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From: <ha...@us...> - 2014-11-26 12:34:21
|
Revision: 20136
http://sourceforge.net/p/jmol/code/20136
Author: hansonr
Date: 2014-11-26 12:34:17 +0000 (Wed, 26 Nov 2014)
Log Message:
-----------
Jmol.___JmolVersion="14.3.10_2014.11.27"
FEATURE CHANGE: undocumented omission of "CUTOFF" keyword prior to number in ISOSURFACE command disallowed
new feature: isosurface LATTICE {i j k} FIXED
-- creates an isosurface from periodic volumetric data
with the specified number of unit cells
-- "fixed" in the sense that the operation is at load time
not at rendering, allowing slabbing and use of WITHIN
new feature: isosurface LATTICE + x.x ....
-- for periodic lattices only
-- expands one unit cell by x.x in fractional coordinates
-- caution is advised, as the grid is expanded in this process
and the isosurface is no longer periodic.
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-11-26 04:46:43 UTC (rev 20135)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-11-26 12:34:17 UTC (rev 20136)
@@ -28,6 +28,8 @@
new feature: isosurface LATTICE + x.x ....
-- for periodic lattices only
-- expands one unit cell by x.x in fractional coordinates
+ -- caution is advised, as the grid is expanded in this process
+ and the isosurface is no longer periodic.
JmolVersion="14.3.10_2014.11.26"
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From: <ha...@us...> - 2014-11-26 12:44:21
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Revision: 20138
http://sourceforge.net/p/jmol/code/20138
Author: hansonr
Date: 2014-11-26 12:44:17 +0000 (Wed, 26 Nov 2014)
Log Message:
-----------
Jmol.___JmolVersion="14.3.10_2014.11.27"
FEATURE CHANGE: For the ISOSURFACE command, there is an undocumented
syntax that the CUTOFF keyword prior to a number is optional,
as in "ISOSURFACE 2.0". This was never documented and was never
shown in any examples. This change is to require the CUTOFF keyword
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-11-26 12:35:08 UTC (rev 20137)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-11-26 12:44:17 UTC (rev 20138)
@@ -17,7 +17,10 @@
Jmol.___JmolVersion="14.3.10_2014.11.27"
-FEATURE CHANGE: undocumented omission of "CUTOFF" keyword prior to number in ISOSURFACE command disallowed
+FEATURE CHANGE: For the ISOSURFACE command, there is an undocumented
+ syntax that the CUTOFF keyword prior to a number is optional,
+ as in "ISOSURFACE 2.0". This was never documented and was never
+ shown in any examples. This change is to require the CUTOFF keyword
new feature: isosurface LATTICE {i j k} FIXED
-- creates an isosurface from periodic volumetric data
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From: <ha...@us...> - 2014-11-27 01:10:26
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Revision: 20141
http://sourceforge.net/p/jmol/code/20141
Author: hansonr
Date: 2014-11-27 01:10:19 +0000 (Thu, 27 Nov 2014)
Log Message:
-----------
Jmol.___JmolVersion="14.3.11_2014.11.27"
JmolVersion="14.3.10_2014.11.27"
released as 14.3.10
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-11-27 00:09:02 UTC (rev 20140)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-11-27 01:10:19 UTC (rev 20141)
@@ -15,8 +15,12 @@
TODO: design and implement sidechain mutation -- MUTATE command ?
TODO: remove HTML5 dependency on synchronous file loading (check SCRIPT command for problems)
-Jmol.___JmolVersion="14.3.10_2014.11.27"
+Jmol.___JmolVersion="14.3.11_2014.11.27"
+JmolVersion="14.3.10_2014.11.27"
+
+released as 14.3.10
+
bug fix: SPIN BRANCH {atomno=2} {atomno=1} does not work
code: scriptExt.IsoExt splits CmdExt into two parts
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From: <ha...@us...> - 2014-11-27 05:02:19
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Revision: 20143
http://sourceforge.net/p/jmol/code/20143
Author: hansonr
Date: 2014-11-27 05:02:09 +0000 (Thu, 27 Nov 2014)
Log Message:
-----------
Jmol.___JmolVersion="14.3.11_2014.11.27"
new feature: ZMatrixReader also serves as simple input file reader
for Q-Chem, Gaussian, Jaguar, MolPro, and ADF, as produced by NBO6Pro
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-11-27 05:01:33 UTC (rev 20142)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-11-27 05:02:09 UTC (rev 20143)
@@ -18,7 +18,7 @@
Jmol.___JmolVersion="14.3.11_2014.11.27"
new feature: ZMatrixReader also serves as simple input file reader
- for Q-Chem, Jaguar, MolPro, and ADF, as produced by NBO6Pro
+ for Q-Chem, Gaussian, Jaguar, MolPro, and ADF, as produced by NBO6Pro
JmolVersion="14.3.10_2014.11.27"
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From: <ha...@us...> - 2014-11-28 21:24:13
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Revision: 20149
http://sourceforge.net/p/jmol/code/20149
Author: hansonr
Date: 2014-11-28 21:24:05 +0000 (Fri, 28 Nov 2014)
Log Message:
-----------
Jmol.___JmolVersion="14.3.11_2014.11.28"
new feature: readers for ESS input types: CFILE, VFILE, MOPAC, NWChem, Gaussian, GAMESS, Orca, PQS
-- CFILE and VFILE require CFI:: and VFI:: (or C:: and V::)
-- MOPAC requires MND::
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-11-28 21:23:13 UTC (rev 20148)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-11-28 21:24:05 UTC (rev 20149)
@@ -18,7 +18,8 @@
Jmol.___JmolVersion="14.3.11_2014.11.28"
new feature: readers for ESS input types: CFILE, VFILE, MOPAC, NWChem, Gaussian, GAMESS, Orca, PQS
- -- CFILE and VFILE require CFI:: and VFI:: (or C:: and V::)
+ -- CFILE and VFILE require CFI:: and VFI:: (or C:: and V::)
+ -- MOPAC requires MND::
bug fix: dynamicMeasurements deprecated in 14.1.1 but
not left in as a valid token to allow use
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From: <ha...@us...> - 2014-12-02 13:02:54
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Revision: 20154
http://sourceforge.net/p/jmol/code/20154
Author: hansonr
Date: 2014-12-02 13:02:46 +0000 (Tue, 02 Dec 2014)
Log Message:
-----------
Jmol.___JmolVersion="14.3.11_2014.12.02"
bug fix: draw SYMOP fails for incommensurate space groups
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-12-02 13:02:07 UTC (rev 20153)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-12-02 13:02:46 UTC (rev 20154)
@@ -15,7 +15,7 @@
TODO: design and implement sidechain mutation -- MUTATE command ?
