Revision: 21211
http://sourceforge.net/p/jmol/code/21211
Author: hansonr
Date: 2016-08-12 12:21:41 +0000 (Fri, 12 Aug 2016)
Log Message:
-----------
PyMOL reader upgrade for 176, 177, 181 dump_binary
Modified Paths:
--------------
branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOL.java
branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLReader.java
branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLScene.java
branches/v14_6/Jmol/src/org/jmol/script/ScriptEval.java
branches/v14_6/Jmol/src/org/jmol/shape/AtomShape.java
branches/v14_6/Jmol/src/org/jmol/shape/Labels.java
branches/v14_6/Jmol/src/org/jmol/viewer/Viewer.java
trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOL.java
trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLReader.java
trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLScene.java
trunk/Jmol/src/org/jmol/script/ScriptEval.java
trunk/Jmol/src/org/jmol/shape/AtomShape.java
trunk/Jmol/src/org/jmol/shape/Labels.java
trunk/Jmol/src/org/jmol/viewer/Viewer.java
Modified: branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOL.java
===================================================================
--- branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOL.java
2016-08-12 03:46:23 UTC (rev 21210)
+++ branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOL.java
2016-08-12 12:21:41 UTC (rev 21211)
@@ -6431,14 +6431,14 @@
final static int SEGI = 35;
final static int NAME = 36;
final static int ELEM = 37;
- final static int RESI = 38;
+ final static int RESI = 38; // not 181
final static int SSTYPE = 39;
final static int ALTLOC = 40;
final static int RESN = 41;
- final static int INSCODE = 42;
+ final static int INSCODE = 42; // 181 only
final static int CHEMFLAG = 43;
final static int PROTEKTED = 44;
- final static int ANISOU = 45;
+ final static int ANISOU = 45; // not 177
final static int HETMASK = 46;
final static int BONMASK = 47;
@@ -6448,7 +6448,7 @@
final static int SETMASK = 51;
//1.7.6 type
- final static int[] v176 = { LEN, 154,
+ final static int[] v176 = { LEN, 164,
RESV, 0,
CUSTOMTYPE, 4,
PRIORITY, 8,
@@ -6500,14 +6500,15 @@
NAME, 105, // 5
ELEM, 110, // 5
RESI, 115, // 6
- //HASPROP, 111,
- SSTYPE, 112,
- ALTLOC, 114,
- RESN, 116,
- ANISOU, 122,
- //OLDID, 146
- //PROPID, 150,
-
+ //HASPROP, 121,
+ SSTYPE, 122,
+ ALTLOC, 124,
+
+
+ RESN, 126,
+ ANISOU, 132,
+ //OLDID, 156
+ //PROPID, 160, // 4
};
// typedef struct AtomInfoType_1_7_6 {
Modified:
branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLReader.java
===================================================================
--- branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLReader.java
2016-08-12 03:46:23 UTC (rev 21210)
+++ branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLReader.java
2016-08-12 12:21:41 UTC (rev 21211)
@@ -433,7 +433,7 @@
pymolScene.finalizeVisibility();
if (!isStateScript) {
// same idea as for a Jmol state -- session reinitializes
- vwr.initialize(false);
+ vwr.initialize(false, true);
addJmolScript(pymolScene.getViewScript(getMapList(map, "view"))
.toString());
}
@@ -1149,13 +1149,14 @@
Lst<Object> labelPositions, float[] labelArray,
BS bsState, int iState) {
atomMap[apt] = -1;
- String chainID, altLoc, group3, name, sym, label, ssType, resi;
