## Release Notes: Chime Version 2.6

(c) Copyright 2001 MDL Information Systems, Inc.

All Rights Reserved.
September 2001

This document contains the Release Notes for Chime 2.6 and Chime 2.6 Service Pack 3. Chime 2.6 Service Pack 3 includes:

- Chime 2.6
- Chime 2.6 Service Pack 1 (see Bugs Fixed in 2.6 - Service Pack 1)
- Chime 2.6 Service Pack 2 (see Bugs Fixed in 2.6 - Service Pack 2)
- Chime 2.6 Service Pack 3 (see Bugs Fixed in 2.6 - Service Pack 3)

Chime 2.6 Service Pack 3 applies to both Windows and Macintosh platforms.

This document provides information about the following topics:

- Introduction
- New Features in 2.6
- Bugs Fixed in 2.6 Service Pack 1 (For Windows only)
- Bugs Fixed in 2.6 Service Pack 2 (For Windows only)
- Bugs Fixed in 2.6 Service Pack 3
- Licensing Terms
- Support Matrix
- Installer Issues
- General Interaction with ISIS/Draw
- Known Problems and Limitations
- JCAMP-DX Spectral display

1. INTRODUCTION
   The Chime plug-in displays 2D and 3D molecules directly within a web page and works with both Netscape and Microsoft browsers. The molecules in the web page are "live," meaning they are not just pictures, but chemical structures that can be rotated, reformatted, and saved in various file formats for use in modeling or database software.

   Anyone with a knowledge of HTML can add structures to their research projects, tutorials, newsletters, journals, and presentations published across an intranet or the Internet. If you are familiar with RasMol or CSML scripting, you can create very interactive web pages.

2. NEW FEATURES IN VERSION 2.6
   - Support for Windows 2000 and IE 5.5
   - Updates to installer
   - Ability to return PDB header file - Use the Chime Rasmol script `show pdbheader`.
   - Structure highlighting - To support embedded highlight information in a structure, set the embed tag `color2d` to `sketch`.
   - Support for V3000 Molfile - By default, the Chime plug-in exports molfiles in V2000 format. To export a V3000 molfile in V3000 format, set the new embed tag `exportV3000` to `true`.
   - New interactive Chime Web site located at
http://www.mdlchime.com/
3. BUGS FIXED IN VERSION 2.6 - SERVICE PACK 1
   - Chime does not contract all residues (if expandResidues2d="off"). This problem has been fixed.
   - Unexpected crashing of the Chime plug-in when refreshing an Internet Explorer page with multiple structures rendered in a page. This problem has been fixed.
   - Chime 2.6 does not find Internet Explorer as a Web browser on the Windows 2000 operating system. When installing Chime 2.6 plug-in, three options are displayed to locate the web browser that will contain the plug-in. Previously, two of the three choices could not install the plug-in to the correct location for IE. That problem has been corrected.
   - Poor display of Sgroup data on structure. Sgroup data now displays correctly with a structure sketch that is transferred from ISIS/Draw to Chime.
4. BUGS FIXED IN VERSION 2.6 - SERVICE PACK 2
   - Large inline structures (larger than 2K) cause Chime to crash. This problem has been fixed.
Transfer of structures from more than one Chime window to ISIS/Draw does not work correctly. This problem has been fixed.
Browser crashes when there are multiple Chime browser windows open and the windows are closed in the wrong order. This problem has been fixed.
BUGS FIXED IN VERSION 2.6 - SERVICE PACK 3

- Extended support to include Internet Explorer 5.5 SP2. (For Windows only)

- Support for V3000 Reaction Highlighting.
- LICENSING TERMS
  Chime is free for all users subject to the restrictions of the Chime license agreement. This agreement is made available for you to download by going to
licenses. MDL also provides Network and Distribution licenses.
- SUPPORT MATRIX
  Please refer to the support matrix located under
Hardware and Software Requirements on the Chime site.

