<div dir="ltr"><div class="gmail_default" style="font-size:small">And the MPI and PETSc test with segment fault. </div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small">This is the final goal. Many thanks to you Jed. </div><div class="gmail_default" style="font-size:small">Paul</div></div><div class="gmail_extra"><br clear="all"><div><div class="gmail_signature"><div style="color:rgb(0,0,0)"><font size="1">Huaibao (Paul) Zhang<br><b><i>Gas Surface Interactions Lab</i></b><br></font></div>
<div style="color:rgb(0,0,0)"><font size="1">Department of Mechanical Engineering</font></div>
<div style="color:rgb(0,0,0)"><font size="1">University of Kentucky,</font></div>
<div style="color:rgb(0,0,0)"><font size="1">Lexington,</font></div>
<div style="margin:0px;font-family:Helvetica;font-style:normal;font-variant:normal;font-weight:normal;line-height:normal;font-size-adjust:none;font-stretch:normal"><font size="1">KY, 40506-0503<b><br>Office</b>: 216 Ralph G. Anderson Building<br><b>Web</b>:<a href="http://gsil.engineering.uky.edu" target="_blank"><span style="color:rgb(0,0,153)">gsil.engineering.uky.edu</span></a></font><span style="color:rgb(0,0,0)"><span style="color:rgb(0,0,153)"></span></span></div><div style="color:rgb(255,102,102)"><font size="1"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="font-family:Tahoma"><span style="font-family:Verdana"><font face="Helvetica"><span></span></font></span></span></span></span></span></span></span></font></div></div></div>
<br><div class="gmail_quote">On Mon, Dec 1, 2014 at 4:39 PM, paul zhang <span dir="ltr"><<a href="mailto:paulhuaizhang@gmail.com" target="_blank">paulhuaizhang@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 dir="ltr"><div class="gmail_default" style="font-size:small">I better send you original files. The compressed files triggered some warnings I guess. </div><div class="gmail_default" style="font-size:small">Attached is the MPI test been verified. </div></div><div class="gmail_extra"><span class=""><br clear="all"><div><div><div style="color:rgb(0,0,0)"><font size="1">Huaibao (Paul) Zhang<br><b><i>Gas Surface Interactions Lab</i></b><br></font></div>
<div style="color:rgb(0,0,0)"><font size="1">Department of Mechanical Engineering</font></div>
<div style="color:rgb(0,0,0)"><font size="1">University of Kentucky,</font></div>
<div style="color:rgb(0,0,0)"><font size="1">Lexington,</font></div>
<div style="margin:0px;font-family:Helvetica;font-style:normal;font-variant:normal;font-weight:normal;line-height:normal;font-size-adjust:none;font-stretch:normal"><font size="1">KY, 40506-0503<b><br>Office</b>: 216 Ralph G. Anderson Building<br><b>Web</b>:<a href="http://gsil.engineering.uky.edu" target="_blank"><span style="color:rgb(0,0,153)">gsil.engineering.uky.edu</span></a></font><span style="color:rgb(0,0,0)"><span style="color:rgb(0,0,153)"></span></span></div><div style="color:rgb(255,102,102)"><font size="1"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="font-family:Tahoma"><span style="font-family:Verdana"><font face="Helvetica"><span></span></font></span></span></span></span></span></span></span></font></div></div></div>
<br></span><div><div class="h5"><div class="gmail_quote">On Mon, Dec 1, 2014 at 4:33 PM, paul zhang <span dir="ltr"><<a href="mailto:paulhuaizhang@gmail.com" target="_blank">paulhuaizhang@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 dir="ltr"><div class="gmail_default" style="font-size:small">Hi Jed,</div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small">Now I see PETSc is compiled correctly. However, when I attempted to call "petscksp.h" in my own program (quite simple one), it failed for some reason. Attached you can see two cases. The first is just the test of MPI, which is fine. The second is one added PETSc, which has segment fault as it went to </div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default"><div class="gmail_default"> MPI_Comm_rank (MPI_COMM_WORLD, &rank); /* get current process id */</div><div style="font-size:small"><br></div><div style="font-size:small">Can you shed some light? The MPI version is 1.8.3. </div><div style="font-size:small"><br></div><div style="font-size:small">Thanks,<br>Paul</div><div style="font-size:small"><br></div><div style="font-size:small"><br></div><div style="font-size:small"><br></div><div style="font-size:small"><br></div><div style="font-size:small"><br></div><div style="font-size:small"><br></div><div style="font-size:small"><br></div><div style="font-size:small"><br></div></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small"><br></div></div><div class="gmail_extra"><span><br clear="all"><div><div><div style="color:rgb(0,0,0)"><font size="1">Huaibao (Paul) Zhang<br><b><i>Gas Surface Interactions Lab</i></b><br></font></div>
