<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hi Sam,<div><br></div><div>I have succeeded in volume rendering regions around some galaxies with the transpose=false fix.</div><div>But, occasionally, for some reason, the exact same piece of yt code on some galaxies</div><div>failed with the following error:</div><div><br></div><div><div>AttributeError: 'NoneType' object has no attribute 'id'</div><div>Building kd-Tree 0% | | ETA: --:--:-- ^MTraceback (most recent call last):</div><div> File "test.py", line 318, in <module></div><div> le=c-0.5*WW, re=c+0.5*WW)</div><div> File "/u/jhwise/local/lib/python2.7/site-packages/yt-2.4-py2.7-linux-x86_64.egg/yt/utilities/amr_kdtree/amr_kdtree.py", line 376, in __init__</div><div> self._build(root_grids, None, self.domain_left_edge, self.domain_right_edge)</div><div> File "/u/jhwise/local/lib/python2.7/site-packages/yt-2.4-py2.7-linux-x86_64.egg/yt/utilities/amr_kdtree/amr_kdtree.py", line 1059, in _build</div><div> set_leaf(current_node, current_node.parent_grid, current_node.l_corner, current_node.r_corner)</div><div> File "/u/jhwise/local/lib/python2.7/site-packages/yt-2.4-py2.7-linux-x86_64.egg/yt/utilities/amr_kdtree/amr_kdtree.py", line 154, in set_leaf</div><div> thisnode.grid = grid_id.id</div><div>AttributeError: 'NoneType' object has no attribute 'id'</div><div><br></div><div><br></div><div>I am not sure what is causing this.</div><div><br></div><div>Thanks very much,</div><div>Renyue</div><div><br></div><div><br></div><div><div>On Jan 8, 2013, at 12:08 PM, Renyue Cen wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hi Sam,<div><br></div><div>your transpose fix DOES change things and it indeed may working now. </div><div>Here is the first images I got for comparison.</div><div>I am going to make a few more pictures to see if things are all good.</div><div>Thanks very much,</div><div><span><test1.png></span><span><test2.png></span></div><div>Best,</div><div>Renyue</div><div><br></div><div><div><div>On Jan 8, 2013, at 11:25 AM, Sam Skillman wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div dir="ltr"><p dir="ltr">Hi Renyue,</p><p dir="ltr">I have actually seen this on one other system but I could never reproduce it. Could you tell me the version of yt you are using? If you run "yt instinfo" it should tell you. I haven't seen this bug for the last few months so I thought it was gone. </p><p dir="ltr">Additionally, can you try the following at the end of your script:</p><p dir="ltr">im=cam.snapshot('test1.png')<br>
</p><p style="">write_bitmap(im, 'test2.png', transpose=False)</p><p style="">I think there may have been something wrong with the transposing of the image for a short time period a few months ago. I have very sporadic and unreliable internet at AAS but I'll try to respond as quickly as possible.</p><p style="">Sorry for the trouble,</p><p style="">Sam</p><p style=""><br></p>
<div class="gmail_quote">On Jan 7, 2013 10:11 AM, "Renyue Cen" <<a href="mailto:cen@astro.princeton.edu" target="_blank">cen@astro.princeton.edu</a>> wrote:<br type="attribution"><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div style="word-wrap:break-word">Hi,<div><br></div><div>I did some simple volume rendering with the following script:</div><div><br></div><div><div> volume2 = AMRKDTree(pf, fields=["Dark_Matter_Density"],</div>
<div> no_ghost=False, tree_type="domain",</div><div> le=c-0.5*WW, re=c+0.5*WW)</div><div> cam = pf.h.camera(c, L, W, N, tf, volume=volume2, no_ghost=False,</div><div> north_vector=L, steady_north=True)</div>
<div> cam.snapshot(fn="%s_iso-DMdensity-%3.3d.png" % (filenameTHIS, j))</div></div><div><br></div><div><br></div><div>I got rather strange results in that the pictures look symmetric, which I am pretty</div>
<div>
sure can not be true.</div><div>I attach the obtained plot.</div><div>Note that I am using KD tree and using 32 cores. </div><div><br></div><div>Your help at your earliest convenience is appreciated.</div><div>Best,</div>
<div>Renyue</div><div><br></div><div><br></div><div><span><C15z1600.0043_iso-DMdensity-000.png></span></div></div></blockquote></div>
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