...<br>
</div>
<div><br>
</div>
<div>It appears that for some reason, TerminationTrigger is terminating your run. I updated the .par files to properly document the relevant TerminationTrigger parameters. You could also try disabling TerminationTrigger completely, as this should prevent the
code from terminating.</div>
</div>
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<div style="font-size:12.8px">-Zach</div>
<div style="font-size:12.8px"><br>
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<span style="font-size:12.8px">* * *</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Zachariah Etienne</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Assistant Professor of Mathematics</span>
<div style="font-size:12.8px">West Virginia University</div>
<div><font color="#0000ee"><u><a href="https://math.wvu.edu/~zetienne/" target="_blank" id="LPlnk207261" previewremoved="true">https://math.wvu.edu/~zetienne/</a></u></font></div>
<div><a href="https://blackholesathome.net" style="font-size:12.8px" target="_blank" id="LPlnk53180" previewremoved="true">https://blackholesathome.net</a><br>
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<div class="gmail_quote">On Thu, Jul 19, 2018 at 2:36 PM, 林家暉 <span dir="ltr"><<a href="mailto:r06222015@ntu.edu.tw" target="_blank">r06222015@ntu.edu.tw</a>></span> wrote:<br>
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Dear Zach,
<div>Thank a lot for your updating. The previous errors are solved. However the code exits after 3 minutes running. The attached files are the corresponding .err and .out files. I am not sure whether it is caused by <span style="font-size:12pt">ML_BSSN parameters. </span></div>
<div><span style="font-size:12pt"></span>Also thanks for inviting me to the <span>IllinoisGRMHD Working Group telecon. I would like to attend and I have selected possible time.</span></div>
<div><span><br>
</span></div>
<div><span></span>Best regards,</div>
<div>Chia-Hui<br>
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<div id="m_8540342793196433405divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>寄件者:</b> Zach Etienne <<a href="mailto:zachetie@gmail.com" target="_blank">zachetie@gmail.com</a>><br>
<b>寄件日期:</b> 2018年7月20日 上午 01:31:50<span class=""><br>
<b>收件者:</b> 林家暉<br>
<b>副本:</b> Einstein Toolkit Users<br>
<b>主旨:</b> Re: [Users] error after activating IllinoisGRMHD and VolumeIntegrals_GRMHD</span></font>
<div> </div>
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<div>
<div dir="ltr">Dear Chia-Hui,
<div><br>
</div>
<span class="">
<div>Thank you for your report! I just updated the parameter files to fix these issues (sorry, I should've checked earlier), and they seem to run fine now when using the latest Einstein Toolkit release, ET_2018_02. There may be some remaining warnings about
ML_BSSN parameters, but these may be safely ignored.</div>
<div><br>
</div>
<div>Please consider attending the next IllinoisGRMHD Working Group telecon next Thursday or Friday; respond to <a href="http://whenisgood.net/pfjbm3c" id="m_8540342793196433405LPlnk649837" target="_blank">http://whenisgood.net/<wbr>pfjbm3c</a> if you are interesting
in attending.</div>
</span>
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<div id="m_8540342793196433405LPTitle_15320250963980.3034537149913463" style="color:rgb(0,120,215);font-weight:400;font-size:21px;font-family:"Microsoft JHengHei UI","Microsoft JHengHei",微軟正黑體,MingLiU,細明體,sans-serif;line-height:21px">
<a id="m_8540342793196433405LPUrlAnchor_15320250963980.49760386703357495" href="http://whenisgood.net/pfjbm3c" style="text-decoration:none" target="_blank">WhenIsGood: July 2018 IllinoisGRMHD telecon</a></div>
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<a href="http://whenisgood.net" target="_blank">whenisgood.net</a></div>
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<div style="font-size:12.8px">-Zach</div>
<div style="font-size:12.8px"><br>
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<span style="font-size:12.8px">* * *</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Zachariah Etienne</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Assistant Professor of Mathematics</span>
<div style="font-size:12.8px">West Virginia University</div>
<div><font color="#0000ee"><u><a href="https://math.wvu.edu/~zetienne/" id="m_8540342793196433405LPlnk485882" target="_blank">https://math.wvu.edu/~<wbr>zetienne/</a></u></font></div>
<div><a href="https://blackholesathome.net" style="font-size:12.8px" id="m_8540342793196433405LPlnk231562" target="_blank">https://blackholesathome.net</a><br>