TODO: remove HTML5 dependency on synchronous file loading (check SCRIPT command for problems)
-Jmol.___JmolVersion="14.3.11_2014.12.01"
+Jmol.___JmolVersion="14.3.11_2014.12.02"
bug fix: draw SYMOP fails for incommensurate space groups
bug fix: incommensurate magnetic CIF reading does not apply magnetic spin operation to spin modulations
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From: <ha...@us...> - 2014-12-05 04:07:13
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Revision: 20157
http://sourceforge.net/p/jmol/code/20157
Author: hansonr
Date: 2014-12-05 04:07:05 +0000 (Fri, 05 Dec 2014)
Log Message:
-----------
Jmol.___JmolVersion="14.3.11_2014.12.04"
new feature: "....".split("",true) // CSV split of string to array of arrays
new feature: [...].split("",true) // CSV split of array to array of arrays
new feature: "...".split("\t",true) // tab split of string to array of arrays
new feature: [...].split("\t",true) // tab split of array to array of arrays
new feature: [...][...].join("",true) // CSV join to array of lines
new feature: [...][...].join("\t",true) // tab join to array of lines
-- example:
x = load("test.csv").split("",true) //from CSV
print x.join("",true) // back to CSV
print x.join("\t",true) // to tab-separated
new feature: [...][...].col(n)
-- extracts nth column from an array of arrays
-- example:
x = load("test.csv").split("",true).col(3) //3rd column from CSV
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-12-05 04:06:01 UTC (rev 20156)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2014-12-05 04:07:05 UTC (rev 20157)
@@ -15,6 +15,24 @@
TODO: design and implement sidechain mutation -- MUTATE command ?
TODO: remove HTML5 dependency on synchronous file loading (check SCRIPT command for problems)
+Jmol.___JmolVersion="14.3.11_2014.12.04"
+
+new feature: "....".split("",true) // CSV split of string to array of arrays
+new feature: [...].split("",true) // CSV split of array to array of arrays
+new feature: "...".split("\t",true) // tab split of string to array of arrays
+new feature: [...].split("\t",true) // tab split of array to array of arrays
+new feature: [...][...].join("",true) // CSV join to array of lines
+new feature: [...][...].join("\t",true) // tab join to array of lines
+ -- example:
+ x = load("test.csv").split("",true) //from CSV
+ print x.join("",true) // back to CSV
+ print x.join("\t",true) // to tab-separated
+new feature: [...][...].col(n)
+ -- extracts nth column from an array of arrays
+ -- example:
+ x = load("test.csv").split("",true).col(3) //3rd column from CSV
+
+
Jmol.___JmolVersion="14.3.11_2014.12.02"
bug fix: for (x in yUpperCase) fails
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From: <ha...@us...> - 2015-01-19 23:16:44
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Revision: 20205
http://sourceforge.net/p/jmol/code/20205
Author: hansonr
Date: 2015-01-19 23:16:42 +0000 (Mon, 19 Jan 2015)
Log Message:
-----------
Jmol.___JmolVersion="14.3.11_2015.01.19"
new feature: select :"X" where quotes are used now forces case sensitivity
bug fix: DIPOLE command broken in Jmol 14.3.10_2014.11.27 (OK in 14.2)
bug fix: for old PDB files with no chain ID, "select :" fails
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-19 23:16:10 UTC (rev 20204)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-19 23:16:42 UTC (rev 20205)
@@ -20,6 +20,9 @@
Jmol.___JmolVersion="14.3.11_2015.01.19"
new feature: select :"X" where quotes are used now forces case sensitivity
+
+bug fix: DIPOLE command broken in Jmol 14.3.10_2014.11.27 (OK in 14.2)
+
bug fix: for old PDB files with no chain ID, "select :" fails
JmolVersion="14.3.11_2015.01.18"
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From: <ha...@us...> - 2015-01-20 17:54:04
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Revision: 20208
http://sourceforge.net/p/jmol/code/20208
Author: hansonr
Date: 2015-01-20 17:53:57 +0000 (Tue, 20 Jan 2015)
Log Message:
-----------
Jmol.___JmolVersion="14.3.11_2015.01.19"
bug fix: Languages lost in Jmol Application
new feature: select :"X" where quotes are used now forces case sensitivity
bug fix: DIPOLE command broken in Jmol 14.3.10_2014.11.27 (OK in 14.2)
bug fix: for old PDB files with no chain ID, "select :" fails
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-20 17:32:23 UTC (rev 20207)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-20 17:53:57 UTC (rev 20208)
@@ -19,6 +19,8 @@
Jmol.___JmolVersion="14.3.11_2015.01.19"
+bug fix: Languages lost in Jmol Application
+
new feature: select :"X" where quotes are used now forces case sensitivity
bug fix: DIPOLE command broken in Jmol 14.3.10_2014.11.27 (OK in 14.2)
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From: <ha...@us...> - 2015-01-20 17:59:24
|
Revision: 20209
http://sourceforge.net/p/jmol/code/20209
Author: hansonr
Date: 2015-01-20 17:59:17 +0000 (Tue, 20 Jan 2015)
Log Message:
-----------
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-20 17:53:57 UTC (rev 20208)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-20 17:59:17 UTC (rev 20209)
@@ -17,7 +17,7 @@
TODO: add 2D graphics panel for Ramachandran and NBO-style 2D graphics -- send to browser as data uri?
