User talk:J. Shaun Lott - Revision history

Eran Hodis: Links within Proteopedia

Eran Hodis — Wed, 13 Aug 2008 22:08:44 GMT

Links within Proteopedia

←Older revision		Revision as of 22:08, 13 August 2008
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	Thanks for the comments, let me check on the points you raised and get back to you, [[User:Eran Hodis\|Eran Hodis]] 07:40, 13 August 2008 (IDT)		Thanks for the comments, let me check on the points you raised and get back to you, [[User:Eran Hodis\|Eran Hodis]] 07:40, 13 August 2008 (IDT)
		+
		+	== Links within Proteopedia ==
		+
		+	Hi Shaun,
		+
		+	The usual way of creating links within Proteopedia is by surrounding the page name in square brackets like so: <nowiki>[[1ea5]]</nowiki> and if you want to specify how the text of the link should use, just use a pipe character like this <nowiki>[[1ea5 \| this is the text that will be displayed]]</nowiki>. Here are the two examples: [[1ea5]] and [[1ea5 \| this is the text that will be displayed]].
		+
		+	External links are created using no single square brackets like so: <nowiki>http://wikipedia.org</nowiki> resulting in the full link being displayed. To display only a number, use <nowiki>[http://wikipedia.org]</nowiki> and do not require a pipe character to separate the link from the displayed text: <nowiki>[http://wikipedia.org Wikipedia!]]</nowiki> Now these three examples in order: http://wikipedia.org and [http://wikipedia.org] and [http://wikipedia.org Wikipedia!]
		+
		+	Notice that external links are differentiated from internal links via a different shade of blue and an arrow following the link indicating that the link takes you to an external website.
		+
		+	Best,
		+	[[User:Eran Hodis\|Eran Hodis]] 01:08, 14 August 2008 (IDT)

Eran Hodis: /* Proteopedia Page of The Year Competition */

Eran Hodis — Wed, 13 Aug 2008 04:40:02 GMT

Proteopedia Page of The Year Competition

←Older revision		Revision as of 04:40, 13 August 2008
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	With warm regards,		With warm regards,
	Eran		Eran
		+
		+
		+	Thanks for the comments, let me check on the points you raised and get back to you, [[User:Eran Hodis\|Eran Hodis]] 07:40, 13 August 2008 (IDT)

Eran Hodis: Proteopedia Page of The Year Competition

Eran Hodis — Tue, 12 Aug 2008 21:11:46 GMT

Proteopedia Page of The Year Competition

←Older revision		Revision as of 21:11, 12 August 2008
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	P.S. I sign my name by using the signature button (2 buttons to the left of the 3D button), and if you want to leave me a note, you should do it on my user page (i.e. go to the discussion page on my user page). If you write anything there, I will be immediately notified, whereas if you write it here, I won't know unless I happen to check.		P.S. I sign my name by using the signature button (2 buttons to the left of the 3D button), and if you want to leave me a note, you should do it on my user page (i.e. go to the discussion page on my user page). If you write anything there, I will be immediately notified, whereas if you write it here, I won't know unless I happen to check.
		+
		+	== Proteopedia Page of The Year Competition ==
		+
		+	Dear Shaun,
		+
		+	How is your page working out for teaching? I'd love to hear your feedback, good and bad. Also, please do encourage your students to request accounts and create pages of their own -- we are hosting a Page of the Year competition with a 32GB iPod Touch as the grand prize!
		+
		+	With warm regards,
		+	Eran

Eran Hodis at 22:32, 15 July 2008

Eran Hodis — Tue, 15 Jul 2008 22:32:04 GMT

←Older revision		Revision as of 22:32, 15 July 2008
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	Hi Shaun,		Hi Shaun,

-	If you're interested in another example of teaching material on Proteopedia, there is a new (and maybe still developing) page on Ramachandran Plots that Professor Karl Oberholser from Messiah College, PA made. Here is the link: [User:Karl_Oberholser/Ramachandran_Plots] . As far as aesthetics on Jmol, does the "toggle quality" feature allay your concerns at all? I looked briefly into increasing the thickness of the sheets and helices in Jmol, but on first glance did not find this option. You are always welcome to peruse the Jmol documentation at [http://chemapps.stolaf.edu/jmol/docs/] and to recommend the inclusion of new features (although all of those powerful Jmol commands can be accessed by the Jmol command line console -- just right click on the Jmol and select console). A control panel is not a bad idea at all, but we've yet to do something like that. Again, if you have any questions just contact me.	+	If you're interested in another example of teaching material on Proteopedia, there is a new (and maybe still developing) page on Ramachandran Plots that Professor Karl Oberholser from Messiah College, PA made. Here is the link: [User:Karl_Oberholser/Ramachandran_Plots] . As far as aesthetics on Jmol, does the "toggle quality" feature allay your concerns at all? I looked briefly into increasing the thickness of the sheets and helices in Jmol, but on first glance did not find this option. You are always welcome to peruse the Jmol documentation at http://chemapps.stolaf.edu/jmol/docs/ and to recommend the inclusion of new features (although all of those powerful Jmol commands can be accessed by the Jmol command line console -- just right click on the Jmol and select console). A control panel is not a bad idea at all, but we've yet to do something like that. Again, if you have any questions just contact me.

