[yt-svn] commit/yt-3.0: 141 new changesets
Bitbucket
commits-reply at bitbucket.org
Fri Feb 8 14:15:29 PST 2013
141 new commits in yt-3.0:
https://bitbucket.org/yt_analysis/yt-3.0/commits/04fa9a7d799c/
changeset: 04fa9a7d799c
branch: yt
user: xarthisius
date: 2013-01-16 14:41:08
summary: [funcs:get_image_suffix] now returns extention prefixed by dot. Fixes #487
affected #: 1 file
diff -r c3e7e785d51185a82787940a21e0a94e58d5f3d3 -r 04fa9a7d799c59d00469ee30cc3f91978eca3b46 yt/funcs.py
--- a/yt/funcs.py
+++ b/yt/funcs.py
@@ -587,5 +587,5 @@
return inv_axis_names.get(axis, axis)
def get_image_suffix(name):
- suffix = os.path.splitext(name)[1].lstrip('.')
- return suffix if suffix in ['png', 'eps', 'ps', 'pdf'] else ''
+ suffix = os.path.splitext(name)[1]
+ return suffix if suffix in ['.png', '.eps', '.ps', '.pdf'] else ''
https://bitbucket.org/yt_analysis/yt-3.0/commits/3ada654fee23/
changeset: 3ada654fee23
branch: yt
user: jsoishi
date: 2013-01-17 21:10:51
summary: added reminder on -L syntax.
affected #: 1 file
diff -r 04fa9a7d799c59d00469ee30cc3f91978eca3b46 -r 3ada654fee2301991b5ef56fff645f5adb3b59fe yt/utilities/command_line.py
--- a/yt/utilities/command_line.py
+++ b/yt/utilities/command_line.py
@@ -1437,6 +1437,9 @@
print
print "Recall you can create a new SSH tunnel dynamically by pressing"
print "~C and then typing -L%s:localhost:%s" % (app.port, app.port)
+ print "where the first number is the port on your local machine. "
+ print
+ print "If you are using %s on your machine already, try -L8889:localhost:%s" % (app.port, app.port)
print
print "Additionally, while in the notebook, we recommend you start by"
print "replacing 'yt.mods' with 'yt.imods' like so:"
https://bitbucket.org/yt_analysis/yt-3.0/commits/968503a73ffb/
changeset: 968503a73ffb
branch: yt
user: Astrodude87
date: 2013-01-17 19:13:47
summary: Fixed Elliptical container and halo load
affected #: 2 files
diff -r 213e0441991554ca0392e7e8a7905114cf06842b -r 968503a73ffbddd69cb361b6efece1cf5ce40f07 yt/analysis_modules/halo_finding/halo_objects.py
--- a/yt/analysis_modules/halo_finding/halo_objects.py
+++ b/yt/analysis_modules/halo_finding/halo_objects.py
@@ -835,6 +835,9 @@
self.bin_count = None
self.overdensity = None
self.indices = np.array([]) # Never used for a LoadedHalo.
+ self._saved_fields = {}
+ self._ds_sort = None
+ self._particle_mask = None
# A supplementary data dict.
if supp is None:
self.supp = {}
diff -r 213e0441991554ca0392e7e8a7905114cf06842b -r 968503a73ffbddd69cb361b6efece1cf5ce40f07 yt/data_objects/data_containers.py
--- a/yt/data_objects/data_containers.py
+++ b/yt/data_objects/data_containers.py
@@ -3674,7 +3674,13 @@
Inside = np.zeros(grid["x"].shape, dtype = 'float64')
dim = grid["x"].shape
# need this to take into account non-cube root grid tiles
- dot_evec = np.zeros([3, dim[0], dim[1], dim[2]])
+ if (len(dim) == 1):
+ dot_evec = np.zeros([3, dim[0]])
+ elif (len(dim) == 2):
+ dot_evec = np.zeros([3, dim[0], dim[1]])
+ elif (len(dim) == 3):
+ dot_evec = np.zeros([3, dim[0], dim[1], dim[2]])
+
for i, ax in enumerate('xyz'):
# distance to center
ar = grid[ax]-self.center[i]
https://bitbucket.org/yt_analysis/yt-3.0/commits/f4347686c434/
changeset: f4347686c434
branch: yt
user: sskory
date: 2013-01-18 17:57:22
summary: Merged in Astrodude87/yt_fixellipseparticlemass (pull request #402)
Fixed Elliptical container and halo load
affected #: 2 files
diff -r 3ada654fee2301991b5ef56fff645f5adb3b59fe -r f4347686c4344898fa9a75da6a8d0df312b92752 yt/analysis_modules/halo_finding/halo_objects.py
--- a/yt/analysis_modules/halo_finding/halo_objects.py
+++ b/yt/analysis_modules/halo_finding/halo_objects.py
@@ -835,6 +835,9 @@
self.bin_count = None
self.overdensity = None
self.indices = np.array([]) # Never used for a LoadedHalo.