+ String chainID, altLoc, group3, name, sym, label, ssType, resi, insCode =
null;
float bfactor, occupancy, radius, partialCharge;
int seqNo, intReps, formalCharge, atomColor, serNo, cartoonType, flags,
uniqueID = -1;
boolean isHetero, bonded;
float[] anisou = null;
BS bsReps = null;
if (haveBinaryArrays) {
+ int vpt;
int pt = apt * vArray[PyMOL.LEN];
seqNo = atomInt(atomArray, pt, vArray[PyMOL.RESV]);
chainID = atomStr(atomArray, pt, vArray[PyMOL.CHAIN], lexStr);
@@ -1168,8 +1169,12 @@
label = atomStr(atomArray, pt, vArray[PyMOL.LABEL], lexStr);
ssType = atomStr(atomArray, pt, vArray[PyMOL.SSTYPE], null);
altLoc = atomStr(atomArray, pt, vArray[PyMOL.ALTLOC], null);
- byte b = atomArray[pt + vArray[PyMOL.INSCODE]];
- resi = (b == 0 ? "" : "xxx" + (char) b);
+ if ((vpt = vArray[PyMOL.INSCODE]) == 0) {
+ resi = atomStr(atomArray, pt, vArray[PyMOL.RESI], null);
+ } else {
+ byte b = atomArray[pt + vpt];
+ insCode = (b == 0 ? " " :"" + (char) b);
+ }
bfactor = atomFloat(atomArray, pt, vArray[PyMOL.BFACTOR]);
occupancy = atomFloat(atomArray, pt, vArray[PyMOL.OCCUPANCY]);
radius= atomFloat(atomArray, pt, vArray[PyMOL.VDW]);
@@ -1187,8 +1192,9 @@
if (uniqueID == 0)
uniqueID = -1;
anisou = new float[8];
- for (int i = 0; i < 6; i++)
- anisou[i] = BC.bytesToShort(atomArray, pt + vArray[PyMOL.ANISOU] + (i
<< 1), false);
+ if ((vpt = vArray[PyMOL.ANISOU]) > 0)
+ for (int i = 0; i < 6; i++)
+ anisou[i] = BC.bytesToShort(atomArray, pt + vpt + (i << 1), false);
bonded = atomBool(atomArray, pt, vArray[PyMOL.BONDED],
vArray[PyMOL.BONMASK]);
isHetero = atomBool(atomArray, pt, vArray[PyMOL.HETATM],
vArray[PyMOL.HETMASK]);
} else {
@@ -1219,9 +1225,12 @@
if (a.size() > 46)
anisou = floatsAt(a, 41, new float[8], 6);
}
+ if (insCode == null) {
+ int len = resi.length();
+ char ch = (len > 0 ? resi.charAt(len - 1) : ' ');
+ insCode = (PT.isDigit(ch) ? " " : "" + ch);
+ }
- String insCode = (resi.length() > 3 ? resi.substring(3) : " ");
-
if (group3.length() > 3)
group3 = group3.substring(0, 3);
if (group3.equals(" "))
Modified: branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLScene.java
===================================================================
--- branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLScene.java
2016-08-12 03:46:23 UTC (rev 21210)
+++ branches/v14_6/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLScene.java
2016-08-12 12:21:41 UTC (rev 21211)
@@ -1078,7 +1078,7 @@
s = "[x" + s.substring(s.length() - 6) + "]";
sb.append(";background " + s);
sb.append(";moveto 0 PyMOL " + Escape.eAF(pymolView));
- sb.append(";save orientation 'default';");
+ sb.append(";save orientation 'default';"); // DO NOT set antialiasDisplay
here! It can cause immediate rendering problem in Java
return sb;
}
@@ -1103,7 +1103,6 @@
if (frameObj == null)
return;
frameObj.finalizeObject(this, vwr.ms, null, false);
- vwr.setBooleanProperty("antialiasDisplay", true);
frameObj = null;
}
Modified: branches/v14_6/Jmol/src/org/jmol/script/ScriptEval.java
===================================================================
--- branches/v14_6/Jmol/src/org/jmol/script/ScriptEval.java 2016-08-12
03:46:23 UTC (rev 21210)
+++ branches/v14_6/Jmol/src/org/jmol/script/ScriptEval.java 2016-08-12
