[Yt-dev] clump finder problem

[Stephen Skory]

Hi All,

using a script like this <http://paste.enzotools.org/show/1519/> I am getting this error below with 3782:f9c66b2cacfc.

  File "/duanestorage/home/faculty/stsk4691/plot_clumps.py", line 26, in <module>
    find_clumps(master_clump, c_min, c_max, step)
  File "/duanestorage/home/faculty/stsk4691/yt/src/yt-hg/yt/analysis_modules/level_sets/clump_handling.py", line 170, in find_clumps
    clump.find_children(min_val)
  File "/duanestorage/home/faculty/stsk4691/yt/src/yt-hg/yt/analysis_modules/level_sets/clump_handling.py", line 117, in find_children
    self.cached_fields)
  File "/duanestorage/home/faculty/stsk4691/yt/src/yt-hg/yt/analysis_modules/level_sets/contour_finder.py", line 303, in identify_contours
    boundary_tree = amr_utils.construct_boundary_relationships(fd)
  File "ContourFinding.pyx", line 92, in yt.utilities.amr_utils.construct_boundary_relationships (yt/utilities/amr_utils.c:26719)
IndexError: Out of bounds on buffer access (axis 0)
 

However, I do not get the bug with 3746:1b81f9d8847c, so I ran "hg bisect" in that range. However, part of the way through the bisect process a new bug was introduced:



  File "/duanestorage/home/faculty/stsk4691/yt/lib/python2.6/site-packages/yt-2.1dev-py2.6-linux-x86_64.egg/yt/visualization/api.py", line 59, in <module>
    from streamlines import \
ImportError: cannot import name StreamLines


which polluted the bisect process, I think. The revision that bisect identified as being bad is this one:



The first bad revision is:
changeset:   3766:20a49bc35fbd
branch:      yt
parent:      3763:badcec4be5c9
user:        Sam Skillman <sam.skillman at gmail.com>
date:        Thu Feb 24 19:18:17 2011 -0700
summary:     Adding an initial go at streamlines.  It uses the amr kD-tree to

But like I said, this might not be the culprit. Can anyone think of what they might have done to clump finding (contour_finder.py) in that revision range that could make this first bug above? Thanks!



Stephen Skory
stephenskory at yahoo.com
http://stephenskory.com/
510.621.3687 (google voice)