<div style="color:rgb(0,0,0)"><font size="1">Department of Mechanical Engineering</font></div>
<div style="color:rgb(0,0,0)"><font size="1">University of Kentucky,</font></div>
<div style="color:rgb(0,0,0)"><font size="1">Lexington,</font></div>
<div style="margin:0px;font-family:Helvetica;font-style:normal;font-variant:normal;font-weight:normal;line-height:normal;font-size-adjust:none;font-stretch:normal"><font size="1">KY, 40506-0503<b><br>Office</b>: 216 Ralph G. Anderson Building<br><b>Web</b>:<a href="http://gsil.engineering.uky.edu" target="_blank"><span style="color:rgb(0,0,153)">gsil.engineering.uky.edu</span></a></font><span style="color:rgb(0,0,0)"><span style="color:rgb(0,0,153)"></span></span></div><div style="color:rgb(255,102,102)"><font size="1"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="font-family:Tahoma"><span style="font-family:Verdana"><font face="Helvetica"><span></span></font></span></span></span></span></span></span></span></font></div></div></div>
<br></span><div><div><div class="gmail_quote">On Mon, Dec 1, 2014 at 4:20 PM, paul zhang <span dir="ltr"><<a href="mailto:paulhuaizhang@gmail.com" target="_blank">paulhuaizhang@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 dir="ltr"><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small">Sorry. I should reply it to the lists.</div><span><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default"><div class="gmail_default">[hzh225@dlxlogin2-2 petsc-3.5.2]$ make PETSC_DIR=/home/hzh225/LIB_CFD/nP/petsc-3.5.2 PETSC_ARCH=linux-gnu-intel test</div><div class="gmail_default"><br></div><div class="gmail_default">Running test examples to verify correct installation</div><div class="gmail_default">Using PETSC_DIR=/home/hzh225/LIB_CFD/nP/petsc-3.5.2 and PETSC_ARCH=linux-gnu-intel</div><div class="gmail_default">C/C++ example src/snes/examples/tutorials/ex19 run successfully with 1 MPI process</div><div class="gmail_default">C/C++ example src/snes/examples/tutorials/ex19 run successfully with 2 MPI processes</div><div class="gmail_default">Fortran example src/snes/examples/tutorials/ex5f run successfully with 1 MPI process</div><div class="gmail_default">Completed test examples</div><div class="gmail_default">=========================================</div><div class="gmail_default">Now to evaluate the computer systems you plan use - do:</div><div class="gmail_default">make PETSC_DIR=/home/hzh225/LIB_CFD/nP/petsc-3.5.2 PETSC_ARCH=linux-gnu-intel streams NPMAX=<number of MPI processes you intend to use></div><div style="font-size:small"><br></div></div></span></div><div class="gmail_extra"><span><br clear="all"><div><div><div style="color:rgb(0,0,0)"><font size="1">Huaibao (Paul) Zhang<br><b><i>Gas Surface Interactions Lab</i></b><br></font></div>
<div style="color:rgb(0,0,0)"><font size="1">Department of Mechanical Engineering</font></div>
<div style="color:rgb(0,0,0)"><font size="1">University of Kentucky,</font></div>
<div style="color:rgb(0,0,0)"><font size="1">Lexington,</font></div>
<div style="margin:0px;font-family:Helvetica;font-style:normal;font-variant:normal;font-weight:normal;line-height:normal;font-size-adjust:none;font-stretch:normal"><font size="1">KY, 40506-0503<b><br>Office</b>: 216 Ralph G. Anderson Building<br><b>Web</b>:<a href="http://gsil.engineering.uky.edu" target="_blank"><span style="color:rgb(0,0,153)">gsil.engineering.uky.edu</span></a></font><span style="color:rgb(0,0,0)"><span style="color:rgb(0,0,153)"></span></span></div><div style="color:rgb(255,102,102)"><font size="1"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;white-space:normal;font-family:Helvetica;word-spacing:0px"><span style="font-family:Tahoma"><span style="font-family:Verdana"><font face="Helvetica"><span></span></font></span></span></span></span></span></span></span></font></div></div></div>
<br></span><div><div><div class="gmail_quote">On Mon, Dec 1, 2014 at 4:18 PM, Jed Brown <span dir="ltr"><<a href="mailto:jed@jedbrown.org" target="_blank">jed@jedbrown.org</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><span>paul zhang <<a href="mailto:paulhuaizhang@gmail.com" target="_blank">paulhuaizhang@gmail.com</a>> writes:<br>
<br>
> Hi Jed,<br>
> Does this mean I've passed the default test?<br>
<br>
</span>It's an MPI test. Run this to see if PETSc solvers are running correctly:<br>
<br>
make PETSC_DIR=/home/hzh225/LIB_CFD/nP/petsc-3.5.2 PETSC_ARCH=linux-gnu-intel test<br>
<span><br>
> Is the "open matplotlib " an issue?<br>
<br>
</span>No, it's just a Python library that would be used to create a nice<br>
figure if you had it installed.<br>
</blockquote></div><br></div></div></div>
</blockquote></div><br></div></div></div>
</blockquote></div><br></div></div></div>
</blockquote></div><br></div>