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<div class="gmail_quote">On Thu, Jul 19, 2018 at 9:30 AM, 林家暉 <span dir="ltr"><<a href="mailto:r06222015@ntu.edu.tw" target="_blank">r06222015@ntu.edu.tw</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div>
<div id="m_8540342793196433405m_4972934430252166580divtagdefaultwrapper" style="font-size:12pt;color:rgb(0,0,0);font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols" dir="ltr">
Dear Zach,
<div>Thank you for updating the parameter file. But I have several questions :</div>
<div>1.It seems some name of parameters should be changed,</div>
<div><span>from VolumeIntegrals_GRMHD::vo<wbr>lintegral_inside_sphere__cente<wbr>r_x_initial to </span><span>VolumeIntegrals_GRMHD::voli<wbr>ntegral_sphere__center_x_initi<wbr>al</span></div>
<div><span>and </span></div>
<div><span style="font-size:12pt"></span></div>
<span>from VolumeIntegrals_vacuum::v<wbr>olintegral_inside_sphere__trac<wbr>ks__amr_centre</span>
<div><span></span><span style="font-size:12pt">to VolumeIntegrals_<span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">vacuum</span>::amr<wbr>_centre__tracks__volintegral_<wbr>inside_sphere</span></div>
<div><br>
</div>
<div><span style="font-size:12pt"></span><span style="font-size:12pt">2. There is an error message for this parameter </span>IllinoisGRMHD::Symme<wbr>try = 0<span style="font-size:12pt">:</span></div>
<span><br>
</span>
<div><span></span>
<div>
<pre style="margin-top:0px;margin-bottom:0px;padding:0px;font-family:SFMono-Medium,"SF Mono","Segoe UI Mono","Roboto Mono","Ubuntu Mono",Menlo,Courier,monospace;font-size:12px;line-height:1.4;color:rgb(23,43,77)"><div>in thorn IllinoisGRMHD, file nsns_test.par:78:</div><div> -> Invalid assignment: Attempting to set a variable of type KEYWORD with (INT)0</div></pre>
<pre style="margin-top:0px;margin-bottom:0px;padding:0px;font-family:SFMono-Medium,"SF Mono","Segoe UI Mono","Roboto Mono","Ubuntu Mono",Menlo,Courier,monospace;font-size:12px;line-height:1.4;color:rgb(23,43,77)"><br></pre>
<pre style="margin-top:0px;margin-bottom:0px;padding:0px;font-family:SFMono-Medium,"SF Mono","Segoe UI Mono","Roboto Mono","Ubuntu Mono",Menlo,Courier,monospace;font-size:12px;line-height:1.4;color:rgb(23,43,77)"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">I tried to change 0 to "no", another error message appeared:</span></pre>
<pre style="margin-top:0px;margin-bottom:0px;padding:0px;font-family:SFMono-Medium,"SF Mono","Segoe UI Mono","Roboto Mono","Ubuntu Mono",Menlo,Courier,monospace;font-size:12px;line-height:1.4;color:rgb(23,43,77)"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"></span></pre>
<span>ParameterSetKeyword: Unable to set keyword 'IllinoisGRMHD::Symmetry', new value 'no' is not in any active range</span></div>
<div><br>
<span></span>
<pre style="margin-top:0px;margin-bottom:0px;padding:0px;font-family:SFMono-Medium,"SF Mono","Segoe UI Mono","Roboto Mono","Ubuntu Mono",Menlo,Courier,monospace;font-size:12px;line-height:1.4;color:rgb(23,43,77)"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">3.For parameter </span>IOUtil::checkpoint_dir= ABEoutput_directory-$parfile</pre>
<div><span style="color:rgb(23,43,77)">There is an error message:</span><br>
</div>
<pre style="margin-top:0px;margin-bottom:0px;padding:0px;font-family:SFMono-Medium,"SF Mono","Segoe UI Mono","Roboto Mono","Ubuntu Mono",Menlo,Courier,monospace;font-size:12px;line-height:1.4;color:rgb(23,43,77)"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><div></div></span><div>in thorn IOUtil, file nsns_test.par:388:</div><div> -> Unknown add operator: -</div><div>Interpreting as literal string with value 'ABEoutput_directory-nsns_test<wbr>'</div><div><br></div><div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">I met obove problems when I executed the code.How could I modify?</span></div><div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">Thank you very much.</span></div><div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><br></span></div><div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">Best regards,</span></div><div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">Chia-Hui</span></div><br></pre>
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<div id="m_8540342793196433405m_4972934430252166580divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>寄件者:</b> Zach Etienne <<a href="mailto:zachetie@gmail.com" target="_blank">zachetie@gmail.com</a>><br>
<b>寄件日期:</b> 2018年7月18日 下午 09:07:46
<div>
<div class="m_8540342793196433405h5"><br>
<b>收件者:</b> 林家暉<br>
<b>副本:</b> Einstein Toolkit Users<br>