12:21:41 UTC (rev 21211)
@@ -2368,7 +2368,7 @@
break;
case T.initialize:
if (!chk)
- vwr.initialize(!isStateScript);
+ vwr.initialize(!isStateScript, false);
break;
case T.invertSelected:
cmdInvertSelected();
Modified: branches/v14_6/Jmol/src/org/jmol/shape/AtomShape.java
===================================================================
--- branches/v14_6/Jmol/src/org/jmol/shape/AtomShape.java 2016-08-12
03:46:23 UTC (rev 21210)
+++ branches/v14_6/Jmol/src/org/jmol/shape/AtomShape.java 2016-08-12
12:21:41 UTC (rev 21211)
@@ -206,6 +206,8 @@
}
protected void setColixAndPalette(short colix, byte paletteID, int
atomIndex) {
+ if (colixes == null)
+ System.out.println("ATOMSHAPE ERROR");
colixes[atomIndex] = colix = getColixI(colix, paletteID, atomIndex);
bsColixSet.setBitTo(atomIndex, colix != C.INHERIT_ALL || shapeID ==
JC.SHAPE_BALLS);
paletteIDs[atomIndex] = paletteID;
Modified: branches/v14_6/Jmol/src/org/jmol/shape/Labels.java
===================================================================
--- branches/v14_6/Jmol/src/org/jmol/shape/Labels.java 2016-08-12 03:46:23 UTC
(rev 21210)
+++ branches/v14_6/Jmol/src/org/jmol/shape/Labels.java 2016-08-12 12:21:41 UTC
(rev 21211)
@@ -408,6 +408,7 @@
// from PyMOL reader
setScaling();
int n = checkStringLength(ac);
+ checkColixLength((short)-1, n);
for (int i = bsSelected.nextSetBit(0); i >= 0 && i < n; i = bsSelected
.nextSetBit(i + 1))
setPymolLabel(i, labels.get(Integer.valueOf(i)), null);
Modified: branches/v14_6/Jmol/src/org/jmol/viewer/Viewer.java
===================================================================
--- branches/v14_6/Jmol/src/org/jmol/viewer/Viewer.java 2016-08-12 03:46:23 UTC
(rev 21210)
+++ branches/v14_6/Jmol/src/org/jmol/viewer/Viewer.java 2016-08-12 12:21:41 UTC
(rev 21211)
@@ -1,6 +1,6 @@
/* $RCSfile$
* $Author: hansonr $
- * $Date: 2014-02-02 22:24:37 -0600 (Sun, 02 Feb 2014) $
+ * $Date: 2016-07-13 14:51:46 -0500 (Wed, 13 Jul 2016) $
* $Revision: 19253 $
*
* Copyright (C) 2002-2006 Miguel, Jmol Development, www.jmol.org
@@ -528,7 +528,7 @@
(rm = (JmolRepaintManager) o).set(this, shm);
// again we through a JS error if in async mode
ms = new ModelSet(this, null);
- initialize(true);
+ initialize(true, false);
fm = new FileManager(this);
definedAtomSets = new Hashtable<String, Object>();
setJmolStatusListener(statusListener);
@@ -767,7 +767,7 @@
// delegated to StateManager
// ///////////////////////////////////////////////////////////////
- public void initialize(boolean clearUserVariables) {
+ public void initialize(boolean clearUserVariables, boolean isPyMOL) {
g = new GlobalSettings(this, g, clearUserVariables);
setStartupBooleans();
setWidthHeightVar();
@@ -787,7 +787,7 @@
am.setAnimationOn(false);
am.setAnimationFps(g.animationFps);
sm.allowStatusReporting = g.statusReporting;
- setBooleanProperty("antialiasDisplay", g.antialiasDisplay);
+ setBooleanProperty("antialiasDisplay", (isPyMOL ? true :
g.antialiasDisplay));
stm.resetLighting();
tm.setDefaultPerspective();
}
@@ -6984,19 +6984,23 @@
}
private void setAntialias(int tok, boolean TF) {
-
+ boolean isChanged = false;
switch (tok) {
case T.antialiasdisplay:
+ isChanged = (g.antialiasDisplay != TF);
g.antialiasDisplay = TF;
break;
case T.antialiastranslucent:
+ isChanged = (g.antialiasTranslucent != TF);
g.antialiasTranslucent = TF;
break;
case T.antialiasimages:
g.antialiasImages = TF;
return;
}
- resizeImage(0, 0, false, false, true);
+ if (isChanged)
+ refresh(3, "Viewer:setAntialias()");
+// resizeImage(0, 0, false, false, true);
}
// //////////////////////////////////////////////////////////////
Modified: trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOL.java
===================================================================
--- trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOL.java 2016-08-12
03:46:23 UTC (rev 21210)
+++ trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOL.java 2016-08-12
12:21:41 UTC (rev 21211)
@@ -6431,14 +6431,14 @@
final static int SEGI = 35;
final static int NAME = 36;
final static int ELEM = 37;
- final static int RESI = 38;
+ final static int RESI = 38; // not 181
final static int SSTYPE = 39;
final static int ALTLOC = 40;
final static int RESN = 41;
- final static int INSCODE = 42;
+ final static int INSCODE = 42; // 181 only
final static int CHEMFLAG = 43;
final static int PROTEKTED = 44;
- final static int ANISOU = 45;
+ final static int ANISOU = 45; // not 177
final static int HETMASK = 46;
final static int BONMASK = 47;
@@ -6448,7 +6448,7 @@
final static int SETMASK = 51;
//1.7.6 type
- final static int[] v176 = { LEN, 154,
+ final static int[] v176 = { LEN, 164,
RESV, 0,
CUSTOMTYPE, 4,
PRIORITY, 8,
@@ -6500,14 +6500,15 @@
NAME, 105, // 5
ELEM, 110, // 5
RESI, 115, // 6
- //HASPROP, 111,
- SSTYPE, 112,
- ALTLOC, 114,
- RESN, 116,
- ANISOU, 122,
- //OLDID, 146
- //PROPID, 150,
-
+ //HASPROP, 121,
+ SSTYPE, 122,
+ ALTLOC, 124,
+
+
+ RESN, 126,
+ ANISOU, 132,
+ //OLDID, 156
+ //PROPID, 160, // 4
};
// typedef struct AtomInfoType_1_7_6 {
Modified: trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLReader.java
===================================================================
--- trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLReader.java
2016-08-12 03:46:23 UTC (rev 21210)
+++ trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLReader.java
2016-08-12 12:21:41 UTC (rev 21211)
@@ -433,7 +433,7 @@
pymolScene.finalizeVisibility();
if (!isStateScript) {
// same idea as for a Jmol state -- session reinitializes
- vwr.initialize(false);
+ vwr.initialize(false, true);
addJmolScript(pymolScene.getViewScript(getMapList(map, "view"))
.toString());
}
@@ -1149,13 +1149,14 @@
Lst<Object> labelPositions, float[] labelArray,
BS bsState, int iState) {
atomMap[apt] = -1;
- String chainID, altLoc, group3, name, sym, label, ssType, resi;
+ String chainID, altLoc, group3, name, sym, label, ssType, resi, insCode =
null;
float bfactor, occupancy, radius, partialCharge;
int seqNo, intReps, formalCharge, atomColor, serNo, cartoonType, flags,
uniqueID = -1;
boolean isHetero, bonded;
float[] anisou = null;
BS bsReps = null;
if (haveBinaryArrays) {
+ int vpt;
int pt = apt * vArray[PyMOL.LEN];
seqNo = atomInt(atomArray, pt, vArray[PyMOL.RESV]);
chainID = atomStr(atomArray, pt, vArray[PyMOL.CHAIN], lexStr);
@@ -1168,8 +1169,12 @@
label = atomStr(atomArray, pt, vArray[PyMOL.LABEL], lexStr);
ssType = atomStr(atomArray, pt, vArray[PyMOL.SSTYPE], null);
altLoc = atomStr(atomArray, pt, vArray[PyMOL.ALTLOC], null);
