<div dir="ltr">Hi GB,<div><br></div><div>Sorry for the delay. My only thought looking at this solution file is that the field of view is too small because the width for each dataset is quite small. Can you try increasing the field of view and/or using a different random seed? If you're still having problems, is there a way that you can make your data available to me so I can try to reproduce this myself?</div><div><br></div><div>Britton</div></div><div class="gmail_extra"><br><div class="gmail_quote">On Fri, Oct 31, 2014 at 11:01 AM, Gongbo Zhao <span dir="ltr"><<a href="mailto:gong-bo.zhao@port.ac.uk" target="_blank">gong-bo.zhao@port.ac.uk</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word"><div>Thanks Britton. I am attaching the lightcone solution file.</div><div><br></div><div>Cheers,</div><div>GB</div><div><br></div><div><div># parameter_filename = Example_Cosmology_Sim.param</div><div><br></div><div># Slice Dataset Redshift depth/box width/degree axis center</div><div>0000 DD0272/DD0272 0.099445 1.008644 0.079617 0 0.990649 0.013154 0.723866</div><div>0001 DD0278/DD0278 0.077086 0.988231 0.062013 2 0.805856 0.062935 0.861305</div><div>0002 DD0284/DD0284 0.055391 0.968416 0.044766 0 0.670546 0.643445 0.723627</div><div>0003 DD0290/DD0290 0.034326 0.949171 0.027864 0 0.611051 0.491222 0.350996</div><div>0004 DD0296/DD0296 0.013859 0.647291 0.011297 2 0.353542 0.185281 0.792768</div></div><div><div class="h5"><br><div><div>On 28 Oct 2014, at 02:04, Britton Smith <<a href="mailto:brittonsmith@gmail.com" target="_blank">brittonsmith@gmail.com</a>> wrote:</div><br><blockquote type="cite"><div dir="ltr">Hi GB,<div><br></div><div>I am forwarding this over to the yt-users list as this is a yt issue and not an enzo issue. I am unable to reproduce the issue you're seeing when I use the light cone cookbook recipe. I'm guessing that you're running into a corner case with the light cone generator that is specific to your simulation data. Could you send along the light cone solution file? It should be named <span style="font-family:arial,sans-serif;font-size:13px">lightcone.dat. There might be some clues in there.</span></div><div><span style="font-family:arial,sans-serif;font-size:13px"><br></span></div><div><span style="font-family:arial,sans-serif;font-size:13px">Britton</span></div><div><br></div><div><br><div class="gmail_quote">---------- Forwarded message ----------<br>From: <b class="gmail_sendername">Gongbo Zhao</b> <span dir="ltr"><<a href="mailto:gong-bo.zhao@port.ac.uk" target="_blank">gong-bo.zhao@port.ac.uk</a>></span><br>Date: Thu, Oct 23, 2014 at 11:35 PM<br>Subject: [enzo-dev] A lightcone problem<br>To: <a href="mailto:brittonsmith@gmail.com" target="_blank">brittonsmith@gmail.com</a><br>Cc: "<a href="mailto:enzo-dev@googlegroups.com" target="_blank">enzo-dev@googlegroups.com</a>" <<a href="mailto:enzo-dev@googlegroups.com" target="_blank">enzo-dev@googlegroups.com</a>><br><br><br>Hi Britton,<br>
<br>
I used the latest yt (version Version = 3.1-dev; Changeset = bf8f9f98b34a (yt) tip) but I am having problems with the lightcone analysis. When I ran it using the following script,<br>
<br>
> from yt.analysis_modules.cosmological_observation.api import \<br>
> LightCone<br>
><br>
> lc = LightCone('Example_Cosmology_Sim.param',<br>
> 'Enzo', 0., 0.1)<br>
> lc.calculate_light_cone_solution(seed=123456789, filename='lightcone.dat')<br>
> field = 'density'<br>
> field_of_view = (600.0, "arcmin")<br>
> resolution = (60.0, "arcsec")<br>
> lc.project_light_cone(field_of_view, resolution,<br>
> field, weight_field=None,<br>
> save_stack=True,<br>
> save_slice_images=True)<br>
<br>
<br>
I got these error messages,<br>
<br>
> yt : [INFO ] 2014-10-24 04:29:36,439 Parameters: domain_dimensions = [128 128 128]<br>
> yt : [INFO ] 2014-10-24 04:29:36,440 Parameters: domain_left_edge = [ 0. 0. 0.]<br>
> yt : [INFO ] 2014-10-24 04:29:36,440 Parameters: domain_right_edge = [ 1. 1. 1.]<br>
> yt : [INFO ] 2014-10-24 04:29:36,441 Parameters: initial_time = 1.1703706995e+15 s<br>
> yt : [INFO ] 2014-10-24 04:29:36,441 Parameters: final_time = 4.31424173577e+17 s<br>
> yt : [INFO ] 2014-10-24 04:29:36,441 Parameters: stop_cycle = 100000<br>
> yt : [INFO ] 2014-10-24 04:29:36,441 Parameters: cosmological_simulation = 1<br>
> yt : [INFO ] 2014-10-24 04:29:36,441 Parameters: box_size = 64.0 Mpccm/h<br>
