Recent changes to this wiki:

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Changed pages: diffREADME
Changed by: kanzure
Commit type: git
Date: 12:25:17 29/09/12
revert
shouldn't list names without the contributors in a README

Changed pages: diffcad/src/main.py
Changed by: kanzure
Commit type: git
Date: 18:26:33 28/09/12
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update comments to point to ne1_startup/ instead of startup/

Changed pages: diff.gitignore
Changed by: kanzure
Commit type: git
Date: 12:00:46 19/09/12
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add ne1log.txt to .gitignore

Changed pages: diffREADME diffpackaging/build-chroot.sh
Changed by: jrayhawk+nanoengineer
Commit type: git
Date: 18:44:01 18/09/12
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chroot: adding direct rendering instructions
tab crusading (python files)
whitespace crusading

Changed pages: diffREADME
Changed by: kanzure
Commit type: git
Date: 11:41:32 17/09/12
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mount should be preceded by sudo

Changed pages: diffREADME
Changed by: kanzure
Commit type: git
Date: 11:06:31 17/09/12
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definitely mount --bind these things

Changed pages: diffREADME
Changed by: kanzure
Commit type: git
Date: 10:54:55 17/09/12
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use mount --bind to wire the chroot to /dev/dri

Changed pages: diffREADME
Changed by: kanzure
Commit type: git
Date: 18:33:54 17/07/12
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add chroot instructions to README.md

Changed pages: diffpackaging/build-chroot.sh
Changed by: kanzure
Commit type: git
Date: 23:28:55 01/05/12
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hardcoding a commit id is a bad idea

Changed pages: diff.gitignore
Changed by: kanzure
Commit type: git
Date: 07:05:34 30/04/12
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.gitignore entries from svn global-ignores

Changed pages: diffpackaging/build-chroot.sh
Changed by: kanzure
Commit type: git
Date: 07:01:17 30/04/12
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split up a long line in build-chroot.sh

Changed pages: diffpackaging/build-chroot.sh
Changed by: kanzure
Commit type: git
Date: 23:37:55 29/04/12
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chroot creation script (tutorial)

Changed pages: diffcad/src/commands/CommentProperties/CommentPropDialog.py diffcad/src/samevals.pyx
Changed by: kanzure
Commit type: git
Date: 23:19:46 29/04/12
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two minor changes to get source running on target machines

Changed pages: diff.gitignore
Changed by: kanzure
Commit type: git
Date: 21:34:33 29/04/12
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atombase.c and samevals.c should also be ignored

Changed pages: diff.gitignore
Changed by: kanzure
Commit type: git
Date: 21:25:49 29/04/12
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even more .gitignore refinements

Changed pages: diffcad/plugins/HDF5 SimResults/src/HDF5 SimResults.cpp
Changed by: kanzure
Commit type: git
Date: 21:17:15 29/04/12
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Revert change to HDF5_SimResults.cpp from d5eee5.
The pointer/double bug appears to be based on which HDF5 headers are
installed. Those from libhdf5-serial-dev=1.6.5-3 compile successfuly.

Changed pages: diff.gitignore
Changed by: kanzure
Commit type: git
Date: 21:12:44 29/04/12
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these two Makefiles get overwritten via automake

Changed pages: diff.gitignore
Changed by: kanzure
Commit type: git
Date: 21:10:52 29/04/12
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ignore more build objects

Changed pages: diffsim/src/newtables.c
Changed by: kanzure
Commit type: git
Date: 21:00:09 29/04/12
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remove bends_rcsid and bonds_rcsid from sim/src/newtables.c

Changed pages: diff.gitignore
Changed by: kanzure
Commit type: git
Date: 16:57:33 29/04/12
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ignore automake-generated files

Changed pages: diffREADME
Changed by: kanzure
Commit type: git
Date: 15:48:17 28/04/12
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direct links to the videos

Changed pages: diffREADME
Changed by: kanzure
Commit type: git
Date: 15:45:38 28/04/12
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add nanofactory video to readme

Changed pages: diffREADME
Changed by: kanzure
Commit type: git
Date: 13:29:53 28/04/12
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fix url to paul rothemund dna origami image