+ self._saved_fields = {}
+ self._ds_sort = None
+ self._particle_mask = None
# A supplementary data dict.
if supp is None:
self.supp = {}
diff -r 3ada654fee2301991b5ef56fff645f5adb3b59fe -r f4347686c4344898fa9a75da6a8d0df312b92752 yt/data_objects/data_containers.py
--- a/yt/data_objects/data_containers.py
+++ b/yt/data_objects/data_containers.py
@@ -3674,7 +3674,13 @@
Inside = np.zeros(grid["x"].shape, dtype = 'float64')
dim = grid["x"].shape
# need this to take into account non-cube root grid tiles
- dot_evec = np.zeros([3, dim[0], dim[1], dim[2]])
+ if (len(dim) == 1):
+ dot_evec = np.zeros([3, dim[0]])
+ elif (len(dim) == 2):
+ dot_evec = np.zeros([3, dim[0], dim[1]])
+ elif (len(dim) == 3):
+ dot_evec = np.zeros([3, dim[0], dim[1], dim[2]])
+
for i, ax in enumerate('xyz'):
# distance to center
ar = grid[ax]-self.center[i]
https://bitbucket.org/yt_analysis/yt-3.0/commits/8c4d68f82036/
changeset: 8c4d68f82036
branch: yt
user: samskillman
date: 2013-01-18 21:16:17
summary: Adding periodic_position to math_utils.py
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/958de8ec7d14/
changeset: 958de8ec7d14
branch: yt
user: samskillman
date: 2013-01-18 21:16:48
summary: Merging
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/d9d1d01becc7/
changeset: d9d1d01becc7
branch: yt
user: Andrew Myers
date: 2013-01-19 20:50:00
summary: the IsBound derived quantity assumed that the domain_width was 1 in several places
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/f5fa0cd98696/
changeset: f5fa0cd98696
branch: yt
user: brittonsmith
date: 2013-01-06 03:59:45
summary: Added option to install script to install to currently set YT_DEST.
This is done by setting REINST_YT to 1.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/288b124f9fd3/
changeset: 288b124f9fd3
branch: yt
user: brittonsmith
date: 2013-01-06 04:00:35
summary: Added --all option to yt update to run install script after updating
the yt repo.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/4ca41eb84424/
changeset: 4ca41eb84424
branch: yt
user: brittonsmith
date: 2013-01-06 04:43:15
summary: Added function to get the date of the last run of the install script.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/20afaf09a329/
changeset: 20afaf09a329
branch: yt
user: brittonsmith
date: 2013-01-06 04:49:20
summary: Install script now writes the date to a .yt_update file so yt can tell
when it was last run.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/adf9f1bda2df/
changeset: adf9f1bda2df
branch: yt
user: brittonsmith
date: 2013-01-06 04:49:40
summary: Removing note about wxpython from install script.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/2167146f48d8/
changeset: 2167146f48d8
branch: yt
user: brittonsmith
date: 2013-01-06 04:52:19
summary: Moved setting of DEST_DIR to YT_DEST in install script to maintain
script readability.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/88b9ff31a9ae/
changeset: 88b9ff31a9ae
branch: yt
user: brittonsmith
date: 2013-01-06 04:57:19
summary: Fixing a tab so that instinfo doesn't print "updated successfully" if
update not done. I think I messed that up.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/bd00437516fa/
changeset: bd00437516fa
branch: yt
user: MatthewTurk
date: 2013-01-22 16:50:33
summary: Merged in brittonsmith/yt (pull request #391)
Adding yt update --all to update entired yt stack.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/66c533f558ee/
changeset: 66c533f558ee
branch: yt
user: MatthewTurk
date: 2013-01-22 21:48:29
summary: Adding citation information for Rockstar. Closes #396.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/79f3ef830bc4/
changeset: 79f3ef830bc4
branch: yt
user: MatthewTurk
date: 2013-01-22 20:50:36
summary: Adding ability to get particle fields from smoothed and unsmoothed covering grids.
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/193cc2c5760c/
changeset: 193cc2c5760c
branch: yt
user: MatthewTurk
date: 2013-01-22 22:01:17
summary: Merged in MatthewTurk/yt (pull request #407)
Adding ability to get particle fields from smoothed and unsmoothed covering grids.
