Difference between revisions of "CellDesigner/C2/Installation-of-CellDesigner-on-Linux/English"
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* Download and install '''CellDesigner 4.3 '''on''' Ubuntu Linux Operating System''' | * Download and install '''CellDesigner 4.3 '''on''' Ubuntu Linux Operating System''' | ||
− | * and create a''' Compartment | + | * and create a''' Compartment''' in the draw area of '''CellDesigner'''. |
|- | |- | ||
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| style="border:0.05pt solid #000000;padding:0.053cm;"| Here I am using | | style="border:0.05pt solid #000000;padding:0.053cm;"| Here I am using | ||
− | * '''Ubuntu | + | * '''Ubuntu Operating System 14.04''' |
* '''CellDesigner version 4.3''' | * '''CellDesigner version 4.3''' | ||
* '''Java version 1.7''' | * '''Java version 1.7''' | ||
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'''Pre-requisites''' | '''Pre-requisites''' | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| To follow this tutorial, you should be familiar with basic operations on '''Linux | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| To follow this tutorial, you should be familiar with basic operations on '''Linux Operating System.''' |
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[http://celldesigner.org/features/features43.html http://celldesigner.org/features/features43.html] | [http://celldesigner.org/features/features43.html http://celldesigner.org/features/features43.html] | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| Click on '''Download | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| Click on '''Download CellDesigner''' button on the right hand side. |
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|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| Click on ''''System Settings'''', | | style="border:0.05pt solid #000000;padding:0.053cm;"| Click on ''''System Settings'''', | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| For this, click on the icon ''''System Settings'''', located at the top right corner of your machine. |
+ | |||
+ | Upon clicking, the '''System Settings''' page opens up. | ||
|- | |- | ||
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|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| Highlight OS type field | | style="border:0.05pt solid #000000;padding:0.053cm;"| Highlight OS type field | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| Here a new window ''''Details'''' opens. |
− | + | Check the ‘'''OS type'''’ of your machine- whether it is '''64-bit''' or '''32-bit'''. | |
|- | |- | ||
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Close the window | Close the window | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| I have a '''64 bit''' machine. | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| I have a '''64 bit''' machine. |
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|- | |- | ||
| style="background-color:#e6b8af;border:0.05pt solid #000000;padding:0.053cm;"| Point to 32 '''bit version''' | | style="background-color:#e6b8af;border:0.05pt solid #000000;padding:0.053cm;"| Point to 32 '''bit version''' | ||
− | | style="background-color:#e6b8af;border:0.05pt solid #000000;padding:0.053cm;"| In case you have a 32 bit machine, then download the '''32 | + | | style="background-color:#e6b8af;border:0.05pt solid #000000;padding:0.053cm;"| In case you have a '''32 bit''' machine, then download the '''32 bit version. ''' |
|- | |- | ||
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− | + | And then click on '''Continue'''. | |
|- | |- | ||
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|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| Click on '''Save File''' button | | style="border:0.05pt solid #000000;padding:0.053cm;"| Click on '''Save File''' button | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| A dialog box opens. | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| A dialog box opens. |
Here click on '''Save File''' button. | Here click on '''Save File''' button. | ||
− | |||
− | |||
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|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| Press '''Ctrl+Alt+T '''keys | | style="border:0.05pt solid #000000;padding:0.053cm;"| Press '''Ctrl+Alt+T '''keys | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| Once the file is downloaded, go to the '''terminal''' by pressing '''Ctrl+Alt+T '''keys | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| Once the file is downloaded, go to the '''terminal''' by pressing '''Ctrl+Alt+T '''keys. |
|- | |- | ||
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So, first I will go to that folder. Type- | So, first I will go to that folder. Type- | ||
− | '''cd Downloads '''and press '''Enter.''' | + | '''cd space Downloads '''and press '''Enter.''' |
− | + | Type '''ls '''and press '''Enter.''' | |
|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| | | style="border:0.05pt solid #000000;padding:0.053cm;"| | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| Here is the file which we downloaded | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| Here is the file which we downloaded. |
− | + | ||
− | + | ||
|- | |- | ||
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− | >> press '''Enter'''. | + | >> press '''Enter'''. |