-Jmol.___JmolVersion="14.3.11_2015.01.19"
+Jmol.___JmolVersion="14.3.11_2015.01.20"
bug fix: Languages lost in Jmol Application
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From: <ha...@us...> - 2015-01-21 12:50:01
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Revision: 20217
http://sourceforge.net/p/jmol/code/20217
Author: hansonr
Date: 2015-01-21 12:49:55 +0000 (Wed, 21 Jan 2015)
Log Message:
-----------
isosurface "capping" not "caching"
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-20 19:01:46 UTC (rev 20216)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-21 12:49:55 UTC (rev 20217)
@@ -54,7 +54,7 @@
bug fix: JSpecView -- version/date not appearing in menu
bug fix: GIF images bleed into background.
bug fix: GIF writing of xxx.gif (three character name) broken.
-bug fix: proper isosurface caching. Test code:
+bug fix: proper isosurface capping. Test code:
function test(i) {
set echo top left
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From: <ha...@us...> - 2015-01-22 22:43:08
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Revision: 20233
http://sourceforge.net/p/jmol/code/20233
Author: hansonr
Date: 2015-01-22 22:43:01 +0000 (Thu, 22 Jan 2015)
Log Message:
-----------
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-22 22:41:59 UTC (rev 20232)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-22 22:43:01 UTC (rev 20233)
@@ -28,7 +28,7 @@
code: adding org.jmol.g3d.PixelatorScreened, PixelatorT
-Jmol.___JmolVersion="14.3.12_2015.01.21"
+JmolVersion="14.3.12_2015.01.21"
new feature: load =cod/1000041 loads Crystallographic Open Database CIF files
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From: <ha...@us...> - 2015-01-27 14:10:17
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Revision: 20245
http://sourceforge.net/p/jmol/code/20245
Author: hansonr
Date: 2015-01-27 14:10:09 +0000 (Tue, 27 Jan 2015)
Log Message:
-----------
Jmol.___JmolVersion="14.3.12_2015.01.26"
new feature: frame [1 3 5 6]
-- sets limited number of frames for animation and frame *
-- same as animation frame [1 3 5 6]; frame *
bug fix: @3 for "atomno=3" should not extend to models that are not part of the current model set
-- commonly used for shortcut at the console
-- provides a function distinct from "atomno=3"
new feature: CGO PostScript option
-- CGO [ PS @origin @x @y ] data "PS"
[primitive encapsulated postscript data]
end "PS"
-- maps 2D EPS data onto a plane defined by an origin point, an x-axis point, and a y-axis point.
-- somewhat similar to UV mapping of textures in other programs
-- allows 2D data to be superimposed on a model.
-- used for NBO contour mapping
-- uses (requires) %%BoundingBox x0 y0 x1 y1 prolog record
to map [x0 y0] to @origin, [x1 0] to @x, and [0 y1] to @y
-- does not currently implement PS fill option, just moveto, lineto, newpath, closepath, setlinewidth
-- a crude implementation still in development
CGO[ PS @{point(-5,-5,0)} @{point(5,-5,0)} @{point(-5,5,0)}] data "PS"
%!PS-Adobe-2.0 EPSF-1.2
%%Creator: Bob Hanson (from NBO)
%%Title: nbo orbital slice
%%CreationDate: 1/26/2015 5:36 AM
%%DocumentFonts: Helvetica
%%BoundingBox: 211 300 428 518
%% note: above numbers are from 0.24*881 0.24*1781 0.24*1256 0.24*2156
%%EndComments
%%EndProlog
0.2400 0.2400 scale
newpath
3 setlinewidth
newpath
881 1256 moveto
1781 1256 lineto
1781 2156 lineto
881 2156 lineto
closepath
stroke
1241 1717 moveto
1250 1713 lineto
...
stroke
%%Trailer
showpage
end "PS"
new feature: CGO SCREEN option
-- CGO [SCREEN z ...]
-- reads CGO 2D VERTEX records as screen coordinates, installing them at a depth of z
-- z > 0 percent back to front; screen coordinates are percentage of width and height
-- z < 0 absolute z as -z; screen coordinates are absolute and do not scale with resizing
-- example: a static border 20% from the back of the model
cgo test2 [ SCREEN 20
BEGIN LINE_LOOP
VERTEX 10 10
VERTEX 90 10
VERTEX 90 90
VERTEX 10 90
END
]
new feature: CGO UVMAP option
-- CGO [UVMAP @origin @x @y x0 y0 x1 y1 scaleX scaleY ...]
-- 2D VERTEX records are scaled and mapped to a plane defined by @origin @x @y
-- example: a parallelogram based on atoms 1, 6, and 11
cgo test1a [ UVMAP @1 @6 @11 0 0 80 80 1 1
BEGIN LINE_LOOP
VERTEX 0 0
VERTEX 80 0
VERTEX 80 80
VERTEX 0 80
END
]
bug fix: CGO LINE_LOOP not closing
bug fix: configuration 1 broken
bug fix: display configuration=1 broken (in Jmol 12.0, 2011)
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-27 13:49:18 UTC (rev 20244)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-27 14:10:09 UTC (rev 20245)
@@ -28,7 +28,76 @@
-- provides a function distinct from "atomno=3"
new feature: CGO PostScript option
+ -- CGO [ PS @origin @x @y ] data "PS"
+ [primitive encapsulated postscript data]
+ end "PS"
+ -- maps 2D EPS data onto a plane defined by an origin point, an x-axis point, and a y-axis point.
+ -- somewhat similar to UV mapping of textures in other programs
+ -- allows 2D data to be superimposed on a model.