You are strongly encouraged to upgrade to the most recent point release of any web browser Chime supports. For LiveConnect support you should use Netscape Communicator 4.75. LiveConnect is not supported in Internet Explorer.

MDL does not recommend Internet Explorer 5.* on Windows 95.

Download the latest 4.7x version of Netscape at http://home.netscape.com/.
Download the latest version of Internet Explorer at http://www.microsoft.com/windows/ie/download/default.asp.

- INSTALLER ISSUES
  The Chime Installer by default looks in the Windows Registry for the locations of supported web browsers on your system. Using the Windows Registry is not a foolproof way for locating web browser installations. If using the Windows Registry doesn't work for you, please set the installer to either search your local drive(s) or explicitly specify your web browser location. You can set this option when the installer prompts you to select the method for finding the web browser.

  Microsoft Internet Explorer cannot work with local files unless the proper file types are registered. This is done automatically by the installer unless explicitly disabled by the user. If a desired file type is not registered, please rerun the Chime installer, or configure the MIME types manually:

  - Open Windows Explorer
  - Options (orView>Folder Options if you have Active Desktop enabled)
  - Click the File Types tab to select it
  - Click the New Type button to add a new file type

  The installer will attempt to replace an older version of Chime. The installer cannot replace Chime if the plug-in is currently in use by a web browser. Please exit all web browsers before installing Chime, and make sure there is no Chime structure on display on your Active Desktop if you are using Internet Explorer. The installer will place the following files on your system:

            npchime.dll   (plugins folder)
            npchime.zip   (plugins folder, used for LiveConnect)
                           NOTE: Do not unzip this file
            chime.html   (plugins folder, the readme file for Chime)
            chime26.isu  (plugins folder, used to uninstall Chime)
            sculptapi.dll (Windows System folder, used for Sculpt)

- GENERAL INTERACTION WITH ISIS/DRAW
  You can transfer MDL mol, rxn, tgf and skc files to ISIS/Draw 2.1.4 and later by either double clicking in the Chime window in 2D mode or by using Chime'sEdit>Transfer to ISIS/Draw menu. Large molecules such as proteins will not transfer to ISIS/Draw, nor will they appear in Chime's 2D display mode.

- MAJOR KNOWN PROBLEMS AND LIMITATIONS
  LiveConnect
  Currently, Netscape Communicator and Netscape Navigator are the only LiveConnect capable browsers. Demonstration pages which use LiveConnect to manipulate the Chime plug-in will not work in Internet Explorer. HTML pages that contain an "executeScript" command will produce a plug-in error message in Internet Explorer.

  Internet Explorer on Macintosh
  The Chime plug-in is currently not supported on Internet Explorer on the Mactintosh.

  Printing on Microsoft Internet Explorer
  Chime plug-in fails to print in Internet Explorer 4.0, 5.5, and 5.5sp1.

  Printing on Windows 2000
  Printing does not work on Windows 2000 due to known Microsoft limitations.

  Printing on Netscape Communicator on the Macintosh
  Printing on Netscape Communicator on the Macintosh can be problematic.

  Unix and Linux Support
  The Chime plug-in is only supported on Windows and Macintosh.
  Chime Pro customers have access to the Chime Pro for Java

- JCAMP-DX SPECTRAL DISPLAY
  MDL has integrated JCAMP-DX reader and viewer capabilities into Chime using code licensed from the University of West Indies, Mona Jamaica. You can find additional information and documentation on JCAMP-DX at http://jcamp.isas-dortmund.de/ JCAMP Spectra will not print on Netscape or Internet Explorer. This is a limitation with Chime. To print a Chime spectral display, you need to copy the image to an image editing program and print from that program. The steps are: 1. Make sure the spectral image is in the front most window 2. Press the Alt and Print Scrn keys on the keyboard at the same time 3. Open an image editor such as MS Paint 4. Select Paste on the Edit menu 5. Edit the image if necessary 6. Print the image from the image editor program Fourier Transformations are not supported by JCAMP-DX.

  JCAMP is supported only on the Windows platform.

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