| style="border:0.05pt solid #000000;padding:0.053cm;"| Now, we have to change the file permission. | | style="border:0.05pt solid #000000;padding:0.053cm;"| Now, we have to change the file permission. | ||
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So, type | So, type | ||
− | '''sudo chmod 777 | + | '''sudo space chmod space 777 space hyphen capital R space CellDesigner hyphen 4.3 hyphen linux hyphen x64 hyphen installer.run''' |
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| style="border:0.05pt solid #000000;padding:0.053cm;"| Now we will run the file by typing | | style="border:0.05pt solid #000000;padding:0.053cm;"| Now we will run the file by typing | ||
− | ''' | + | '''dot forward slash CellDesigner hyphen 4.3 hyphen linux hyphen x64 hyphen installer.run ''' |
and press '''Enter'''. | and press '''Enter'''. | ||
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| style="border:0.05pt solid #000000;padding:0.053cm;"| Point to '''Ready to Install '''>> click on '''Next.''' | | style="border:0.05pt solid #000000;padding:0.053cm;"| Point to '''Ready to Install '''>> click on '''Next.''' | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| It says '''Ready to Install'''. | | style="border:0.05pt solid #000000;padding:0.053cm;"| It says '''Ready to Install'''. | ||
+ | |||
Again, click on '''Next.''' | Again, click on '''Next.''' | ||
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− | Once completed, uncheck the ‘View | + | Once completed, uncheck the '''‘View Readme File’''' and click on the '''Finish''' button. |
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|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| Type '''./runCellDesigner4.3''' >> press '''Enter'''. | | style="border:0.05pt solid #000000;padding:0.053cm;"| Type '''./runCellDesigner4.3''' >> press '''Enter'''. | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| So type ''' | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| So type '''dot forward slash runCellDesigner4.3''' and press '''Enter'''. |
|- | |- | ||
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|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| Click on ''''System Settings'''', | | style="border:0.05pt solid #000000;padding:0.053cm;"| Click on ''''System Settings'''', | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| Click on the icon ''''System Settings'''', located on top right corner of | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| Click on the icon ''''System Settings'''', located on top right corner of your machine. |
+ | |||
+ | Upon clicking, the '''System Settings''' page opens. | ||
|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| Under ''''Personal' >> '''click on ‘'''Appearance'.''' | | style="border:0.05pt solid #000000;padding:0.053cm;"| Under ''''Personal' >> '''click on ‘'''Appearance'.''' | ||
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− | | style="border:0.05pt solid #000000;padding:0.053cm;"| Under the panel ''''Personal', '''double click on | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| Under the panel ''''Personal', '''double-click on ''''Appearance'.''' |
− | A window named ''''Appearance'''' opens | + | A window named ''''Appearance'''' opens. |
|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| From the drop-down menu in the ''''Theme'''' box >> select ''''Radiance'''' >> close the window. | | style="border:0.05pt solid #000000;padding:0.053cm;"| From the drop-down menu in the ''''Theme'''' box >> select ''''Radiance'''' >> close the window. | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| From the drop-down menu in the ''''Theme'''' box select ''''Radiance'''' and close the window. | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| Under the tab ''''Look'''', go to '''Theme'''. |
+ | |||
+ | From the drop-down menu in the ''''Theme'''' box, select ''''Radiance'''' and close the window. | ||
|- | |- | ||
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− | | style="border:0.05pt solid #000000;padding:0.053cm;"| To open a new document click on '''File''' and then on '''New.''' | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| To open a new document, click on '''File''' and then on '''New.''' |
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|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| Type 900 for Width , 800 for height >> click Ok | | style="border:0.05pt solid #000000;padding:0.053cm;"| Type 900 for Width , 800 for height >> click Ok | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| Set the '''Width''' to 900, '''Height''' to 800 | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| Set the '''Width''' to 900, '''Height''' to 800. |
+ | |||
+ | |||
+ | Click on the '''Ok''' button at the bottom. | ||
|- | |- | ||
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− | | style="border:0.05pt solid #000000;padding:0.053cm;"| An | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| An information box opens. |
+ | |||
+ | |||
+ | And all spaces in the name that we gave, changes to '''underscore'''. | ||
− | So, the actual name of our file will be '''' | + | So, the actual name of our file will be ''''Create underscore and underscore Edit''''. |
− | Click | + | Click '''Ok''' and proceed. |
|- | |- | ||
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|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.079cm;"| | | style="border:0.05pt solid #000000;padding:0.079cm;"| | ||