Changed pages: diffREADME
Changed by: kanzure
Commit type: git
Date: 13:28:08 28/04/12
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formatting fix for table of contents in README

Changed pages: diffREADME
Changed by: kanzure
Commit type: git
Date: 13:27:06 28/04/12
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initial README in top-level path

Changed pages: diff.gitignore
Changed by: kanzure
Commit type: git
Date: 12:25:21 28/04/12
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initial .gitignore

Changed pages: diffcad/src/ne1 ui/toolbars/FlyoutToolbar.py
Changed by: fitzsim
Commit type: git
Date: 07:41:09 31/03/10
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Make getExtensionButton a little more robust in FlyoutToolbar.py in UI

Changed pages: diffcad/src/LICENSE diffcad/src/LICENSE-Win32
Changed by: bruce
Commit type: git
Date: 17:34:56 04/03/10
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upgrade LICENSE from GPLv2 to GPLv2+ (with Mark's permission by email)

Changed pages: diffcad/src/ne1 startup/main startup.py
Changed by: fitzsim
Commit type: git
Date: 23:12:40 20/12/09
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Contributed patch: remove sponsors startup lag.
Applying contributed patches (see below)
src/commands/Plot/PlotTool.py - changed gnuplot path
src/ne1_ui/prefs/Preferences.py - mdrun/mcpp changes
cad/src/operations/ops_files.py - changed babel path
cad/src/utilities/prefs_constants.py - enabled gromacs
Applying contributed patches for various makefiles

Changed pages: diffcad/src/files/mmp/files mmp.py diffcad/src/tests/atombasetests.py
Changed by: bruce
Commit type: git
Date: 12:28:26 10/07/09
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rename variables named 'as' (untested), since keyword in python 2.6
Applying contributed patches (see below)
ac_pyqt.m4
a very wrong fix for checking PyQT versions in configure
cad/plugins/HDF5_SimResults/src/HDF5_SimResults.cpp
fix a pointer/double pointer
cad/plugins/HDF5_SimResults/src/Makefile.am
enable -DH5_USE_16_API
cad/src/exprs/draw_utils.py
PyOpenGL fix (parameters)
FIXME: glVertex3fv is easy to fix here
configure.ac
fix a path to NE1ToolBar.py
sim/src/sim.pyx
getEquilibriumDistanceForBond is a member method

Changed pages: diffcad/src/dna/DnaSequenceEditor/DnaSequenceEditor.py
Changed by: mark
Commit type: git
Date: 11:41:11 30/05/09
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Introduced clear() method.

Changed pages: diffcad/src/dna/commands/DnaStrand/DnaStrand PropertyManager.py
Changed by: mark
Commit type: git
Date: 11:37:44 30/05/09
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Fixed bug in which an invalid DnaStrand can be edited. When this happens (I forget how), the PM fields are disabled so the user cannot edit the structure.

Changed pages: diffcad/src/command support/EditCommand.py
Changed by: mark
Commit type: git
Date: 11:34:06 30/05/09
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Ignorable. Refined docstrings.
delete pyglet, add instructions for installing it

Changed pages: diffcad/src/experimental/textures/courier-128.png diffcad/src/ui/exprs/text/courier-128.png
Changed by: bruce
Commit type: git
Date: 09:07:46 18/03/09
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clean up images
stub for dset cache usage tracking; comments about refactoring it requires; related renaming

Changed pages: diffcad/src/graphics/drawing/graphics card info.py
Changed by: bruce
Commit type: git
Date: 15:44:20 14/03/09
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add GL_MAX_ values to Graphics Card Info

Changed pages: diffcad/src/graphics/drawing/glprefs.py
Changed by: bruce
Commit type: git
Date: 13:55:04 14/03/09
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fix typo
move get_gl_info_string into its own file, graphics_card_info.py

Changed pages: diffcad/src/graphics/widgets/GLPane drawingset methods.py
Changed by: bruce
Commit type: git
Date: 17:17:44 13/03/09
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docstring changes