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/a0f7a5f85718/
changeset: a0f7a5f85718
branch: yt
user: brittonsmith
date: 2013-01-23 13:50:02
summary: Changing to use DEST_DIR instead of YT_DEST in install script for
writing out the time that dependencies were updated. If the install
script is being run for the first time, YT_DEST is not set and so this
doesn't work.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/41d7241cdc15/
changeset: 41d7241cdc15
branch: yt
user: MatthewTurk
date: 2013-01-23 15:48:00
summary: Add a property to AMRSurface to get back Triangles
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/21860a94c9bd/
changeset: 21860a94c9bd
branch: yt
user: samskillman
date: 2012-04-03 21:27:26
summary: Intermediate work on the adding grids to renders.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/2d944938d65a/
changeset: 2d944938d65a
branch: yt
user: samskillman
date: 2012-05-01 21:44:22
summary: Transposing image so that the camera north vector works as expected. This is caused by the standard of having an image (0,0) being in the upper right
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/606c5668fcfc/
changeset: 606c5668fcfc
branch: yt
user: samskillman
date: 2012-05-04 21:56:15
summary: Start of an attempt at drawing grid boundaries
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/c104f0bb2e41/
changeset: c104f0bb2e41
branch: yt
user: samskillman
date: 2012-05-04 21:56:35
summary: Adding the blenders file. This may be short lived
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/3897cac538a6/
changeset: 3897cac538a6
branch: yt
user: samskillman
date: 2013-01-22 17:13:45
summary: Merging plus fixing some new imports
affected #: 496 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/257507583532/
changeset: 257507583532
branch: yt
user: samskillman
date: 2013-01-22 17:25:41
summary: Fixing an import
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/1811330ee394/
changeset: 1811330ee394
branch: yt
user: samskillman
date: 2013-01-24 07:00:38
summary: Addressing code comments.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/0f9279c29ca5/
changeset: 0f9279c29ca5
branch: yt
user: samskillman
date: 2013-01-24 07:19:46
summary: Adding docstrings to line/box/grids/domain drawing.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/22d8fea68acb/
changeset: 22d8fea68acb
branch: yt
user: samskillman
date: 2013-01-24 07:22:19
summary: Changing default alpha to 0.3 for all line/grid annotations.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/ec2e81dc0bc3/
changeset: ec2e81dc0bc3
branch: yt
user: ngoldbaum
date: 2013-01-24 08:05:59
summary: Merged in samskillman/yt (pull request #406)
Draw domain boundary, and first pass at drawing grids in rendering.
affected #: 5 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/4be99c4ab148/
changeset: 4be99c4ab148
branch: yt
user: ngoldbaum
date: 2013-01-24 03:21:16
summary: Adding scipy to the install script. Closes #465.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/bc4b2b140eeb/
changeset: bc4b2b140eeb
branch: yt
user: MatthewTurk
date: 2013-01-24 12:37:42
summary: Merged in ngoldbaum/yt (pull request #409)
Adding scipy to the install script.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/597ce0513a71/
changeset: 597ce0513a71
branch: yt
user: MatthewTurk
date: 2013-01-25 22:06:11
summary: Kacper noticed a few typos. Fixed!
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/ca1589adc8e6/
changeset: ca1589adc8e6
branch: yt
user: xarthisius
date: 2013-01-29 08:32:46
summary: Get rid of libmagic dependency for plotwindow tests. Yield tests
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/0514b030f647/
changeset: 0514b030f647
branch: yt
user: xarthisius
date: 2013-01-29 08:55:03
summary: [test_plotwindow:assert_fname] Add links explaining hardcoded magic numbers
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/749385e5bd82/
changeset: 749385e5bd82
branch: yt
user: MatthewTurk
date: 2013-02-01 05:51:49
summary: Adding a gray option to write_png_to_string.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/41358eecdad5/
changeset: 41358eecdad5
branch: yt
user: ngoldbaum
date: 2013-01-25 03:43:09
summary: Adding ensure_tuple to funcs. I think we've got all the interables now ;)
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/b8be04593643/
changeset: b8be04593643
branch: yt
user: ngoldbaum
date: 2013-01-25 03:43:26
summary: Adding a periodicity attribute for the frontends I can figure it out for.
affected #: 9 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/ef817a5b72ef/
changeset: ef817a5b72ef
branch: yt
user: ngoldbaum
date: 2013-01-26 08:31:40
summary: Adding ValidatePeriodic.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/b52ed4e38be8/
changeset: b52ed4e38be8
branch: yt
user: ngoldbaum
date: 2013-01-26 08:34:52
summary: Adding a new non periodic radius field.