	Best,		Best,

Eran Hodis at 22:31, 15 July 2008

Eran Hodis — Tue, 15 Jul 2008 22:31:48 GMT

←Older revision		Revision as of 22:31, 15 July 2008
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	Hi Shaun,		Hi Shaun,

-	If you're interested in another example of teaching material on Proteopedia, there is a new (and maybe still developing) page on Ramachandran Plots that Professor Karl Oberholser from Messiah College, PA made. Here is the link: . As far as aesthetics on Jmol, does the "toggle quality" feature allay your concerns at all? I looked briefly into increasing the thickness of the sheets and helices in Jmol, but on first glance did not find this option. You are always welcome to peruse the Jmol documentation at [http://chemapps.stolaf.edu/jmol/docs/] and to recommend the inclusion of new features (although all of those powerful Jmol commands can be accessed by the Jmol command line console -- just right click on the Jmol and select console). A control panel is not a bad idea at all, but we've yet to do something like that. Again, if you have any questions just contact me.	+	If you're interested in another example of teaching material on Proteopedia, there is a new (and maybe still developing) page on Ramachandran Plots that Professor Karl Oberholser from Messiah College, PA made. Here is the link: [User:Karl_Oberholser/Ramachandran_Plots] . As far as aesthetics on Jmol, does the "toggle quality" feature allay your concerns at all? I looked briefly into increasing the thickness of the sheets and helices in Jmol, but on first glance did not find this option. You are always welcome to peruse the Jmol documentation at [http://chemapps.stolaf.edu/jmol/docs/] and to recommend the inclusion of new features (although all of those powerful Jmol commands can be accessed by the Jmol command line console -- just right click on the Jmol and select console). A control panel is not a bad idea at all, but we've yet to do something like that. Again, if you have any questions just contact me.

	Best,		Best,

Eran Hodis at 22:31, 15 July 2008

Eran Hodis — Tue, 15 Jul 2008 22:31:10 GMT

←Older revision		Revision as of 22:31, 15 July 2008
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	cheers		cheers
	[[User:J. Shaun Lott\|J. Shaun Lott]]		[[User:J. Shaun Lott\|J. Shaun Lott]]
		+
		+
		+	Hi Shaun,
		+
		+	If you're interested in another example of teaching material on Proteopedia, there is a new (and maybe still developing) page on Ramachandran Plots that Professor Karl Oberholser from Messiah College, PA made. Here is the link: . As far as aesthetics on Jmol, does the "toggle quality" feature allay your concerns at all? I looked briefly into increasing the thickness of the sheets and helices in Jmol, but on first glance did not find this option. You are always welcome to peruse the Jmol documentation at [http://chemapps.stolaf.edu/jmol/docs/] and to recommend the inclusion of new features (although all of those powerful Jmol commands can be accessed by the Jmol command line console -- just right click on the Jmol and select console). A control panel is not a bad idea at all, but we've yet to do something like that. Again, if you have any questions just contact me.
		+
		+	Best,
		+	--[[User:Eran Hodis\|Eran Hodis]] 01:31, 16 July 2008 (IDT)
		+
		+	P.S. I sign my name by using the signature button (2 buttons to the left of the 3D button), and if you want to leave me a note, you should do it on my user page (i.e. go to the discussion page on my user page). If you write anything there, I will be immediately notified, whereas if you write it here, I won't know unless I happen to check.

