Edit Image Header

Field

Description...

File

Allows you to browse to the file that you want to edit. You can also enter the directory and file name or a window number in this field.

Columns, Rows, Sections

The number of columns, rows, and total number of sections that the image file contains.

Z-Sections, Wavelengths, Time Points

The number of Z-sections, wavelengths, and time points that the image file contains. Multiplied together, these numbers should equal the Sections value in the previous text field.

Data Type

Indicates the size of each data sample in the data file. softWoRx supports the following data types: 8-bit or 16-bit signed or unsigned integer, floating point, complex integer, or complex floating point. softWoRx doesn't fully support complex data types at this time.

Image Sequence

This indicates the sequence of images in the data set. The choices are:

Z -> T -> W - This is Z-section (Z), then time-point (T),  then wavelength (W).

W -> Z -> T - This is wavelength (W), then Z-section (Z), then time-point (T).

Z -> W -> T - This is Z-section (Z), then wavelength (W),  then time-point (T).

The table below gives a quick example of the Z -> T -> W and W -> Z -> T  image sequences. In the first case, Z is incremented fastest; in the second case, wavelength is incremented fastest. Z -> T -> W is the usual arrangement except for Resolve3D image data, which is W -> Z -> T. Many image processing programs convert W -> Z -> T to Z -> T -> W during the course of their work.

  Z -> T -> W  |  W -> Z -> T 

  -----------  |  ----------- 

        T0     |       Z0

        Z0     |       W0 

        Z1     |       W1 

        Z2     |       W2 

        ...    |       ... 

        Zn     |       Wn 

        T1     |       Z1

        Z0     |       W0 

        Z1     |       W1 

        Z2     |       W2 

        ...    |       ... 

        Zn     |       Wn 

        ...    |       ... 

Wavelengths (nm)

The wavelengths (in nanometers) of the data in the file.

X, Y, Z Origin

The origin (in microns) of the first point of the image file.

Intensity Stats (Min,Max,Mean)

The minimum, maximum, and mean data values for the currently selected wavelength. You can change the Min and Max values to provide thresholds for the displayed data.

Rotation Angles (about X,Y,Z)

The angles in degrees by which the image volume is rotated with respect to X, Y, and Z.

Extended Header Size (Bytes)

The size of the extended header. The extended header usually contains information about light intensity and time recorded when the image was acquired. For detailed information about the extended header, see the softWoRx Imaging Workstation User's Manual.

Image Type

Displays the image type. The image may be one of the following types:

0: Normal Image Data

1: Tilt-Series

2: Stereo Tilt-Series

3: Averaged Images

4: Averaged Stereo Pairs

For detailed information about image types, see the softWoRx Imaging Workstation User's Manual..

Lens ID

The Lens used to collect the image. The Lens ID option list shows an expanded descriptive name for the lens and the text field shows the lens ID number.

Note If an images is collected with the incorrect lens ID number, its image pixel size must be changed. Refer to the typical pixel size for assistance with the image pixel size.

Auxiliary Magnification

Indicates whether or not an Auxiliary Magnification was used to collect this image. The value to the right indicates the value of the magnification for your microscope.

Typical Pixel Size

The typical size represented by each pixel of the image (in microns), based on the lens that was used for data collection.

Note The pixel size in this field comes from the DeltaVision microscope configuration file on the workstation that you are using. If the lens and pixel size are not included with the microscope configuration, then the typical pixel size is unknown. If the workstation that you are using is not the primary data collection station, then you should confirm that the typical pixel size is consistent with that recorded on the primary data collection station.

Image Pixel Size

The actual size represented by each pixel on the screen in real-world units (microns). This is a function of the lens magnification and the Z step used to acquire the data.

Note If an image is collected with the incorrect lens ID number, you must change the image pixel size.

Number of Titles

The number of text label strings contained in the file header.

New Title

Allows you to add or change the title. You may enter text in this field to be added to the title string list in the file. Add and replace options may be selected on the right of the text field. Just This Label is the default action. The scrolled list of text strings shows all of the currently included titles.

Section to Revise

Allows you to specify the Z section number, the wavelength number, and the time point  number of the section to revise. The Section # records the true sequential image number for the section that is specified.

Current Section Values

Includes the following information:

• Photosensor - Light intensity value recorded for this section.

• Time - Time this section was acquired (for time-lapse image files).

• Stage Coordinates - The X, Y, Z coordinates of the stage at the time that the image was acquired.

Done

Closes the Edit Image Header tool.

Close File

Closes the file. Use this if you have saved changes and want to switch to another file.

Save Changes

Saves any changes made to the header of the currently selected image file.