− | | style="border:0.05pt solid #000000;padding:0.079cm;"| Before we draw a component, we will ensure that '''Grid Snap''' and '''Grid Visible''' are enabled in '''CellDesigner | + | | style="border:0.05pt solid #000000;padding:0.079cm;"| Before we draw a component, we will ensure that '''Grid Snap''' and '''Grid Visible''' are enabled in '''CellDesigner''' window. |
|- | |- | ||
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Scroll down and click on '''Grid Snap'''. | Scroll down and click on '''Grid Snap'''. | ||
− | | style="border:0.05pt solid #000000;padding:0.079cm;"| | + | | style="border:0.05pt solid #000000;padding:0.079cm;"| For that, click on '''Edit''' in the main menu bar. |
Scroll down and click on '''Grid Snap.''' | Scroll down and click on '''Grid Snap.''' | ||
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|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.079cm;"| Click on '''Edit''' >> Scroll down and click on '''Grid Visible'''. | | style="border:0.05pt solid #000000;padding:0.079cm;"| Click on '''Edit''' >> Scroll down and click on '''Grid Visible'''. | ||
− | | style="border:0.05pt solid #000000;padding:0.079cm;"| | + | | style="border:0.05pt solid #000000;padding:0.079cm;"| Again, go back to '''Edit''' and click on '''Grid Visible.''' |
|- | |- | ||
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− | Recall, we already learnt about List area, Notes area and Draw area in the previous tutorial. | + | Recall, we already learnt about '''List''' area, '''Notes''' area and Draw area in the previous tutorial. |
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Place the cursor on borderline of draw area and drag. | Place the cursor on borderline of draw area and drag. | ||
− | | style="border:0.05pt solid #000000;padding:0.079cm;"| The size of the areas can be altered by | + | | style="border:0.05pt solid #000000;padding:0.079cm;"| The size of the areas can be altered by dragging the borderlines. |
− | + | ||
− | dragging the borderlines. | + | |
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− | You can see a double headed arrow. Drag it to maximize or minimize the area. | + | You can see a double headed arrow. Drag it to maximize or minimize the draw area. |
|- | |- | ||
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|- | |- | ||
| style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| | ||
− | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| Before that, we should be able to view all the icons on | + | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| Before that, we should be able to view all the icons on the '''CellDesigner''' window. |
|- | |- | ||
| style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| Cursor on '''View '''on the main menu bar toolbar>> C'''hange Toolbar Visible'''>>'''Show All''' | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| Cursor on '''View '''on the main menu bar toolbar>> C'''hange Toolbar Visible'''>>'''Show All''' | ||
− | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| | + | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| For that, go to '''View '''on the main menu bar, click on '''Change Toolbar Visible''' and select the ''' Show All''' option. |
− | + | ||
− | + | ||
− | + | ||
|- | |- | ||
| style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| | ||
− | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| | + | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.079cm;"| You are now able to see all the icons on the '''CellDesigner''' window. Let's go ahead. |
|- | |- | ||
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|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.079cm;"| Click on the ''''Square'''' icon>> Click and drag on the draw area. | | style="border:0.05pt solid #000000;padding:0.079cm;"| Click on the ''''Square'''' icon>> Click and drag on the draw area. | ||
− | | style="border:0.05pt solid #000000;padding:0.079cm;"| Then click on the draw area | + | | style="border:0.05pt solid #000000;padding:0.079cm;"| Then click on the draw area. |
+ | |||
+ | |||
+ | And without releasing the mouse button, drag to draw the square. | ||
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|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.079cm;"| In the dialog box type '''Cell''' and and '''Size''' as 1.0 >> Click Ok | | style="border:0.05pt solid #000000;padding:0.079cm;"| In the dialog box type '''Cell''' and and '''Size''' as 1.0 >> Click Ok | ||
− | | style="border:0.05pt solid #000000;padding:0.079cm;"| In the ''''Property of Compartment'''' dialog that opens, specify '''Name''' as '''Cell''' and '''Size''' as 1.0 | + | | style="border:0.05pt solid #000000;padding:0.079cm;"| In the ''''Property of Compartment'''' dialog that opens, specify '''Name''' as '''Cell''' and set the '''Size''' as 1.0 |
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− | The name | + | The name appears at the bottom of the compartment. |
|- | |- | ||
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− | I | + | I want to save it on the '''Desktop'''. |
+ | |||
+ | So, I will double click on '''Desktop '''as the folder in which I want to save. | ||
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− | Once again, | + | Once again, click on the '''OK''' button on the bottom right. |
Our file is now saved. | Our file is now saved. | ||
