Technical Note Image Studio™ Software Export Guide
Developed for: Image Studio Software
Please refer to your manual to confirm that this protocol is appropriate for the applications compatible with your instrument model.
Published July 2014. Revised September 2014. The most recent version of this Technical Note is posted at http://biosupport.licor.com/support Page 2 - Image Studio™ Software Export Guide
Table of Contents
Page I. Introduction 3 II. Explanation of Exportable Image Formats 3 JPEG File Type 3 PNG File Type 3 TIFF File Type 3 III. Exporting Images and Movies: For Presentation Only 4 Export Single Image View 4 Current Image 4 Selected Images in the Images Table 4 Export Color Bar Only 5 Exporting Multiple Image View 6 Exporting from Single Image View or Multiple Image View Without Annotations 6 Using the Export Dialog Box: for Single Image View and Multiple Image View 6 Resizing Images 7 Choosing the Desired Image Format and Resolution 7 Naming the Exported Image Using the File Name Text Field 7 Using the Insert Button to Add Images Table Values to File Name 8 IV. Exporting Movies 8 When to Use 8 Procedure 9 V. Definition of Acquisition Folders and When to Export 9 Acquisition Folder vs. Zip Files 10 Exporting Acquisition Folders and Zip Files 10 VI. Exporting a Lab Book 12 Layout Template 13 Editing the Layout 14 Editing Header Options 15 What a Header Is 15 Editing Headers 15 Saving a Customized Lab Book Layout 16 VII. Changing the Page Setup, Previewing, and Saving a Lab Book 17 Image Studio™ Software Export Guide - Page 3
VIII. Further Questions 18
I. Introduction
This Technical Note explains how to export images and data folders from Image Studio Software and when each method should be used. Exporting data and images to a customizable PDF called a Lab Book is also explained.
II. Explanation of Exportable Image Formats
Images can be exported from Image Studio Software as JPEG, TIFF, or PNG files at 150, 300, or 600 dots per inch (dpi) resolution. During export, images can be resized and the chosen resolution will remain the same after resizing.
JPEG File Type
When a JPEG image is exported, an algorithm creates an image that appears like the original but is "compressed" to use less file space. The smaller file size makes JPEG images useful for web pages, presentation software, and general printing (e.g. a lab notebook).
NOTE: Do not quantify JPEG images. The image data have been altered in the export process.
NOTE:Image Studio Software uses a moderate JPEG compression that may cause a "halo" to appear around bands.
PNG File Type
PNG images are created using an algorithm that compresses the original image to take up less file space without any loss of information. The smaller file size makes PNG images useful for applications such as web pages, presentation software, and general printing (e.g. lab notebooks).
TIFF File Type
Use TIFF images for applications that require the highest fidelity. Usually, TIFF images at 300 or 600 dots per inch (dpi) are appropriate for journal publication. Page 4 - Image Studio™ Software Export Guide
III. Exporting Images and Movies: For Presentation Only
To view the Presentation Only export options, click the Image Studio Application menu and hover over Export to expand the Export menu.
The three Presentation Only options are:
l Single Image View
l Multiple Image View
l Movie
Export Single Image View
Hover over Single Image View to expand the menu's three options:
Current Image
This option will export the image that is currently selected in the Images Table.
MORE INFO: See "Using the Export Dialog Box: for Single Image View and Multiple Image View" on page 6 for how to change the image resolution, file type, destination folder for the exported image, and file name.
Selected Images in the Images Table
This option will export all selected images in the Images Table as individual images.
To distinguish exported images, be sure to include a variable that will be unique to each image using the Edit File Name dialog box (see "Using the Insert Button to Add Images Table Values to File Name" on page 8). Image Studio™ Software Export Guide - Page 5
MORE INFO: See "Using the Export Dialog Box: for Single Image View and Multiple Image View" on the next page for how to change the image resolution, file type, destination folder for the exported image, and file name.