+ -- used for NBO contour mapping
+ -- uses (requires) %%BoundingBox x0 y0 x1 y1 prolog record
+ to map [x0 y0] to @origin, [x1 0] to @x, and [0 y1] to @y
+ -- does not currently implement PS fill option, just moveto, lineto, newpath, closepath, setlinewidth
+ -- a crude implementation still in development
+
+CGO[ PS @{point(-5,-5,0)} @{point(5,-5,0)} @{point(-5,5,0)}] data "PS"
+%!PS-Adobe-2.0 EPSF-1.2
+%%Creator: Bob Hanson (from NBO)
+%%Title: nbo orbital slice
+%%CreationDate: 1/26/2015 5:36 AM
+%%DocumentFonts: Helvetica
+%%BoundingBox: 211 300 428 518
+%% note: above numbers are from 0.24*881 0.24*1781 0.24*1256 0.24*2156
+%%EndComments
+%%EndProlog
+ 0.2400 0.2400 scale
+ newpath
+ 3 setlinewidth
+ newpath
+ 881 1256 moveto
+ 1781 1256 lineto
+ 1781 2156 lineto
+ 881 2156 lineto
+ closepath
+ stroke
+ 1241 1717 moveto
+ 1250 1713 lineto
+...
+ stroke
+%%Trailer
+showpage
+end "PS"
+new feature: CGO SCREEN option
+ -- CGO [SCREEN z ...]
+ -- reads CGO 2D VERTEX records as screen coordinates, installing them at a depth of z
+ -- z > 0 percent back to front; screen coordinates are percentage of width and height
+ -- z < 0 absolute z as -z; screen coordinates are absolute and do not scale with resizing
+ -- example: a static border 20% from the back of the model
+
+cgo test2 [ SCREEN 20
+ BEGIN LINE_LOOP
+ VERTEX 10 10
+ VERTEX 90 10
+ VERTEX 90 90
+ VERTEX 10 90
+ END
+]
+
+new feature: CGO UVMAP option
+ -- CGO [UVMAP @origin @x @y x0 y0 x1 y1 scaleX scaleY ...]
+ -- 2D VERTEX records are scaled and mapped to a plane defined by @origin @x @y
+ -- example: a parallelogram based on atoms 1, 6, and 11
+
+cgo test1a [ UVMAP @1 @6 @11 0 0 80 80 1 1
+ BEGIN LINE_LOOP
+ VERTEX 0 0
+ VERTEX 80 0
+ VERTEX 80 80
+ VERTEX 0 80
+ END
+]
+
bug fix: CGO LINE_LOOP not closing
bug fix: configuration 1 broken
bug fix: display configuration=1 broken (in Jmol 12.0, 2011)
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From: <ha...@us...> - 2015-01-27 14:18:00
|
Revision: 20246
http://sourceforge.net/p/jmol/code/20246
Author: hansonr
Date: 2015-01-27 14:17:53 +0000 (Tue, 27 Jan 2015)
Log Message:
-----------
Jmol.___JmolVersion="14.3.12_2015.01.26"
new feature: frame [1 3 5 6]
-- sets limited number of frames for animation and frame *
-- same as animation frame [1 3 5 6]; frame *
bug fix: @3 for "atomno=3" should not extend to models that are not part of the current model set
-- commonly used for shortcut at the console
-- provides a function distinct from "atomno=3"
new feature: CGO SCREEN option
-- CGO [SCREEN z ...]
-- reads CGO 2D VERTEX records as screen coordinates, installing them at a depth of z
- where z > 0 indicates a percent (0.01 far back; 100 front)
- z < 0 indicates an absolute screen z value as -z.
- uses 2D VERTEX and other CGO point elements, not 3D
-- example: a static border 20% from the back of the model
cgo test2 [ SCREEN 20
BEGIN LINE_LOOP
VERTEX 10 10
VERTEX 90 10
VERTEX 90 90
VERTEX 10 90
END
]
new feature: CGO UVMAP option
-- CGO [UVMAP @origin @x @y x0 y0 x1 y1 scaleX scaleY ...]
-- 2D VERTEX records are scaled and mapped to a plane defined by @origin @x @y
-- example: a parallelogram based on atoms 1, 6, and 11
cgo test1a [ UVMAP @1 @6 @11 0 0 80 80 1 1
BEGIN LINE_LOOP
VERTEX 0 0
VERTEX 80 0
VERTEX 80 80
VERTEX 0 80
END
]
new feature: CGO PostScript option
-- CGO [ PS @origin @x @y ] data "PS" [primitive encapsulated postscript data] end "PS"
-- maps 2D EPS data onto a plane defined by an origin point, an x-axis point, and a y-axis point.
-- somewhat similar to UV mapping of textures in other programs
-- allows 2D data to be superimposed on a model.
-- a crude implementation still in development; doesn't properly implement stroke;
-- just for drawing lines; does not implement PS fill, gsave, grestore
-- just moveto, lineto, newpath, closepath, setlinewidth, scale
-- uses %%BoundingBox x0 y0 x1 y1 prolog record
to map [x0 y0] to @origin, [x1 0] to @x, and [0 y1] to @y
-- used for NBO contour mapping
CGO[ PS @{point(-5,-5,0)} @{point(5,-5,0)} @{point(-5,5,0)] data "PS"
%!PS-Adobe-2.0 EPSF-1.2
%%Creator: Bob Hanson (from NBO)
%%Title: nbo orbital slice
%%CreationDate: 1/26/2015 5:36 AM
%%DocumentFonts: Helvetica
%%BoundingBox: 211 300 428 518
%% note: above numbers are from 0.24*881 0.24*1781 0.24*1256 0.24*2156
%%EndComments
%%EndProlog
0.2400 0.2400 scale
newpath
3 setlinewidth
newpath
881 1256 moveto
1781 1256 lineto
1781 2156 lineto
881 2156 lineto
closepath
stroke
1241 1717 moveto
1250 1713 lineto
...
stroke
%%Trailer
showpage
end "PS"
bug fix: CGO LINE_LOOP not closing
bug fix: configuration 1 broken
bug fix: display configuration=1 broken (in Jmol 12.0, 2011)
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-27 14:10:09 UTC (rev 20245)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-27 14:17:53 UTC (rev 20246)
@@ -27,20 +27,50 @@
-- commonly used for shortcut at the console
-- provides a function distinct from "atomno=3"
+new feature: CGO SCREEN option
+ -- CGO [SCREEN z ...]