<b>主旨:</b> Re: [Users] error after activating IllinoisGRMHD and VolumeIntegrals_GRMHD</div>
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<div dir="ltr">Dear Chia-Hui,
<div><br>
</div>
<div>Thanks so much for sending the error message. Based on the file you sent, I was able to push a few bugfixes to the WVUThorns_Diagnostics arrangement. </div>
<div><br>
</div>
<div>I also updated the example parameter files and moved them to a new location:</div>
wvuthorns_diagnostics/NSNS_par<wbr>ameter_files
<div><br>
</div>
<div>You'll find that nsns_test.par has been updated as well. </div>
<div><br>
</div>
<div><span style="font-size:small;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial;float:none;display:inline">Please grab the latest wvuthorns_diagnostics git repo. </span>I'd suggest comparing the updated nsns_test.par
to the version you sent me and modifying as needed so that your neutron stars are properly centered (you'll need to replace +/- "20.319527" with the locations of the neutron stars in your initial data).</div>
<div><br>
</div>
<div>Thanks again, and let me know if you run into further troubles.</div>
</div>
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<div style="font-size:12.8px">-Zach</div>
<div style="font-size:12.8px"><br>
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<span style="font-size:12.8px">* * *</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Zachariah Etienne</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Assistant Professor of Mathematics</span>
<div style="font-size:12.8px">West Virginia University</div>
<div><font color="#0000ee"><u><a href="https://math.wvu.edu/~zetienne/" target="_blank">https://math.wvu.edu/~zetienne<wbr>/</a></u></font></div>
<div><a href="https://blackholesathome.net" style="font-size:12.8px" target="_blank">https://blackholesathome.net</a><br>
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<div class="gmail_quote">On Wed, Jul 18, 2018 at 2:26 AM, 林家暉 <span dir="ltr"><<a href="mailto:r06222015@ntu.edu.tw" target="_blank">r06222015@ntu.edu.tw</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div>
<div id="m_8540342793196433405m_4972934430252166580m_-8373457272684762039divtagdefaultwrapper" style="font-size:12pt;color:rgb(0,0,0);font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols" dir="ltr">
Dear Zach,
<div>I modified nsns_test.par as the attached file by replacing VolumeIntegrals with <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">VolumeIntegrals_GRMHD
and remove the line using <span>centeroflapse which is for <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">VolumeIntegrals_vacuum.
Then I got the error message as the attached file.What else should I modify?</span></span></span></div>
<div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">By
the way , my ETK version is <span>ET_2018_02.</span></span></span></span></div>
<div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span>On
the other hand,I am still trying to use illinoisGRMHD in the gallery example (nsnstohmns.par),but not yet success. I haven't come up with ideal how to make it <span>compatible with IllinoisGRMHD.</span></span></span></span></span></div>
<div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span><span>Thanks,</span></span></span></span></span></div>
<div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span><span>Best
regards,</span></span></span></span></span></div>
<div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span><span>Chia-Hui</span></span></span></span></span></div>
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<font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>寄件者:</b> Zach Etienne <<a href="mailto:zachetie@gmail.com" target="_blank">zachetie@gmail.com</a>><br>
<b>寄件日期:</b> 2018年7月18日 上午 03:17:53
<div>
<div class="m_8540342793196433405m_4972934430252166580h5"><br>
<b>收件者:</b> 林家暉<br>
<b>副本:</b> Einstein Toolkit Users<br>
<b>主旨:</b> Re: [Users] error after activating IllinoisGRMHD and VolumeIntegrals_GRMHD</div>
</div>
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<div dir="ltr">Dear Chia-Hui,<br>
> Does this mean that I should update the parameter file in order to use them ?<br>
<br>
Yes, though this should be simple. I would expect that simply replacing all references to VolumeIntegrals by references to VolumeIntegrals_GRMHD will fix the problem.<br>
<br>
> I have already produced some initial data by LORENE.<br>
<br>
Great to hear. You will need to modify the parameter file so that the AMR grid structures are properly centered on each neutron star initially.
