Difference between revisions of "GChemPaint/C2/Introduction-to-GChemPaint/English"

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Title of the tutorial: Introduction-to-GChemPaint
 +
 +
Author: Madhuri Ganapathi
 +
 +
Key words:  About  GChemPaint, Installation, Open a new file, Menubar, Toolbar and Status bar, Display area, Document properties, tool box, Add a chain tool and video tutorial.
 +
 +
 +
 
{|border=1
 
{|border=1
 
!'''Visual Cue'''
 
!'''Visual Cue'''
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* Document properties
 
* Document properties
  
−
* Using tool box   and
+
* Using tool box and
  
 
*Saving the drawing with extension '''.gchempaint'''  
 
*Saving the drawing with extension '''.gchempaint'''  
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||Here I am using
 
||Here I am using
  
−
Ubuntu Linux OS version. 12.04
+
'''Ubuntu Linux''' OS version. 12.04
  
−
GChemPaint version 0.12.10
+
'''GChemPaint''' version 0.12.10
 
|-
 
|-
 
||'''Slide Number 4'''  
 
||'''Slide Number 4'''  
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'''Installation'''  
 
'''Installation'''  
−
||'''GChemPaint'''  can be installed very easily using '''Ubuntu Software Center'''.
+
||'''GChemPaint'''  can be very easily installed  using '''Ubuntu Software Center'''.
  
 
For more information on '''Ubuntu software Center''',
 
For more information on '''Ubuntu software Center''',
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'''Uses of GChemPaint'''  
 
'''Uses of GChemPaint'''  
  
−
||'''GChemPaint''' allows you to
+
||'''GChemPaint''' allows you to,
  
−
* '''Draw and display''' two dimensional chemical structures.
+
* '''Draw''' and '''display''' two dimensional chemical structures.
  
−
* '''Drag and drop''' of templates
+
* '''Drag''' and '''drop''' of templates
  
 
* Change length, angle and width of the bonds
 
* Change length, angle and width of the bonds
  
−
* Use '''Chemical Calculator''' to calculate '''molecular weight'''  of  the  compound
+
* Use '''Chemical Calculator''' to calculate '''molecular weight'''  of  compounds
 
|-
 
|-
 
||'''Slide Number 8'''
 
||'''Slide Number 8'''
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|-
 
|-
 
||
 
||
−
||Let's first see how to open a new '''GChemPaint'''  Application.  
+
||Let's first see how to open a new '''GChemPaint'''  application.  
 
|-
 
|-
 
||Click on  '''Dash home''' >> '''Search bar''' appears>>In the '''Search bar''' type '''GChemPaint'''
 
||Click on  '''Dash home''' >> '''Search bar''' appears>>In the '''Search bar''' type '''GChemPaint'''
 
||
 
||
−
Click on '''Dash home''' '''Search bar''' appears.
+
Click on '''Dash home''', '''Search bar''' appears.
−
In the '''Search bar''', type '''GChemPaint  
+
In the '''Search bar''', type '''GChemPaint'''
−
'''
+
 
Click on the '''GChemPaint''' application
 
Click on the '''GChemPaint''' application
 
|-
 
|-
 
||
 
||
−
||We  can also open  '''GChemPaint'''  Application from '''Terminal.'''
+
||We  can also open  '''GChemPaint'''  application from '''Terminal.'''
 
|-
 
|-
 
||Press '''CTRL+ALT+T'''  >> open the '''Terminal'''  
 
||Press '''CTRL+ALT+T'''  >> open the '''Terminal'''  
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||Type '''GChemPaint'''  and press Enter.   
 
||Type '''GChemPaint'''  and press Enter.   
  
−
'''GChemPaint''' Application opens.
+
'''GChemPaint''' application opens.
 
|-
 
|-
 
||Show the '''Gchempaint''' window
 
||Show the '''Gchempaint''' window
−
||This is a typical '''GChemPaint'''  window.  
+
||A typical '''GChemPaint'''  window looks like this.  
 
|-
 
|-
 
||'''Menubar'''
 
||'''Menubar'''
−
||'''GChempaint''' has a standard menu-bar like other window based applications.
+
||This is the Menubar.
 +
 
 +
'''GChempaint''' has a standard menu-bar like other window based applications.
 
|-
 
|-
 
||Point to the options as per the narration
 
||Point to the options as per the narration
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||'''Toolbar''' contains most frequently used commands as icons.
 
||'''Toolbar''' contains most frequently used commands as icons.
  