+ -- reads CGO 2D VERTEX records as screen coordinates, installing them at a depth of z
+ - where z > 0 indicates a percent (0.01 far back; 100 front)
+ - z < 0 indicates an absolute screen z value as -z.
+ - uses 2D VERTEX and other CGO point elements, not 3D
+ -- example: a static border 20% from the back of the model
+
+cgo test2 [ SCREEN 20
+ BEGIN LINE_LOOP
+ VERTEX 10 10
+ VERTEX 90 10
+ VERTEX 90 90
+ VERTEX 10 90
+ END
+]
+
+new feature: CGO UVMAP option
+ -- CGO [UVMAP @origin @x @y x0 y0 x1 y1 scaleX scaleY ...]
+ -- 2D VERTEX records are scaled and mapped to a plane defined by @origin @x @y
+ -- example: a parallelogram based on atoms 1, 6, and 11
+
+cgo test1a [ UVMAP @1 @6 @11 0 0 80 80 1 1
+ BEGIN LINE_LOOP
+ VERTEX 0 0
+ VERTEX 80 0
+ VERTEX 80 80
+ VERTEX 0 80
+ END
+]
+
new feature: CGO PostScript option
- -- CGO [ PS @origin @x @y ] data "PS"
- [primitive encapsulated postscript data]
- end "PS"
+ -- CGO [ PS @origin @x @y ] data "PS" [primitive encapsulated postscript data] end "PS"
-- maps 2D EPS data onto a plane defined by an origin point, an x-axis point, and a y-axis point.
-- somewhat similar to UV mapping of textures in other programs
-- allows 2D data to be superimposed on a model.
+ -- a crude implementation still in development; doesn't properly implement stroke;
+ -- just for drawing lines; does not implement PS fill, gsave, grestore
+ -- just moveto, lineto, newpath, closepath, setlinewidth, scale
+ -- uses %%BoundingBox x0 y0 x1 y1 prolog record
+ to map [x0 y0] to @origin, [x1 0] to @x, and [0 y1] to @y
-- used for NBO contour mapping
- -- uses (requires) %%BoundingBox x0 y0 x1 y1 prolog record
- to map [x0 y0] to @origin, [x1 0] to @x, and [0 y1] to @y
- -- does not currently implement PS fill option, just moveto, lineto, newpath, closepath, setlinewidth
- -- a crude implementation still in development
-CGO[ PS @{point(-5,-5,0)} @{point(5,-5,0)} @{point(-5,5,0)}] data "PS"
+CGO[ PS @{point(-5,-5,0)} @{point(5,-5,0)} @{point(-5,5,0)] data "PS"
%!PS-Adobe-2.0 EPSF-1.2
%%Creator: Bob Hanson (from NBO)
%%Title: nbo orbital slice
@@ -68,57 +98,12 @@
showpage
end "PS"
-new feature: CGO SCREEN option
- -- CGO [SCREEN z ...]
- -- reads CGO 2D VERTEX records as screen coordinates, installing them at a depth of z
- -- z > 0 percent back to front; screen coordinates are percentage of width and height
- -- z < 0 absolute z as -z; screen coordinates are absolute and do not scale with resizing
- -- example: a static border 20% from the back of the model
-
-cgo test2 [ SCREEN 20
- BEGIN LINE_LOOP
- VERTEX 10 10
- VERTEX 90 10
- VERTEX 90 90
- VERTEX 10 90
- END
-]
-
-new feature: CGO UVMAP option
- -- CGO [UVMAP @origin @x @y x0 y0 x1 y1 scaleX scaleY ...]
- -- 2D VERTEX records are scaled and mapped to a plane defined by @origin @x @y
- -- example: a parallelogram based on atoms 1, 6, and 11
-
-cgo test1a [ UVMAP @1 @6 @11 0 0 80 80 1 1
- BEGIN LINE_LOOP
- VERTEX 0 0
- VERTEX 80 0
- VERTEX 80 80
- VERTEX 0 80
- END
-]
-
bug fix: CGO LINE_LOOP not closing
bug fix: configuration 1 broken
bug fix: display configuration=1 broken (in Jmol 12.0, 2011)
JmolVersion="14.3.12_2015.01.25"
-new feature: CGO screen coordinates drawing
- - SCREEN z
- - where z > 0 indicates a percent (0.01 far back; 100 front)
- - z < 0 indicates an absolute screen z value as -z.