This reassigns the _function of a DerivedField object, allowing
the Radius field to use _RadiusIsolated instead of _Radius.
affected #: 5 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/b053ea68e96f/
changeset: b053ea68e96f
branch: yt
user: ngoldbaum
date: 2013-01-26 08:36:39
summary: Merged yt_analysis/yt into yt
affected #: 6 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/e2239c32d9b9/
changeset: e2239c32d9b9
branch: yt
user: ngoldbaum
date: 2013-01-28 20:34:05
summary: Rethinking the way we handle periodic fields. No more validators and juggling
the _function attribute. It works but it's complicated and doesn't make things
very clear. Worse, to handle the corner case where a simulation is periodic
along only one or two directions, we have to either define six new fields
that handle each possible case or insert the logic into the periodic radius
field anyway, obviating the need for the validator and field metaprogramming.
This puts the logic inside the field definition. I've also refactored the fields
so I think the semantic cost isn't very high.
affected #: 4 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/42d76617493c/
changeset: 42d76617493c
branch: yt
user: ngoldbaum
date: 2013-01-28 21:09:52
summary: Removing ValidatePeriodic and IsNotPeriodic, they are not needed.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/2c97a98e636e/
changeset: 2c97a98e636e
branch: yt
user: ngoldbaum
date: 2013-01-28 21:10:09
summary: Forgot to import periodic_dist and euclidean_dist.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/9bdf040a13a8/
changeset: 9bdf040a13a8
branch: yt
user: ngoldbaum
date: 2013-01-28 22:08:44
summary: Fixing some issues that caused periodic_dist and Radius to break in some situations.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/c3685ea1c8e7/
changeset: c3685ea1c8e7
branch: yt
user: ngoldbaum
date: 2013-01-28 22:55:05
summary: Fixing some remaining jankiness in periodic_dist
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/d1fb8648ec3c/
changeset: d1fb8648ec3c
branch: yt
user: ngoldbaum
date: 2013-01-28 22:55:18
summary: Adding tests for the new periodicity functionality.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/0469784183b9/
changeset: 0469784183b9
branch: yt
user: ngoldbaum
date: 2013-01-29 08:31:23
summary: Adding a periodicity attribute for the gdf frontend.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/f0e4de525d1f/
changeset: f0e4de525d1f
branch: yt
user: ngoldbaum
date: 2013-01-29 08:32:29
summary: Correcting a couple of typos.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/fd4422242964/
changeset: fd4422242964
branch: yt
user: ngoldbaum
date: 2013-01-29 08:54:49
summary: Fixing another typo.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/1b3974db20e2/
changeset: 1b3974db20e2
branch: yt
user: ngoldbaum
date: 2013-01-29 08:56:31
summary: fake_parameter_file needs a periodicity attribute.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/4be7647a0347/
changeset: 4be7647a0347
branch: yt
user: ngoldbaum
date: 2013-01-29 20:52:02
summary: Updating following Matt's comments.
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/f9d7d69eb8c1/
changeset: f9d7d69eb8c1
branch: yt
user: ngoldbaum
date: 2013-01-30 01:12:22
summary: Need to use ensure_list otherwise 1D sims will barf.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/9990c4b19f61/
changeset: 9990c4b19f61
branch: yt
user: ngoldbaum
date: 2013-01-30 01:12:43
summary: Merged yt_analysis/yt into yt
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/bb66dfc3b474/
changeset: bb66dfc3b474
branch: yt
user: ngoldbaum
date: 2013-01-30 19:56:13
summary: Setting periodicity in the orion frontend.
Minor stylistic modifications to the nyx and enzo frontends.
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/37545795bc08/
changeset: 37545795bc08
branch: yt
user: ngoldbaum
date: 2013-01-30 19:56:41
summary: Merging to tip.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/3617719a777f/
changeset: 3617719a777f
branch: yt
user: ngoldbaum
date: 2013-01-30 19:57:28
summary: Merging.
affected #: 0 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/d7b721d8320d/
changeset: d7b721d8320d
branch: yt
user: MatthewTurk
date: 2013-02-01 18:13:47
summary: Merged in ngoldbaum/yt (pull request #410)
First pass at YTEP-6. Closes #484.