−
There are icons to''' open a New file''', '''Open existing file''', Sav'''e a file''' and '''Print a file. '''  
+
There are icons to '''open a New file''', '''Open existing file''', '''Save a file''' and '''Print a file'''.
 
|-
 
|-
 
|| Show '''Display area'''
 
|| Show '''Display area'''
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'''Display area'''  shows the structures and the contents of the file that we draw and edit.
 
'''Display area'''  shows the structures and the contents of the file that we draw and edit.
  
−
We can '''drag and drop''' tools from toolbox  into the '''Display area.'''       
+
We can '''drag''' and '''drop''' tools from toolbox  into the '''Display area.'''       
 
|-
 
|-
 
||Point to '''Statusbar'''
 
||Point to '''Statusbar'''
 
||'''Statusbar''' displays information about current '''GChemPaint''' activity.
 
||'''Statusbar''' displays information about current '''GChemPaint''' activity.
  
−
It also displays '''contextual''' information about the menu items.  
+
It also displays '''contextual''' information about menu items.  
 
|-
 
|-
 
||  
 
||  
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'''Document Properties''' window opens.
 
'''Document Properties''' window opens.
 +
 +
I will drag the Document Properties window to maximize it.
 
|-
 
|-
 
||Show ''' Document properties''' window
 
||Show ''' Document properties''' window
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|-
 
|-
 
||Show '''Title'''
 
||Show '''Title'''
−
||'''Title'''- Let's type title of the document as '''“Propane”'''
+
||'''Title'''- Let's type the title of the document as '''“Propane”'''
 
|-
 
|-
 
||Show '''Author's Name'''
 
||Show '''Author's Name'''
−
||'''Author's Name'''- let's type the author's name as '''Madhuri'''.
+
||'''Author's Name'''- let's type author's name as '''Madhuri'''.
 
|-
 
|-
 
||Show '''Email'''  
 
||Show '''Email'''  
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|-
 
|-
 
||Show '''History'''
 
||Show '''History'''
−
||'''History''' – This field shows the '''creation date''' of the document.  
+
||'''History''' – This field shows the '''Creation date''' of the document.  
  
 
It also shows the '''Revision date''' of  the document.
 
It also shows the '''Revision date''' of  the document.
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||'''Comments'''- In the '''Comments''' field, we  can add  text related  to the document.
 
||'''Comments'''- In the '''Comments''' field, we  can add  text related  to the document.
  
−
Let's enter name of the compound and its formula  
+
Let's enter name of the compound and its formula.
  
 
'''Propane CH3-CH2-CH3'''
 
'''Propane CH3-CH2-CH3'''
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|-
 
|-
 
||
 
||
−
||Let's next learn about '''Toolbox'''.
+
||Next let's learn about '''Toolbox'''.
 
|-
 
|-
 
||'''Tool box'''
 
||'''Tool box'''
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|-
 
|-
 
||Draw the structures
 
||Draw the structures
−
||Let's now draw structures using '''Toolbox''' buttons.
+
||Let's now draw structures using '''Toolbox''' buttons.
  
 
Let's first draw the structure of '''propane.'''  
 
Let's first draw the structure of '''propane.'''  
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|-
 
|-
 
||Click on  '''Add a Chain'''>> '''Display area'''
 
||Click on  '''Add a Chain'''>> '''Display area'''
−
||Click on  '''Add a Chain''' tool then on the '''Display area'''.   
+
||Click on  '''Add a Chain''' tool and then click on '''Display area'''.   
  
