<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Barry’s comment resolved my issue.<div class=""><br class=""><div class="">
<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; ">-gideon</span>
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<br class=""><div style=""><blockquote type="cite" class=""><div class="">On Aug 11, 2015, at 5:40 PM, Barry Smith <<a href="mailto:bsmith@mcs.anl.gov" class="">bsmith@mcs.anl.gov</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""> You also have to KEEP the -snes_check_jacobian option<br class=""><br class=""> Barry<br class=""><br class=""><blockquote type="cite" class="">On Aug 11, 2015, at 1:09 PM, Gideon Simpson <<a href="mailto:gideon.simpson@gmail.com" class="">gideon.simpson@gmail.com</a>> wrote:<br class=""><br class="">I don’t see it listed in -help, but I do get<br class=""><br class="">./blowup -xmax 50 -nx 1000 -snes_check_jacobian<br class=""> Testing hand-coded Jacobian, if the ratio is O(1.e-8), the hand-coded Jacobian is probably correct.<br class=""> Run with -snes_check_jacobian_view [viewer][:filename][:format] to show difference of hand-coded and finite difference Jacobian.<br class=""> 63386.1 = ||J - Jfd||//J|| 63386.1 = ||J - Jfd||<br class=""><br class="">-gideon<br class=""><br class=""><blockquote type="cite" class="">On Aug 11, 2015, at 2:07 PM, Matthew Knepley <<a href="mailto:knepley@gmail.com" class="">knepley@gmail.com</a>> wrote:<br class=""><br class="">On Tue, Aug 11, 2015 at 1:04 PM, Gideon Simpson <<a href="mailto:gideon.simpson@gmail.com" class="">gideon.simpson@gmail.com</a>> wrote:<br class="">Macports installation of 3.5.3.<br class=""><br class="">Use -help to find the option name. Maybe its -snes_test.<br class=""><br class=""> Thanks,<br class=""><br class=""> Matt<br class=""><br class="">-gideon<br class=""><br class=""><blockquote type="cite" class="">On Aug 11, 2015, at 2:03 PM, Matthew Knepley <<a href="mailto:knepley@gmail.com" class="">knepley@gmail.com</a>> wrote:<br class=""><br class="">On Tue, Aug 11, 2015 at 12:51 PM, Gideon Simpson <<a href="mailto:gideon.simpson@gmail.com" class="">gideon.simpson@gmail.com</a>> wrote:<br class="">#End of PETSc Option Table entries<br class="">There is one unused database option. It is:<br class="">Option left: name:-snes_check_jacobian_view (no value)<br class=""><br class="">This is the option for the newest release. What are you using?<br class=""><br class=""> Matt<br class=""><br class="">-gideon<br class=""><br class=""><blockquote type="cite" class="">On Aug 11, 2015, at 1:50 PM, Matthew Knepley <<a href="mailto:knepley@gmail.com" class="">knepley@gmail.com</a>> wrote:<br class=""><br class="">On Tue, Aug 11, 2015 at 12:49 PM, Gideon Simpson <<a href="mailto:gideon.simpson@gmail.com" class="">gideon.simpson@gmail.com</a>> wrote:<br class="">Maybe it’s a quirk of the macports installation of petsc, but nothing seems to be getting generated.<br class=""><br class="">Run with -options_left. Is it reading the option?<br class=""><br class=""> Matt<br class=""><br class="">-gideon<br class=""><br class=""><blockquote type="cite" class="">On Aug 11, 2015, at 1:40 PM, Jed Brown <<a href="mailto:jed@jedbrown.org" class="">jed@jedbrown.org</a>> wrote:<br class=""><br class="">Gideon Simpson <<a href="mailto:gideon.simpson@gmail.com" class="">gideon.simpson@gmail.com</a>> writes:<br class=""><br class=""><blockquote type="cite" class="">I’m a bit confused by the following options:<br class=""><br class="">Run with -snes_check_jacobian_view [viewer][:filename][:format] to show difference of hand-coded and finite difference Jacobian.<br class=""><br class="">What flags do I pass it to get some output to diagnose my Jacobian error?<br class=""></blockquote><br class="">Nothing to display ASCII to the screen. You might use<br class="">"binary:thematrix" if you want to read it in with Python or MATLAB, for<br class="">example.<br class=""></blockquote><br class=""><br class=""><br class=""><br class="">-- <br class="">What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead.<br class="">-- Norbert Wiener<br class=""></blockquote><br class=""><br class=""><br class=""><br class="">-- <br class="">What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead.<br class="">-- Norbert Wiener<br class=""></blockquote><br class=""><br class=""><br class=""><br class="">-- <br class="">What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead.<br class="">-- Norbert Wiener<br class=""></blockquote><br class=""></blockquote><br class=""></div></blockquote></div><br class=""></div></body></html>