- byte b = atomArray[pt + vArray[PyMOL.INSCODE]];
- resi = (b == 0 ? "" : "xxx" + (char) b);
+ if ((vpt = vArray[PyMOL.INSCODE]) == 0) {
+ resi = atomStr(atomArray, pt, vArray[PyMOL.RESI], null);
+ } else {
+ byte b = atomArray[pt + vpt];
+ insCode = (b == 0 ? " " :"" + (char) b);
+ }
bfactor = atomFloat(atomArray, pt, vArray[PyMOL.BFACTOR]);
occupancy = atomFloat(atomArray, pt, vArray[PyMOL.OCCUPANCY]);
radius= atomFloat(atomArray, pt, vArray[PyMOL.VDW]);
@@ -1187,8 +1192,9 @@
if (uniqueID == 0)
uniqueID = -1;
anisou = new float[8];
- for (int i = 0; i < 6; i++)
- anisou[i] = BC.bytesToShort(atomArray, pt + vArray[PyMOL.ANISOU] + (i
<< 1), false);
+ if ((vpt = vArray[PyMOL.ANISOU]) > 0)
+ for (int i = 0; i < 6; i++)
+ anisou[i] = BC.bytesToShort(atomArray, pt + vpt + (i << 1), false);
bonded = atomBool(atomArray, pt, vArray[PyMOL.BONDED],
vArray[PyMOL.BONMASK]);
isHetero = atomBool(atomArray, pt, vArray[PyMOL.HETATM],
vArray[PyMOL.HETMASK]);
} else {
@@ -1219,9 +1225,12 @@
if (a.size() > 46)
anisou = floatsAt(a, 41, new float[8], 6);
}
+ if (insCode == null) {
+ int len = resi.length();
+ char ch = (len > 0 ? resi.charAt(len - 1) : ' ');
+ insCode = (PT.isDigit(ch) ? " " : "" + ch);
+ }
- String insCode = (resi.length() > 3 ? resi.substring(3) : " ");
-
if (group3.length() > 3)
group3 = group3.substring(0, 3);
if (group3.equals(" "))
Modified: trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLScene.java
===================================================================
--- trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLScene.java
2016-08-12 03:46:23 UTC (rev 21210)
+++ trunk/Jmol/src/org/jmol/adapter/readers/pymol/PyMOLScene.java
2016-08-12 12:21:41 UTC (rev 21211)
@@ -1078,7 +1078,7 @@
s = "[x" + s.substring(s.length() - 6) + "]";
sb.append(";background " + s);
sb.append(";moveto 0 PyMOL " + Escape.eAF(pymolView));
- sb.append(";save orientation 'default';");
+ sb.append(";save orientation 'default';"); // DO NOT set antialiasDisplay
here! It can cause immediate rendering problem in Java
return sb;
}
@@ -1103,7 +1103,6 @@
if (frameObj == null)
return;
frameObj.finalizeObject(this, vwr.ms, null, false);
- vwr.setBooleanProperty("antialiasDisplay", true);
frameObj = null;
}
Modified: trunk/Jmol/src/org/jmol/script/ScriptEval.java
===================================================================
--- trunk/Jmol/src/org/jmol/script/ScriptEval.java 2016-08-12 03:46:23 UTC
(rev 21210)
+++ trunk/Jmol/src/org/jmol/script/ScriptEval.java 2016-08-12 12:21:41 UTC
(rev 21211)
@@ -2368,7 +2368,7 @@
break;
case T.initialize:
if (!chk)
- vwr.initialize(!isStateScript);
+ vwr.initialize(!isStateScript, false);
break;
case T.invertSelected:
cmdInvertSelected();
Modified: trunk/Jmol/src/org/jmol/shape/AtomShape.java
===================================================================
--- trunk/Jmol/src/org/jmol/shape/AtomShape.java 2016-08-12 03:46:23 UTC
(rev 21210)
+++ trunk/Jmol/src/org/jmol/shape/AtomShape.java 2016-08-12 12:21:41 UTC
(rev 21211)
@@ -206,6 +206,8 @@
}
protected void setColixAndPalette(short colix, byte paletteID, int
atomIndex) {
+ if (colixes == null)
+ System.out.println("ATOMSHAPE ERROR");
colixes[atomIndex] = colix = getColixI(colix, paletteID, atomIndex);
