ReferenceGuide.Workspace History

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August 18, 2009, at 11:10 AM by 129.132.128.136 -
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http://molekel.cscs.ch/wiki/uploaded/ReferenceGuide/ui_tree_widget_menu.png

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August 18, 2009, at 11:10 AM by 129.132.128.136 -
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August 18, 2009, at 11:09 AM by 129.132.128.136 -
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http://molekel.cscs.ch/wiki/uploaded/ReferenceGuide/ui_tree_widget_menu.png

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August 18, 2009, at 11:08 AM by 129.132.128.136 -
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http://molekel.cscs.ch/wiki/uploaded/ReferenceGuide/ui_tree_widget_menu.png

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August 18, 2009, at 11:07 AM by 129.132.128.136 -
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Right-clicking on any item will pop-up a menu for accessing a number of commonly used functions.

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Right-clicking on any item will pop-up a menu for accessing a number of commonly used functions. http://molekel.cscs.ch/wiki/uploaded/ReferenceGuide/ui_tree_widget_menu.png

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August 18, 2009, at 11:00 AM by 129.132.128.136 -
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Workspace tree widget

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Workspace tree window

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Molecule properties widget

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Right-clicking on any item will pop-up a menu for accessing a number of commonly used functions.

Molecule properties window

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March 17, 2009, at 05:51 PM by 148.187.130.153 -
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March 17, 2009, at 05:50 PM by 148.187.130.153 -
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March 17, 2009, at 05:50 PM by 148.187.130.153 -
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(:title Workspace:)

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March 10, 2009, at 09:38 AM by 148.187.130.153 -
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(:title Workspace:)

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March 10, 2009, at 09:36 AM by 148.187.130.153 -
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(:tile Workspace:)

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(:title Workspace:)

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March 10, 2009, at 09:36 AM by 148.187.130.153 -
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Workspace

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(:tile Workspace:)

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March 09, 2009, at 06:52 PM by 148.187.130.153 -
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Workspace

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Workspace

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March 09, 2009, at 05:52 PM by 148.187.130.153 -
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Workspace

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Workspace

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http://bioinformatics.org/molekel/uploads/ReferenceGuide/menu.png

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http://molekel.cscs.ch/wiki/uploaded/ReferenceGuide/menu.png

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http://bioinformatics.org/molekel/uploads/ReferenceGuide/toolbar.png

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http://molekel.cscs.ch/wiki/uploaded/ReferenceGuide/toolbar.png

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http://bioinformatics.org/molekel/uploads/ReferenceGuide/workspace_tree.png

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http://molekel.cscs.ch/wiki/uploaded/ReferenceGuide/workspace_tree.png

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http://bioinformatics.org/molekel/uploads/ReferenceGuide/molecule_properties.png

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http://bioinformatics.org/molekel/uploads/ReferenceGuide/3dview.png

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http://molekel.cscs.ch/wiki/uploaded/ReferenceGuide/3dview.png

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February 02, 2007, at 11:23 AM by Ugo Varetto -
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Note: due to some issues with OpenBabel formula computation function, formula display has been disabled in Molekel 5.1 (see OpenBabel bug 1632403).

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February 02, 2007, at 11:11 AM by Ugo Varetto -
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http://bioinformatics.org/molekel/uploads/ReferenceGuide/3dview.png

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December 21, 2006, at 10:19 AM by Ugo Varetto -
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Update in progress

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Used to access all the operations (except hide/show mulecule performed through the tree widget): I/O, change molecule display settings, reset view, select interaction mode, compute/show molecular surfaces, perform analysis and others.

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Used to access all the operations (except hide/show mulecule performed through the tree widget): I/O, change molecule display settings, reset view, select interaction mode, compute/show molecular surfaces, perform analysis and others.

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  • Pan (move along X/Y axis): drag mouse while holding shift + left mouse button down
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  • Pan (move along X/Y axis): drag mouse while holding Shift + left mouse button down
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  • Mac OS only: drag mouse while holding command + right mouse button down
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  • Mac OS only: drag mouse while holding Command + right mouse button down
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December 21, 2006, at 10:16 AM by Ugo Varetto -
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Used for most of the user interaction: I/O, change molecule display settings, reset view, select interaction mode, compute/show molecular surfaces, perform analysis and other operations. Some operations are accessible through accelerators or toolbar buttons.

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Used to access all the operations (except hide/show mulecule performed through the tree widget): I/O, change molecule display settings, reset view, select interaction mode, compute/show molecular surfaces, perform analysis and others. Some operations are also accessible through accelerators or toolbar buttons.

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Group of buttons used as shortcuts for performing the most common operations.

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Group of buttons used as shortcuts for performing the most common tasks.

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  • Information on picked atom/bonds/residue
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  • Information on picked atom/bond/residue
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This window shows all the information available for the currently selected molecule; molecules can be selected by clicking on their name in the Workspace tree widget or clicking on their representation in the 3D view after enabling the "Interact with molecule" (Interation->Molecule) option.

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This window shows all the information available for the currently selected molecule; molecules can be selected by clicking on their name in the Workspace tree widget or clicking on their representation in the 3D view after enabling the "Interact with molecule" (Interation->Molecule) option.