Export Color Bar Only
NOTE: The check box next to Color Bar in the Analysis tab must be enabled for a Color Bar to be exported.
NOTE: When exporting linked images using Multiple Image View, the option to export the color bar as a separate file does not work.
The color bar from an image can be exported by itself to compare images in a presentation, publication, or lab notebook.
l In the Export Color Bar dialog, the font size, bar width, bar length, and horizontal or vertical orientation of the bar can be adjusted.
l Use the Browse button to find the appropriate location to export the color bar.
l See "Naming the Exported Image Using the File Name Text Field" on page 7 for how to edit the name of the exported file. Page 6 - Image Studio™ Software Export Guide
Exporting Multiple Image View
Use this option to export all images currently showing in the Images Table as thumbnails to a single composite image regardless of which images are selected. Filter the Images Table so only the images that need to be exported are showing.
MORE INFO: See "Using the Export Dialog Box: for Single Image View and Multiple Image View" below for how to change the image resolution, file type, destination folder for the exported image, and file name.
Exporting from Single Image View or Multiple Image View Without Annotations
Images exported using the Single Image View or Multiple Image View will include all displayed annotations.
To prevent annotations from appearing in the exported image(s), do one of the following:
l Export some annotations but not others: Find the Show group in the Analysis tab and disable the box next to any annotation type that should not appear in the exported image.
l Turn off all annotations: Click the Features button at the top of the Display tab located at the right side of the window to hide all annotations (for version 4.0 or later).
Using the Export Dialog Box: for Single Image View and Multiple Image View
The following export options have dialog boxes with the same options:
l Current Image (under Single Image View)
l Selected Images in the Images Table (under Single Image View)
l Multiple Image View Image Studio™ Software Export Guide - Page 7
The options in each method's dialog box will be discussed concurrently in this section.
Resizing Images
l Enable the checkbox next to Pixels or Inches to designate the priority value to be modified.
l Adjust the size in the priority section, and the other section will resize to match the priority section.
NOTE: Ensure the dimensions of the image being exported are at least as large as the dimensions of the original image (check by comparing with the Original column to the left of the editable fields in the Size box).
Choosing the Desired Image Format and Resolution
l Enable the box next to the desired format for the exported image.
MORE INFO: See "Explanation of Exportable Image Formats" on page 3 for information about available formats.
l Check the box next to the desired resolution for the exported image. The chosen resolution will remain the same even if the image size is modified in the Size box, as described above.
Naming the Exported Image Using the File Name Text Field
Click the Edit Name button to open the Edit File Name dialog.
l Type the desired file name at the beginning of the File Name: text field.
l Any unwanted characters that may already appear in the File Name: text field can be deleted. Page 8 - Image Studio™ Software Export Guide
Using the Insert Button to Add Images Table Values to File Name
NOTE: When using the Selected Images in the Images Table export option to export multiple images, use Insert to ensure a variable unique to each exported image will be included in each file name.
Use the following procedure to add column values from the Images Table to the exported image's file name:
1. Click the dropdown menu to the right of the Insert button to insert a column value from the Images Table. 2. Click the desired value once to highlight it. 3. Click Insert. 4. A variable representing the Images Table value is inserted into the File Name: text field preceded by a tilde (~). 5. How the file name will appear after export is shown in the Example File Name box at the bottom of the Edit File Name dialog. 6. Multiple variables can be added to the file name. 7. To remove unwanted variables in the File Name: box, place the cursor in the text field and manually delete the variable name including the tilde.
IV. Exporting Movies
Use this option to export images:
l To a QuickTime movie (.mov) or,
l Individual JPEG images to be made into a movie using third party software
When to Use
This feature is primarily used with the Pearl® Impulse Small Animal Imaging System. An animal injected with fluor-labeled dye can be imaged at regular intervals. The Movie option allows the images to be compiled into a movie so the path of dye through the animal can be visualized. Image Studio™ Software Export Guide - Page 9
Procedure
NOTE: Images being used to make a movie must be the same resolution and scan area. To do this:
A) Use the Filter option to filter the Images Table so only images of the same resolution and scan area are present in the table.