<br>
<br>
> Can I consult for your suggestion that which method would be more efficient and proper without tracking problem? Or there are other possible solution?<br>
<br>
I am unsure what advice would be best. You have told me is that the code exits unexpectedly. To help diagnose, I will need to know the exact version of the ETK you are using and the error message.</div>
<div class="gmail_extra"><br clear="all">
<div>
<div class="m_8540342793196433405m_4972934430252166580m_-8373457272684762039gmail_signature" data-smartmail="gmail_signature">
<div dir="ltr">
<div>
<div dir="ltr">
<div>
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<div dir="ltr">
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<div style="font-size:12.8px">-Zach</div>
<div style="font-size:12.8px"><br>
</div>
<span style="font-size:12.8px">* * *</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Zachariah Etienne</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Assistant Professor of Mathematics</span>
<div style="font-size:12.8px">West Virginia University</div>
<div><font color="#0000ee"><u><a href="https://math.wvu.edu/~zetienne/" target="_blank">https://math.wvu.edu/~zetienne<wbr>/</a></u></font></div>
<div><a href="https://blackholesathome.net" style="font-size:12.8px" target="_blank">https://blackholesathome.net</a><br>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
<br>
<div class="gmail_quote">On Tue, Jul 17, 2018 at 10:18 AM, 林家暉 <span dir="ltr"><<a href="mailto:r06222015@ntu.edu.tw" target="_blank">r06222015@ntu.edu.tw</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div>
<div id="m_8540342793196433405m_4972934430252166580m_-8373457272684762039m_-2247984288346859640divtagdefaultwrapper" style="font-size:12pt;color:rgb(0,0,0);font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols" dir="ltr">
Dear Zach,
<div>It seems that none parameter file in <a href="https://bitbucket.org/zach_etienne/wvuthorns_diagnostics/src/a7dfd31684ba/Meudon_Bin_NS-modified/par/?at=master" class="m_8540342793196433405m_4972934430252166580m_-8373457272684762039m_-2247984288346859640OWAAutoLink" id="m_8540342793196433405m_4972934430252166580m_-8373457272684762039m_-2247984288346859640LPlnk29428" target="_blank">https://bitbucket.org/zach_<wbr>etienne/wvuthorns_diagnostics/<wbr>src/a7dfd31684ba/Meudon_Bin_NS<wbr>-modified/par/?at=master</a> uses <span><wbr>VolumeIntegrals_GRMHD
but use <span>VolumeIntegrals instead. Does this mean that I should update the parameter file in order to use them ?</span></span></div>
<div><span><span>My main goal is to simulate binary neutron star with unequal mass, and I have already produced some initial data by LORENE. It seems now I have two options. First is to modify (update) one of the parameter files above(e.g. <span style="font-family:Calibri,Helvetica,sans-serif,serif,EmojiFont;font-size:16px">nsns_test.par </span>)
and second is <span>significantly modify nsnstohmns.par in the gallery. </span>Can I consult for your suggestion that which method would be more efficient and proper without tracking problem? Or there are other possible solution?</span></span></div>
<span>
<div><span><span><br>
</span></span></div>
<div><span><span>Thank you.</span></span></div>
<div><span><span>Best regards,</span></span></div>
<div><span><span>Chia-Hui </span></span></div>
</span></div>
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<font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>寄件者:</b> Zach Etienne <<a href="mailto:zachetie@gmail.com" target="_blank">zachetie@gmail.com</a>><br>
<b>寄件日期:</b> 2018年7月17日 下午 09:53:20
<div>
<div class="m_8540342793196433405m_4972934430252166580m_-8373457272684762039h5"><br>
<b>收件者:</b> 林家暉<br>
<b>副本:</b> Einstein Toolkit Users<br>
<b>主旨:</b> Re: [Users] error after activating IllinoisGRMHD and VolumeIntegrals_GRMHD</div>
</div>
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<div> </div>
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<div dir="ltr">Dear Chia-Hui,
<div><br>
> Is there a thorn called VolumeIntegrals ?<br>
<br>
No, there isn't, and this *might* be evidence that the parameter file you chose is outdated (try to find one that depends on VolumeIntegrals_GRMHD): the old "VolumeIntegrals" thorn was split into the VolumeIntegrals_GRMHD and VolumeIntegrals_vacuum thorns.
