JSmol Deployment Local - Revision history

AngelHerraez: updates to remove methods for Java applet

2025-08-11T11:52:41Z

updates to remove methods for Java applet

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AngelHerraez: updates to remove methods for Java applet

2025-08-11T11:27:56Z

updates to remove methods for Java applet

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AngelHerraez: updates to remove methods for Java applet

2025-08-11T11:10:35Z

updates to remove methods for Java applet

Hansonr: /* Browser considerations for local file access (JSmol) */

2014-03-11T00:38:01Z

‎Browser considerations for local file access (JSmol)

Hansonr: /* Chrome/Windows */

2014-03-11T00:26:22Z

‎Chrome/Windows

Hansonr: /* MSIE/Windows */

2014-03-11T00:25:20Z

‎MSIE/Windows

Hansonr: /* Method (b) */

2014-03-05T17:33:23Z

‎Method (b)

Hansonr: /* Method (b) */

2014-03-05T17:32:25Z

‎Method (b)

Hansonr: /* Method (b) */

2014-03-05T17:32:02Z

‎Method (b)

Hansonr: /* Comments */

2014-03-05T17:29:43Z

‎Comments

@@ Line 1: / Line 1: @@
 This page will summarize discussions on the jmol-user mailing list on how
-Jmol should be installed to work from a local hard disk or CD, instead of from
+JSmol within web pages should be installed to work from a local disk (<code>file://</code> protocol), instead of from a web server (<code>http://</code> protocol).
 = Update note =
@@ Line 348: / Line 347: @@
 ----------
-From [[User:AngelHerraez|Angel HerrÃ¡ez]]:
+From [[User:AngelHerraez|Angel Herráez]]:
 Nick, I think although your example is correct, it will mislead people. There is no need for a {{Directory|jmol}} folder. Your code should be
@@ Line 355: / Line 354: @@
 since the applet is in the same directory/folder as the html page.
 Even "" might work the same as "{{Directory|./}}"

@@ Line 9: / Line 9: @@
 = Browser considerations for local file access (JSmol) =
-This section is in relation to JSmol, Ver. 14.x, particularly.
+This section is in relation to JSmol, Ver. 14.x, particularly. It only relates to HTML5 file access, and it relates only to files loaded using script commands such as LOAD and SCRIPT.
 JSmol will handle much of the details for local file access. If using Java, be sure to use the all-permissions ("signed") applet. That is, in the Info parameter for Jmol.getApplet(name,Info), use <b>jarFile:"JmolAppletSigned0.jar", isSigned: true</b>.
@@ Line 23: / Line 23: @@
 === MSIE/Windows ===
-No local '''binary''' file access. That is, at least, no files with any of the following in their names:
+No local '''binary''' file access in JSmol/HTML5 from standard script commands. That is, no direct file reading with any of the following in their names:
    .bin .gz .jmol .jpg .map .mrc .omap .png .pse .smol .spartan .zip
 === Chrome/Windows ===
-No local '''binary''' file access. For non-binary files, start Chrome using the command-line flag '''--allow-file-access-from-files''' for local file access.
+Start Chrome using the command-line flag '''--allow-file-access-from-files''' for local file access. Beyond that, same as for MSIE/Windows.
 === Opera/Windows ===

@@ Line 29: / Line 29: @@
 === Chrome/Windows ===
-No binary file access. For non-binary files, start Chrome using the command-line flag <b>--allow-file-access-from-files</b> for local file access.
+No local '''binary''' file access. For non-binary files, start Chrome using the command-line flag '''--allow-file-access-from-files''' for local file access.
 === Opera/Windows ===

@@ Line 23: / Line 23: @@
 === MSIE/Windows ===
-No local file access. JSmol will not run in MSIE locally.
+No local '''binary''' file access. That is, at least, no files with any of the following in their names:
 === Chrome/Windows ===

@@ Line 55: / Line 55: @@
 Valid examples (see also graphic examples below):
-.- Put {{File|Jmol.js}} and the set of {{File|JmolApplet0*.jar}} files on the top folder level of your website; then, for a page in a subfolder:
+.- Put {{File|Jmol.js}} and the set of {{File|JmolAppletSigned*.jar}} and {{File|JmolAppletSigned.jnlp}} files on the top folder level of your website; then, for a page in a subfolder:
   <html>
     <head>

@@ Line 49: / Line 49: @@
 == Method (b) ==
 ''This works both locally and on the web server; depends on Java security rules, which might change in a future.'' <br />
-''Update:'' recent versions of Java and browsers (particularly Firefox) apply a more restrictive policy, affecting also the location of html files -- A better description is planned; for now, see the graphic examples below. '''Note that the "unsigned" or "sandboxed applet (JmolApplet0xxxx.jar)is not usable for local deployment anymore. Instead, indicate true for the second parameter of jmolInitialize to request the all-permissions applet.'''
+''Update:'' recent versions of Java and browsers (particularly Firefox) apply a more restrictive policy, affecting also the location of html files -- A better description is planned; for now, see the graphic examples below. '''Note that the "unsigned" or "sandboxed applet (JmolApplet0xxxx.jar) is not usable for local deployment anymore. Instead, indicate true for the second parameter of jmolInitialize to request the all-permissions applet.'''
 Molecule files (e.g. <tt>.pdb</tt>, <tt>.mol</tt>) must be in the same folder as the applet files or below it (in a subfolder).

@@ Line 49: / Line 49: @@
 == Method (b) ==
 ''This works both locally and on the web server; depends on Java security rules, which might change in a future.'' <br />
-''Update:'' recent versions of Java and browsers (particularly Firefox) apply a more restrictive policy, affecting also the location of html files -- A better description is planned; for now, see the graphic examples below.
+''Update:'' recent versions of Java and browsers (particularly Firefox) apply a more restrictive policy, affecting also the location of html files -- A better description is planned; for now, see the graphic examples below. '''Note that the "unsigned" or "sandboxed applet (JmolApplet0xxxx.jar)is not usable for local deployment anymore. Instead, indicate true for the second parameter of jmolInitialize to request the all-permissions applet.'''
 Molecule files (e.g. <tt>.pdb</tt>, <tt>.mol</tt>) must be in the same folder as the applet files or below it (in a subfolder).
@@ Line 62: / Line 62: @@
     <body>
       <script type="text/javascript">
-        jmolInitialize("../", true);
+        jmolInitialize("../", '''true''');
         jmolApplet(200, "load caffeine.xyz");
       </script>
@@ Line 75: / Line 75: @@
     <body>
       <script type="text/javascript">
-        jmolInitialize("../../", true);
+        jmolInitialize("../../", '''true''');
         jmolApplet(200, "load caffeine.xyz");
       </script>
@@ Line 88: / Line 88: @@
     <body>
       <script type="text/javascript">
-        jmolInitialize("../", true);
+        jmolInitialize("../", '''true''');
         jmolApplet(200, "load models/caffeine.xyz");
       </script>

@@ Line 333: / Line 333: @@
     <body>
       <script>
-        jmolInitialize("../jmol");
+        jmolInitialize("../jmol", '''true''');
         jmolApplet(200, "load model/caffeine.xyz.gz");
       </script>