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Viewpoint and selected molecule can be moved and rotaded through the following actions:

  • Rotate around X/Y axis: drag mouse while holding the left mouse button down
  • Pan (move along X/Y axis): drag mouse while holding shift + left mouse button down
  • Rotate around Z axis:
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Viewpoint and selected molecule can be moved and rotated through the following actions:

  • Rotate around X/Y axis: drag mouse while holding the left mouse button down
  • Pan (move along X/Y axis): drag mouse while holding shift + left mouse button down
  • Rotate around Z axis:
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  • Move along Z axis (view direction):
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  • Move along Z axis (view direction):
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December 19, 2006, at 10:52 PM by Ugo Varetto -
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The viewpoint and selected molecule can be moved and rotaded through the following actions:

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Viewpoint and selected molecule can be moved and rotaded through the following actions:

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December 19, 2006, at 10:50 PM by Ugo Varetto -
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The viewpoint and selected molecule can be moved and rotaded through the following actions:

  • Rotate around X/Y axis: drag mouse while holding the left mouse button down
  • Pan (move along X/Y axis): drag mouse while holding shift + left mouse button down
  • Rotate around Z axis:
    • Mac OS: drag mouse while holding Command + left mouse button down
    • Windows/Linux: drag mouse while holding Ctrl + left mouse button down
  • Move along Z axis (view direction):
    • Mac OS, Windows, Linux: Mouse wheel
    • Mac OS only: drag mouse while holding command + right mouse button down
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December 19, 2006, at 10:31 PM by Ugo Varetto -
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http://bioinformatics.org/molekel/uploads/ReferenceGuide/workspace_tree.png

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http://bioinformatics.org/molekel/uploads/ReferenceGuide/molecule_properties.png

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December 19, 2006, at 10:29 PM by Ugo Varetto -
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http://bioinformatics.org/molekel/uploads/ReferenceGuide/toolbar.png

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December 19, 2006, at 10:28 PM by Ugo Varetto -
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<<<<<<<

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======= <<<<<<< http://bioinformatics.org/molekel/uploads/ReferenceGuide/menu.png

======= http://bioinformatics.org/molekel/uploads/ReferenceGuide/menu.png >>>>>>>

>>>>>>>

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December 19, 2006, at 10:27 PM by Ugo Varetto -
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<<<<<<< http://bioinformatics.org/molekel/uploads/ReferenceGuide/menu.png

=======

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>>>>>>>

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December 19, 2006, at 10:27 PM by Ugo Varetto -
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<<<<<<< http://bioinformatics.org/molekel/uploads/ReferenceGuide/menu.png

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>>>>>>>

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December 19, 2006, at 10:26 PM by Ugo Varetto -
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http://bioinformatics.org/molekel/uploads/ReferenceGuide/menu.png

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December 19, 2006, at 06:31 PM by Ugo Varetto -
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Status bar

Displays the following information:

  • Selected molecule
  • Information on picked atom/bonds/residue
  • Distance/angle
  • Progress information when performing a lengthy operation
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December 19, 2006, at 05:17 PM by 148.187.130.131 -
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- Main Menu - Toolbar - Status bar - Workspace tree widget - Molecule properties widget - 3D view

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  • Main Menu
  • Toolbar
  • Status bar
  • Workspace tree widget
  • Molecule properties widget
  • 3D view
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December 19, 2006, at 05:16 PM by 148.187.130.131 -
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Workspace

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Workspace

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Main Menu

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Main Menu

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Toolbar

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Toolbar

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Workspace tree widget

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Workspace tree widget

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Molecule properties widget

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Molecule properties widget

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3D View

Displays a 3D representation of all the objects in the scene

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3D View

Displays a 3D representation of all the visible objects (molecules + surfaces) in the scene.

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December 19, 2006, at 05:15 PM by 148.187.130.131 -
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Main Menu

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Main Menu

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Toolbar

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Toolbar

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Workspace tree widget

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Workspace tree widget

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Molecule properties widget

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Molecule properties widget

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3D View

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3D View

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December 19, 2006, at 05:07 PM by 148.187.130.131 -
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!!Update in progress

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Update in progress

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December 19, 2006, at 05:07 PM by 148.187.130.131 -
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!!Update in progress

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Update in progress

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December 19, 2006, at 05:06 PM by 148.187.130.131 -
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December 19, 2006, at 05:06 PM by 148.187.130.131 -
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Workspace

The main window is divided in the following areas:

- Main Menu - Toolbar - Status bar - Workspace tree widget - Molecule properties widget - 3D view Update in progress

Main Menu

Used for most of the user interaction: I/O, change molecule display settings, reset view, select interaction mode, compute/show molecular surfaces, perform analysis and other operations. Some operations are accessible through accelerators or toolbar buttons.

Toolbar

Group of buttons used as shortcuts for performing the most common operations.

Workspace tree widget

Lists all the objects (molecules and surfaces) contained in the 3D scene: individual objects can be shown or hidden by checking or un-checking the checkbox on the left of the object name.

Molecule properties widget

This window shows all the information available for the currently selected molecule; molecules can be selected by clicking on their name in the Workspace tree widget or clicking on their representation in the 3D view after enabling the "Interact with molecule" (Interation->Molecule) option.

3D View

Displays a 3D representation of all the objects in the scene

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