J. Shaun Lott: /* BIOSCI203 */

J. Shaun Lott — Tue, 15 Jul 2008 21:28:26 GMT

BIOSCI203

←Older revision		Revision as of 21:28, 15 July 2008
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	Best,		Best,
	[[User:Eran Hodis\|Eran Hodis]] 15:51, 15 July 2008 (IDT)		[[User:Eran Hodis\|Eran Hodis]] 15:51, 15 July 2008 (IDT)
		+
		+	Hi Eran
		+
		+	Thanks for taking an interest! This is my first experiment at transferring teaching material from sPDBv to Proteopedia, and my first impression is that it will work very well, especially for courses like this: large classes, with mixed computational ability. All the time spent learning how to use the program has disappeared, and one can focus on content. The end result will be that more content goes in, which can only be good. Thanks for the formatting suggestions - I'm not done yet so I'll certainly try incorporating them. I think I still have my reservations about Jmol, which are in some degree at least down to aesthetics. For instance, can one increase the thickness rather than the width of sheets and helices so that they don't appear paper-thin? I think my wish-list from Erice is still true: would be great to have the applet launch in a stand-alone window for instance, and I find the 'control panel' window of sPDBv very useful and so something like it would be great too.
		+
		+	cheers
		+	[[User:J. Shaun Lott\|J. Shaun Lott]]

Eran Hodis: /* BIOSCI203 */

Eran Hodis — Tue, 15 Jul 2008 12:52:06 GMT

BIOSCI203

←Older revision		Revision as of 12:52, 15 July 2008
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	== BIOSCI203 ==		== BIOSCI203 ==

-	Your new page looks great, and I'm sure will be very helpful for your course. May I suggest something? If you notice, the "Proteopedia Page Contributors and Editors" section is right next to the 2nd applet on the page. Perhaps you'd like that section to be pushed down all the way to the bottom. Try this: insert, as the last line in the page, the text <nowiki>{{Clear}}</nowiki> (i.e. the word Clear with 2 curly brackets on either side). Save the page and you should find that the contributors section has been pushed to a more aesthetically pleasing location. If you ever need to separate 2 sections, just use this clearing syntax.	+	Your new page looks great, and I'm sure will be very helpful for your course. May I suggest something? If you notice, the "Proteopedia Page Contributors and Editors" section is right next to the 2nd applet on the page. Perhaps you'd like that section to be pushed down all the way to the bottom. Try this: insert, as the last line in the page, the text <nowiki>{{Clear}}</nowiki> (i.e. the word Clear with 2 curly brackets on either side). Save the page and you should find that the contributors section has been pushed to a more aesthetically pleasing location at the bottom of the page instead of encroaching on your 2nd applet. If you ever need to separate 2 sections, just use this clearing syntax.

	Best,		Best,
	[[User:Eran Hodis\|Eran Hodis]] 15:51, 15 July 2008 (IDT)		[[User:Eran Hodis\|Eran Hodis]] 15:51, 15 July 2008 (IDT)

Eran Hodis: BIOSCI203

Eran Hodis — Tue, 15 Jul 2008 12:51:36 GMT

BIOSCI203

←Older revision		Revision as of 12:51, 15 July 2008
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	'''Welcome to ''Proteopedia''!''' We hope you will contribute much and well.		'''Welcome to ''Proteopedia''!''' We hope you will contribute much and well.
	You will probably want to read the [[Help:Contents\|help pages]]. Again, welcome and have fun! [[User:Eran Hodis\|Eran Hodis]] 16:44, 30 May 2008 (IDT)		You will probably want to read the [[Help:Contents\|help pages]]. Again, welcome and have fun! [[User:Eran Hodis\|Eran Hodis]] 16:44, 30 May 2008 (IDT)
		+
		+	== BIOSCI203 ==
		+
		+	Your new page looks great, and I'm sure will be very helpful for your course. May I suggest something? If you notice, the "Proteopedia Page Contributors and Editors" section is right next to the 2nd applet on the page. Perhaps you'd like that section to be pushed down all the way to the bottom. Try this: insert, as the last line in the page, the text <nowiki>{{Clear}}</nowiki> (i.e. the word Clear with 2 curly brackets on either side). Save the page and you should find that the contributors section has been pushed to a more aesthetically pleasing location. If you ever need to separate 2 sections, just use this clearing syntax.
		+
		+	Best,
		+	[[User:Eran Hodis\|Eran Hodis]] 15:51, 15 July 2008 (IDT)

Eran Hodis: Welcome!

Eran Hodis — Fri, 30 May 2008 13:44:28 GMT

Welcome!

New page

'''Welcome to ''Proteopedia''!''' We hope you will contribute much and well.
You will probably want to read the [[Help:Contents|help pages]]. Again, welcome and have fun! [[User:Eran Hodis|Eran Hodis]] 16:44, 30 May 2008 (IDT)