The former can use IllinoisGRMHD gridfunctions and the latter can use McLachlan gridfunctions. <span style="font-size:small;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial;float:none;display:inline">VolumeIntegrals<wbr>_GRMHD
is used to find the center of masses of the neutron stars so their motion can be tracked by the AMR grids.</span></div>
<br>
> And I am curious about: what is the main difference between the parameter file (nsnstohmns.par) in the gallery example and nsns_test.par ?<br>
<br>
The nsns_test.par is designed to evolve the "Missing Link" case (<a href="https://arxiv.org/abs/1101.4298" target="_blank">https://arxiv.org/abs/1101.42<wbr>98</a>), which is probably different than the gallery example. To run this case, you'll need to use
the LORENE initial data file here (credit: Meudon group; you can find this case on the LORENE website --
<a href="https://lorene.obspm.fr/" target="_blank">https://lorene.obspm.fr/</a> -- as well, but you'll need to hunt for it):
<div><span style="background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial;float:none;display:inline"><a href="http://math.wvu.edu/~zetienne/resu.d" target="_blank">http://math.wvu.edu/~zetienne/<wbr>resu.d</a><br>
</span></div>
</div>
<div class="gmail_extra"><br clear="all">
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<div style="font-size:12.8px">-Zach</div>
<div style="font-size:12.8px"><br>
</div>
<span style="font-size:12.8px">* * *</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Zachariah Etienne</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Assistant Professor of Mathematics</span>
<div style="font-size:12.8px">West Virginia University</div>
<div><font color="#0000ee"><u><a href="https://math.wvu.edu/~zetienne/" target="_blank">https://math.wvu.edu/~zetienne<wbr>/</a></u></font></div>
<div><a href="https://blackholesathome.net" style="font-size:12.8px" target="_blank">https://blackholesathome.net</a><br>
</div>
</div>
</div>
</div>
</div>
</div>
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<br>
<div class="gmail_quote">On Tue, Jul 17, 2018 at 9:26 AM, 林家暉 <span dir="ltr"><<a href="mailto:r06222015@ntu.edu.tw" target="_blank">r06222015@ntu.edu.tw</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div>
<div id="m_8540342793196433405m_4972934430252166580m_-8373457272684762039m_-2247984288346859640m_-5569279282679181246divtagdefaultwrapper" style="font-size:12pt;color:rgb(0,0,0);font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols" dir="ltr">
<p>Dear Zach,</p>
<p>Sorry for late reply. I have tried one of the parameter file you mentioned (<span> nsns_test.par ). I have a question for this file that the thorn VolumeIntegrals should be activated but I can only find <span>VolumeIntegrals_GRMHD and <span>VolumeIntegrals_vacuum.
After I tried both thorns, I chose <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">VolumeIntegrals_GRMHD(th<wbr>at
is, I change all <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">VolumeIntegrals into <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">VolumeIntegrals_GRMHD
in the <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">nsns_test.par</span></span></span>).However the code stopped
after several minutes running. So what I want to ask is: Is there a thorn called <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">VolumeIntegrals ?
