RasMol uses the older X11 windowing system that is no longer provided as part of macOS, so we’ll install the open source XQuartz X11 system from XQuartz.org. Download the.dmg (disk image file), open it, and run the installer. There is no way before OS X of issuing the equivalent of the 'rasmol -script' command. Instead the Mac version of rasmol depend on the 'type' information for the file rasmol scripts are type RSML (creator RSML), pdb files are TEXT (creator RSML).
There is no way before OS X of issuing the equivalent of the 'rasmol -script' command. Instead the Mac version of rasmol depend on the 'type' information for the file rasmol scripts are type RSML (creator RSML), pdb files are TEXT (creator RSML). RasMol.Org offers downloads of the latest and most powerful version, along with the corresponding reference manual. The RasMol Classic Site (written in 1995-2000) offers help for beginners and reference materials for advanced users, but these have not been updated to the current RasMol version. Free RasMol Download, RasMol 2.7.5 Download. There is nothing to install (except maybe java) and everything works on Windows, Mac OS X, and linux. Mac users can use Virtual PC, but it is not free software.
Due to some unhappy events I had to switch to a MacBook recently. This lead to a very interesting adventure in the new world of Mac OS.
The main goal was to have RasMol and rasscripts set up in a way that will open the DomChop .rasscript file with one click.
Installing RasMol itself required some knowledge of command line, however since Mac OS is Unix-based it was not too hard.
First I had to download the RasWin binaries from the official website.
Then I untared the files using this in command line (change directory to the place where the file was downloaded to first):
which creates a new directory you have to change to:
and then recompile files using this command in the command line:
Ras Viewer
then confirming the process twice.
However now I had to figure out how to make rasmol open rasscripts the way I want them. For this, after many unsuccessful tries I managed to use the Automator app. It comes with Mac OS and allows to transform scripts into applications (.app extension). The app i created (scriptopener.app) runs this shell script, with the file it was used on as an argument:
Then allowing me to assign this application as a default app for .rasscript extension.
At this point I could open the .rasscript files with this app, to show me the chopping from CATH, however I still had to manually select the default app for the extension each time. To solve this issue I had to change the info.plist file in the scriptopener.app to include this:
with the line in bold being the important one, adding the .rasscript extension to the list of extensions it can open.
Now I can open rasmol scripts generated by CATH with one click, essentially allowing me to do the DomChopping on Mac OS.
Special thanks to Feng for helping me out with this.
Biomolecular Structures Group,Glaxo Wellcome Research & Development,Stevenage, Hertfordshire, UK
Version 2.6, August 1995, Version 2.6.4, December 1998
Copyright © Roger Sayle 1992-1999
| Author | Version, Date | Copyright |
|---|---|---|
| Arne Mueller | RasMol 2.6x1 May 1998 | © Arne Mueller 1998 |
| Gary Grossman and Marco Molinaro | RasMol 2.5-ucb November 1995 RasMol 2.6-ucb November 1996 | © UC Regents/ModularCHEM Consortium 1995, 1996 |
| Philippe Valadon | RasTop 1.3 August 2000 | © Philippe Valadon 2000 |
| Herbert J. Bernstein | RasMol 2.7.0 March 1999 RasMol 2.7.1 June 1999 RasMol 2.7.1.1 January 2001 RasMol 2.7.2 August 2000 RasMol 2.7.2.1 April 2001 RasMol 2.7.2.1.1 January 2004 | © Herbert J. Bernstein 1998-2004 |
| Author | Item | Language |
|---|---|---|
| Isabel Serván Martínez, José Miguel Fernández Fernández | 2.6 Manual | Spanish |
| José Miguel Fernández Fernández | 2.7.1 Manual | Spanish |
| Fernando Gabriel Ranea | 2.7.1 menus and messages | Spanish |
| Jean-Pierre Demailly | 2.7.1 menus and messages | French |
| Giuseppe Martini, Giovanni Paolella, A. Davassi, M. Masullo, C. Liotto | 2.7.1 menus and messages 2.7.1 help file | Italian |
Herbert J. Bernstein,Bernstein + Sons, P.O. Box 177, Bellport, NY, USA
yaya@bernstein-plus-sons.com
Copyright © Herbert J. Bernstein 1998-2001
The original RasMol manual was created by Roger Sayle. In July 1996,Dr. Margaret Wong of the Chemistry Department, Swinburne Universityof Technology, Australia, made extensive revisions to the RasMol 2.5manual to accurately reflect the operation of RasMol 2.6. Eric Martzof the University of Massachusetts made further revisions. In May1997, William McClure of Carnegie Mellon University reorganized theHTML version of the manual into multiple sections which could bedownloaded quickly and added use of frames. Portions of the 2.7.1version of the RasMol manual were derived with permission fromWilliam McClure's version using Roger Sayle's rasmol.doc forversion 2.6.4 as the primary source. Changes were made inAugust 2000 for RasMol version 2.7.2, January 2001 for RasMolversion 2.7.1.1 and April 2001 for RasMol version 2.7.2.1.
Edited by Herbert J. Bernstein and Frances C. Bernstein
Translations
Thanks to the efforts of José Miguel FernándezFernández (Departamento de Bioquímica y Biología Molecular. Universidad de Granada.España (jmfernan@ugr.es)) a translation of theManual for Rasmol version 2.7.1 into Spanish is now available.La traducción española del manual de laversión de la Dra. Wong revisada por Eric Martz fue realizada porIsabel Serván Martínez y José Miguel FernándezFernández. La actual traducción del Manual de RasMol 2.7.1ha sido realizada usando como base la anterior de RasMol 2.6 por José Miguel Fernández Fernández.
Thanks to translations by Fernando Gabriel Ranea
Production Release
RasMol 2.7.2.1.1 is the production release of version 2.7.2 of the RasMol 2.7series. Aside from code cleanups to avoid compiler warning messages, andone bug fix (to allow reading of the RCSB PDB mmCIF extensions data sets),this release is the same as the April 2001 2.7.1.1 release.
IMPORTANT - Copying and Distribution
This version is based directly on RasMol version 2.7.2, on RasMol 2.7.1.1,on RasTop 1.3, on RasMol version 2.6_CIF.2, on RasMol version2.6x1, on RasMol version 2.6.4, and RasMol 2.5-ucb and 2.6-ucb. Please read the file NOTICE forimportant notices which apply to this package. If you are not going tomake changes to RasMol, you are not only permitted to freely make copiesand distribute them, you are encouraged to do so, provided you do thefollowing:
- 1. Either include the complete documentation, especially the file NOTICE, with what you distribute orprovide a clear indication where people can get a copy of the documentation; and
- 2. Please give credit where credit is due citing the version andoriginal authors properly; and
- 3. Please do not give anyone the impression that the original authorsare providing a warranty of any kind.
If you would like to use major pieces of RasMol in some other program, makemodifications to RasMol, or in some other way make what a lawyer would calla 'derived work', you are not only permitted to do so, you are encouragedto do so. In addition to the things we discussed above, please do thefollowing:
Rasmol Mac Os X Downloads
- 4. Please explain in your documentation how what you did differs fromthis version of RasMol; and
- 5. Please make your modified source code available.
This version of RasMol is not in the public domain, but it is givenfreely to the community in the hopes of advancing science. If you makechanges, please make them in a responsible manner, and please offerus the opportunity to include those changes in future versions of RasMol.
Updated 21 March 04.Rasmol Mac Os X Download 10 11 6
Herbert J. Bernstein
Bernstein + Sons, 5 Brewster Lane, Bellport, NY 11713-2803, USA