affected #: 18 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/100c55efbac2/
changeset: 100c55efbac2
branch: yt
user: MatthewTurk
date: 2013-02-01 18:25:24
summary: Quick fix for Enzo data_structures.py syntax error
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/4151cc9ff9b2/
changeset: 4151cc9ff9b2
branch: yt
user: xarthisius
date: 2013-02-02 11:03:07
summary: Add `NullHandler` to `ytLogger` when stream logging is suppresed. Fixes #492
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/5b2a3ce6e130/
changeset: 5b2a3ce6e130
branch: yt
user: ngoldbaum
date: 2013-02-05 02:07:27
summary: Removing ranger from the install script. RIP.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/5794d91ad696/
changeset: 5794d91ad696
branch: yt
user: ngoldbaum
date: 2013-02-05 02:08:14
summary: Merging
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/2ed83279566f/
changeset: 2ed83279566f
branch: yt
user: ngoldbaum
date: 2013-02-05 23:30:06
summary: Updating the OS X notes on the install script.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/c57b08a8a710/
changeset: c57b08a8a710
branch: yt
user: ngoldbaum
date: 2013-02-06 01:04:52
summary: Adding some scipy notes and warning about being up to date on OSX point releases.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/d6fe5086342e/
changeset: d6fe5086342e
branch: yt
user: ngoldbaum
date: 2013-02-06 07:51:18
summary: Improving the language in the install script.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/baa302b0a405/
changeset: baa302b0a405
branch: yt
user: devinsilvia
date: 2013-02-06 18:48:50
summary: the will/won't check for the install script for SCIPY was incorrectly using
the PYX value.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/1c065528fa5d/
changeset: 1c065528fa5d
branch: yt
user: chummels
date: 2013-02-06 20:27:56
summary: Fixing a bug with bash syntax in the installer. Without this fix, installer would complain to user (and potentially not install scipy when commanded).
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/fe9dbc649f77/
changeset: fe9dbc649f77
branch: yt
user: xarthisius
date: 2013-02-06 15:23:35
summary: Ensure that lapack is built with -fPIC. Fixes #495
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/5a379eb6dc53/
changeset: 5a379eb6dc53
branch: yt
user: ngoldbaum
date: 2013-02-06 20:33:30
summary: Merged in xarthisius/yt (pull request #414)
Ensure that lapack is built with -fPIC. Fixes #495
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/93c2c575b91f/
changeset: 93c2c575b91f
branch: yt
user: samskillman
date: 2012-06-27 22:39:40
summary: Rewrite of the AMRKDTree, which simplifies the construction, and will allow for arbitrary grid collections in the future. Still is not at feature parity of the old AMRKDTree, but this is a good starting point.
affected #: 4 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/6356999b40c8/
changeset: 6356999b40c8
branch: yt
user: samskillman
date: 2012-06-27 22:50:00
summary: Cleaning
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/bd1692e0aa09/
changeset: bd1692e0aa09
branch: yt
user: samskillman
date: 2012-06-27 23:29:46
summary: Moving bare functions from amr_kdtree.py to amr_kdtools.py
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/9dad2081c8e7/
changeset: 9dad2081c8e7
branch: yt
user: samskillman
date: 2012-06-28 00:32:05
summary: Adding min_ and max_level kwargs for AMRKDTree. This removes some of the defensive programming checks in AMRKDTree.traverse, but I think this is okay, and similar to what we have set up in the old implementation. This significantly speeds up tree build and rendering for nested sims.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/e3f254a66081/
changeset: e3f254a66081
branch: yt
user: samskillman
date: 2012-06-08 19:47:56
summary: Fixing a bug in the interactive camera. Also changing the way transfer functions are displayed with the interactive camera. If people like this, we should change this for the normal TF.plot() as well.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/fc9256437c33/
changeset: fc9256437c33
branch: yt
user: samskillman
date: 2012-06-09 01:27:36
summary: Working on annotated volume renders, and the ability to show them interactively when using ipython with a compatible matplotlib backend. This needs cleaning up.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/bb7ae8d29310/
changeset: bb7ae8d29310
branch: yt
user: samskillman
date: 2012-06-12 23:00:48
summary: Make the image an arg rather than kwarg
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/252ac6981c0e/
changeset: 252ac6981c0e
branch: yt
user: samskillman
date: 2012-06-14 21:34:27
summary: Updating hgignore to yt/utilities/lib from /_amr_utils
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/6528c562fed6/
changeset: 6528c562fed6
branch: yt
user: samskillman
date: 2012-06-15 01:47:04
summary: Adding a 4th (alpha) channel to the rgba that is used in volume renderings. This allows for more flexibility in integrating the various fields along the ray. In particular, it allows for MPI-parallel (to go along with the OpenMP) opaque renders. Also restoring the proper movement when steady_north is used, which may have gotten mixed up in a prior merge. Currently I've only tested the ColorTransferFunction, and I suspect other cameras/TFs will need to be updated now that rgba[4] is assumed in some places.