Changed pages: diffcad/src/graphics/drawing/DrawingSetCache.py diffcad/src/graphics/widgets/GLPane drawingset methods.py
Changed by: bruce
Commit type: git
Date: 16:58:49 13/03/09
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clean up comments from that refactoring

Changed pages: diffcad/src/graphics/drawing/DrawingSetCache.py diffcad/src/graphics/widgets/GLPane drawingset methods.py
Changed by: bruce
Commit type: git
Date: 16:55:17 13/03/09
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factored access code from client into new methods of DrawingSetCache (messy-comment version)

Changed pages: diffcad/src/graphics/drawing/DrawingSetCache.py diffcad/src/graphics/widgets/GLPane drawingset methods.py
Changed by: bruce
Commit type: git
Date: 15:31:34 13/03/09
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split DrawingSetCache into its own file, add some doc

Changed pages: diffcad/src/graphics/model drawing/ChunkDrawer.py
Changed by: bruce
Commit type: git
Date: 22:25:20 12/03/09
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comment about how to make overlap indicators work with 'reuse cached drawingsets'
CSDL.add_drawing_func; fixes 'reuse dsets' re _f_drawchunk_realtime
generalize CSDL drawing API (but not yet construction API or implementation) to support more kinds of non-shader drawing

Changed pages: diffcad/src/graphics/widgets/GLPane rendering methods.py diffcad/src/model/part.py
Changed by: bruce
Commit type: git
Date: 09:01:50 12/03/09
revert
changing global display style invalidates 'reuse dsets' cache

Changed pages: diffcad/src/graphics/drawing/ColorSortedDisplayList.py
Changed by: bruce
Commit type: git
Date: 21:58:28 11/03/09
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CSDLs should not have a .glname since they're never a selobj

Changed pages: diffcad/src/graphics/widgets/GLPane highlighting methods.py
Changed by: bruce
Commit type: git
Date: 21:37:16 11/03/09
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make glname_color alg. better tolerate accidental color match
fix non-understood bug in using ColorSorter for general highlightables

Changed pages: diffcad/src/dna/commands/DnaSegment/DnaSegment ResizeHandle.py
Changed by: bruce
Commit type: git
Date: 21:03:59 11/03/09
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coding standards
renamed/improved debug_pref to reuse cached DrawingSets; revised GM.Draw API
rename some methods for consistency
'reuse dsets' no longer prevents non-model drawing
update comments
call the 4 Draw_* methods separately, never call Draw itself
split remaining Draw methods (not fully tested)

Changed pages: diffcad/src/model/chem.py
Changed by: bruce
Commit type: git
Date: 22:12:42 10/03/09
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typo
split many Draw methods into their 4 new parts; not fully tested

Changed pages: diffcad/src/command support/GraphicsMode.py
Changed by: bruce
Commit type: git
Date: 12:36:11 10/03/09
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split Draw into submethods, in GraphicsMode interface (part 1)

Changed pages: diffcad/src/graphics/display styles/ProteinChunks.py
Changed by: bruce
Commit type: git
Date: 11:04:20 10/03/09
revert
typo

Changed pages: diffcad/src/commands/SelectAtoms/SelectAtoms GraphicsMode.py
Changed by: bruce
Commit type: git
Date: 11:04:11 10/03/09
revert
misc cleanup
merge Select_GraphicsMode_DrawMethod_preMixin back into its sole client

Changed pages: diffcad/src/command support/GraphicsMode.py
Changed by: bruce
Commit type: git
Date: 10:04:18 10/03/09
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fix apparent bug (redundant drawPointOfViewAxes) introduced in late 2006
debug_pref to reuse DrawingSets when model/selection unchanged
turn off UNIFORM_XFORMS again; this time don't reference transform_id shader attr then

Changed pages: diffcad/src/graphics/drawing/gl shaders.py
Changed by: fish
Commit type: git
Date: 12:48:59 09/03/09
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Turn UNIFORM_XFORMS back on to avoid a traceback on Windows/nVidia-7000, which is more picky about what constitutes an "unused attribute" (transform_id) than MacOS/nVidia-8000.