- - VERTEX and other CGO point elements will be two coordinates, not three
-
-cgo test1a [ SCREEN 50
- BEGIN LINES
- VERTEX 40 30 VERTEX 40 50
- VERTEX 40 50 VERTEX 60 50
- END
-]
-
-JmolVersion="14.3.12_2015.01.25"
-
bug fix: image echos broken
JmolVersion="14.3.12_2015.01.24"
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|
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From: <ha...@us...> - 2015-01-28 17:05:43
|
Revision: 20253
http://sourceforge.net/p/jmol/code/20253
Author: hansonr
Date: 2015-01-28 17:05:36 +0000 (Wed, 28 Jan 2015)
Log Message:
-----------
Jmol.___JmolVersion="14.3.12_2015.01.28"
new feature: MUTATE command
-- replaces one amino acid group with another
-- can read from RCSB or from user-specified file
-- examples:
mutate 33 lys // uses last occurrence of resno=33
mutate @@3 arg // replaces group of atom 3 in current model
mutate @r @fname // replaces resno in variable r with file data (use "==XXX" for RCSB)
mutate {r} his // same as above; r must be an atom selection
mutate 22 "myfile.cif" // user-defined replacement
bug fix: write "t.pdb" now correctly sequences groups and atoms, even after mutation
new feature: resno is user settable
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-28 17:04:11 UTC (rev 20252)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-28 17:05:36 UTC (rev 20253)
@@ -23,7 +23,7 @@
-- examples:
mutate 33 lys // uses last occurrence of resno=33
mutate @@3 arg // replaces group of atom 3 in current model
- mutate @r @g // replaces resno in variable r with group in variable g
+ mutate @r @fname // replaces resno in variable r with file data (use "==XXX" for RCSB)
mutate {r} his // same as above; r must be an atom selection
mutate 22 "myfile.cif" // user-defined replacement
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|
|
From: <ha...@us...> - 2015-01-28 17:09:33
|
Revision: 20254
http://sourceforge.net/p/jmol/code/20254
Author: hansonr
Date: 2015-01-28 17:09:26 +0000 (Wed, 28 Jan 2015)
Log Message:
-----------
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-28 17:05:36 UTC (rev 20253)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-28 17:09:26 UTC (rev 20254)
@@ -18,6 +18,7 @@
Jmol.___JmolVersion="14.3.12_2015.01.28"
new feature: MUTATE command
+ -- operates only on last model present if multiple models are loaded
-- replaces one amino acid group with another
-- can read from RCSB or from user-specified file
-- examples:
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|
|
From: <ha...@us...> - 2015-01-30 16:02:20
|
Revision: 20262
http://sourceforge.net/p/jmol/code/20262
Author: hansonr
Date: 2015-01-30 16:02:08 +0000 (Fri, 30 Jan 2015)
Log Message:
-----------
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-30 15:56:30 UTC (rev 20261)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-01-30 16:02:08 UTC (rev 20262)
@@ -37,7 +37,7 @@
bug fix: code fixes relating to calculate structure in 01.29
-Jmol.___JmolVersion="14.3.12_2015.01.29"
+JmolVersion="14.3.12_2015.01.29"
bug fix: 01.28 version does not write correct PDB CONECT records
bug fix: 01.22 version may not correctly clear rasmol hydrogen bonds in trajectories
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|
|
From: <ha...@us...> - 2015-02-18 05:14:54
|
Revision: 20303
http://sourceforge.net/p/jmol/code/20303
Author: hansonr
Date: 2015-02-18 05:14:51 +0000 (Wed, 18 Feb 2015)
Log Message:
-----------
Jmol.___JmolVersion="14.3.12_2015.02.18"
bug fix: load filter "biomolecule 1" broken in 14.3.12_2015.02.14
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-18 05:09:25 UTC (rev 20302)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-18 05:14:51 UTC (rev 20303)
@@ -15,8 +15,12 @@
TODO: remove HTML5 dependency on synchronous file loading (check SCRIPT command for problems)
TODO: add 2D graphics panel for Ramachandran and NBO-style 2D graphics -- send to browser as data uri?
-Jmol.___JmolVersion="14.2.12_2015.02.17b"
+Jmol.___JmolVersion="14.3.12_2015.02.18"
+bug fix: load filter "biomolecule 1" broken in 14.3.12_2015.02.14
+
+JmolVersion="14.3.12_2015.02.17b"
+
bug fix: writing to PNGJ data to .ZIP file should create a standard ZIP file.
-- especially useful now that some zip readers will not open PNGJ files as zip files
(with newer 7zip you can right-click file, then select 7zip...open archive...zip)
@@ -27,7 +31,7 @@
bug fix: VASP POSCAR fix for atom symbols in header line
-JmolVersion="14.2.12_2015.02.17"
+JmolVersion="14.3.12_2015.02.17"
new feature: set zshadePower 0
-- allows examination of depth buffer and writing to image for external processing
@@ -40,7 +44,7 @@
set zShade false
write rgb.jpg
-JmolVersion="14.2.12_2015.02.16"
+JmolVersion="14.3.12_2015.02.16"
new feature: x.dot(y) for planes and points -- was present but undocumented and not working correctly
new feature: (undocumented) x.distance.all(y)
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|
|
From: <ha...@us...> - 2015-02-18 22:57:09
|
Revision: 20306
http://sourceforge.net/p/jmol/code/20306
Author: hansonr
Date: 2015-02-18 22:57:06 +0000 (Wed, 18 Feb 2015)
Log Message:
-----------
Jmol.___JmolVersion="14.2.12_2015.02.18b"
bug fix: CML reader does not show proper atom names for crystal structures
bug fix: POV-Ray renderer does not show proper backbone width (since forever)
bug fix: POV-Ray renderer with a translucent surface shows bonds that should be hidden (since 13.1)
bug fix: unitcell info for PDB file biomolecule does not show "biomolecule 1"
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-18 22:56:05 UTC (rev 20305)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-18 22:57:06 UTC (rev 20306)
@@ -21,6 +21,7 @@
bug fix: POV-Ray renderer does not show proper backbone width (since forever)
bug fix: POV-Ray renderer with a translucent surface shows bonds that should be hidden (since 13.1)
bug fix: unitcell info for PDB file biomolecule does not show "biomolecule 1"
+
JmolVersion="14.3.12_2015.02.18"
bug fix: load filter "biomolecule 1" broken in 14.3.12_2015.02.14
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|
|
From: <ha...@us...> - 2015-02-25 04:08:55
|
Revision: 20326
http://sourceforge.net/p/jmol/code/20326
Author: hansonr
Date: 2015-02-25 04:08:47 +0000 (Wed, 25 Feb 2015)
Log Message:
-----------
Jmol.___JmolVersion="14.3.12_2015.02.24"
new feature: show IMAGE
-- pops up a frame with the current image
-- allows "Save As..."
new feature: show IMAGE "filename"
-- pops up a frame with the image loaded from a file
-- allows "Save As..."