affected #: 7 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/daf787e93571/
changeset: daf787e93571
branch: yt
user: samskillman
date: 2012-06-16 04:19:48
summary: re-implementing the MosaicCamera
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/f6c73ea9e884/
changeset: f6c73ea9e884
branch: yt
user: samskillman
date: 2012-06-23 16:35:36
summary: Intermediate work on the mosaic camera
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/7c7e44c757c7/
changeset: 7c7e44c757c7
branch: yt
user: samskillman
date: 2012-06-23 15:25:54
summary: Fixing some mpl calls in the interactive camera.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/4fc2eeda5624/
changeset: 4fc2eeda5624
branch: yt
user: samskillman
date: 2012-06-23 15:26:14
summary: Merging
affected #: 12 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/50f5d3eae20b/
changeset: 50f5d3eae20b
branch: yt
user: samskillman
date: 2012-06-23 16:45:04
summary: Merging yt into my rendering development head
affected #: 30 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/503a5766edad/
changeset: 503a5766edad
branch: yt
user: samskillman
date: 2012-06-23 16:50:14
summary: remove an argument
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/af0a5782c11f/
changeset: af0a5782c11f
branch: yt
user: samskillman
date: 2012-06-23 16:50:26
summary: Merging
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/31d7b5065e13/
changeset: 31d7b5065e13
branch: yt
user: samskillman
date: 2012-06-23 18:59:01
summary: MosaicCamera uses dynamic parallel objects
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/c940f4f2d818/
changeset: c940f4f2d818
branch: yt
user: samskillman
date: 2012-07-16 04:57:01
summary: Before moving to a while loop instead of recursive calls.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/210e0626ab47/
changeset: 210e0626ab47
branch: yt
user: samskillman
date: 2012-08-14 09:14:05
summary: Parallel build seems to be partitioning correctly. Now just need to write the reduction techniques and modify the traversals to deal with nodes that neither have children nor own a grid.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/8cb72eb97165/
changeset: 8cb72eb97165
branch: yt
user: samskillman
date: 2012-08-17 00:44:33
summary: Fixing some long lines.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/6a5eed5c6aa5/
changeset: 6a5eed5c6aa5
branch: yt
user: samskillman
date: 2012-08-17 00:45:59
summary: Merging from main.
affected #: 126 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/2598ab588694/
changeset: 2598ab588694
branch: yt
user: samskillman
date: 2012-08-17 23:16:58
summary: Implementing parallel build and image reduction. Still seeing some issues with non-power of 2 in terms of some regions showing up lighter/darker. This will probably get solved with the alpha channel coming back.
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/e1c24891ffc7/
changeset: e1c24891ffc7
branch: yt
user: samskillman
date: 2012-08-19 01:09:10
summary: Merging new kd work in with alpha channel work. This compiles/runs but images arent generated correctly yet due to the way alpha is handled in the imshow/write_bitmap call.
affected #: 279 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/b1ed3028aad5/
changeset: b1ed3028aad5
branch: yt
user: samskillman
date: 2012-08-19 01:32:40
summary: Need to return the image. Later should revisit memory usage/duplication.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/f9f9f26c68d4/
changeset: f9f9f26c68d4
branch: yt
user: samskillman
date: 2012-08-19 01:55:46
summary: Adding back in scale multiplier in map_to_colormap
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/3a9743920766/
changeset: 3a9743920766
branch: yt
user: samskillman
date: 2012-08-28 21:57:58
summary: Implment geometrical splitting of grids based on longest axis. May be fragile to non-cubical cells.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/39f8844d430d/
changeset: 39f8844d430d
branch: yt
user: samskillman
date: 2012-08-30 14:55:12
summary: Removing print statements
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/f1dd8762c759/
changeset: f1dd8762c759
branch: yt
user: samskillman
date: 2012-11-06 19:12:43
summary: If kdtree_get_choices fails, the node is invalid.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/84b204d0fc74/
changeset: 84b204d0fc74
branch: yt
user: samskillman
date: 2012-11-06 19:13:54
summary: Merging in kd refactor work into mpi-opaque.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/ca9b2930140e/
changeset: ca9b2930140e
branch: yt
user: samskillman
date: 2012-11-06 20:27:46
summary: Subdomains now work correctly. I think the check to make sure a valid split was found can now be removed.'