−
The '''Carbon''' chain is a drawn on the '''Display area'''.
+
A '''Carbon''' chain is a drawn on the '''Display area'''.
 
|-
 
|-
 
||Change orientation of Chain
 
||Change orientation of Chain
−
||To change the orientation of the chain,  click on the '''Add a Chain''' tool.  
+
||To change the orientation of the chain,  click on '''Add a Chain''' tool.  
 
|-
 
|-
 
||'''Display area'''>>click and hold the left mouse button
 
||'''Display area'''>>click and hold the left mouse button
−
||In the '''Display area''', click and hold the left mouse button to change the orientation.  
+
||In the '''Display area''', click and hold the left mouse button to orient the chain.  
 
|-
 
|-
 
||Do not release left mouse button
 
||Do not release left mouse button
−
||Do not release left mouse button until the direction of the chain is fixed.
+
||Do not release the left mouse button until the direction of the chain is fixed.
 
|-
 
|-
 
||Release the left mouse button
 
||Release the left mouse button
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|-
 
|-
 
||
 
||
−
||Note once we click on the '''Display area''', chain length and orientation of the chain are fixed.
+
||Note once we click on the '''Display area''', the chain length and orientation of the chain are fixed.
 
|-
 
|-
 
||Display Atoms.
 
||Display Atoms.
−
||Let's now display atoms on each position in the chain.
+
||Let's now display atoms at each position on the chain.
  
 
Here we have 3 positions to display atoms.
 
Here we have 3 positions to display atoms.
 
|-
 
|-
−
||Right click on first chain position
+
||Right click on first position
−
||Right click on first chain position, a '''Submenu''' opens.
+
||Right click on the first position, a '''Submenu''' opens.
 
|-
 
|-
−
||Select '''Atoms''' >> click  on  '''Display symbol'''
+
||Select '''Atom''' >> click  on  '''Display symbol'''
−
||Select '''Atoms''' then click  on  '''Display area''', to  display atoms at that position of the chain.
+
||Select '''Atom''' then click  on  '''Display symbol''', to  display atoms at that position.
 
|-
 
|-
 
||
 
||
−
||Like wise, let's display atoms at all positions of the chain.
+
||Like wise, let's display atoms on all positions.
 +
 
 +
Right click Select '''Atom'''  click  on  '''Display symbol'''
  
 
Here the structure of  “Propane” is drawn
 
Here the structure of  “Propane” is drawn
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|-
 
|-
 
||Click on  '''Add a Chain'''>> '''Display area'''
 
||Click on  '''Add a Chain'''>> '''Display area'''
−
||Click on the '''Add a Chain''' tool, then click on the ''' Display area.'''  
+
||Click on '''Add a Chain''' tool, then click on ''' Display area.'''  
 
|-
 
|-
 
||hold the left mouse button and drag the cursor.
 
||hold the left mouse button and drag the cursor.
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||
 
||
 
|Let's display  atoms on all positions.
 
|Let's display  atoms on all positions.
−
Here we have 5 positions to display the atoms.
+
Here we have 5 positions to display atoms.
 
|-
 
|-
 
||
 
||
−
||To display atoms on first position,  right click on the position.
+
||To display atoms on first position,  right click. A submenu opens
 
|-
 
|-
 
||Click on '''Atoms'''>> '''Display symbols'''
 
||Click on '''Atoms'''>> '''Display symbols'''
−
A submenu opens
+
||Select  '''Atoms''' click on '''Display symbol'''
−
||
+
−
Select  '''Atoms''' click on '''Display symbols''' to display the atoms at that position
+
 
|-
 
|-
 
||
 
||
  
−
||Like wise I will display atoms at all positions.
+
||Like wise I will display atoms on all positions.
  
 
Here the structure of pentane is drawn.
 
Here the structure of pentane is drawn.
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||Select '''2D Chemical structure'''
 
||Select '''2D Chemical structure'''
 
|-
 
|-
−
||In filename type  '''propane.gchempain'''t>> click '''Save'''
+
||In filename type  '''propane.gchempaint'''>> click '''Save'''
−
||Type the file name as '''propane.gchempaint''' click on '''Save''' button.
+
||Type the file name as '''propane.gchempaint''' and click on '''Save''' button.
  
 
File is saved with '''.gchempaint''' extension.
 
