Jmol-Application/C4/Animation-using-Script-Commands/English-timed - Revision history

PoojaMoolya at 04:41, 29 March 2017

2017-03-29T04:41:44Z

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Pratik kamble at 09:11, 26 October 2016

2016-10-26T09:11:58Z

Pratik kamble at 09:11, 26 October 2016

2016-10-26T09:11:14Z

Sandhya.np14 at 07:45, 8 July 2016

2016-07-08T07:45:37Z

Sandhya.np14 at 07:32, 8 July 2016

2016-07-08T07:32:46Z

Sandhya.np14 at 12:16, 1 July 2016

2016-07-01T12:16:10Z

Sandhya.np14 at 11:34, 29 June 2016

2016-06-29T11:34:59Z

Sandhya.np14 at 05:15, 16 June 2016

2016-06-16T05:15:02Z

Sandhya.np14 at 09:21, 3 June 2016

2016-06-03T09:21:19Z

Sandhya.np14 at 06:00, 12 February 2016

2016-02-12T06:00:03Z

@@ Line 1: / Line 1: @@
 {| Border=1
-|'''Time'''
+! <center>Time</center>
-|'''Narration'''
+! <center>Narration</center>
 |-
@@ Line 297: / Line 297: @@
 |-
 | 07:20
-|"loop 2" indicates the previous script commands will be repeated after a 2 second delay.
+|"'''loop 2'''" indicates the previous script commands will be repeated after a 2 second delay.Press '''Enter'''.
 Press '''Enter'''.
 |-

@@ Line 1: / Line 1: @@
 {| Border=1
-! <center>Time</center>
+|'''Time'''
-! <center>Narration</center>
+|'''Narration'''
 |-
@@ Line 17: / Line 17: @@
 |-
-| 00:19
+|00:19
 |'''Jmol script command'''s with the following '''keyword'''s will be used for '''animation'''s.
 |-
-| 00:24
+|00:24
 |'''move, delay, slab, loop '''and''' capture'''.
 |-
-|  00:30
+|00:30
 |To follow this tutorial, you should have knowledge of high school chemistry and familiar with operations from '''Jmol window'''.
 |-
-| 00:39
+|00:39
 |If not, for relevant tutorials, please visit our website.
 |-
-| 00:44
+|00:44
 |To record this tutorial, I am using '''Ubuntu OS''' version 14.10,
@@ Line 58: / Line 58: @@
 |-
 |  01:23
-|'''loop '''command causes the script to restart at the beginning with an optional
+|'''loop '''command causes the script to restart at the beginning with an optional time delay.
 time delay.
 |-
@@ Line 70: / Line 69: @@
 |-
-|  01:44
+|01:44
 |Let us open the Jmol window and demonstrate an animation using '''move''' command.
 |-
-|  01:50
+|01:50
 |I will begin with a simple '''move''' command using ethane as an example.
@@ Line 82: / Line 81: @@
 |-
-|  01:59
+|01:59
 |Click on the '''modelkit''' icon, a model of '''methane''' appears on the '''screen'''.
 |-
-| 02:06
+|02:06
 |Click on the '''hydrogen'''. Now we have a model of '''ethane''' on screen.
 |-
-|  02:13
+|02:13
 |Open the '''console''' using '''File''' menu.
 |-
-|  02:17
+|02:17
 |At the prompt, type the following command.
@@ Line 111: / Line 110: @@
 |-
 |  02:36
-|The first three parameters are rotations around X, Y and Z axes.
+|The first three parameters are rotations around X, Y and Z axes.4is the '''zoom modifier''', expressed in positive or negative numbers,
-−
-<sup>th</sup> is the '''zoom modifier''', expressed in positive or negative numbers,
 |-
@@ Line 191: / Line 188: @@
 |-
-|  04:41
+|04:41
 |Press up-arrow key again and edit the previous command as shown on the console.
 |-
-|  04:47
+|04:47
 |Type: "slab on" after the '''select''' command.
@@ Line 207: / Line 204: @@
 |-
-| 05:01
+|05:01
 |You can see parts of the molecule disappear and appear again.
 |-
-|  05:06
+|05:06
 |You can save this animation as a '''GIF''' file, using '''capture''' keyword.
@@ Line 219: / Line 216: @@
 |-
-| 05:15
+|05:15
 |Type the "capture" command and specify the file name and '''path''' at the beginning of the command.
 |-
-| 05:21
+|05:21
 |You can type the name of your '''home''' folder to '''save''' the '''GIF''' file.
 |-
-|  05:26
+|05:26
 |I am saving this animation as file “sneha”, on the desktop. Press '''Enter'''.
@@ Line 239: / Line 236: @@
 |-
-| 05:44
+|05:44
 |Open the saved '''GIF''' file with '''Image Viewer''' software.
 |-
-| 05:50
+|05:50
 |Back to the '''Jmol''' panel.
 |-
-|  05:54
+|05:54
 |Similarly, open a '''pdb''' file of any macromolecule; for example- '''oxygenated hemoglobin''' with a '''pdb code''' "2DN1".
 |-
-|  06:06
+|06:06
 |Download the structure directly from '''pdb''' database using '''File''' menu.
@@ Line 325: / Line 322: @@
 |-
 |  08:03
-|For the assignment-
+|For the assignment-Take a molecule of your choice and create animation using '''move''' and '''delay''' commands.<br/>
 Take a molecule of your choice and create animation using '''move''' and '''delay''' commands.<br/>
 |-
 | 08:11
-| Change display, color and size of the bonds to create animation.
+|Change display, color and size of the bonds to create animation.
 |-
 | 08:17
-|The video at the following link summarizes the '''Spoken Tutorial''' project.
+|The video at the following link summarizes the '''Spoken Tutorial''' project. Please download and watch it.
 Please download and watch it.
 |-