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/7d4234f03ee6/
changeset: 7d4234f03ee6
branch: yt
user: samskillman
date: 2012-11-10 22:11:49
summary: Working on parallel image reduction.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/adade49ebec3/
changeset: adade49ebec3
branch: yt
user: samskillman
date: 2012-12-08 18:49:07
summary: Bugfix. Without this, once down to one grid, it would return even if it didn't completely cover the node.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/76377c9ab840/
changeset: 76377c9ab840
branch: yt
user: samskillman
date: 2012-12-08 20:31:25
summary: na -> np
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/47d7438c0cde/
changeset: 47d7438c0cde
branch: yt
user: samskillman
date: 2012-12-08 20:33:16
summary: cleaning up trailing whitespace
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/12c716879a71/
changeset: 12c716879a71
branch: yt
user: samskillman
date: 2012-12-08 21:04:54
summary: Adding a find_node function, which given a starting node and position, will find the brick containing that position.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/efeb21dd02a7/
changeset: efeb21dd02a7
branch: yt
user: samskillman
date: 2012-12-09 20:20:53
summary: Make the comm size and rank keywords.
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/9adcd99928e0/
changeset: 9adcd99928e0
branch: yt
user: samskillman
date: 2012-12-09 20:24:36
summary: Removed tag mpi-opaque
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/6d64b9a6169e/
changeset: 6d64b9a6169e
branch: yt
user: samskillman
date: 2012-12-09 20:37:21
summary: Merging from main into kd refactor/mpi-opaque work. Includes a no-op merge of
the amr_kdtree.py since it has been re-written.
affected #: 209 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/92e66aa04738/
changeset: 92e66aa04738
branch: yt
user: samskillman
date: 2012-12-09 21:31:00
summary: Bugfixes, restore streamline functionality
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/393c54de7807/
changeset: 393c54de7807
branch: yt
user: samskillman
date: 2012-12-20 01:48:14
summary: Fixing broken API for storing, loading kd bricks. Also fixes for the annotation of the images
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/8c4814bc098b/
changeset: 8c4814bc098b
branch: yt
user: samskillman
date: 2012-12-20 08:37:56
summary: First round of edits.
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/30814f9797ad/
changeset: 30814f9797ad
branch: yt
user: samskillman
date: 2012-12-21 23:04:33
summary: A few more fixes
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/fe82e85d9c93/
changeset: fe82e85d9c93
branch: yt
user: samskillman
date: 2012-12-22 11:53:06
summary: First pass at combining parallel AMRKDTrees. Not very efficient, but sometimes
necessary for streamlines.
affected #: 4 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/f7aaf95cbbf2/
changeset: f7aaf95cbbf2
branch: yt
user: samskillman
date: 2013-01-17 21:31:54
summary: Bugfixes for more of the cameras. Perspective still not working
affected #: 4 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/5d59fb5bdb33/
changeset: 5d59fb5bdb33
branch: yt
user: samskillman
date: 2013-01-17 22:24:30
summary: Getting rid of some usages of prints, and fixing the perspective renders integration
due to a miscalculated offset when using 4 channels.
affected #: 4 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/b81801141464/
changeset: b81801141464
branch: yt
user: samskillman
date: 2013-01-18 01:21:38
summary: More fixes to transfer functions, and restoring more functionality to the new
AMRKDTree in terms of calculating total volume/cells. Re-linking TFs to mimic
old behavior.
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/fdec25a3da51/
changeset: fdec25a3da51
branch: yt
user: samskillman
date: 2013-01-18 21:15:03
summary: Fixing neighbor finding with AMRKDTree
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/754d22f3296c/
changeset: 754d22f3296c
branch: yt
user: samskillman
date: 2013-01-18 21:20:42
summary: Merging in from tip.
affected #: 45 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/690785edc9b1/
changeset: 690785edc9b1
branch: yt
user: samskillman
date: 2013-01-18 21:22:21
summary: Merging in fixes from another head.
affected #: 6 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/355c964dbc48/
changeset: 355c964dbc48
branch: yt
user: samskillman
date: 2013-01-18 22:37:19
summary: Adding AMRKDTree unit tests, utilizing load_uniform_grid and refine_amr to generate a fake AMR dataset.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/7e2a33401f08/
changeset: 7e2a33401f08
branch: yt
user: samskillman
date: 2013-01-21 21:12:28
summary: Fixing up some transfer function/annotated image showing. Also fixing color
values for map_to_colormap (should always be between 0..1).
affected #: 2 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/31279a5570dd/
changeset: 31279a5570dd
branch: yt
user: MatthewTurk
date: 2013-02-07 21:07:52
summary: Merged in samskillman/yt (pull request #383)
AMRKDTree rewrite, Volume Rendering Upgrades
affected #: 16 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/ea4949df805c/
changeset: ea4949df805c
branch: yt
user: samskillman
date: 2013-02-07 22:10:47
summary: Quick fixes to restore jenkins. Parallel streamlines are currently broken.
