<div dir="ltr"><div>Ryan, </div><div><br></div><div>would it be possible for you to share a sample dataset? The NetCDF reader has fails to read data in certain corner cases but without having the data to reproduce the issue it is kind of little tricky to get to the problem. <br></div><div><br></div><div>- Aashish</div></div><div class="gmail_extra"><br><div class="gmail_quote">On Wed, Oct 21, 2015 at 9:44 AM, Ryan Abernathey <span dir="ltr"><<a href="mailto:ryan.abernathey@gmail.com" target="_blank">ryan.abernathey@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">Does anyone have any feedback on this issue?<div><br></div><div>I have no idea how to debug or continue. I will have to abandon paraview for my project unless I can get some help somehow.</div><div><br></div><div>Thanks,</div><div><br></div><div><div>Ryan Abernathey</div><div>Assistant Professor</div><div>Columbia University, Department of Earth & Environmental Sciences</div><div>Lamont-Doherty Earth Observatory, Division of Ocean & Climate Physics</div><div>205 C Oceanography</div><div>61 Route 9W - PO Box 1000</div><div>Palisades, NY 10964-8000</div><div><a href="http://rabernat.github.io" target="_blank">http://rabernat.github.io</a></div><div><a href="mailto:rpa@ldeo.columbia.edu" target="_blank">rpa@ldeo.columbia.edu</a></div></div><div><br></div></div><div class="HOEnZb"><div class="h5"><div class="gmail_extra"><br><div class="gmail_quote">On Mon, Oct 19, 2015 at 4:59 PM, Ryan Abernathey <span dir="ltr"><<a href="mailto:ryan.abernathey@gmail.com" target="_blank">ryan.abernathey@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><div><div><div><div><div><div>Hello,<br><br></div>I am extremely frustrated and stuck on this problem. Any advice would be appreciated.<br><br></div>I am working with a dataset of 2400 sequentially numbered netCDF files (generic & CF conventions).<br><br></div>In a fresh pipeline, Paraview is able to recognizes these files as a single source and load them correctly. I then create a standard pipeline involving various filters (contour, etc., nothing funny) and save a state file.<br><br></div>When I attempt to load the state file, I get the following segmentation fault. Further down you can see a ncdump of the offending file.<br><br></div><div>Would appreciate any advice on how to debug / overcome this issue. Is it a bug? It sure feels like one...<br></div><div><br></div></div>Best,<br></div>Ryan Abernathey<br><div><div><div><div><div><div><div><div><div><br><br>ERROR: In /home/kitware/Dashboards/MyTests/NightlyMaster/ParaViewSuperbuild-Release/paraview/src/paraview/VTK/IO/NetCDF/vtkNetCDFReader.cxx, line 822<br>vtkNetCDFCFReader (0x55c0620): netCDF Error: NetCDF: Index exceeds dimension bound<br><br><br>ERROR: In /home/kitware/Dashboards/MyTests/NightlyMaster/ParaViewSuperbuild-Release/paraview/src/paraview/VTK/Common/ExecutionModel/vtkExecutive.cxx, line 784<br>vtkPVCompositeDataPipeline (0x5be23d0): Algorithm vtkFileSeriesReader(0x4c0c3e0) returned failure for request: vtkInformation (0x8141700)<br> Debug: Off<br> Modified Time: 999905<br> Reference Count: 1<br> Registered Events: (none)<br> Request: REQUEST_DATA<br> FORWARD_DIRECTION: 0<br> FROM_OUTPUT_PORT: 0<br> ALGORITHM_AFTER_FORWARD: 1<br><br><br><br><br>ERROR: In /home/kitware/Dashboards/MyTests/NightlyMaster/ParaViewSuperbuild-Release/paraview/src/paraview/VTK/Common/ExecutionModel/vtkExecutive.cxx, line 784<br>vtkCompositeDataPipeline (0x744fde0): Algorithm vtkPVGeometryFilter(0x7436500) returned failure for request: vtkInformation (0x5737250)<br> Debug: Off<br> Modified Time: 999943<br> Reference Count: 1<br> Registered Events: (none)<br> Request: REQUEST_DATA_OBJECT<br> FORWARD_DIRECTION: 0<br> FROM_OUTPUT_PORT: 0<br> ALGORITHM_AFTER_FORWARD: 1<br><br><br><br><br>Segmentation fault (core dumped)<br><br><br><br><br><br>------------------------<br></div><div>$ ncdump -h <a href="http://rce_rrtm303x512dx3f20_512x512x64_3km_12s_128_0000000300.nc" target="_blank">rce_rrtm303x512dx3f20_512x512x64_3km_12s_128_0000000300.nc</a><br>netcdf rce_rrtm303x512dx3f20_512x512x64_3km_12s_128_0000000300 {<br>dimensions:<br> x = 512 ;<br> y = 512 ;<br> z = 64 ;<br> time = UNLIMITED ; // (1 currently)<br>variables:<br> float x(x) ;<br> x:units = "m" ;<br> float y(y) ;<br> y:units = "m" ;<br> float z(z) ;<br> z:units = "m" ;<br> z:long_name = "height" ;<br> float time(time) ;<br> time:units = "d" ;<br> time:long_name = "time" ;<br> float p(z) ;<br> p:units = "mb" ;<br> p:long_name = "pressure" ;<br> float zi(z) ;<br> zi:units = "m" ;<br> zi:long_name = "intfc_ht" ;<br> float U(time, z, y, x) ;<br> U:long_name = "X Wind Component " ;<br> U:units = "m/s " ;<br> float V(time, z, y, x) ;<br> V:long_name = "Y Wind Component " ;<br> V:units = "m/s " ;<br> float W(time, z, y, x) ;<br> W:long_name = "Z Wind Component " ;<br> W:units = "m/s " ;<br> float PP(time, z, y, x) ;<br> PP:long_name = "Pressure Perturbation " ;<br> PP:units = "Pa " ;<br> float QRAD(time, z, y, x) ;<br> QRAD:long_name = "Radiative heating rate " ;<br> QRAD:units = "K/day " ;<br> float TABS(time, z, y, x) ;<br> TABS:long_name = "Absolute Temperature " ;<br> TABS:units = "K " ;<br> float QV(time, z, y, x) ;<br> QV:long_name = "Water Vapor " ;<br> QV:units = "g/kg " ;<br> float QN(time, z, y, x) ;<br> QN:long_name = "Non-precipitating Condensate (Water+Ice) " ;<br> QN:units = "g/kg " ;<br> float QP(time, z, y, x) ;<br> QP:long_name = "Precipitating Water (Rain+Snow) " ;<br> QP:units = "g/kg " ;<br> float LQRAD(time, z, y, x) ;<br> LQRAD:long_name = "LW Radiative heating rate " ;<br> LQRAD:units = "K/day " ;<br> float SQRAD(time, z, y, x) ;<br> SQRAD:long_name = "SW Radiative heating rate " ;<br> SQRAD:units = "K/day " ;<br>}<br></div><div><br></div></div></div></div></div></div></div></div></div></div>
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<br></blockquote></div><br><br clear="all"><div><br></div>-- <br><div class="gmail_signature"><div dir="ltr"><font face="trebuchet ms, sans-serif"><i>| Aashish Chaudhary <br>| Technical Leader <br>| Kitware Inc. <br></i></font><div><i><font face="trebuchet ms, sans-serif">| </font><a href="http://www.kitware.com/company/team/chaudhary.html" target="_blank">http://www.kitware.com/company/team/chaudhary.html</a></i></div></div></div>
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