User:AngelHerraez - Revision history

AngelHerraez: fix missing redirects

2025-08-11T16:53:04Z

fix missing redirects

AngelHerraez: fix typos from character encoding

2024-12-27T18:37:08Z

fix typos from character encoding

AngelHerraez: /* Personal information */

2016-11-23T15:48:58Z

‎Personal information

AngelHerraez at 10:55, 31 August 2010

2010-08-31T10:55:34Z

AngelHerraez: add pic

2010-08-30T18:22:09Z

add pic

AngelHerraez: /* Jmol in Wikipedia */

2009-06-13T22:47:24Z

‎Jmol in Wikipedia

AngelHerraez: /* Jmol in Wikipedia */ link to discussion at WP

2009-06-09T17:19:21Z

‎Jmol in Wikipedia: link to discussion at WP

AngelHerraez: update on Biomodel materials

2009-06-07T17:20:28Z

update on Biomodel materials

AngelHerraez: /* Jmol in Wikipedia */

2009-05-25T20:36:47Z

‎Jmol in Wikipedia

AngelHerraez: /* Jmol in Wikipedia */

2009-05-25T10:03:32Z

‎Jmol in Wikipedia

@@ Line 58: / Line 58: @@
 = Running Jmol applets from the local file system =
-Advice and FAQ on how to set-up webpages that use Jmol applet and will work both when put on the web server AND when called from hard disk, CD-ROM, etc.: [[Jmol_Applet_Deployment_Local]]
+Advice and FAQ on how to set-up webpages that use Jmol applet and will work both when put on the web server AND when called from hard disk, CD-ROM, etc.: [[JSmol Deployment Local]]
 Loading molecules from the hard disk: [http://biomodel.uah.es/pruebas/jmol/slab/openfile.htm testing page] - '''works locally, but not from the web server''' so you would have to download the webpage and its accesory files for it to work; uses the signed applet.
 = Moving from Chime to Jmol =

@@ Line 3: / Line 3: @@
 I am a lecturer / associate professor in Biochemistry and Molecular Biology, long-time designer of web pages with Chime models, mainly proteins and nucleic acids. I am part of the [http://www.biorom.uma.es BioROM] group, which publishes a free, yearly CD-ROM with materials for computer-assisted teaching and learning in Biochem&MB in Spanish.
-My location is the University of AlcalÃ¡, in AlcalÃ¡ de Henares (Madrid province), Spain
+My location is the University of Alcalá, in Alcalá de Henares (Madrid province), Spain
 [http://orcid.org/0000-0002-9900-6845 ORCID: 0000-0002-9900-6845]
@@ Line 26: / Line 26: @@
 ** amino acids, peptides and proteins
 ** nucleic acids (bases, nucleosides, nucleotides, DNA, RNA)
-* Biomodel-4 (in Spanish, English, Portuguese, French, German, Romanian and Italian) is a Jmol port of Eric Martz's Chime tutorial "DNA structure".
+* Biomodel-4 (in Spanish, English and other 13 languages) is a Jmol port of Eric Martz's Chime tutorial "DNA structure".
 * Biomodel-5 (in Spanish) is an assorted collection about biopolymers.
 * Stereoisomerism in sugars and amino acids: a quiz with answers included (in Spanish).
@@ Line 33: / Line 33: @@
 = Publications on Jmol =
-* Angel HerrÃ¡ez, Robert M. Hanson, and Leslie Glasser: '''Interactive 3D phase diagrams using Jmol'''. Journal of Chemical Education 86(5): 566 (2009)
+* Angel Herráez, Robert M. Hanson, and Leslie Glasser: '''Interactive 3D phase diagrams using Jmol'''. Journal of Chemical Education 86(5): 566 (2009)
 :The [http://biomodel.uah.es/personal/2009/phase-diagrams/phase-diagrams.htm supplementary material] described in this [http://jchemed.chem.wisc.edu/journal/issues/2009/May/abs566.html Letter] illustrates the use of Jmol to plot experimental 3D data, together with interactive labeling and captioning, generation of projections of the data onto a plane, highlighting data subsets...
-* Angel HerrÃ¡ez: '''How to use Jmol to study and present molecular structures, Vol.1'''. <nowiki>ISBN 978-1-84799-259-8</nowiki>. Published by Lulu.com (2007).
+* Angel Herráez: '''How to use Jmol to study and present molecular structures, Vol.1'''. <nowiki>ISBN 978-1-84799-259-8</nowiki>. Published by Lulu.com (2007).
 : A manual to learn the use of Jmol and scripting, and how to include JmolApplet into web pages. Volume 1 covers beginner and intermediate levels.
 : [http://biomodel.uah.es/Jmol-handbook.htm Info and links to preview and on-line shop]
-* Angel HerrÃ¡ez: '''CÃ³mo utilizar Jmol para estudiar y presentar estructuras moleculares, Vol.1'''. <nowiki>ISBN 978-1-84753-710-2</nowiki>. Published by Lulu.com (2007).
+* Angel Herráez: '''Cómo utilizar Jmol para estudiar y presentar estructuras moleculares, Vol.1'''. <nowiki>ISBN 978-1-84753-710-2</nowiki>. Published by Lulu.com (2007).
 : (In Spanish)
 : [http://biomodel.uah.es/Jmol-manual.htm Info and links to preview and on-line shop]
-* Angel HerrÃ¡ez: '''Biomolecules in the computer: Jmol to the rescue'''. Biochemistry and Molecular Biology Education 34(4): 255-261 (2006).
+* Angel Herráez: '''Biomolecules in the computer: Jmol to the rescue'''. Biochemistry and Molecular Biology Education 34(4): 255-261 (2006).
 : A review of Jmol project and features, in comparison to Rasmol and Chime. doi:10.1002/bmb.2006.494034042644
 : [http://www3.interscience.wiley.com/cgi-bin/abstract/113449000/ABSTRACT Abstract and open-access full text]