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/a5035492b89a/
changeset: a5035492b89a
branch: yt
user: chummels
date: 2013-02-06 22:47:12
summary: Modifying write_projection function to take dpi and figsize keywords. This functionality somehow broke in the switch to the plot_window interface.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/cf5fd9d85e25/
changeset: cf5fd9d85e25
branch: yt
user: chummels
date: 2013-02-07 07:06:06
summary: Making kw convention of write_projection match others in file for cmaps.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/c216e386ad4b/
changeset: c216e386ad4b
branch: yt
user: chummels
date: 2013-02-07 09:16:27
summary: Adding expand_keyword_dictionary function, which is helpful for testing many different keyword combinations in nosetests.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/d2cf51a0dadb/
changeset: d2cf51a0dadb
branch: yt
user: chummels
date: 2013-02-07 09:18:52
summary: Renaming function to not be too verbose.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/77845626cc08/
changeset: 77845626cc08
branch: yt
user: chummels
date: 2013-02-07 10:14:42
summary: Removing a pdb call.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/4c01520f3f22/
changeset: 4c01520f3f22
branch: yt
user: chummels
date: 2013-02-07 10:18:23
summary: Adding nose test for off_axis_projection and write_projection
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/063a28de6a3e/
changeset: 063a28de6a3e
branch: yt
user: chummels
date: 2013-02-07 18:26:01
summary: Fixing some bugs with the off_axis_projection test. Works now.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/654b2e1847f5/
changeset: 654b2e1847f5
branch: yt
user: chummels
date: 2013-02-07 21:02:49
summary: Adding full keyword to expand_keywords, which allows for testing EVERY combination of keywords available.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/2f54217d37d8/
changeset: 2f54217d37d8
branch: yt
user: MatthewTurk
date: 2013-02-07 22:27:52
summary: Merged in chummels/yt (pull request #417)
Fixes write_projection, adds helper function for unit testing, closes issue #434
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/68b585742e78/
changeset: 68b585742e78
branch: yt
user: ngoldbaum
date: 2013-02-07 22:44:56
summary: Fixing a syntax error in the FLASH frontend.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/ebe170dc1447/
changeset: ebe170dc1447
branch: yt
user: ngoldbaum
date: 2013-02-07 22:45:27
summary: Merging.
affected #: 21 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/c539bc060a43/
changeset: c539bc060a43
branch: yt
user: samskillman
date: 2013-02-07 23:25:06
summary: Fixes for off_axis_projection.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/3bfc1524212d/
changeset: 3bfc1524212d
branch: yt
user: samskillman
date: 2013-02-07 23:25:43
summary: Merging
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/023d08daede6/
changeset: 023d08daede6
branch: yt
user: samskillman
date: 2013-02-07 23:27:03
summary: A fix to the fix.
affected #: 1 file
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/02c774c286d8/
changeset: 02c774c286d8
branch: yt
user: samskillman
date: 2013-02-07 22:39:40
summary: Restoring parallel streamlining capabilities.
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/c03286262fcb/
changeset: c03286262fcb
branch: yt
user: samskillman
date: 2013-02-07 22:41:30
summary: Merging
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/d0e722ba5afe/
changeset: d0e722ba5afe
branch: yt
user: ngoldbaum
date: 2013-02-07 23:53:41
summary: Merged in samskillman/yt (pull request #418)
Restore parallel streamlines, AMRKDTree parallel reduction
affected #: 3 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/4e2f1bc1b1e9/
changeset: 4e2f1bc1b1e9
branch: yt-3.0
user: MatthewTurk
date: 2013-02-08 23:13:15
summary: Merging from yt tip, including periodicity.
affected #: 54 files
Diff not available.
https://bitbucket.org/yt_analysis/yt-3.0/commits/162feb61f27a/
changeset: 162feb61f27a
branch: yt-3.0
user: MatthewTurk
date: 2013-02-08 23:14:07
summary: Merging into SPH work
affected #: 54 files
Diff not available.
Repository URL: https://bitbucket.org/yt_analysis/yt-3.0/
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