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| style="border:0.05pt solid #000000;padding:0.053cm;"| To close '''CellDesigner''', click on '''File '''and then on '''Exit'''. | | style="border:0.05pt solid #000000;padding:0.053cm;"| To close '''CellDesigner''', click on '''File '''and then on '''Exit'''. | ||
− | |||
− | |||
− | |||
|- | |- | ||
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− | | style="border:0.05pt solid #000000;padding:0.053cm;"| Let us now go to the folder where we saved our file. So, I will go to my '''Desktop'''. | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| Let us now go to the folder where we saved our file. |
+ | |||
+ | So, I will go to my '''Desktop'''. | ||
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In this tutorial, we learnt to: | In this tutorial, we learnt to: | ||
− | * Install '''CellDesigner '''on '''Ubuntu Linux OS ''' | + | * Install '''CellDesigner ''' version 4.3 on '''Ubuntu Linux OS ''' |
− | * Create a '''Compartment''' | + | * Create a '''Compartment''' in '''CellDesigner ''' |
|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| | | style="border:0.05pt solid #000000;padding:0.053cm;"| | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| The video at the following link summarizes the Spoken Tutorial project. |
− | + | Please download and watch it. | |
|- | |- | ||
| style="border:0.05pt solid #000000;padding:0.053cm;"| | | style="border:0.05pt solid #000000;padding:0.053cm;"| | ||
− | | style="border:0.05pt solid #000000;padding:0.053cm;"| '''Spoken Tutorial team conducts workshops | + | | style="border:0.05pt solid #000000;padding:0.053cm;"| The '''Spoken Tutorial '''team conducts workshops and gives certificates on passing an online test. |
− | + | ||
− | + | ||
− | + | For more details, please write to us. | |
|- | |- | ||
| style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.053cm;"| | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.053cm;"| | ||
− | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.053cm;"| | + | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.053cm;"| Spoken Tutorial Project is funded by '''NMEICT, MHRD Government of India'''. |
|- | |- | ||
| style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.053cm;"| | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.053cm;"| | ||
− | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.053cm;"| | + | | style="border-top:none;border-bottom:0.05pt solid #000000;border-left:0.05pt solid #000000;border-right:0.05pt solid #000000;padding:0.053cm;"|Information on this Mission is available on this link. |
− | |||
|- | |- |
Revision as of 12:26, 12 June 2015
|
|
Slide Number 1
Title |
Hello everyone.
|
Slide Number 2
Learning Objectives |
In this tutorial we will learn to
|
Slide Number 3
System Requirement |
Here I am using
|
Slide Number 4
Pre-requisites |
To follow this tutorial, you should be familiar with basic operations on Linux Operating System.
|
Go to this URL http://celldesigner.org/features/features43.html | To install CellDesigner, open your web browser and go to the URL as shown. |
Click on Download CellDesigner button | Click on Download CellDesigner button on the right hand side.
|
Scroll down >> locate Download | Scroll down and locate Download.
|
Now, let us see how to find out the details of the OS type of our machine. | |
Click on 'System Settings', | For this, click on the icon 'System Settings', located at the top right corner of your machine.
Upon clicking, the System Settings page opens up. |
Under 'System' >> click on ‘Details'. | Under the panel 'System', double click on the icon 'Details'. |
Highlight OS type field | Here a new window 'Details' opens.
|
Highlight OS type field
|
I have a 64 bit machine.
|
Point to 32 bit version | In case you have a 32 bit machine, then download the 32 bit version. |
Click on Download for Linux 64bit. | I will click on Download for Linux 64 bit link. |
Immediately, a new window opens up. | |
Click on First Time User >> click on Continue. | Since I am a new user, I will click on First Time User option.
|
Now, we are prompted to fill up some personal details. | |
Pause recording and fill the details.
Resume the recording. |
|
After filling these, click on Download button. | |
Click on Save File button | A dialog box opens.
|
Press Ctrl+Alt+T keys | Once the file is downloaded, go to the terminal by pressing Ctrl+Alt+T keys. |
Type cd Downloads >> press Enter. | I have already downloaded the file in my default Downloads folder.
cd space Downloads and press Enter.
|
Here is the file which we downloaded. | |
Text on screen during editing | If you downloaded 32 bit installer, then the file name will have 32 instead of 64.
|
Type sudo chmod 777 -R CellDesigner-4.3-linux-x64-installer.run
|
Now, we have to change the file permission.
sudo space chmod space 777 space hyphen capital R space CellDesigner hyphen 4.3 hyphen linux hyphen x64 hyphen installer.run
|
Type admin password | Type the admin password when prompted and press Enter. |
Type ./CellDesigner-4.3-linux-x64-installer.run >> press Enter. | Now we will run the file by typing
dot forward slash CellDesigner hyphen 4.3 hyphen linux hyphen x64 hyphen installer.run and press Enter. |
The Setup wizard dialog box opens up. | |
Click on Next | Click on Next button. |
Click I agree >> click on Next. | Click on the I accept the agreement option and then click on Next. |
Point to the directory >> click on Next.
|
Installation Directory dialog shows the directory where CellDesigner will be installed.
