From: <ha...@us...> - 2013-09-27 22:08:45
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Revision: 18725 http://sourceforge.net/p/jmol/code/18725 Author: hansonr Date: 2013-09-27 22:08:42 +0000 (Fri, 27 Sep 2013) Log Message: ----------- ___JmolVersion="13.3.6" JmolVersion="13.3.5_dev_2013.09.27" new feature: adds remote logging for applet and app via http:// and via function for applet using jmolApplet0._applet.viewer.setLogfile(function(data) {......}) new feature compare {1.1} {2.1} BONDS "smiles" -- does flexible fit based on dihedrals. -- does internal rotation even if ROTATION TRANSLATION are not given (considered a possible bug) -- concatenation of: list = compare({1.1},{2.1},"smiles","BONDS") rotate branch @list 1 compare {1.1} {2.1} SMARTS "smiles" rotate translate so, for example: load files "$tyrosine" "$lysergamide" select 1.1; color bonds red select 2.1; color bonds yellow sm = "c1ccccc1CCN" compare {1.1} {2.1} BONDS @sm rotate translate new feature: show BEST ROTATION / show BEST VOLUME (better than undocumented show rotation best, show rotation volume) new feature: set animationMode "ONCE" "LOOP" "PALINDROME" new feature: show animationMode; x = animationMode new feature: CAPTURE command, including ROCK and SPIN -- application and signed applet only (no JS) -- creates animated GIF -- uses ANIMATION FPS to determine play-back rate. CAPTURE "filename" -- starts capturing -- uses ANIMATION MODE to determine looping -- both PALINDROME and LOOP create looping; ONCE (default) does not CAPTURE "filename" ROCK x|y|z degrees -- does a clean rocking of the molecule about one of the three major axes -- axis and degrees optional; y 5 assumed -- based on: rotate Y 10 10;delay 2.0; rotate Y -10 -10; delay 2.0;rotate Y -10 -10; delay 2.0;rotate Y 10 10;delay 2.0 -- uses LOOP mode CAPTURE "filename" SPIN x|y|z -- does a full spin of the molecule about one of the three major axes -- axis optional; y assumed -- based on: rotate Y 360 30;delay 15.0; -- uses LOOP mode CAPTURE off/on -- temporarily disables/enables capturing CAPTURE "" or just CAPTURE -- end capturing new feature: set drawFontSize // defaults to 14.0 FEATURE CHANGE: added bindings: "drag" and "up" -- may affect power users who use BIND command new: _center CTRL+SHIFT+LEFT+click new: _reset SHIFT+LEFT+double+click mouse actions include one (each) of: SINGLE DOUBLE LEFT MIDDLE RIGHT WHEEL DOWN DRAG UP CLICK for example: SINGLE-RIGHT-CLICK DOUBLE-LEFT-DRAG defaults are SINGLE, LEFT, and CLICK sequence is always: down (drag,drag,drag...) up (click) (only if no drag) Any of these actions may be tapped using bind "<some mouse action>" "<jmol action or script>" Note that adding "+:" to an action bind "<some mouse action" "+:<script...>" does not replace the Jmol action, just supplements it. $ show mouse _assignNew LEFT+click assign/new atom or bond (requires set picking assignAtom_??/assignBond_?) _center CTRL+SHIFT+LEFT+click center _clickFrank LEFT+click pop up recent context menu (click on Jmol frank) _pickConnect LEFT+click connect atoms (requires set picking CONNECT) _deleteAtom LEFT+click delete atom (requires set picking DELETE ATOM) _deleteBond LEFT+click delete bond (requires set picking DELETE BOND) _depth CTRL+SHIFT+LEFT+double+drag adjust depth (back plane; requires SLAB ON) _dragAtom LEFT+drag move atom (requires set picking DRAGATOM) _dragDrawObject SHIFT+LEFT+drag move whole DRAW object (requires set picking DRAW) _dragDrawPoint ALT+LEFT+drag move specific DRAW point (requires set picking DRAW) _dragLabel SHIFT+LEFT+drag move label (requires set picking LABEL) _dragMinimize LEFT+drag move atom and minimize molecule (requires set picking DRAGMINIMIZE) _dragMinimizeMolecule LEFT+drag move and minimize molecule (requires set picking DRAGMINIMIZEMOLECULE) _dragSelected ALT+SHIFT+LEFT+drag move selected atoms (requires set DRAGSELECTED) _dragZ SHIFT+LEFT+drag drag atoms in Z direction (requires set DRAGSELECTED) _navTranslate LEFT+drag translate navigation point (requires set NAVIGATIONMODE and set picking NAVIGATE) _pickAtom LEFT+click pick an atom _pickIsosurface LEFT+click pick an ISOSURFACE point (requires set DRAWPICKING _pickLabel LEFT+click pick a label to toggle it hidden/displayed (requires set picking LABEL) _pickMeasure LEFT+click pick an atom to include it in a measurement (after starting a measurement or after set picking DISTANCE/ANGLE/TORSION) _pickNavigate CTRL+SHIFT+LEFT+click pick a point or atom to navigate to (requires set NAVIGATIONMODE) _pickPoint