Changed pages: diffcad/src/graphics/model drawing/ChunkDrawer.py diffcad/src/graphics/widgets/GLPane minimal.py
Changed by: bruce
Commit type: git
Date: 09:15:37 09/03/09
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fix sphere drawLevel when shaders are desired but don't work
fix AssertionError caused by delegating GraphicsMode

Changed pages: diffcad/src/graphics/widgets/GLPane minimal.py diffcad/src/graphics/widgets/GLPane rendering methods.py
Changed by: bruce
Commit type: git
Date: 23:35:23 06/03/09
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fix bug in ThumbView introduced by rev 14924

Changed pages: diffcad/src/geometry/VQT.py diffcad/src/graphics/model drawing/ChunkDrawer.py
Changed by: bruce
Commit type: git
Date: 23:30:27 06/03/09
revert
trivial optimizations
correct frustum culling for ExternalBondSet
optimization: recompute most havelist_data only once per paintGL call

Changed pages: diffcad/src/commands/TestGraphics/TestGraphics Command.py
Changed by: bruce
Commit type: git
Date: 19:12:11 06/03/09
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delegate almost everything to parentGraphicsMode

Changed pages: diffcad/src/graphics/widgets/GLPane drawingset methods.py
Changed by: bruce
Commit type: git
Date: 19:11:49 06/03/09
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fix bug when turning off incremental DrawingSets at runtime
Temporary fix for shader mouseover-picking on Windows, where the last byte of the glname drawn as an RGBA color always comes back as 255. Just use the first 3 bytes, limiting us to 16 million shader primitives.

Changed pages: diffcad/src/graphics/drawing/gl shaders.py
Changed by: bruce
Commit type: git
Date: 12:44:15 06/03/09
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turn off UNIFORM_XFORMS, since we're not using TransformControls

Changed pages: diffcad/src/graphics/drawing/gl shaders.py
Changed by: bruce
Commit type: git
Date: 12:38:22 06/03/09
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better error message for N_CONST_XFORMS becoming too small
recover more gracefully from GLSL/shader setup errors

Changed pages: diffcad/src/graphics/drawing/gl shaders.py
Changed by: bruce
Commit type: git
Date: 11:35:09 06/03/09
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debug_pref to simulate shader GLSL syntax error
minor refactoring of gl_shaders and the #defines it prepends to GLSL sources
rename texture_xforms -> TEXTURE_XFORMS
clarify and improve debug menu profiling commands

Changed pages: diffcad/src/graphics/drawing/glprefs.py
Changed by: bruce
Commit type: git
Date: 13:14:18 05/03/09
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improve docstring of materialprefs_summary -- relation to apply_material

Changed pages: diffcad/src/foundation/state utils.py diffcad/src/utilities/Comparison.py
Changed by: bruce
Commit type: git
Date: 12:41:16 05/03/09
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work around out-of-date samevals.dll/.so
move patterned_drawing helpers into their own file

Changed pages: diffcad/src/graphics/widgets/GLPane rendering methods.py
Changed by: bruce
Commit type: git
Date: 17:07:21 04/03/09
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call configure_enabled_shaders only once per paintGL call

Changed pages: diffcad/src/graphics/drawing/glprefs.py
Changed by: bruce
Commit type: git
Date: 16:21:24 04/03/09
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refactoring made shader prefs next session, so revise their menu text
remove the last import cycle related to drawing_globals
remove some import cycles and unused imports
giant refactoring/cleanup of GL globals and prefs, initial cut
Apply DEPTH_TWEAK in shaders while drawing highlighted.
-- graphics/drawing/gl_shaders.py
. Add a uniform DEPTH_TWEAK, and set it in configShader().
-- graphics/drawing/sphere_shader.py
-- graphics/drawing/cylinder_shader.py
. Subtract the DEPTH_TWEAK from gl_FragDepth to pull Z toward us while in a highlighted drawing style.
partly refactor shader prefs; permit spheres off while cylinders on; call cylinderShader.setPicking

Changed pages: diffcad/src/graphics/drawing/drawing globals.py
Changed by: bruce
Commit type: git
Date: 11:32:03 03/03/09
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enable cylinder shaders by default