B) Or, select the images to be exported and filter by selection.
1. Click Movie under the Export for Presentation Only Export option, and the Movie Properties dialog will open. 2. In the Movie Properties dialog, check the appropriate option next to Create QuickTime movie or Export individual images. 3. The frame rate can be adjusted up to a maximum of 10 frames per second. 4. If the Add subtitles with Image ID and Acquisition Time box is checked, the Image ID and Acquisition Time from the Images Table will be added below the image. 5. If the Include annotations as currently displayed on images box is checked, all displayed annotations (such as shapes added for analysis) will be included in the movie. 6. Click Browse to find the correct location where the movie or images should be exported. 7. The Movie Name text field will be active if the Create QuickTime movie box is checked. Type a name for the movie. 8. Click OK to export.
V. Definition of Acquisition Folders and When to Export
Acquisition Folders contain TIFF images, scan information, and analysis data. When analysis needs to be continued on a different computer, export Acquisition Folders. Page 10 - Image Studio™ Software Export Guide
NOTE: Exporting Acquisition Folders or Zip Files does not remove them from the Images Table.
Acquisition Folder vs. Zip Files
A Zip File is a compressed version of the Acquisition Folder that takes up less file space, making it convenient to move and share. Both folder types contain the same information, and both can be imported into Image Studio Software for continued analysis.
Exporting Acquisition Folders and Zip Files
1. Select an image or images in the Images Table to export the Acquisition Folder or Zip File corresponding to the selected image(s). 2. Click the Image Studio Application menu. 3. Hover over Export. 4. Under the Export options, point to Image Studio in the Export Image Studio Image and Analysis Data section.
5. Choose Folder (short for Acquisition Folder) or Zip File.
a. Click Folder to export Acquisition Folders. In the Folder dialog box, browse to where the folder(s) will be saved. Image Studio™ Software Export Guide - Page 11
b. Click Zip File to export Zip Files. In the Zip File dialog, browse to where the Zip File(s) will be saved.
Enter a name for the Zip File in the File Name: text field. If multiple folders are being exported, they will all be saved to the Zip File named in the File Name: text field. Page 12 - Image Studio™ Software Export Guide
VI. Exporting a Lab Book
A Lab Book is a pdf document that contains a customizable arrangement of images, scan information, and analysis data.
The following are examples of Lab Book documents:
Standard Lab Book Preconfigured setup Preconfigured setup available with the Western available with the In-Cell Analysis application Western™ application specific software key. specific software key.
Click the Lab Book tab to display options for exporting a Lab Book. Image Studio™ Software Export Guide - Page 13
Layout Template
NOTE: Availability of some templates is dependent on the installation of application specific software keys.
To get started quickly, layout templates are provided in the far left drop down menu in the Layout group. Page 14 - Image Studio™ Software Export Guide
Editing the Layout
1. Open the Layout that is closest to what is needed from the Layout Template drop down in the Layout group. (Preview the selected template by clicking Print Preview in the Lab Book tab.) 2. Click Edit in the Layout group to open the Lab Book Layout Editor dialog (see Figure 1). a. The In Use column displays content currently used in the layout. b. The Available column displays content that can be added to the layout. c. Mouse over an entry to pop up a short description of the entry.
Figure 1. Click Edit in the Lab Book tab to open the Lab Book Layout Editor dialog.
