JChemPaint/C3/Properties-of-JChemPaint/English-timed - Revision history

PoojaMoolya at 09:58, 28 October 2020

2020-10-28T09:58:34Z

PoojaMoolya at 11:43, 9 March 2017

2017-03-09T11:43:00Z

Sandhya.np14 at 06:23, 15 December 2015

2015-12-15T06:23:09Z

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Sandhya.np14 at 11:24, 6 December 2015

2015-12-06T11:24:22Z

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Pratik kamble at 09:08, 1 April 2015

2015-04-01T09:08:26Z

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Gaurav at 07:14, 1 April 2015

2015-04-01T07:14:58Z

PoojaMoolya at 06:03, 4 March 2015

2015-03-04T06:03:47Z

Ranjana: Created page with "{|border=1 ||'''Visual Cue''' ||'''Narration''' |- | 00:00 | Hello everyone. Welcome to this tutorial on '''Properties of JChemPaint.'''. |- | 00:06 | In this tutorial, we..."

2015-02-17T10:43:12Z

Created page with "{|border=1 ||'''Visual Cue''' ||'''Narration''' |- | 00:00 | Hello everyone. Welcome to this tutorial on '''Properties of JChemPaint.'''. |- | 00:06 | In this tutorial, we..."

New page

{|border=1
||'''Visual Cue'''
||'''Narration'''

|-
| 00:00
| Hello everyone. Welcome to this tutorial on '''Properties of JChemPaint.'''.

|-
| 00:06
| In this tutorial, we will learn

|-
| 00:08
| * Periodic table trends

|-
| 00:10
| * Draw a reaction and

|-
| 00:12
| * Set-up '''R-Group query'''

|-
| 00:14
| To record this tutorial I am using,

|-
| 00:17
| * '''Ubuntu Linux''' OS version 12.04

|-
| 00:21
| * '''JChemPaint''' version 3.3-1210

|-
| 00:26
| * '''Java''' version 7

|-
| 00:29
| To follow this tutorial you should be familiar with, '''JChemPaint''' chemical structures editor.

|-
| 00:36
| * If not, for relevant tutorial, please visit our website.

|-
| 00:41
| Let's switch to '''JChemPaint''' window.

|-
| 00:45
| Recall that we had saved our '''.jar''' file on the '''Desktop'''.

|-
| 00:50
| Press '''CTRl+ALt''' and '''T''' keys simultaneously to open the '''Terminal'''.

|-
| 00:55
| Type ''''“cd space Desktop”''' and press '''Enter'''.

|-
| 01:02
| Type ''' “java space -jar space ./jchempaint-3.3-1210.jar”''' and press '''Enter'''.

|-
| 01:14
| '''JChemPaint''' window opens.

|-
| 01:17
| Let's begin with '''Periodic Table trends'''.

|-
| 01:21
| The '''tool bar''' at the bottom shows buttons of some important '''elements'''.

|-
| 01:27
| The tool bar has two extra buttons towards the right.

|-
| 01:32
| * '''Enter an element symbol via keyboard''' and

|-
| 01:35
| * '''Select new drawing symbol from periodic table'''.

|-
| 01:40
| Click on '''Select new drawing symbol from periodic table''' button.

|-
| 01:45
| '''Choose an element''' window opens with an inbuilt '''Periodic Table'''.

|-
| 01:49
| Here we can see a box with the text '''Periodic Table of elements'''.

|-
| 01:55
| This is an information box.

|-
| 01:57
| The information box displays the details of chosen '''Element'''.

|-
| 02:02
| For eg: I will place the cursor on '''Oxygen'''.

|-
| 02:06
| Details about '''Oxygen''' are displayed in the information box.

|-
| 02:10
| Likewise, we can see the details of various '''Elements''' in the information box.

|-
| 02:17
| Click on '''Close''' to close the window.

|-
| 02:20
| Click on '''Enter an element symbol via keyboard''' button.

|-
| 02:24
| Click on the '''Panel'''.

|-
| 02:26
| '''Enter element''' text box opens.

|-
| 02:28
| We can type the symbol of the '''Element''' in the text box.

|-
| 02:33
| For example: I will type '''Xe''' for '''Xenon'''.

|-
| 02:37
| Click on '''OK''' button.

|-
| 02:40
| The symbol of '''Xenon(Xe)''' is displayed on the '''Panel'''.

|-
| 02:44
| Now, let's draw the structure of '''Xenondifluoride (XeF2)'''.

|-
| 02:47
| Go to '''Edit''' menu, navigate to '''Preferences''' and click on it.

|-
| 02:54
| '''Preferences''' window opens.

|-
| 02:57
| Uncheck '''Show Implicit hydrogens''' check box if it is checked.

|-
| 03:02
| Click '''OK''' to close the '''Preferences''' window.

|-
| 03:06
| Click on '''Fluorine(F)''' button and then click on '''Single bond''' button.

|-
| 03:12
| Move the cursor on '''Xenon''' atom.

|-
| 03:15
| Notice, a small blue circle appears on it.

|-
| 03:19
| Click and hold the left mouse button.

|-
| 03:22
| And then drag to draw two '''Xenon-Fluoride''' bonds.

|-
| 03:27
| Now I will explain about '''Xenon's Atom Popup Menu'''.

|-
| 03:31
| Move the cursor over to '''Xenon''' atom, right-click on it.

|-
| 03:36
| '''Xenon's Atom Popup Menu''' opens.

|-
| 03:40
| Here, I will explain about '''Isotopes, Change Element''' and '''Properties''' options.

|-
| 03:46
| Let's first move to '''Isotopes'''.

|-
| 03:49
| A submenu opens with a list of '''Isotopes of Xenon'''.

|-
| 03:54
| Next, I will move the cursor to '''Change Element'''.

|-
| 03:58
| A submenu opens with various categories of '''elements'''.

|-
| 04:02
| I will scroll down to various categories.

|-
| 04:06
| I will choose '''Alkali Earth Metals'''.

|-
| 04:09
| '''Alkali Earth Metals''' list opens.

|-
| 04:12
| Select '''Calcium(Ca)''' from the list.

|-
| 04:15
| We see that '''element Xenon''' is replaced by '''Calcium'''.

|-
| 04:19
| Now, we move on to '''Molecular Properties''' option.

|-
| 04:23
| Right click on '''Calcium'''.

|-
| 04:26
| '''Calcium's Atom Popup Menu''' opens.

|-
| 04:29
| Click on '''Molecular Properties''' option.

|-
| 04:33
| '''Properties''' text box opens.

|-
| 04:36
| Type the name of the compound as '''Calcium Fluoride''' and click on '''OK''' button.

|-
| 04:43
| Name of the compound is displayed below the structure.

|-
| 04:47
| Let us save the file now.

|-
| 04:49
| Click on '''Save''' button on the tool bar.

|-
| 04:53
| '''Save''' dialog box opens.

|-
| 04:56
| Type the file name as '''Calcium-fluoride'''.

|-
| 05:00
| Click on '''Save''' button.

|-
| 05:03
| Next, we will learn how to create a reaction.

|-
| 05:06
| To draw a reaction, we need to draw the required structures.

|-
| 05:10
| I have opened a new window with required structures.

|-
| 05:14
| Here the reactants are '''Propene''' and '''Chlorine''' molecules and product is '''1,2-dicholoropropane'''.

|-
| 05:23
| On the left side tool bar, click on the '''Reaction arrow''' button.

|-
| 05:27
| Click between reactants and products.

|-
| 05:31
| The reaction is created.

|-
| 05:33
| We will now allign the structures properly in the reaction.

|-
| 05:37
| Click on '''Relayout the structures''' button on the top tool bar.

|-
| 05:42
| I will now discuss about how to set up an '''R group query'''.

|-
| 05:47
| What is an '''R-group query'''?

|-
| 05:50
| * An '''R-group query''' involves '''Root structure''' and '''substituents'''.

|-
| 05:55
| * It represents substitution on the same '''root structure'''.

|-
| 06:00
| * It can involve derivatives which differ in one or more substituents.

|-
| 06:06
| Click on '''Create a new file''' icon to open a new window.

|-
| 06:11
| Click on '''Draw a chain''' button.

|-
| 06:14
| Click on the '''Panel''' to draw a '''Carbon''' chain with three '''Carbon''' atoms.

|-
| 06:20
| Let's create a substituent that has to be attached to the '''Carbon''' chain.

|-
| 06:24
| For example, '''Benzene'''.

|-
| 06:27
| Click on '''Benzene''' ring on right side tool bar.

|-
| 06:30
| Click on the '''Panel'''.

|-
| 06:33
| Let's label the terminal '''Carbon''' atom as '''R1''' in the '''Carbon''' chain.

|-
| 06:39
| Right click on terminal '''Carbon''' atom.

|-
| 06:42
| '''Atom Pop menu''' opens.

|-
| 06:45
| Scroll down to '''Pseudo Atoms'''.

|-
| 06:48
| A submenu opens; select '''R1'''.

|-
| 06:52
| Now let's define the '''Carbon''' chain as '''root structure'''.

|-
| 06:56
| Click on '''Selection''' button.

|-
| 06:58
| Select the '''Root structure''' by dragging over it.

|-
| 07:02
| Go to '''R-groups''' menu and select '''Define as Root Structure'''.

|-
| 07:09
| The substituent structure will be added as '''Not in R-Group'''.

|-
| 07:14
| Click on '''Selection''' button;

|-
| 07:17
| select the '''Substituent'''.

|-
| 07:19
| Go to '''R-groups''' menu and select '''Define as Substituent'''.

|-
| 07:26
| An input box opens.

|-
| 07:27
| Here, enter an '''R-group''' number as “1” and click on '''OK''' button.

|-
| 07:34
| The substituent will be numbered as '''R1'''.

|-
| 07:38
| On the '''Root structure,''' the substituent '''R1''' will be marked as asterisk(*)

|-
| 07:44
| The attaching '''Carbon''' atom of the substituent '''R1''' will also be marked with an asterisk(*).

|-
| 07:51
| Click on the '''Selection''' button, select '''Root Structure''' and '''substituent(R1)'''.

|-
| 07:58
| Go to '''R-groups''' menu, select '''General Possible configurations(sdf)'''.

|-
| 08:05
| '''Save''' dialog box opens.

|-
| 08:08
| Type the file name as '''r-group''', select the location as '''Desktop'''.

|-
| 08:14
| Click on '''Save''' button.

|-
| 08:18
| Click on '''Open''' icon on the tool bar.

|-
| 08:21
| '''Open''' dialogue box opens.

|-
| 08:24
| In the “Files of Type”, select “All Files”

|-
| 08:28
| Click on '''Desktop'''.

|-
| 08:30
| Click '''Open'''; then select the saved '''r-group''' file.

|-
| 08:36
| Click on “Open” button.

|-
| 08:39
| A message pops up; click '''OK'''.

|-
| 08:43
| A new file opens with '''r-group query''' structure.

|-
| 08:48
| To allign the structure properly, click on '''Relayout the structure''' button on the tool bar.

|-
| 08:55
| The structure shown is '''root structure''' along with attached '''R-group substituent Benzene'''.

|-
| 09:02
| Let's summarize.

|-
| 09:03
| In this tutorial we have learnt

|-
| 09:05
| * Periodic table trends

|-
| 09:07
| * Draw a reaction

|-
| 09:08
| * Set up '''R-Group query'''.

|-
| 09:11
| As an assignment,

|-
| 09:12
| * Explore various Periodic table trends and

|-
| 09:16
| * Draw reactions of your choice.

|-
| 09:19
| This video summarizes the Spoken Tutorial project

|-
| 09:23
| If you do not have good bandwidth, you can download and watch it.

|-
| 09:28
| Spoken Tutorial team conducts workshops using Spoken Tutorials and gives certificates.

|-
| 09:34
| Please contact us.

|-
| 09:37
| The Spoken Tutorial Project is funded by '''NMEICT, MHRD Government of India'''.

|-
| 09:44
| More information on this Mission is available at this link.

|-
| 09:49
| This is '''Madhuri Ganapathi''' from '''IIT Bombay''' signing off. Thank you for joining.
|-
|}

@@ Line 473: / Line 473: @@
 |-
 | 09:19
-| '''Open''' dialogue-box opens.
+| '''Open''' dialog-box opens.
 |-

