SPIDER: PT (Create Pattern or mask image)

USAGE

.OPERATION: PT

.OUTPUT FILE: IMG042
[Enter the name of an existing or new pattern file.]

If the pattern file does not exist, SPIDER will ask the next question: (Warning, inside a loop you must allow for this additional question)

.DIMENSIONS (NX, NY): 32,64
[Enter dimensions for the pattern image.]

Following pattern code menu appears. Patterns can be subtracted by appending 'S' to the code.

   CODE    SHAPE

   P    POINT

   L    LINE

   C    FILLED CIRCLE

   CL    OUTLINED CIRCLE

   CJ    CIRCLE FROM 3 POINTS

   T    FILLED TRIANGLE

   TL    OUTLINED TRIANGLE

   B    FILLED BOX

   BL    OUTLINED BOX

.PATTERN (P,L,C,T,B,etc): P
[Enter the pattern code desired. See above for listing of all possible patterns.]

For (P)oint ('P' or 'PS') , SPIDER will ask:

..NUMBER OF POINTS: 1
[Enter the number of points.]

.COORDINATES: 12, 15
[Enter the coordinates of the first point. Enter each subsequent point, if any, on a new line.]

[The specified image point will be set to 1.0 (code: 'P') or to 0.0 (code 'PS'), respectively.]

For (L)ine ('L' or 'LS') , SPIDER will ask:

.COORDINATES & INTENSITY OF STARTING POINT: 12, 17

.COORDINATES OF ENDING POINT: 23, 32
[Enter the coordinates of the two end points of the line.]

[All points along the line between the two specified margin points (i.e. the nearest grid point in every column and row) will be set to specified intensity. If no intensity is specified then they will be set to: 1.0 (code: 'L') or to: 0.0 (code: LS), respectively.]

For (C)ircle ('C', 'CS', 'CL', or 'CLS' ) , SPIDER will ask:

.CENTER COORDINATES & OPTIONAL INTENSITY: 12, 15
[Enter center coordinates and intensity of the circle.]

.RADIUS: 8
[Enter radius of the circle. Either all points within the area limited by circle with the specified center and radius are set to 1.0 (code: 'C') or 0.0 (code: 'CS'), respectively, or only those image points belonging to the margin of the specified circle (i.e. the points lying on the margin line of the circle) are set to 1.0 (code: 'CL') or to 0.0 (code: 'CLS'), respectively.]

For (T)riangle ('T', 'TS', 'TL', or 'TLS' ) , SPIDER will ask:

.COORDINATES OF FIRST POINT: 12, 16

.COORDINATES OF SECOND POINT: 22, 10

.COORDINATES OF THIRD POINT: 3, 5
[Enter coordinates of the three apexes of the triangle. Either all points within the area limited by the triangle with the specified margin points are set to 1.0 (code: 'T') or 0.0 (code: 'TS'), respectively, or only those image points belonging to the margin lines of the specified triangle are set to 1.0 (code: 'TL') or to 0.0 (code: 'TLS'), respectively.]

For (B)ox ('B', 'BS', 'BL', or 'BLS' ) , SPIDER will ask:

.COORDINATES OF UPPER LEFT CORNER: 10, 8
[Enter coordinates of the upper left corner of the box.]

.COORDINATES OF LOWER RIGHT CORNER: 100, 120
[Enter the X and Y coordinates of the lower right corner. Either all points within the area limited by the specified box are set to 1.0 (code: 'B') or 0.0 (code: 'BS'), respectively, or only those image points belonging to the margin lines of the specified rectangle are set to 1.0 (code: 'BL') or to 0.0 (code: 'BLS'), respectively.]

For all selections SPIDER will ask:

.CONTINUE ? (Y/N): Y
[Enter 'Y' if you want to "add" or "subtract" another elementary pattern, enter 'N' if you are finished.]

PP L	[Put Points in image - from Document file Listing]
PP LL	[Put Lines in image - from Document file Listing]
MO	[Create Model image]
BL	[Create Blank image/volume]
MO 3	[Create Model volume]

CODE	SHAPE
P	POINT
L	LINE
C	FILLED CIRCLE
CL	OUTLINED CIRCLE
CJ	CIRCLE FROM 3 POINTS
T	FILLED TRIANGLE
TL	OUTLINED TRIANGLE
B	FILLED BOX
BL	OUTLINED BOX

PT - Create Pattern or mask image