Mask Editor is intended for interactive selection of good and bad regions on 2D image and preparation of output files with direct and inversed masks. It works as a basic graphical editor with specific input of the image and output for masks.

Content

User Interface

User interface of the Mask Editor works in a single window containing three panels; graphical window, left-hand, and bottom control bars. Content and functionality of these panels is described below. Most of control buttons have tool tip hints; when cursor stops on control button, a pop-up window with explanation of functionality of this button appears for a few seconds .

Graphical window

Graphical window contains image and spectrum. When cursor moves on image or spectrum, its coordinates are displayed near cursor. Cursor pattern is changed from "cross" to "pointing-finger" when it is located on active form boarder.

Left control bar

Left control bar consists of stack of buttons, which are functionally split for four groups; Forms, Modes, I/O, and Status, which content and functionality is explained in this section.

Forms

Forms are represented by the geometry objects Rectangle, Circle, Polygon, Wedge, and Line, which can be used to compose the mask positive and negative regions. All forms, except Polygon, are presented by two 2D points each in image coordinate system. Polygon is presented by the N 2D points, where N is a number of vertexes. All forms behave about the same way depending on Mode, as explained below.

Modes

Panel of modes contain Zoom, Add, Move, Select, and Remove buttons with functionality literally explained by their names.

• Zoom
  Mode Zoom works for image and spectral limits.
  Zoom-in image: left mouse button click-drug-release for desired region of image.
  Set limits for spectrum: left/right mouse button click on desired min/max limit on spectrum.
  Reset to full size: middle mouse button click on image or spectral box or "Reset" button.
• Add
  Add is an input mode for forms.
  Input method for Rectangle, Circle, Wedge, and Line: in mode Add click-drug-release the left mouse button. Two points for each form are defined by the click and release positions of the mouse.
  Input method for Polygon: the N-1 points are entered by the left mouse button click, while the Nth point is indicated by the right mouse button click, which closes the polygon.
• Move
  Each form can be moved or edited in this mode;
  in mode Move choose the form, then use left/right mouse button click-drug-release on form boarder to move/edit the form.
• Select
  Forms can be used as regular "positive" for ROI, and inversed "negative" for blemish mask.
  Select button serves to switch between regular and inversed forms.
  In the Select mode choose the form, then use left mouse button click on form boarder. Form color is changed at selection/deselection.
• Remove
  In the Remove mode choose the form, then use any mouse button click on form boarder.
  As an alternative option, currently active form can be removed by the middle mouse button click on its boarder. The "Clear Forms" button from I/O section removes all forms.

I/O

I/O panel contains a stack of buttons for input/output files and other global procedures as listed below.

• Load Image
  Loads and displays image from text file. The file name is selected through the standard pop-up dialog window.
• Load Forms
  Loads and displays forms from text file. The file name is selected through the standard pop-up dialog window.
• Save Forms
  Saves forms in text file. The file name is selected through the standard pop-up dialog window.
• Save Mask
  Saves "ROI" (positive) mask in text file. The file name is selected through the standard pop-up dialog window.
• Save inv-M(ask)
  Saves "blemish" (negative) mask in text file. The file name is selected through the standard pop-up dialog window.
• Print Forms
  Prints current forms from the list.
• Clear Forms
  Removes forms from image and from the list.

Status panel

Status panel is a single button-like panel, displaying short status messages. Click on any button potentially may change the status panel info. Messages are enforced by colors; green/yellow/red, corresponding to normal/attention/warning status. For "Wait ..." messages, it would be wise not clicking on buttons until the procedure is completed.

Bottom control bar

Bottom control bar contains "Help", "Reset", "Save", "ELog", "Close" buttons, "N bins" editable field, "Grid", and "Log" check boxes.

• Help
  Shows pop-up windows with help info about navigation. Use scroll bar to read entire help message.
• Reset
  Restores original image size and spectral limits.
• Save
  Saves content of graphical window in png file. The file name is selected through the standard pop-up dialog window.
• ELog
  Serves to submit message in ELog. The content of graphical window will be added as attachment. Destination of the message is selected through the custom pop-up dialog window.
• Close
  Closes the Mask Editor application.
• Grid
  On/Off coordinate grid on image and spectrum.
• Log
  Serves as a switch between linear and log scale.
• N bins
  "N bins" field can be used to change a number of bins in spectrum. Spectrum will redraw, when edition is ended (press Enter on keyboard or change focus on other field).

How to run Mask Editor

Mask Editor is developed as a part of the integrated data processing environment for XCS time correlation experiments. In this project the Mask Editor is integrated as one of the system GUIs. Also it can be executed as a stand-alone application named med. Stand-alone version of the Mask Editor can launched on any of psana or psexport node using command-line interface, for example, for all default parameters:

sit_setup
med

List of optional parameters

> med -h
Usage: med [options]

Optional input parameters.

Options:
  -h, --help            show this help message and exit
  -i IFNAME, --fname_img=IFNAME
                        input image file name
  -o OFNAME, --fname_fig=OFNAME
                        output png file name for current canvas
  -m MFNAME, --path_mask=MFNAME
                        common path to I/O files with mask
  -t TITLE, --title=TITLE
                        initial title of the garphical window
  -x XC, --xc=XC        x coordinate of the center for Wedges
  -y YC, --yc=YC        y coordinate of the center for Wedges
  -p PICKER, --picker=PICKER
                        distance in pix, where object line can be reaced by
                        mouse
  -w LW, --lw=LW        object line width
  -c COL, --color=COL   color of the form lines "b"-blue, "k"-black, etc.
  -v, --verbose         allows print on console
  -q, --quiet           supress print on console

Form data format

Forms can be saved in file, loaded from file and displayed on image, printed on console monitor, and cleared/removed from image. This can be done using simple data representation for each form, which is quite self-explained in case of print or text-file format:

Form parameters for composition of the mask
Rectangle   48.00   50.00  262.00  380.00 1 b False False
Rectangle  987.00  853.00  255.00  380.00 1 w True False
Wedge  716.76  674.72  541.18  197.61 -171.39  174.59 1 b False False
Wedge  674.48  667.64  585.84  386.69  174.75  186.99 1 b False False
Circle  712.00  674.00  262.00 1 b False False
Circle 1068.00  180.00  112.00 1 b False False
Circle  191.00  898.00  117.00 1 b False False
Circle  752.00 1098.00   53.00 1 w True False
Line  689.79 1252.80  624.50  223.22 1 w True False
Line  829.99 1252.80  244.47  388.46 1 b False False
Line  836.67 1303.98  268.07  541.89 1 w True False
Line  692.02 1315.11  669.35  827.50 1 b False False
Polygon 1 w True False 10     400     373     620    ...
Polygon 1 b False False 6     329     674     683    ...   

Demonstration of features

Plots for

• Input image
• Image with drawn forms on it
• Image for mask with forms on it
• Image for inversed mask with forms on it
• Help window