@@ Line 220: / Line 220: @@
 |-
 | 05:15
-|Type the "capture" command and specify the file name and path at the beginning of the command.
+|Type the "capture" command and specify the file name and '''path''' at the beginning of the command.
 |-

@@ Line 224: / Line 224: @@
 |-
 | 05:21
-|You can type the name of your home folder to save the '''GIF''' file.
+|You can type the name of your '''home''' folder to '''save''' the '''GIF''' file.
 |-

@@ Line 58: / Line 58: @@
 |-
 |  01:23
-|'''loop '''command causes the script to restart at the beginning, with an optional
+|'''loop '''command causes the script to restart at the beginning with an optional
 time delay.

@@ Line 71: / Line 71: @@
 |-
 |  01:44
-|Let us open the ''Jmol''' window and demonstrate an animation using '''move''' command.
+|Let us open the Jmol window and demonstrate an animation using '''move''' command.
 |-
 |  01:50
-|I will begin with a simple '''move''' command using '''ethane''' as an example.
+|I will begin with a simple '''move''' command using ethane as an example.
 |-

@@ Line 18: / Line 18: @@
 |-
 | 00:19
-|'''Jmol script command'''s with the following '''keyword'''s will be used for animations.
+|'''Jmol script command'''s with the following '''keyword'''s will be used for '''animation'''s.
 |-
@@ Line 34: / Line 34: @@
 |-
 | 00:44
-|To record this tutorial, I am using '''Ubuntu OS''' version '''14.10'''
+|To record this tutorial, I am using '''Ubuntu OS''' version 14.10,
 |-
 | 00:51
-|'''Jmol''' version '''14.1.11''' and '''Java''' version '''7'''.
+|'''Jmol''' version 14.1.11 and '''Java''' version 7.
 |-

@@ Line 99: / Line 99: @@
 |-
 | 02:21
-|The '''command line''' starts with the word '''move'''
+|The '''command line''' starts with the word "move"
 |-
 | 02:24
-|followed by numbers that quantify a set of animation parameters.
+|followed by the numbers that quantify a set of '''animation parameter'''s.
 |-
@@ Line 113: / Line 113: @@
 |The first three parameters are rotations around X, Y and Z axes.
-<sup>th</sup> is the '''zoom modifier''', expressed in positive or negative numbers.
+<sup>th</sup> is the '''zoom modifier''', expressed in positive or negative numbers,
 |-
 | 02:48
-|Positive for '''zoom in''' and negative for '''zoom out'''.
+|positive for '''zoom in''' and negative for '''zoom out'''.
 |-
 | 02:52
-|The next three parameters deal with translation along the three axes.
+|The next three parameters deal with '''translation''' along the three axes.
 |-
@@ Line 133: / Line 133: @@
 |-
 |  03:10
-|Parameter 9 is the amount of time, in seconds, taken in performing the '''move''' command.
+|Parameter 9 is the amount of time, in '''second'''s, taken in performing the '''move''' command.
 |-
@@ Line 173: / Line 173: @@
 |-
 | 04:10
-|Again press up-arrow key to get the previous command.
+|Again, press up-arrow key to get the previous command.
 |-
@@ Line 181: / Line 181: @@
 |-
 | 04:19
-|Use '''select''' key words to change the color of the hydrogens and carbons. Press '''Enter'''.
+|Use '''select''' keywords to change the color of the hydrogens and carbons. Press '''Enter'''.
 |-
 |  04:27
@@ Line 188: / Line 188: @@
 |-
 | 04:34
-|Add a '''slab''' command to make certain parts of the molecule to disappear and appear.
+|Add a "slab" command to make certain parts of the molecule to disappear and appear.
 |-
@@ Line 220: / Line 220: @@
 |-
 | 05:15
-|Type the '''capture''' command and specify the file name and path at the beginning of the command.
+|Type the "capture" command and specify the file name and path at the beginning of the command.
 |-
@@ Line 236: / Line 236: @@
 |-
 |  05:41
-|Navigate to location of the GIF file.
+|Navigate to the location of the '''GIF''' file.
 |-
@@ Line 248: / Line 248: @@
 |-
 |  05:54
-|Similarly, open a '''pdb''' file of any macromolecule; for example- '''oxygenated hemoglobin''' with a '''pdb code 2DN1.'''
+|Similarly, open a '''pdb''' file of any macromolecule; for example- '''oxygenated hemoglobin''' with a '''pdb code''' "2DN1".
 |-
@@ Line 309: / Line 309: @@
 |-
 | 07:39
-|Now, Let's summarize. In this tutorial, we have learnt to
+|Now, let's summarize. In this tutorial, we have learnt to
 |-
@@ Line 321: / Line 321: @@
 |-
 | 07:58
-|Saved the animations as a GIF file using '''capture''' command.
+|Saved the animations as a '''GIF''' file using '''capture''' command.
 |-