> yt : [INFO ] 2014-10-24 04:29:36,441 Parameters: omega_lambda = 0.73<br>
> yt : [INFO ] 2014-10-24 04:29:36,441 Parameters: omega_matter = 0.27<br>
> yt : [INFO ] 2014-10-24 04:29:36,441 Parameters: hubble_constant = 0.71<br>
> yt : [INFO ] 2014-10-24 04:29:36,441 Parameters: initial_redshift = 60.0<br>
> yt : [INFO ] 2014-10-24 04:29:36,442 Parameters: final_redshift = 0.0<br>
> yt : [INFO ] 2014-10-24 04:29:36,442 Total datasets: 313.<br>
> yt : [INFO ] 2014-10-24 04:29:49,842 create_cosmology_splice: Used 5 data dumps to get from z = 0.100000 to 0.000000.<br>
> yt : [ERROR ] 2014-10-24 04:29:49,978 Warning: box fraction required to go from z = 0.099445 to 0.077086 is 1.008644<br>
> yt : [ERROR ] 2014-10-24 04:29:49,978 Full box delta z is 0.022168, but it is 0.022359 to the next data dump.<br>
> yt : [INFO ] 2014-10-24 04:29:50,042 Saving light cone solution to lightcone.dat.<br>
> yt : [INFO ] 2014-10-24 04:29:50,217 Parameters: current_time = 272.816550757<br>
> yt : [INFO ] 2014-10-24 04:29:50,217 Parameters: domain_dimensions = [128 128 128]<br>
> yt : [INFO ] 2014-10-24 04:29:50,217 Parameters: domain_left_edge = [ 0. 0. 0.]<br>
> yt : [INFO ] 2014-10-24 04:29:50,218 Parameters: domain_right_edge = [ 1. 1. 1.]<br>
> yt : [INFO ] 2014-10-24 04:29:50,218 Parameters: cosmological_simulation = 1<br>
> yt : [INFO ] 2014-10-24 04:29:50,218 Parameters: current_redshift = 0.0994652856936<br>
> yt : [INFO ] 2014-10-24 04:29:50,218 Parameters: omega_lambda = 0.73<br>
> yt : [INFO ] 2014-10-24 04:29:50,218 Parameters: omega_matter = 0.27<br>
> yt : [INFO ] 2014-10-24 04:29:50,218 Parameters: hubble_constant = 0.71<br>
> yt : [INFO ] 2014-10-24 04:29:50,220 Making projection at z = 0.099445 from DD0272/DD0272.<br>
> Parsing Hierarchy 100% ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Time: 00:00:00<br>
> yt : [INFO ] 2014-10-24 04:29:51,714 Gathering a field list (this may take a moment.)<br>
> yt : [INFO ] 2014-10-24 04:29:52,622 Loading field plugins.<br>
> yt : [INFO ] 2014-10-24 04:29:52,622 Loaded angular_momentum (8 new fields)<br>
> yt : [INFO ] 2014-10-24 04:29:52,622 Loaded astro (14 new fields)<br>
> yt : [INFO ] 2014-10-24 04:29:52,623 Loaded cosmology (20 new fields)<br>
> yt : [INFO ] 2014-10-24 04:29:52,623 Loaded fluid (56 new fields)<br>
> yt : [INFO ] 2014-10-24 04:29:52,624 Loaded fluid_vector (88 new fields)<br>
> yt : [INFO ] 2014-10-24 04:29:52,624 Loaded geometric (102 new fields)<br>
> yt : [INFO ] 2014-10-24 04:29:52,624 Loaded local (102 new fields)<br>
> yt : [INFO ] 2014-10-24 04:29:52,625 Loaded magnetic_field (108 new fields)<br>
> yt : [INFO ] 2014-10-24 04:29:52,625 Loaded my_plugins (108 new fields)<br>
> yt : [INFO ] 2014-10-24 04:29:52,625 Loaded species (110 new fields)<br>
> Traceback (most recent call last):<br>
> File "lightcone.py", line 13, in <module><br>
> save_slice_images=True)<br>
> File "/opt/apps/enzo/new/yt-x86_64/src/yt-hg/yt/analysis_modules/cosmological_observation/light_cone/light_cone.py", line 322, in project_light_cone<br>
> weight_field=weight_field)<br>
> File "/opt/apps/enzo/new/yt-x86_64/src/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 267, in barrierize<br>
> return func(*args, **kwargs)<br>
> File "/opt/apps/enzo/new/yt-x86_64/src/yt-hg/yt/analysis_modules/cosmological_observation/light_cone/light_cone_projection.py", line 84, in _light_cone_projection<br>
> data_source=cut_region)<br>
> File "/opt/apps/enzo/new/yt-x86_64/src/yt-hg/yt/data_objects/construction_data_containers.py", line 245, in __init__<br>
> self.get_data(field)<br>
> File "/opt/apps/enzo/new/yt-x86_64/src/yt-hg/yt/data_objects/construction_data_containers.py", line 285, in get_data<br>
> self._initialize_chunk(chunk, tree)<br>
> File "/opt/apps/enzo/new/yt-x86_64/src/yt-hg/yt/data_objects/construction_data_containers.py", line 369, in _initialize_chunk<br>
> tree.initialize_chunk(i1, i2, ilevel)<br>
> File "QuadTree.pyx", line 330, in yt.utilities.lib.QuadTree.QuadTree.initialize_chunk (yt/utilities/lib/QuadTree.c:4710)<br>
> ValueError: Buffer has wrong number of dimensions (expected 1, got 2)<br>
<br>
It seems to be a buffer dimension problem?<br>
<br>
Thanks,<br>
GB<br>
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</blockquote></div><br></div></div></div></blockquote></div><br></div>