Since I cannot find after searching and I think it is the reason terminating the code.</span></span></span></span></span></p>
<p><span><span><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">And
I am curious about: what is the main difference between the parameter file (nsnstohmns.par) in the gallery example and <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">nsns_test.par
?</span></span></span></span></span></span></p>
<p><span><span><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><br>
</span></span></span></span></span></span></p>
<p><span><span><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">Thank
you.</span></span></span></span></span></span></p>
<p><span><span><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">Best
regards,</span></span></span></span></span></span></p>
<p><span><span><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">Chia-Hui</span></span></span></span></span></span></p>
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<font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>寄件者:</b> Zach Etienne <<a href="mailto:zachetie@gmail.com" target="_blank">zachetie@gmail.com</a>><br>
<b>寄件日期:</b> 2018年7月14日 上午 02:41:24
<div>
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<br>
<b>收件者:</b> 林家暉<br>
<b>副本:</b> Einstein Toolkit Users<br>
<b>主旨:</b> Re: [Users] error after activating IllinoisGRMHD and VolumeIntegrals_GRMHD</div>
</div>
</font>
<div> </div>
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<div dir="ltr">Hi Chia-Hui,
<div><br>
</div>
<div>If you really want to use VolumeIntegrals_GRMHD, you are more than welcome to do so. However, the parameter file you are using from the examples gallery will need to be significantly modified to be compatible with IllinoisGRMHD. My immediate thought (which
may be correct or incorrect) is that it is attempting to initialize both GRHydro and IllinoisGRMHD simultaneously.</div>
<div><br>
</div>
<div>If you want to use IllinoisGRMHD, the easiest route would be to start with a parameter file in the following wvuthorns_diagnostics directory:</div>
<div><a href="https://bitbucket.org/zach_etienne/wvuthorns_diagnostics/src/master/Meudon_Bin_NS-modified/par/" target="_blank">https://bitbucket.org/zach_eti<wbr>enne/wvuthorns_diagnostics/src<wbr>/master/Meudon_Bin_NS-modified<wbr>/par/</a><br>
</div>
<div><br>
</div>
<div>I haven't had time yet to fully set up a gallery example for this BNS case, so beware: you may need to modify the parameter file a bit to make it work properly. I'm hoping to schedule the next IllinoisGRMHD Working Group telecon in the next few weeks,
so please stay tuned if you are interested.</div>
</div>
<div class="gmail_extra"><br clear="all">
<div>
<div class="m_8540342793196433405m_4972934430252166580m_-8373457272684762039m_-2247984288346859640m_-5569279282679181246gmail_signature" data-smartmail="gmail_signature">
<div dir="ltr">
<div>
<div dir="ltr">
<div>
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<div style="font-size:12.8px">-Zach</div>
<div style="font-size:12.8px"><br>
</div>
<span style="font-size:12.8px">* * *</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Zachariah Etienne</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Assistant Professor of Mathematics</span>
<div style="font-size:12.8px">West Virginia University</div>
<div><a href="http://math.wvu.edu/~zetienne/" target="_blank">http://math.wvu.edu/~zetienne/</a><br>
</div>
<div><a href="http://blackholesathome.net" target="_blank">http://blackholesathome.net</a><br>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
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<br>
<div class="gmail_quote">On Fri, Jul 13, 2018 at 11:50 AM, 林家暉 <span dir="ltr"><<a href="mailto:r06222015@ntu.edu.tw" target="_blank">r06222015@ntu.edu.tw</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div>
<div style="font-size:12pt;color:#000000;font-family:Calibri,Helvetica,sans-serif" dir="ltr">
Dear Zach,
<div>Becasue if I only activate <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">VolumeIntegrals_GRMHD</span> but not <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">IllinoisGRMHD
, there will be following error in the .out file</span>:</div>
<div><br>
</div>
<div>
<div>Error: Implementation 'ILLINOISGRMHD' not activated.</div>
<div> This implementation is required by activated thorn(s):</div>
<div> VolumeIntegrals_GRMHD (implementing VolumeIntegrals_GRMHD)</div>
<div> This implementation is provided by compiled thorn(s):</div>
<div> IllinoisGRMHD</div>
<div> Add a thorn providing this implementation to the ActiveThorns parameter.</div>
<div>Activation failed - 1 errors in activation sequence</div>
<br>
</div>
<div>It seems it is required to activate <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">IllinoisGRMHD in order to