File is saved with '''.gchempaint''' extension.
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* Menubar, Toolbar and Status bar
 
* Menubar, Toolbar and Status bar
  
−
We have also learnt
+
We have also learnt about
  
 
* Display area
 
* Display area
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* Document Properties
 
* Document Properties
  
−
* Using tool box
+
* Using tool box and
  
 
* Save the drawing with extension  .gchempaint
 
* Save the drawing with extension  .gchempaint
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||As an assignment I would like you to
 
||As an assignment I would like you to
  
−
1.Draw structures of n-hexane and n-octane  
+
1. Draw structures of n-hexane and n-octane  
  
−
2.Change the orientation  
+
2. Change the orientation  
  
−
3.Display atoms on each position
+
3. Display atoms on each position
  
−
Output of assignment should look like this.
+
Output of the assignment should look like this.
 
|-
 
|-
 
||'''Slide number 11'''  
 
||'''Slide number 11'''  
  
 
'''Acknowledgement'''  
 
'''Acknowledgement'''  
−
||Watch the video available at  
+
||Watch the video available at this URL
  
−
'''http://spoken-tutorial.org/What is a Spoken Tutorial'''
+
'''http://spoken-tutorial.org/What_is_a_Spoken_Tutorial'''
  
 
It summarises the Spoken Tutorial project
 
It summarises the Spoken Tutorial project

Latest revision as of 16:29, 24 March 2014

Title of the tutorial: Introduction-to-GChemPaint

Author: Madhuri Ganapathi

Key words: About GChemPaint, Installation, Open a new file, Menubar, Toolbar and Status bar, Display area, Document properties, tool box, Add a chain tool and video tutorial.


Visual Cue Narration
Slide Number 1

Title Slide

Hello everyone

Welcome to this tutorial on, Introduction to GChemPaint

Slide Number 2

Learning Objectives

In this tutorial, we will learn

  • About GChemPaint
  • Uses and Benefits
  • Installation
  • Open a new file
  • Menubar, Toolbar and Status bar

We will also learn about,

  • Display area
  • Document properties
  • Using tool box and
  • Saving the drawing with extension .gchempaint
Slide Number 3

System Requirement

Here I am using

Ubuntu Linux OS version. 12.04

GChemPaint version 0.12.10

Slide Number 4

Pre-requisites

To follow this tutorial you should have knowledge of,

Basics of Chemistry upto VIII standard.

Slide Number 5

Installation

GChemPaint can be very easily installed using Ubuntu Software Center.

For more information on Ubuntu software Center,

please refer to Ubuntu Linux Tutorials on our website

www.spoken-tutorial.org

Slide Number 6

About GChemPaint

What is GChemPaint?

GChemPaint is a two dimensional chemical structure editor.

It has a multiple document interface.

Slide Number 7

Uses of GChemPaint

GChemPaint allows you to,
  • Draw and display two dimensional chemical structures.
  • Drag and drop of templates
  • Change length, angle and width of the bonds
  • Use Chemical Calculator to calculate molecular weight of compounds
Slide Number 8

Benefits of GChemPaint

GChemPaint helps in
  • Easy visualization of chemical structures
  • Converting two dimensional structures to three dimensional structures.
  • Magnification of structures
  • Automatic and manual assignment of atoms
Let's first see how to open a new GChemPaint application.
Click on Dash home >> Search bar appears>>In the Search bar type GChemPaint

Click on Dash home, Search bar appears. In the Search bar, type GChemPaint Click on the GChemPaint application

We can also open GChemPaint application from Terminal.
Press CTRL+ALT+T >> open the Terminal Press CTRL, ATL and T keys simultaneously to open the Terminal.
Type GChemPaint >>press Enter to open Type GChemPaint and press Enter.

GChemPaint application opens.

Show the Gchempaint window A typical GChemPaint window looks like this.
Menubar This is the Menubar.

GChempaint has a standard menu-bar like other window based applications.

Point to the options as per the narration Menu bar contain menu items like File, Edit, View, Tools, Windows and Help options
Point to Toolbar, New icon, Open icon, Save icon, Print icon Toolbar contains most frequently used commands as icons.

There are icons to open a New file, Open existing file, Save a file and Print a file.

Show Display area This is the Display area.

Display area shows the structures and the contents of the file that we draw and edit.

We can drag and drop tools from toolbox into the Display area.

Point to Statusbar Statusbar displays information about current GChemPaint activity.

It also displays contextual information about menu items.

Now I will explain about Document Properties.
Document Properties

Click on File menu>>Navigate to Properties>>Click on Document Properties

To open Document Properties window, click on File menu.

Navigate to Properties and click on it.

Document Properties window opens.

I will drag the Document Properties window to maximize it.