LEFT+click pick a DRAW point (for measurements) (requires set DRAWPICKING _popupMenu CTRL+LEFT+down, RIGHT+down pop up the full context menu _reset SHIFT+LEFT+double+click, MIDDLE+double+click reset (when clicked off the model) _rotate LEFT+drag rotate _rotateBranch SHIFT+LEFT+drag rotate branch around bond (requires set picking ROTATEBOND) _rotateSelected ALT+LEFT+drag rotate selected atoms (requires set DRAGSELECTED) _rotateZ ALT+LEFT+drag, SHIFT+RIGHT+drag rotate Z _rotateZorZoom SHIFT+LEFT+drag, MIDDLE+drag rotate Z (horizontal motion of mouse) or zoom (vertical motion of mouse) _select LEFT+double+click select an atom (requires set pickingStyle EXTENDEDSELECT) _selectToggleOr LEFT+click if all are selected, unselect all, otherwise add this group of atoms to the set of selected atoms (requires set pickingStyle DRAG) _setMeasure LEFT+double+click pick an atom to initiate or conclude a measurement _slab CTRL+SHIFT+LEFT+drag adjust slab (front plane; requires SLAB ON) _slabAndDepth CTRL+ALT+SHIFT+LEFT+drag move slab/depth window (both planes; requires SLAB ON) _slideZoom LEFT+drag zoom (along right edge of window) _spinDrawObjectCCW LEFT+drag click on two points to spin around axis counterclockwise (requires set picking SPIN) _spinDrawObjectCW SHIFT+LEFT+drag click on two points to spin around axis clockwise (requires set picking SPIN) _stopMotion LEFT+double+click stop motion (requires set waitForMoveTo FALSE) _swipe LEFT+drag spin model (swipe and release button and stop motion simultaneously) _translate CTRL+ALT+LEFT+drag, CTRL+RIGHT+drag, SHIFT+LEFT+double+drag, MIDDLE+double+drag translate _wheelZoom WHEEL zoom bug fix: JSON NIO port SYNC broken bug fix: print getProperty("image", "width=200;height=300;type=png") not working bug fix: write IMAGE "t.png" not working bug fix: rotate -10 -10 not working bug fix: mouse bindings not distinguishing DOWN/CLICK/DRAG/UP properly bug fix: mouse bindings _center and _reset not working bug fix: show MOUSE not including user-defined mouse bindings bug fix: chains improperly selected in JSmol/HTML5 bug fix: JSmol/HTML5 not allowing drag-drop or file loading from a local drive. bug fix: JSmol/HTML5 not allowing WRITE FILE ? bug fix: JSmol/HTML5 not allowing WRITE xxx.pdb, xxx.mol, etc bug fix: platformSpeed persists but appears unreadable after loading a state bug fix: JavaScript version InputStreamReader not processing non-UTF data correctly bug fix: second reading of older PNG files with embedded script fails due to improper png file caching code: overhaul of image creation methods code: careful attention to core functions yields results in 10% reduction in core download size: -- uncompressed(former) gzipped -- JSmol.min.nojq.js 134K 38K -- core.z.js 1586K(1781K) 364K -- corescript.z.js 378K (436K) 95K -- TOTAL 2098K(2217K) 497K (9.5% reduction) -- JmolApplet0.jar 1038K 1005K -- Thus, the "real" transfer size -- based on server-side gzipping -- is half the size of Jmol/Java. code: continued refactoring of ScriptEvaluator to ScriptExt code: refactoring to isolate LabelToken and Labels from core JavaScript load code: refactoring, simplification of image output and export -- folders created: org.jmol.image, org.jmol.dialog -- JpgEncoder, Jpg64Encoder, PngEncoder brought to org.jmol.image and made subclasses of ImageEncoder -- PpmEncoder fixed -- ImageEncoder stripped of all unnecessary ImageConsumer/producer business -- org.jmol.export.image.ImageCreator and parts of org.jmol.viewer.stateCreator reorganized into org.jmol.OutputManager, org.jmol.OutputManagerAwt, and org.jmol.OutputManagerJS -- clipboard functions moved into org.jmol.awt and org.jmol.awtjs2d -- org.jmol.io.JmolOutputChannel now serves for just about all output needs. code: major simplification and consolidation of file I/O methods, including exporters, using JmolOutputChannel class. code: only FileOutputStream reference is one reference in org.jmol.awt. code: code merge between 13.2 and 13.3 18 Sept 2013 code: major clean-up of ActionManager 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 2013-09-27 22:07:55 UTC (rev 18724) +++ trunk/Jmol/src/org/jmol/viewer/Jmol.properties 2013-09-27 22:08:42 UTC (rev 18725) @@ -13,7 +13,7 @@ ___JmolVersion="13.3.6" -JmolVersion="13.3.5_dev_2013.09.27" +JmolVersion="13.3.5_dev_2013.09.27" new feature: adds remote logging for applet and app via http:// and via function for applet using jmolApplet0._applet.viewer.setLogfile(function(data) {......}) This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |