Difference between revisions of "Getting Started Quickly with MIPAV"

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== Getting Started Quickly with MIPAV ==
 
== Getting Started Quickly with MIPAV ==
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[[File:MipavSplash.gif|158px|thumb|right|MIPAV]]
  
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This wiki provides information to help you get started quickly using MIPAV. It explains basic tasks, such as starting and ending the program, opening and loading images, creating new images, and saving and printing images. In addition, it discusses how to create volumes of interest (VOIs), how to compare images using alphablending, and how to customize the program.
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This [http://mipav.cit.nih.gov/wiki/index.php/Main_Page#Documentation MIPAV WIKI] provides information to help you get started quickly using MIPAV. It explains basic tasks, such as starting and ending the program, opening and loading images, creating new images, and saving and printing images. In addition, it discusses how to create volumes of interest (VOIs), how to compare images using alphablending, and how to customize the program.
  
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=== Contents ===
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Sample images to start with MIPAV can be found here [[Sample images]].
  
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<ol type="1"><li  value="1">[[Introducing MIPAV]]
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See also: [http://mipav.cit.nih.gov/pubwiki/index.php?title=MIPAV_change_list&oldid=39297 MIPAV change list].
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=== [http://mipav.cit.nih.gov/wiki/index.php/Main_Page#Documentation Contents] ===
 
*[[Introducing MIPAV]]
 
*[[Introducing MIPAV]]
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**[[Introducing MIPAV#MipavPlatformIndependence | Platform Independence]]
 
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**[[Introducing MIPAV#MipavCapabilities | Understanding MIPAV capabilities]]
 
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**[[Introducing MIPAV#JavaPlugIns | Extensibility with Java plug-ins]]
 
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**[[Introducing MIPAV#MipavFeatures | Sampling of MIPAV's features]]
 
 
*[[MIPAV mailing list]]
 
*[[MIPAV mailing list]]
 
*[[Installing mipav#MipavNews|Viewing MIPAV News and Updates]]
 
*[[Installing mipav#MipavNews|Viewing MIPAV News and Updates]]
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*[[Developing new tools using the API]]
 
 
*[[Supported Formats]]
 
*[[Supported Formats]]
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**[[Supported Formats | Graphical and file formats supported by MIPAV]]
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*[[FAQ: Understanding Image Basics#FilesExtensions | Image files supported by MIPAV]]
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**[[Image formats descriptions | Image formats' descriptions]]
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*[[Installing mipav|Installing MIPAV]]
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**[[FAQ: Understanding Image Basics#FilesExtensions | Image files supported by MIPAV]]
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−
 
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<li  value="2">[[Installing mipav|Installing MIPAV]]
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*[[MIPAV system requirements]]
 
*[[MIPAV system requirements]]
 
*[[Installing mipav|Installing MIPAV]]
 
*[[Installing mipav|Installing MIPAV]]
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*[[Installing mipav#MipavUninstall|Uninstalling MIPAV]]
 
*[[Installing mipav#MipavUninstall|Uninstalling MIPAV]]
 
*[[Quitting MIPAV]]
 
*[[Quitting MIPAV]]
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−
 
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<li  value="3">[[Getting Started Quickly with MIPAV]]
 
 
*[[Allocating Memory in MIPAV]]
 
*[[Allocating Memory in MIPAV]]
 
*[[Opening and loading image files]]  
 
*[[Opening and loading image files]]  
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*[[Displaying MIPAV Toolbars]]
 
*[[Displaying MIPAV Toolbars]]
 
*[[Displaying images]]
 
*[[Displaying images]]
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**[[Displaying images#DefaultView| Default View]]
 
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**[[Displaying images#LightboxView| Lightbox View]]
 
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**[[Displaying images#CineView| Cine View]]
 
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**[[Displaying images#AdjustingMagnification| Adjusting Magnification]]
 
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**[[Displaying images#MagnifyingRegions| Magnifying Regions within Images]]
 
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**[[Displaying images#ImprovingContrast| Improving Image Contrast]]
 
 
*[[Modifying image resolutions]]
 
*[[Modifying image resolutions]]
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*[[Changing Image Contrast]]
 
*[[Changing Image Contrast]]
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**[[Changing Image Contrast|Adjust Window and Level]]
 
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**[[Changing Image Contrast|Improving contrast by generating and modifying histograms]]
 
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**[[Changing Image Contrast|Using Lookup Table dialog box]]
 
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**[[Changing Image Contrast#PredefinedLuts|Applying color to images using predefined LUTs]]
 
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**[[Changing Image Contrast|Comparing images using alphablending]]
 
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**[[Changing Image Contrast|Restoring images to their original appearance]]
 
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*[[Creating new images]]  
 
*[[Creating new images]]  
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**[[Creating new images| Image dialog box]]
 
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**[[Creating new images| Annotating images with text]]
 
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*[[Saving and printing images]]
 
*[[Saving and printing images]]
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*[[Delineating volumes of interest (VOIs)| Volumes of Interest]]
 
*[[Delineating volumes of interest (VOIs)| Volumes of Interest]]
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**[[Delineating volumes of interest (VOIs)]] 
 
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**[[Calculating VOI statistics]]
 
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**[[Reviewing VOI statistics]]
 
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**[[Reviewing VOI statistics|Generating graphs (intensity profiles)]] 
 
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*[[ImageJ | Working with ImageJ]]
 
*[[ImageJ | Working with ImageJ]]
 
*[[Customizing MIPAV]]
 
*[[Customizing MIPAV]]
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*[[Developing new tools using the API]]
 
*[[Technical Support | Contacting MIPAV support]]
 
*[[Technical Support | Contacting MIPAV support]]
  
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Back to [http://mipav.cit.nih.gov/wiki/index.php/Main_Page#Documentation MIPAV WIKI]
 
<div id="StartingMIPAV"></div>
 
<div id="StartingMIPAV"></div>
  
 
== Starting MIPAV ==
 
== Starting MIPAV ==
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[[File:MIPAV_FirstAppear.jpg|450px|thumb|left|MIPAV: Main and Output windows]]
 
Starting MIPAV differs depending on your platform. To begin a MIPAV session, do the following:<br />
 
Starting MIPAV differs depending on your platform. To begin a MIPAV session, do the following:<br />
  
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|-
 
|-
 
|
 
|
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<div class="CellBody">Windows 95, 98, 2000, NT, XP</div>
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<div class="CellBody">Windows 95, 98, 2000, NT, XP, Vista</div>
 
|
 
|
 
<div class="CellBody">Select Start &gt; Programs &gt; mipav &gt; mipav.</div>
 
<div class="CellBody">Select Start &gt; Programs &gt; mipav &gt; mipav.</div>
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<div class="CellBody">Linux</div>
 
<div class="CellBody">Linux</div>
 
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|
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<div class="CellBody">Open a shell. Go to the directory where you downloaded the installer. At the prompt, type <span style="font-style: normal; text-decoration: none; text-transform: none; vertical-align: baseline">'''<font color="#000000">sh ./installMIPAV.bin</font>'''</span>. </div>
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<div class="CellBody">Open a shell. Go to the directory where you installed MIPAV, or the location you choose for the MIPAV links. At the prompt, type <span style="font-style: normal; text-decoration: none; text-transform: none; vertical-align: baseline">'''<font color="#000000">./mipav</font>'''</span>. </div>
 
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|-
 
|
 
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<div class="CellBody">Mac Operating System (OSX)</div>
 
<div class="CellBody">Mac Operating System (OSX)</div>
 
|
 
|
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<div class="CellBody">Unzip the installer (StuffIt expander may open automatically). Double-click the installer icon on your desktop.</div>
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<div class="CellBody">Unzip the installer. Double-click the installer icon on your desktop.</div>
 
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|-
 
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Both the main Medical Image Processing, Analysis, &amp; Visualization (MIPAV) window and the Output window appear on your desktop. You can access most of MIPAV's features from the main menu bar.
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Both the main Medical Image Processing, Analysis, &amp; Visualization (MIPAV) window and the Output window appear on your desktop. You can access most of [[Introducing MIPAV | MIPAV's features]] from [[Customizing MIPAV | the main menu bar]].
  
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=== MIPAV-Main and Output windows ===
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<div id="MipavMainWindow"></div>
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[[File:MIPAV_FirstAppear.jpg|200px|thumb|left|MIPAV: Main and Output windows]]
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=== Main and Output windows options===
  
 
{| border="1" cellpadding="5"
 
{| border="1" cellpadding="5"
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|-
 
|-
 
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|
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<div class="CellBody">Remove selected tab</div>
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<div class="CellBody">'''Remove selected tab'''</div>
 
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<div class="CellBody">Removes selected tab from the output window.</div>
 
<div class="CellBody">Removes selected tab from the output window.</div>
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== Managing memory resources ==
 