Show Document properties window Document properties window has the following fields.
Show Title Title- Let's type the title of the document as “Propane”
Show Author's Name Author's Name- let's type author's name as Madhuri.
Show Email Email– Let's leave it blank.
Show History History – This field shows the Creation date of the document.

It also shows the Revision date of the document.

This means, it also shows the next edited dated of the document.

Show Theme Theme- let's leave this field as GChemPaint
Show Comments Comments- In the Comments field, we can add text related to the document.

Let's enter name of the compound and its formula.

Propane CH3-CH2-CH3

Click on Close button Let's click on Close button to close the window.
Next let's learn about Toolbox.
Tool box Toolbox contains buttons for different tools.

Toolbox is displayed along with the active document window.

Draw the structures Let's now draw structures using Toolbox buttons.

Let's first draw the structure of propane.

Propane is CH3-CH2-CH3

Point to “Add Chain” tool Let's use Add a Chain tool from Tool box to draw a carbon chain.
Click on Add a Chain>> Display area Click on Add a Chain tool and then click on Display area.

A Carbon chain is a drawn on the Display area.

Change orientation of Chain To change the orientation of the chain, click on Add a Chain tool.
Display area>>click and hold the left mouse button In the Display area, click and hold the left mouse button to orient the chain.
Do not release left mouse button Do not release the left mouse button until the direction of the chain is fixed.
Release the left mouse button Release the left mouse button after fixing the direction.

We see that carbon chain is drawn.

Note once we click on the Display area, the chain length and orientation of the chain are fixed.
Display Atoms. Let's now display atoms at each position on the chain.

Here we have 3 positions to display atoms.

Right click on first position Right click on the first position, a Submenu opens.
Select Atom >> click on Display symbol Select Atom then click on Display symbol, to display atoms at that position.
Like wise, let's display atoms on all positions.

Right click Select Atom click on Display symbol

Here the structure of “Propane” is drawn

Pentane structure Let's next draw a pentane structure on the same window.
Click on Add a Chain>> Display area Click on Add a Chain tool, then click on Display area.
hold the left mouse button and drag the cursor. To increase the chain length, hold the left mouse button and drag the cursor.
Change orientation >>release the left mouse button Change orientation in the desired direction and release the left mouse button.
Let's display atoms on all positions.

Here we have 5 positions to display atoms.

To display atoms on first position, right click. A submenu opens
Click on Atoms>> Display symbols Select Atoms click on Display symbol
Like wise I will display atoms on all positions.

Here the structure of pentane is drawn.

Click on File>> Save As Let's now save the file.

Go to File Menu select Save as .

Save As dialog box opens.

Click on File type drop down For File type, click on the drop down arrow.

Various save formats are seen.

Select 2D Chemical structure Select 2D Chemical structure
In filename type propane.gchempaint>> click Save Type the file name as propane.gchempaint and click on Save button.

File is saved with .gchempaint extension.

With this, we have come to the end of this tutorial.

Let's summarise.

Slide Number 9

Summary

In this tutorial we have learnt,
  • About GChemPaint
  • Uses and Benefits
  • Installation
  • Open a new file
  • Menubar, Toolbar and Status bar

We have also learnt about

  • Display area
  • Document Properties
  • Using tool box and
  • Save the drawing with extension .gchempaint
Slide Number 10

Assignment

As an assignment I would like you to

1. Draw structures of n-hexane and n-octane

2. Change the orientation

3. Display atoms on each position

Output of the assignment should look like this.

Slide number 11

Acknowledgement

Watch the video available at this URL

http://spoken-tutorial.org/What_is_a_Spoken_Tutorial

It summarises the Spoken Tutorial project

If you do not have good bandwidth, you can download and watch it

Slide Number 12 The Spoken Tutorial Project Team:

Conducts workshops using spoken tutorials

Gives certificates to those who pass an online test

For more details, please write to

contact@spoken-tutorial.org

Slide number 13 Spoken Tutorial Project is a part of the Talk to a Teacher project

It is supported by the National Mission on Education through ICT, MHRD, Government of India

More information on this Mission is available at this link

http://spoken-tutorial.org/NMEICT-Intro ]

This is Madhuri Ganpathi from IIT Bombay signing off. Thank you for joining.

Contributors and Content Editors

Madhurig

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