/home/<your username>/CellDesigner4.3
|
Point to Ready to Install >> click on Next. | It says Ready to Install.
|
Click on Finish button. | The installation will begin.
|
Open a new terminal | Now, open a new terminal by pressing Ctrl + Alt + T keys. |
Type ls >> press Enter. | Type ls and press Enter. |
Point to runCellDesigner4.3 file
|
We can see runCellDesigner4.3 file here.
|
Type ./runCellDesigner4.3 >> press Enter. | So type dot forward slash runCellDesigner4.3 and press Enter. |
CellDesigner window is now open in our Linux machine. | |
Point to the Main Menu bar area | Notice that we are unable to see the Main menu bar clearly.
|
Click on 'System Settings', | Click on the icon 'System Settings', located on top right corner of your machine.
|
Under 'Personal' >> click on ‘Appearance'.
|
Under the panel 'Personal', double-click on 'Appearance'.
A window named 'Appearance' opens. |
From the drop-down menu in the 'Theme' box >> select 'Radiance' >> close the window. | Under the tab 'Look', go to Theme.
From the drop-down menu in the 'Theme' box, select 'Radiance' and close the window. |
Notice that the Main menu bar is now clearly visible.
Let’s proceed. | |
Click on File >> New
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To open a new document, click on File and then on New.
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Type the filename as 'Create and Edit'. | A dialog box New Document appears on the screen, prompting us to name the file.
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Type 900 for Width , 800 for height >> click Ok | Set the Width to 900, Height to 800.
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Click Ok.
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An information box opens.
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Point to the draw area. | The white area in the centre is what we call the draw area. |
Point to the menu bars and toolbars. | We will learn about the menu bars, toolbars and various panels in detail in the coming tutorials. |
Hover the mouse on Select Mode in the tool bar >> Click.
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Before selecting any other icon from the toolbar, click on the Select Mode icon.
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Before we draw a component, we will ensure that Grid Snap and Grid Visible are enabled in CellDesigner window. | |
Click on Edit in the main menu bar.
Scroll down and click on Grid Snap. |
For that, click on Edit in the main menu bar.
Scroll down and click on Grid Snap. |
Click on Edit >> Scroll down and click on Grid Visible. | Again, go back to Edit and click on Grid Visible. |
Grids enable us to better align the components in the draw area. | |
Now let us change the position of the List & Notes area.
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Let's proceed and change the location of the List area. | |
Go to View >> Click on List and Select Right
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Go to View option, click on List and select the option ‘Right’.
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Change the size and position of the areas.
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The size of the areas can be altered by dragging the borderlines.
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We will now proceed to work on the draw area. | |
Before that, we should be able to view all the icons on the CellDesigner window. | |
Cursor on View on the main menu bar toolbar>> Change Toolbar Visible>>Show All | For that, go to View on the main menu bar, click on Change Toolbar Visible and select the Show All option. |
You are now able to see all the icons on the CellDesigner window. Let's go ahead. | |
Cursor on the toolbar >> Point towards square icon >> and then click on it | To represent a cell or an intracellular compartment, we will use the Square icon from the toolbar.
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Click on the 'Square' icon>> Click and drag on the draw area. | Then click on the draw area.
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In the dialog box type Cell and and Size as 1.0 >> Click Ok | In the 'Property of Compartment' dialog that opens, specify Name as Cell and set the Size as 1.0
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Cursor on Name of the Compartment.
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One can change the position of the compartment name, too.
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Click on File >> Save.
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Let us save this file by clicking on File and then on Save As
option. |
Choose Desktop >> click on Ok button | Now choose the folder where you want to save your file.
So, I will double click on Desktop as the folder in which I want to save.
Our file is now saved. |
Click on File >> Exit | To close CellDesigner, click on File and then on Exit.
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Go to the Desktop >> Point to the file
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Let us now go to the folder where we saved our file.
So, I will go to my Desktop.
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Point to the file | Notice that the file is saved in .xml format.
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Point to the file | Also note, that this file can only be opened in CellDesigner. |
Summary | Let us summarize
In this tutorial, we learnt to:
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The video at the following link summarizes the Spoken Tutorial project.
Please download and watch it. | |
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For more details, please write to us. | |
Spoken Tutorial Project is funded by NMEICT, MHRD Government of India. | |
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This is Bella Tony from IIT Bombay signing off. Thank you for joining. |