== Managing memory resources ==
  
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MIPAV requires at least 35 Mb of random access memory (RAM). Additional memory is needed to correctly display image files and to quantify the data. To determine the amount of additional memory needed, multiply the size of the image file that you want to display by 10. Thus, if an image file is 2 Mb, you must allocate an additional 20 Mb of RAM (in addition to the base of 35 Mb) for it to display correctly. Because memory requirements fluctuate depending on the size and number of image files open, it may be necessary to allocate additional memory during a session.  
+
MIPAV requires at least 35 Mb of random access memory (RAM). Additional memory is needed to correctly display image files and to quantify the data. To determine the amount of additional memory needed, multiply the size of the image file that you want to display by 10. Thus, if an image file is 2 Mb, you must allocate an additional 20 Mb of RAM (in addition to the base of 35 Mb) for it to display correctly. Because memory requirements fluctuate depending on the size and number of image files open, it may be necessary to allocate additional memory during a session. Refer to [[FAQ: Understanding Memory]] for more examples on required memory calculations.
  
 
For more information, refer to: [[Allocating Memory in MIPAV]] and [[FAQ: Understanding Memory]].
 
For more information, refer to: [[Allocating Memory in MIPAV]] and [[FAQ: Understanding Memory]].
 +
 +
== See also: ==
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*[[Sample images]]
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*[[Allocating Memory in MIPAV]]
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*[[Opening and loading image files]]
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*[[MIPAV toolbars]]
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*[[Displaying images]]
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*[[FAQ: Understanding Memory]]
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*[[FAQ: Customizing MIPAV]]
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*[[FAQ: Understanding Image Basics]]
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*[[FAQ: Understanding Changes in MIPAV]]
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 +
[[Category: Help]]
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[[Category: Getting started]]

Latest revision as of 14:33, 4 June 2015

Getting Started Quickly with MIPAV

MIPAV

This MIPAV WIKI provides information to help you get started quickly using MIPAV. It explains basic tasks, such as starting and ending the program, opening and loading images, creating new images, and saving and printing images. In addition, it discusses how to create volumes of interest (VOIs), how to compare images using alphablending, and how to customize the program.

Sample images to start with MIPAV can be found here Sample images.

See also: MIPAV change list.

Contents

Back to MIPAV WIKI

Starting MIPAV

MIPAV: Main and Output windows

Starting MIPAV differs depending on your platform. To begin a MIPAV session, do the following:

If your platform is . . .
Then . . .
Windows 95, 98, 2000, NT, XP, Vista
Select Start > Programs > mipav > mipav.
Linux
Open a shell. Go to the directory where you installed MIPAV, or the location you choose for the MIPAV links. At the prompt, type ./mipav.
Mac Operating System (OSX)
Unzip the installer. Double-click the installer icon on your desktop.
Unix OS (Sun Solaris, OS/2 Warp, and others
In a shell tool, command tool, or terminal window, go to the directory where you installed MIPAV. At the prompt, type
./mipav.


Both the main Medical Image Processing, Analysis, & Visualization (MIPAV) window and the Output window appear on your desktop. You can access most of MIPAV's features from the main menu bar.

Main and Output windows options

The Output window menu options
File

Save Messages-Saves all of the messages displayed on the currently open page (e.g., Global Data page, Data page, or Debug page). When you select this command, the Save dialog box opens. Add tab- Adds a new tab to the Output window. When you select this option, the Add Tab dialog box opens. In this dialog box, enter the name for the new tab and press OK.

Edit Clear messages-Clears all of the messages that are displayed on the currently open page. Be sure that you want to use this command. There is no undo!

Copy-Copies the selected text on the currently open page.
Cut-Removes the selected text from the currently open page.
Select All-Selects all of the text on the currently open page.

The Output window toolbar

Save Results
Saves all of the messages displayed on the currently open page. When you select this command, the Save dialog box opens.
Copy
Copies the selected text on the currently open page.
Paste
Pastes copied text into the currently open page at the cursor point.
Cut
Removes the selected text from the currently open page.
Remove selected tab
Removes selected tab from the output window.
The Output window default tabs
Data tab
Displays messages that apply to the currently active image.
Debug tab
Displays debugging information for the currently selected image.


After starting MIPAV, you can open and load image files, create new images, access DICOM images, customize MIPAV, and end the session.

Managing memory resources

MIPAV requires at least 35 Mb of random access memory (RAM). Additional memory is needed to correctly display image files and to quantify the data. To determine the amount of additional memory needed, multiply the size of the image file that you want to display by 10. Thus, if an image file is 2 Mb, you must allocate an additional 20 Mb of RAM (in addition to the base of 35 Mb) for it to display correctly. Because memory requirements fluctuate depending on the size and number of image files open, it may be necessary to allocate additional memory during a session. Refer to FAQ: Understanding Memory for more examples on required memory calculations.

For more information, refer to: Allocating Memory in MIPAV and FAQ: Understanding Memory.

See also:

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