3. Add an entry to the In Use column: a. Click once to highlight the entry in the Available column. b. Click the Add button between the Available and In Use columns. 4. Remove an entry from the In Use column: a. Click once to highlight the entry in the In Use column. b. Click the Remove button between the Available and In Use columns. c. Click Clear to remove all entries from the In Use column. 5. Click OK to apply changes. 6. Click Print Preview in the PDF group to view how the Lab Book will appear when it is saved. 7. See "Saving a Customized Lab Book Layout" on page 16 for how to save the modified Layout for future use. Image Studio™ Software Export Guide - Page 15
Editing Header Options
What a Header Is
The header consists of three rows of text and an image that will appear at the top of a Lab Book.
Figure 2. Generic header from a Lab Book.
MORE INFO: See "Editing the Layout" on page 14 for how to add or remove headers from a Lab Book.
Editing Headers
Use the following procedure to customize the text and image in a header:
1. Click Header Options in the Layout group. The Lab Book Header Options dialog will open. 2. Change the Header image: a. Click Browse in the Logo Image File section. The Select Report Logo File dialog will open. b. In the Select Report Logo File dialog, navigate to the desired image and click once to highlight it. c. Click Open. The path to the new image will be displayed in the Lab Book Header Options dialog. Figure 3. Click Edit in the Lab Book tab to 3. To change Header text, use the Line open the Lab Book Layout Editor dialog. Type drop down found to the right of each Line. a. To add customizable text, choose the Text option. Enter text in the text field to the right of the Line Type drop down. Page 16 - Image Studio™ Software Export Guide
b. To add values from the Images Table, choose the Column option. A drop down menu that lists variables from the Images Table will become active. c. To add the date the date when the Lab Book was exported, choose the Current Date option. d. To leave a line blank, choose Empty.
4. Click OK and the customized header will be used in the Lab Book when the Header entry is included in the Layout.
Saving a Customized Lab Book Layout
After changes have been made to a layout, the Layout in the Layout Template drop down will become Custom. Changes have not overwritten any existing Layout. To use the custom Layout again, the changes must be saved.
1. Click the Layout Template drop down. 2. Click Save Current Lab Book... to open the Lab Book Name dialog. 3. In the Lab Book Name dialog, name the layout. 4. Click OK and the new layout will be added to the list of layouts in the Layout Template drop down. Image Studio™ Software Export Guide - Page 17
VII. Changing the Page Setup, Previewing, and Saving a Lab Book
l Click Page Setup to modify the paper size, page orientation, and page margins (in inches).
l Click Print Preview to see how the Lab Book PDF document will appear after export.
l Click Save to export the Lab Book. Type a name for the Lab Book in the File Name: text field. Page 18 - Image Studio™ Software Export Guide
VIII. Further Questions 1. See the software help. Click the blue question mark in the upper right corner of the window to open the help. The upper right corner of the software help has a search box for quickly finding answers.
2. Contact LI-COR Technical Support (details in the footer of this document).
© 2014 LI-COR, Inc. LI-COR, Odyssey, Chameleon, and Image Studio are trademarks or registered trademarks of LI-COR, Inc. in the United States and other countries. All other trademarks belong to their respective owners.
LI-COR is an ISO 9001 registered company.
Global Headquarters, Serving the United States • 4647 Superior Street • Lincoln, NE 68504 Toll free: 800-645-4267 • Fax: +1-402-467-0819 • [email protected]
LI-COR GmbH, Germany, Serving Europe, Africa, and the Middle East. LI-COR Biosciences GmbH • Siemensstraße 25A • 61352 Bad Homburg • Germany Phone: +49 (0) 6172 17 17 771 • Fax: +49 (0) 6172 17 17 799 • [email protected]
LI-COR Ltd., United Kingdom, Serving Denmark, Finland, Iceland, Ireland, Norway, Sweden, and UK LI-COR Biosciences UK Ltd. • St. John’s Innovation Centre • Cowley Road • Cambridge • CB4 0WS United Kingdom • Phone: +44 (0) 1223 422104 • Fax: +44 (0) 1223 422105 • [email protected]
LI-COR Biotechnology Distributor Network: www.licor.com/bio/distributors
www.licor.com/bio Doc # 988-14755 0714