bsColixSet.setBitTo(atomIndex, colix != C.INHERIT_ALL || shapeID ==
JC.SHAPE_BALLS);
paletteIDs[atomIndex] = paletteID;
Modified: trunk/Jmol/src/org/jmol/shape/Labels.java
===================================================================
--- trunk/Jmol/src/org/jmol/shape/Labels.java 2016-08-12 03:46:23 UTC (rev
21210)
+++ trunk/Jmol/src/org/jmol/shape/Labels.java 2016-08-12 12:21:41 UTC (rev
21211)
@@ -408,6 +408,7 @@
// from PyMOL reader
setScaling();
int n = checkStringLength(ac);
+ checkColixLength((short)-1, n);
for (int i = bsSelected.nextSetBit(0); i >= 0 && i < n; i = bsSelected
.nextSetBit(i + 1))
setPymolLabel(i, labels.get(Integer.valueOf(i)), null);
Modified: trunk/Jmol/src/org/jmol/viewer/Viewer.java
===================================================================
--- trunk/Jmol/src/org/jmol/viewer/Viewer.java 2016-08-12 03:46:23 UTC (rev
21210)
+++ trunk/Jmol/src/org/jmol/viewer/Viewer.java 2016-08-12 12:21:41 UTC (rev
21211)
@@ -528,7 +528,7 @@
(rm = (JmolRepaintManager) o).set(this, shm);
// again we through a JS error if in async mode
ms = new ModelSet(this, null);
- initialize(true);
+ initialize(true, false);
fm = new FileManager(this);
definedAtomSets = new Hashtable<String, Object>();
setJmolStatusListener(statusListener);
@@ -767,7 +767,7 @@
// delegated to StateManager
// ///////////////////////////////////////////////////////////////
- public void initialize(boolean clearUserVariables) {
+ public void initialize(boolean clearUserVariables, boolean isPyMOL) {
g = new GlobalSettings(this, g, clearUserVariables);
setStartupBooleans();
setWidthHeightVar();
@@ -787,7 +787,7 @@
am.setAnimationOn(false);
am.setAnimationFps(g.animationFps);
sm.allowStatusReporting = g.statusReporting;
- setBooleanProperty("antialiasDisplay", g.antialiasDisplay);
+ setBooleanProperty("antialiasDisplay", (isPyMOL ? true :
g.antialiasDisplay));
stm.resetLighting();
tm.setDefaultPerspective();
}
@@ -6984,19 +6984,23 @@
}
private void setAntialias(int tok, boolean TF) {
-
+ boolean isChanged = false;
switch (tok) {
case T.antialiasdisplay:
+ isChanged = (g.antialiasDisplay != TF);
g.antialiasDisplay = TF;
break;
case T.antialiastranslucent:
+ isChanged = (g.antialiasTranslucent != TF);
g.antialiasTranslucent = TF;
break;
case T.antialiasimages:
g.antialiasImages = TF;
return;
}
- resizeImage(0, 0, false, false, true);
+ if (isChanged)
+ refresh(3, "Viewer:setAntialias()");
+// resizeImage(0, 0, false, false, true);
}
// //////////////////////////////////////////////////////////////
This was sent by the SourceForge.net collaborative development platform, the
world's largest Open Source development site.
------------------------------------------------------------------------------
What NetFlow Analyzer can do for you? Monitors network bandwidth and traffic
patterns at an interface-level. Reveals which users, apps, and protocols are
consuming the most bandwidth. Provides multi-vendor support for NetFlow,
J-Flow, sFlow and other flows. Make informed decisions using capacity
planning reports. http://sdm.link/zohodev2dev
_______________________________________________
Jmol-commits mailing list
Jmol-commits@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/jmol-commits