use <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">VolumeIntegrals_GRMHD.</span></span></div>
<div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><br>
</span></span></div>
<div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">Thanks,</span></span></div>
<div><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">Chia-Hui</span></span></div>
</div>
<hr style="display:inline-block;width:98%">
<div dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>寄件者:</b> Zach Etienne <<a href="mailto:zachetie@gmail.com" target="_blank">zachetie@gmail.com</a>><br>
<b>寄件日期:</b> 2018年7月13日 下午 09:04:30<br>
<b>收件者:</b> 林家暉<br>
<b>副本:</b> Einstein Toolkit Users<br>
<b>主旨:</b> Re: [Users] error after activating IllinoisGRMHD and VolumeIntegrals_GRMHD</font>
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<div dir="ltr">Hi Chia-Hui,
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<div>Is there a reason you are using IllinoisGRMHD for this particular example? The example was written for GRHydro.</div>
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<div style="font-size:12.8px">-Zach</div>
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<span style="font-size:12.8px">* * *</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Zachariah Etienne</span><br style="font-size:12.8px">
<span style="font-size:12.8px">Assistant Professor of Mathematics</span>
<div style="font-size:12.8px">West Virginia University</div>
<div><a href="http://math.wvu.edu/~zetienne/" target="_blank">http://math.wvu.edu/~zetienne/</a><br>
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<div><a href="http://blackholesathome.net" target="_blank">http://blackholesathome.net</a><br>
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<div class="gmail_quote">On Thu, Jul 12, 2018 at 11:35 PM, 林家暉 <span dir="ltr"><<a href="mailto:r06222015@ntu.edu.tw" target="_blank">r06222015@ntu.edu.tw</a>></span> wrote:<br>
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<div style="font-size:12pt;color:#000000;font-family:Calibri,Helvetica,sans-serif" dir="ltr">
<p><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">Dear whom it may concern,</span></p>
<div style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">
I tried to solve the tracking problem of unequal mass binary neutron (<a href="http://einsteintoolkit.org/gallery/bns/index.html" target="_blank">http://einsteintoolkit.org/ga<wbr>llery/bns/index.html</a> ) star by using the thorn <span>WVUThorns_Diagnostics
/ VolumeIntegrals_GRMHD . Therefore I activate both <span>IllinoisGRMHD and <span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">VolumeIntegrals_GRMHD.
However I met the error which showed in both .err file and .out file.</span></span></span></div>
<div style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">
<span><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px"><br>
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<div style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">
<span><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">In .err file:</span></span></span></div>
<div style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">
<span><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">
<div>Thu Jul 12 08:03:04 2018: [unset]:_pmi_alps_init:alps_ge<wbr>t_placement_info returned with error -1</div>
<div>Thu Jul 12 08:03:04 2018: [unset]:_pmi_init:_pmi_alps_in<wbr>it returned -1</div>
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<div style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">
<span><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">In .out file:</span></span></span></div>
<div style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">
<span><span><span style="font-family:Calibri,Helvetica,sans-serif,Helvetica,EmojiFont,"Apple Color Emoji","Segoe UI Emoji",NotoColorEmoji,"Segoe UI Symbol","Android Emoji",EmojiSymbols;font-size:16px">
<div>INFO (IllinoisGRMHD): Font fix failed!</div>
<div>INFO (IllinoisGRMHD): i,j,k = 78 31 41, stats.failure_checker = 10000 x,y,z = -1.800000e+01 -7.593750e+00 1.068750e+01 , index=574610 st_i = -nan -nan -nan, rhostar = 2.902693e+243, Bi = 0.000000e+00 0.000000e+00 0.000000e+00, gij = 1.295702e+00 0.000000e+00
0.000000e+00 1.295702e+00 0.000000e+00 1.295702e+00, Psi6 = 1.474883e+00</div>
<div>INFO (IllinoisGRMHD): Couldn't find root from: -nan 2.902693e+243 -nan -nan -nan, rhob approx=1.968084e+243, rho_b_atm=1.000000e+200, Bx=0.000000e+00, By=0.000000e+00, Bz=0.000000e+00, gij_phys=1.295702e+00 0.000000e+00 0.000000e+00 1.295702e+00 0.000000e+00
1.295702e+00, alpha=8.746533e-01</div>
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<div>I am not sure what these error exactly mean and how to solve it. </div>
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<div>Thanks.</div>
<div>Chia-Hui</div>
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