new feature: show image 300 400 # adjustable size
new feature: show image none # closes all image panels
new feature: show image CLOSE # "all" presumed
new feature: show image CLOSE "" # the model image
new feature: show image CLOSE "c:/temp/t.bmp" # the image for this file
new feature: write IMAGE
-- same as SHOW IMAGE
new feature: write IMAGE 500 500
-- same as SHOW IMAGE 500 500; allows customization of width and height
new feature: Windows BMP image reading
-- reads 24-bit (full color) as well as 16-, 8-, 4-, 2-, and 1-bit color palette modes
-- 14-byte and 40-byte headers only
-- does not read compressed modes
bug fix: restriction against getting SMILES string for biomolecule lifted
bug fix: end-on bonds may appear to disappear
bug fix: JavaScript -2.format("%8.3") gives 2.000 not -2.000
bug fix: minimizer treats hydrogen bonds as covalent single bonds
code: javajs.img.bMPDecoder
code: org.openscience.jmol.app.jmolpanel.ImageDialog
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-25 04:04:01 UTC (rev 20325)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-25 04:08:47 UTC (rev 20326)
@@ -16,57 +16,43 @@
Jmol.___JmolVersion="14.3.12_2015.02.24"
+new feature: show IMAGE
+ -- pops up a frame with the current image
+ -- allows "Save As..."
+
+new feature: show IMAGE "filename"
+ -- pops up a frame with the image loaded from a file
+ -- allows "Save As..."
+
new feature: show image 300 400 # adjustable size
new feature: show image none # closes all image panels
-new feature: JavaScript implementation of SHOW IMAGE
-
-JmolVersion="14.3.12_2015.02.23"
-
new feature: show image CLOSE # "all" presumed
new feature: show image CLOSE "" # the model image
new feature: show image CLOSE "c:/temp/t.bmp" # the image for this file
-JmolVersion="14.3.12_2015.02.22d"
-bug fix: restriction against getting SMILES string for biomolecule lifted
-bug fix: end-on bonds may appear to disappear
-bug fix: JavaScript -2.format("%8.3") gives 2.000 not -2.000
-
-JmolVersion="14.3.12_2015.02.22"
-
-bug fix: minimizer treats hydrogen bonds as covalent single bonds
-
+new feature: write IMAGE
+ -- same as SHOW IMAGE
+
+new feature: write IMAGE 500 500
+ -- same as SHOW IMAGE 500 500; allows customization of width and height
+
new feature: Windows BMP image reading
-- reads 24-bit (full color) as well as 16-, 8-, 4-, 2-, and 1-bit color palette modes
-- 14-byte and 40-byte headers only
-- does not read compressed modes
-new feature: (application only) show IMAGE
- -- pops up a frame with the current image
- -- allows "Save As..."
-
-new feature: (application only) show IMAGE "filename"
- -- pops up a frame with the image loaded from a file
- -- allows "Save As..."
+bug fix: restriction against getting SMILES string for biomolecule lifted
+bug fix: end-on bonds may appear to disappear
+bug fix: JavaScript -2.format("%8.3") gives 2.000 not -2.000
-new feature: (application only) show IMAGE NONE
- -- closes all image windows
+bug fix: minimizer treats hydrogen bonds as covalent single bonds
-new feature: (application only) write IMAGE
- -- same as SHOW IMAGE
-
-new feature: (application only) write IMAGE 500 500
- -- similar to SHOW IMAGE; allows customization of width and height
-
code: javajs.img.bMPDecoder
code: org.openscience.jmol.app.jmolpanel.ImageDialog
JmolVersion="14.3.12_2015.02.19"
-bug fix: "write image 500 500 png ?" broken
-
-JmolVersion="14.3.12_2015.02.18b"
-
bug fix: CML reader does not show proper atom names for crystal structures
bug fix: POV-Ray renderer does not show proper backbone width (since forever)
bug fix: POV-Ray renderer with a translucent surface shows bonds that should be hidden (since 13.1)
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|
|
From: <ha...@us...> - 2015-02-25 04:41:25
|
Revision: 20328
http://sourceforge.net/p/jmol/code/20328
Author: hansonr
Date: 2015-02-25 04:41:22 +0000 (Wed, 25 Feb 2015)
Log Message:
-----------
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-25 04:40:52 UTC (rev 20327)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-25 04:41:22 UTC (rev 20328)
@@ -19,7 +19,7 @@
new feature: show chemical drawing
new feature: show drawing
-- pops up window with drawing of model
- -- somewhat limited in scop and size, as it uses SMILES
+ -- somewhat limited in scope and size, as it uses SMILES
JmolVersion="14.3.12_2015.02.24"
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|
|
From: <ha...@us...> - 2015-02-25 19:57:04
|
Revision: 20333
http://sourceforge.net/p/jmol/code/20333
Author: hansonr
Date: 2015-02-25 19:57:02 +0000 (Wed, 25 Feb 2015)
Log Message:
-----------
Jmol.___JmolVersion="14.3.12_2015.02.25c"
new feature: random(low,high,seed)
-- provides a new seed for the random() function
-- seed may be any 48-bit integer.
-- x = random(0.0,1.0,121231223)
-- low and high are simply placeholders
-- does return the first number from this seed
-- note that Java and JavaScript will have DIFFERENT seedings
-- utilizes https://github.com/davidbau/seedrandom/blob/released/seedrandom.js
(appended to java.util.Random.js)
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-25 18:38:17 UTC (rev 20332)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-25 19:57:02 UTC (rev 20333)
@@ -14,7 +14,7 @@
TODO: remove HTML5 dependency on synchronous file loading (check SCRIPT command for problems)
-Jmol.___JmolVersion="14.3.12_2015.02.25b"
+Jmol.___JmolVersion="14.3.12_2015.02.25c"
new feature: random(low,high,seed)
-- provides a new seed for the random() function
@@ -22,6 +22,9 @@
-- x = random(0.0,1.0,121231223)
-- low and high are simply placeholders
-- does return the first number from this seed
+ -- note that Java and JavaScript will have DIFFERENT seedings
+ -- utilizes https://github.com/davidbau/seedrandom/blob/released/seedrandom.js
+ (appended to java.util.Random.js)
JmolVersion="14.3.12_2015.02.25"
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|
|
From: <ha...@us...> - 2015-02-25 19:57:40
|
Revision: 20334
http://sourceforge.net/p/jmol/code/20334
Author: hansonr
Date: 2015-02-25 19:57:36 +0000 (Wed, 25 Feb 2015)
Log Message:
-----------
Jmol.___JmolVersion="14.3.12_2015.02.25b"
new feature: random(low,high,seed)
-- provides a new seed for the random() function
-- seed may be any 48-bit integer.
