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<meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body dir="auto"><div>I don't think we should expect this to work, actually. We never specified that it should, to my knowledge. So we need to implement it.<br><br><span style="font-size: 13pt; background-color: rgba(255, 255, 255, 0);">John ZuHone</span><br><div><span style="background-color: rgba(255, 255, 255, 0);">Kavli Center for Astrophysics and Space Research<br>Massachusetts Institute of Technology<br><a href="x-apple-data-detectors://0" x-apple-data-detectors="true" x-apple-data-detectors-type="address" x-apple-data-detectors-result="0">77 Massachusetts Ave.</a>, 37-582G<br><a href="x-apple-data-detectors://1/0" x-apple-data-detectors="true" x-apple-data-detectors-type="address" x-apple-data-detectors-result="1/0">Cambridge, MA 02139</a><br>(w) <a href="tel:617-253-2354" x-apple-data-detectors="true" x-apple-data-detectors-type="telephone" x-apple-data-detectors-result="1/1">617-253-2354</a><br>(m) <a href="tel:781-708-5004" x-apple-data-detectors="true" x-apple-data-detectors-type="telephone" x-apple-data-detectors-result="1/2">781-708-5004</a><br><a href="mailto:jzuhone@space.mit.edu" x-apple-data-detectors="true" x-apple-data-detectors-type="link" x-apple-data-detectors-result="1/3">jzuhone@space.mit.edu</a><br><a href="mailto:jzuhone@gmail.com" x-apple-data-detectors="true" x-apple-data-detectors-type="link" x-apple-data-detectors-result="2">jzuhone@gmail.com</a><br><a href="http://www.jzuhone.com/" x-apple-data-detectors="true" x-apple-data-detectors-type="link" x-apple-data-detectors-result="3">http://www.jzuhone.com</a></span><br style="font-family: UICTFontTextStyleBody; -webkit-text-size-adjust: auto;"></div></div><div><br>On May 11, 2015, at 4:31 PM, Nathan Goldbaum <<a href="mailto:nathan12343@gmail.com">nathan12343@gmail.com</a>> wrote:<br><br></div><blockquote type="cite"><div><div dir="ltr"><br><div class="gmail_extra"><br><div class="gmail_quote">On Mon, May 11, 2015 at 1:24 PM, Nathan Goldbaum <span dir="ltr"><<a href="mailto:nathan12343@gmail.com" target="_blank">nathan12343@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"><br><div class="gmail_extra"><br><div class="gmail_quote"><div><div class="h5">On Mon, May 11, 2015 at 1:19 PM, Joshua Wall <span dir="ltr"><<a href="mailto:joshua.e.wall@gmail.com" target="_blank">joshua.e.wall@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>Dear users,<br><br></div> Since I'm already 0 for 1 today, I thought I'd also ask about this error I've seen. I'm trying to get the time series of momentum density in the x-dir from a simulation in FLASH where I have both the plot and particle files with:<br><br>############################################################<br><br>ts = yt.load("/home/josh/amuse-svn/src/amuse/community/flash/SinkMomTest2/SMT_hdf5_plt_cnt_0??[!0]",<br> particle_filename='/home/josh/amuse-svn/src/amuse/community/flash/SinkMomTest2/SMT_hdf5_part_0??[!0]')<br><br>times = []<br>Mom_x = []<br>Mom_y = []<br><br>for ds in ts:<br> <br> <br> try:<br> ds.add_field("total_px", function=_px, units="kg/s/m**2")<br> ds.add_field("total_py", function=_py, units="kg/s/m**2")<br> except:<br> continue<br><br> dd = ds.all_data()<br><br> Mom_x.append(dd["total_px"])<br> Mom_y.append(dd["total_py"])<br> times.append(ds.current_time.in_units("Myr"))<br><br>###########################################################<br><br></div>But this gives the error:<br><br>---------------------------------------------------------------------------<br>IOError Traceback (most recent call last)<br><ipython-input-3-4be7349ef199> in <module>()<br> 9 Mom_y = []<br> 10 <br>---> 11 for ds in ts:<br> 12 <br> 13 <br><br>/usr/local/lib/python2.7/dist-packages/yt/data_objects/time_series.pyc in __iter__(self)<br> 158 for o in self._pre_outputs:<br> 159 if isinstance(o, types.StringTypes):<br>--> 160 ds = load(o, **self.kwargs)<br> 161 self._setup_function(ds)<br> 162 yield ds<br><br>/usr/local/lib/python2.7/dist-packages/yt/convenience.pyc in load(*args, **kwargs)<br> 78 if c._is_valid(*args, **kwargs): candidates.append(n)<br> 79 if len(candidates) == 1:<br>---> 80 return output_type_registry[candidates[0]](*args, **kwargs)<br> 81 if len(candidates) == 0:<br> 82 if ytcfg.get("yt", "enzo_db") != '' \<br><br>/usr/local/lib/python2.7/dist-packages/yt/frontends/flash/data_structures.pyc in __init__(self, filename, dataset_type, storage_filename, particle_filename, units_override)<br> 206 self._particle_handle = HDF5FileHandler(self.particle_filename)<br> 207 except:<br>--> 208 raise IOError(self.particle_filename)<br> 209 # These should be explicitly obtained from the file, but for now that<br> 210 # will wait until a reorganization of the source tree and better<br><br>IOError: /home/josh/amuse-svn/src/amuse/community/flash/SinkMomTest2/SMT_hdf5_part_0??[!0]<br></div></div></div></div></blockquote><div><br></div></div></div><div>Unfortunately the FLASH frontend is gobbling the error h5py is raising here.</div><div><br></div><div>A quick way to get the real error from h5py would be to replace "raise IOError..." on line 208 with just "raise" and then rerun the script.</div></div></div></div></blockquote><div><br></div><div>Ah, but now that I think about it, I don't think the glob pattern should have made it all the way down to the FLASH I/O layer. Maybe there's a bug in the way we set up time series for FLASH datasets that include particle files?</div><div> </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div class="gmail_extra"><div class="gmail_quote"><div> </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><span class=""><div dir="ltr"><div><div><div><br>#############################################################<br><br></div>Any ideas?<span><font color="#888888"><br><br></font></span></div><span><font color="#888888">Joshua Wall<br></font></span></div><span><font color="#888888">Drexel University<br></font></span></div>
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