@@ Line 13: / Line 13: @@
 |-
 | 00:09
-| * '''Periodic table''' trends
+| '''Periodic table''' trends
 |-
 | 00:11
-| * Draw a reaction and
+| Draw a reaction and Set-up '''R-Group query'''.
-−
-|-
-| 00:12
-| * Set-up '''R-Group query'''.
 |-
@@ Line 29: / Line 25: @@
 |-
 | 00:19
-| * '''Ubuntu Linux''' OS version '''12.04'''
+| '''Ubuntu Linux''' OS version '''12.04'''
 |-
 | 00:23
-| * '''JChemPaint''' version '''3.3-1210'''
+| '''JChemPaint''' version '''3.3-1210'''
 |-
 | 00:29
-| * '''Java''' version '''7'''.
+| '''Java''' version '''7'''.
 |-
@@ Line 85: / Line 81: @@
 |-
 | 01:40
-| * '''Enter an element symbol via keyboard''' and
+| '''Enter an element symbol via keyboard''' and
 |-
 | 01:44
-| * '''Select  new drawing symbol from periodic table'''.
+| '''Select  new drawing symbol from periodic table'''.
 |-
@@ Line 341: / Line 337: @@
 |-
 | 06:35
-| * An '''R-group query''' involves  '''Root structure''' and '''substituents'''.
+| An '''R-group query''' involves  '''Root structure''' and '''substituents'''.
 |-
 | 06:41
-| * It  represents substitution on the same '''Root structure'''.
+| It  represents substitution on the same '''Root structure'''.
 |-
 | 06:45
-| * It can involve derivatives which differ in one or more substituents.
+| It can involve derivatives which differ in one or more substituents.
 |-
@@ Line 521: / Line 517: @@
 |-
 | 10:06
-| * '''Periodic table''' trends
+| '''Periodic table''' trends
 |-
 | 10:09
-| * Draw a reaction
+| Draw a reaction
 |-
 | 10:11
-| * Set up '''R-Group query'''.
+| Set up '''R-Group query'''.
 |-
@@ Line 537: / Line 533: @@
 |-
 | 10:16
-| * Explore various Periodic table trends and
+| Explore various Periodic table trends and
 |-
 | 10:19
-| * Draw reactions of your choice.
+| Draw reactions of your choice.
 |-
@@ Line 565: / Line 561: @@
 |-
 | 10:49
-|  More information on this mission is available at this link.
+| More information on this mission is available at this link.
 |-

@@ Line 4: / Line 4: @@
 |-
-| 00:00
+| 00:01
 | Hello everyone. Welcome to this tutorial on '''Properties of JChemPaint.'''.
 |-
-| 00:06
+| 00:07
 | In this tutorial, we will learn
 |-
-| 00:08
+| 00:09
 | * Periodic table trends
 |-
-| 00:10
+| 00:11
-| * Draw a reaction and
+| * Draw a reaction
 |-
 | 00:12
-| * Set-up '''R-Group query'''
+| and * Set-up '''R-Group query'''
 |-
-| 00:14
+| 00:16
 | To record this tutorial I am using,
 |-
-| 00:17
+| 00:19
 | * '''Ubuntu Linux''' OS version 12.04
 |-
-| 00:21
+| 00:23
 | * '''JChemPaint''' version 3.3-1210
 |-
-| 00:26
+| 00:29
 | * '''Java''' version 7
 |-
-| 00:29
+| 00:31
 |  To follow this tutorial you should be familiar with,  '''JChemPaint''' chemical structures editor.
 |-
-| 00:36
+| 00:39
 | * If not, for relevant tutorial,  please visit our website.
 |-
-| 00:41
+| 00:44
 | Let's switch to '''JChemPaint''' window.
 |-
-| 00:45
+| 00:48
 | Recall that we had saved our '''.jar''' file on the '''Desktop'''.
 |-
-| 00:50
+| 00:54
 | Press '''CTRl+ALt''' and '''T''' keys simultaneously  to open the '''Terminal'''.
 |-
-| 00:55
+| 01:00
 |  Type ''''“cd space Desktop”''' and press '''Enter'''.
 |-
-| 01:02
+| 01:06
 |  Type ''' “java space  -jar space ./jchempaint-3.3-1210.jar”''' and press '''Enter'''.
 |-
-| 01:14
+| 01:21
 | '''JChemPaint''' window opens.
 |-
-| 01:17
+| 01:24
 |  Let's begin with '''Periodic Table trends'''.
 |-
-| 01:21
+| 01:28
 | The  '''tool bar'''  at the bottom shows buttons of some important '''elements'''.
 |-
-| 01:27
+| 01:35
 |  The tool bar has two extra buttons towards the right.

@@ Line 1: / Line 1: @@
 {|border=1
-||'''Visual Cue'''
+||'''Time'''
 ||'''Narration'''