@@ Line 4: / Line 4: @@
 My location is the University of AlcalÃ¡, in AlcalÃ¡ de Henares (Madrid province), Spain
 You can contact me: angel.herraez AT uah.es
-I have finished converting all my old Chime pages into Jmol. Everything is in my website, [http://biomodel.uah.es Biomodel]:
+[https://sourceforge.net/u/aherraez/profile/ SourceForge user page].
 * Biomodel-1 (in Spanish and English) is a tutorial on structure of biomolecules:

@@ Line 1: / Line 1: @@
 [[Image:Angel_%26_Bob_BCCE2010.jpg|thumb|right|alt=Angel & Bob|Angel HerrÃ¡ez (left) and Bob Hanson (right), during the [[Events#BCCE%202010|2010 BCCE]]. Angel is wearing the official BCCE cowboy hat -- August in Texas is hot!]]
 = Personal information =
-I am a lecturer in Biochemistry and Molecular Biology, long-time designer of web pages with Chime models, mainly proteins and nucleic acids. I am part of the [http://www.biorom.uma.es BioROM] group, which publishes a free, yearly CD-ROM with materials for computer-assisted teaching and learning in Biochem&MB in Spanish.
+I am a lecturer / associate professor in Biochemistry and Molecular Biology, long-time designer of web pages with Chime models, mainly proteins and nucleic acids. I am part of the [http://www.biorom.uma.es BioROM] group, which publishes a free, yearly CD-ROM with materials for computer-assisted teaching and learning in Biochem&MB in Spanish.
 My location is the University of AlcalÃ¡, in AlcalÃ¡ de Henares (Madrid province), Spain
@@ Line 16: / Line 16: @@
 ** RNA-protein complexes
 * Biomodel-2 (in Spanish and English) is a Jmol port of my former Chime version based on Eric Martz's RasMol script "Lipid bilayers and the gramicidin channel".
-* Biomodel-3 (in Spanish and English) is a simpler tutorial on biomolecule structure, aimed for Secondary School students:
+* Biomodel-3 (in Spanish and English) is a simpler tutorial on biomolecule structure, aimed for Secondary School / High School students:
 ** carbohydrates (mono-, di- and polysaccharides)
 ** lipids (fatty acids, triacylglycerol, phospholipids, steroids, lipid bilayer)
@@ Line 86: / Line 86: @@
 Since I am unable to find documentation for this, I have set-up a [http://biomodel.uah.es/Jmol/axes-rot/inicio.htm page] for testing orientation differences in Chime and Jmol.
 Please, post your comments in the jmol-users list.
@@ Line 103: / Line 105: @@
     return applet;
+  }
-''note: this function needs update to match current version of Jmol.js''
+''note: this function needs update to match current version of Jmol.js'' '''Current versions of Jmol.js no longer need this patch.'''
 where ''modelframe'' must be the name of your frame containing the applet.
@@ Line 146: / Line 148: @@
 You can visit a demo page at http://biomodel.uah.es/Jmol/pop-in/
 Suggestions are welcome.

← Older revision		Revision as of 18:22, 30 August 2010
Line 1:		Line 1:
		+	[[Image:Angel_%26_Bob_BCCE2010.jpg\|thumb\|right\|alt=Angel & Bob\|Angel HerrÃ¡ez (left) and Bob Hanson (right), during the [[Events#BCCE%202010\|2010 BCCE]]. Angel is wearing the official BCCE cowboy hat -- August in Texas is hot!]]
	= Personal information =		= Personal information =
	I am a lecturer in Biochemistry and Molecular Biology, long-time designer of web pages with Chime models, mainly proteins and nucleic acids. I am part of the [http://www.biorom.uma.es BioROM] group, which publishes a free, yearly CD-ROM with materials for computer-assisted teaching and learning in Biochem&MB in Spanish.		I am a lecturer in Biochemistry and Molecular Biology, long-time designer of web pages with Chime models, mainly proteins and nucleic acids. I am part of the [http://www.biorom.uma.es BioROM] group, which publishes a free, yearly CD-ROM with materials for computer-assisted teaching and learning in Biochem&MB in Spanish.

@@ Line 155: / Line 155: @@
 Preliminary tests:
 * [[User:AngelHerraez/Sandbox/Caffeine|Sandbox/Caffeine]]
-*: But it needs MediaWiki version 1.12+, and JmolWiki has 1.11
+*: But it needs MediaWiki version 1.12+, and JmolWiki has <s>1.11</s> 1.14 now. I'm going for it!
 * [[User:AngelHerraez/Sandbox/SklogWiki|Sandbox/SklogWiki]]

← Older revision		Revision as of 17:19, 9 June 2009
Line 150:		Line 150:

	= Jmol in Wikipedia =		= Jmol in Wikipedia =
		+
		+	Discussion is going on at http://en.wikipedia.org/wiki/Wikipedia_talk:Using_Jmol_to_display_molecular_models

	Preliminary tests:		Preliminary tests:

← Older revision		Revision as of 10:03, 25 May 2009
Line 154:		Line 154:
	Preliminary tests:		Preliminary tests:
	* [[User:AngelHerraez/Sandbox/Caffeine\|Sandbox/Caffeine]]		* [[User:AngelHerraez/Sandbox/Caffeine\|Sandbox/Caffeine]]
		+	* [[User:AngelHerraez/Sandbox/SklogWiki\|Sandbox/SklogWiki]]