How to convert ROI coordinates from relative to pixels #232
Description
- nd2 version: 5.42.06
- Python version: 3.9
- Operating System: W10
Description
This is not really an issue, just a suggestion to add to the documentation
What I Did
The code below converts the ROI coordinates from relative fractions to pixel coordinates.
The Ellipse ROI width and height are before rotation over the indicated angle.
The only missing detail is the inner circle of the Ring ROI.
f = nd2.ND2File(sys.argv[1])
mid_x = f.shape[1] / 2.
mid_y = f.shape[0] / 2.
def RelToPixSizeX(x):
return mid_x * x
def RelToPixSizeY(y):
return mid_y * y
def RelToPixPosX(x):
return mid_x + mid_x * x
def RelToPixPosY(y):
return mid_y + mid_y * y
for id in f.rois:
roi = f.rois[id]
header = str(roi.id) + ";" + nd2.structures.RoiShapeType(roi.info.shapeType).name + ";"
pnts = ""
info = roi.animParams[0]
if (roi.info.shapeType == nd2.structures.RoiShapeType.Rectangle) or \
(roi.info.shapeType == nd2.structures.RoiShapeType.Square) or \
(roi.info.shapeType == nd2.structures.RoiShapeType.Circle) or \
(roi.info.shapeType == nd2.structures.RoiShapeType.Ellipse) or \
(roi.info.shapeType == nd2.structures.RoiShapeType.Ring):
pnts = "(" + \
"{:#.1f}".format(RelToPixPosX(info.centerX)) + "," + \
"{:#.1f}".format(RelToPixPosY(info.centerY)) + "),(" + \
"{:#.1f}".format(RelToPixSizeX(info.boxShape.sizeX)) + "," + \
"{:#.1f}".format(RelToPixSizeY(info.boxShape.sizeY)) + ")"
elif (roi.info.shapeType == nd2.structures.RoiShapeType.Line) or \
(roi.info.shapeType == nd2.structures.RoiShapeType.Polygon) or \
(roi.info.shapeType == nd2.structures.RoiShapeType.PolyLine) or \
(roi.info.shapeType == nd2.structures.RoiShapeType.Bezier):
for pnt in roi.animParams[0].extrudedShape.basePoints:
if len(pnts) != 0:
pnts += ","
pnts += "(" + "{:#.1f}".format(RelToPixPosX(pnt.x+info.centerX)) + "," + "{:#.1f}".format(RelToPixPosY(pnt.y+info.centerY)) + ")"
print(header + pnts + ";" + "{:#.4f}".format(info.rotationZ))
f.close()
WR,
Kees