-- x = random(0.0,1.0,121231223)
-- low and high are simply placeholders
-- does return the first number from this seed
-- note that Java and JavaScript will have DIFFERENT seedings
-- utilizes https://github.com/davidbau/seedrandom/blob/released/seedrandom.js
(appended to java.util.Random.js)
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-25 19:57:02 UTC (rev 20333)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-25 19:57:36 UTC (rev 20334)
@@ -14,7 +14,7 @@
TODO: remove HTML5 dependency on synchronous file loading (check SCRIPT command for problems)
-Jmol.___JmolVersion="14.3.12_2015.02.25c"
+Jmol.___JmolVersion="14.3.12_2015.02.25b"
new feature: random(low,high,seed)
-- provides a new seed for the random() function
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|
From: <ha...@us...> - 2015-03-01 13:13:27
|
Revision: 20348
http://sourceforge.net/p/jmol/code/20348
Author: hansonr
Date: 2015-03-01 13:13:24 +0000 (Sun, 01 Mar 2015)
Log Message:
-----------
Jmol.___JmolVersion="14.3.12_2015.03.01"
bug fix: late discovery of mmCIF format does not load secondary structure
bug fix: reading PNGJ file saved after load with /dssr or /rna3d annotations ignores annotations
bug fix: {*}.find("~d~G:C") broken (find with bioSMARTS)
new feature: image # the current view as an image
new feature: image 300 400 # adjustable size
new feature: image "c:/temp/t.bmp" # image from a file
new feature: image "" close # close the current view image
new feature: image "c:/temp/t.bmp" close # close image from a file
new feature: image CLOSE # close all
new feature: image ID ...
-- id for IMAGE CLOSE;
-- displayed in title of frame
-- examples:
image ID "test"
image ID "test" 400 500
image ID "test" "bob.png"
image ID "test" close
new feature: write IMAGE
-- same as IMAGE
new feature: write IMAGE 500 500
-- same as IMAGE 500 500
new feature: (JavaScript/HTML5; see JSmol_Console.java)
// page designer may indicate one of three divs for images on the page:
// <appletID>_Image_app_holder for IMAGE command by itself (current app image)
// <appletID>_Image_<cleaned id or filename>_holder for IMAGE ID "xxx" ... or IMAGE "xxx"
// where cleaning is with .replace(/\W/g,"_")
// <appletID>_Image_holder for all images not identified as above
// if a page div is not identified, then the image will be placed in a new floating div
note: experimental SHOW IMAGE now replaced by new command IMAGE
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-02-28 23:10:50 UTC (rev 20347)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-03-01 13:13:24 UTC (rev 20348)
@@ -14,14 +14,12 @@
TODO: remove HTML5 dependency on synchronous file loading (check SCRIPT command for problems)
-Jmol.___JmolVersion="14.3.12_2015.02.28"
+Jmol.___JmolVersion="14.3.12_2015.03.01"
bug fix: late discovery of mmCIF format does not load secondary structure
bug fix: reading PNGJ file saved after load with /dssr or /rna3d annotations ignores annotations
bug fix: {*}.find("~d~G:C") broken (find with bioSMARTS)
-note: show image replaced by new command IMAGE
-
new feature: image # the current view as an image
new feature: image 300 400 # adjustable size
new feature: image "c:/temp/t.bmp" # image from a file
@@ -40,14 +38,22 @@
image ID "test" "bob.png"
image ID "test" close
-
new feature: write IMAGE
-- same as IMAGE
new feature: write IMAGE 500 500
-- same as IMAGE 500 500
+new feature: (JavaScript/HTML5; see JSmol_Console.java)
+ // page designer may indicate one of three divs for images on the page:
+ // <appletID>_Image_app_holder for IMAGE command by itself (current app image)
+ // <appletID>_Image_<cleaned id or filename>_holder for IMAGE ID "xxx" ... or IMAGE "xxx"
+ // where cleaning is with .replace(/\W/g,"_")
+ // <appletID>_Image_holder for all images not identified as above
+ // if a page div is not identified, then the image will be placed in a new floating div
+
+note: experimental SHOW IMAGE now replaced by new command IMAGE
JmolVersion="14.3.12_2015.02.26"
@@ -97,7 +103,6 @@
new feature: show image CLOSE "" # the model image
new feature: show image CLOSE "c:/temp/t.bmp" # the image for this file
-
new feature: write IMAGE
-- same as SHOW IMAGE
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From: <ha...@us...> - 2015-03-09 19:40:48
|
Revision: 20374
http://sourceforge.net/p/jmol/code/20374
Author: hansonr
Date: 2015-03-09 19:40:45 +0000 (Mon, 09 Mar 2015)
Log Message:
-----------
Modified Paths:
--------------
trunk/Jmol/src/org/jmol/viewer/Jmol.properties
Modified: trunk/Jmol/src/org/jmol/viewer/Jmol.properties
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-03-09 19:38:50 UTC (rev 20373)
+++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2015-03-09 19:40:45 UTC (rev 20374)
@@ -1,5 +1,5 @@
Jmol.___JmolDate="$Date$"
-Jmol.___fullJmolProperties="src/org/jmol/viewer/J mol.properties"
+Jmol.___fullJmolProperties="src/org/jmol/viewer/Jmol.properties"
# THIS IS THE DEVELOPMENT TRUNK
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