Source code for silx.gui.plot.MaskToolsWidget
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"""Widget providing a set of tools to draw masks on a PlotWidget.
This widget is meant to work with :class:`silx.gui.plot.PlotWidget`.
- :class:`ImageMask`: Handle mask bitmap update and history
- :class:`MaskToolsWidget`: GUI for :class:`Mask`
- :class:`MaskToolsDockWidget`: DockWidget to integrate in :class:`PlotWindow`
"""
__authors__ = ["T. Vincent", "P. Knobel"]
__license__ = "MIT"
__date__ = "08/12/2020"
import os
import sys
import numpy
import logging
import h5py
import fabio
from fabio.edfimage import EdfImage
from fabio.TiffIO import TiffIO
from silx.image import shapes
from silx.io.utils import NEXUS_HDF5_EXT, is_dataset
from silx.gui.dialog.DatasetDialog import DatasetDialog
from ._BaseMaskToolsWidget import BaseMask, BaseMaskToolsWidget, BaseMaskToolsDockWidget
from . import items
from ..colors import cursorColorForColormap, rgba
from .. import qt
from ..utils import LockReentrant
_logger = logging.getLogger(__name__)
_HDF5_EXT_STR = " ".join(["*" + ext for ext in NEXUS_HDF5_EXT])
def _selectDataset(filename, mode=DatasetDialog.SaveMode):
"""Open a dialog to prompt the user to select a dataset in
a hdf5 file.
:param str filename: name of an existing HDF5 file
:param mode: DatasetDialog.SaveMode or DatasetDialog.LoadMode
:rtype: str
:return: Name of selected dataset
"""
dialog = DatasetDialog()
dialog.addFile(filename)
dialog.setWindowTitle("Select a 2D dataset")
dialog.setMode(mode)
if not dialog.exec():
return None
return dialog.getSelectedDataUrl().data_path()
[docs]
class ImageMask(BaseMask):
"""A 2D mask field with update operations.
Coords follows (row, column) convention and are in mask array coords.
This is meant for internal use by :class:`MaskToolsWidget`.
"""
def __init__(self, image=None):
"""
:param image: :class:`silx.gui.plot.items.ImageBase` instance
"""
BaseMask.__init__(self, image)
self.reset(shape=(0, 0)) # Init the mask with a 2D shape
[docs]
def getDataValues(self):
"""Return image data as a 2D or 3D array (if it is a RGBA image).
:rtype: 2D or 3D numpy.ndarray
"""
return self._dataItem.getData(copy=False)
[docs]
def save(self, filename, kind):
"""Save current mask in a file
:param str filename: The file where to save to mask
:param str kind: The kind of file to save in 'edf', 'tif', 'npy', 'h5'
or 'msk' (if FabIO is installed)
:raise Exception: Raised if the file writing fail
"""
if kind == "edf":
EdfImage(
data=self.getMask(),
header={"program_name": "silx-mask", "masked_value": "nonzero"},
).write(filename)
elif kind == "tif":
tiffFile = TiffIO(filename, mode="w")
tiffFile.writeImage(self.getMask(copy=False), software="silx")
elif kind == "npy":
try:
numpy.save(filename, self.getMask(copy=False))
except IOError:
raise RuntimeError("Mask file can't be written")
elif ("." + kind) in NEXUS_HDF5_EXT:
self._saveToHdf5(filename, self.getMask(copy=False))
elif kind == "msk":
try:
data = self.getMask(copy=False)
image = fabio.fabioimage.FabioImage(data=data)
image = image.convert(fabio.fit2dmaskimage.Fit2dMaskImage)
image.save(filename)
except Exception:
_logger.debug("Backtrace", exc_info=True)
raise RuntimeError("Mask file can't be written")
else:
raise ValueError("Format '%s' is not supported" % kind)
@staticmethod
def _saveToHdf5(filename, mask):
"""Save a mask array to a HDF5 file.
:param str filename: name of an existing HDF5 file
:param numpy.ndarray mask: Mask array.
:returns: True if operation succeeded, False otherwise.
"""
if not os.path.exists(filename):
# create new file
with h5py.File(filename, "w") as _h5f:
pass
dataPath = _selectDataset(filename)
if dataPath is None:
return False
with h5py.File(filename, "a") as h5f:
existing_ds = h5f.get(dataPath)
if existing_ds is not None:
reply = qt.QMessageBox.question(
None,
"Confirm overwrite",
"Do you want to overwrite an existing dataset?",
qt.QMessageBox.Yes | qt.QMessageBox.No,
)
if reply != qt.QMessageBox.Yes:
return False
del h5f[dataPath]
try:
h5f.create_dataset(dataPath, data=mask)
except Exception:
return False
return True
# Drawing operations
[docs]
def updateRectangle(self, level, row, col, height, width, mask=True):
"""Mask/Unmask a rectangle of the given mask level.
:param int level: Mask level to update.
:param int row: Starting row of the rectangle
:param int col: Starting column of the rectangle
:param int height:
:param int width:
:param bool mask: True to mask (default), False to unmask.
"""
assert 0 < level < 256
if row + height <= 0 or col + width <= 0:
return # Rectangle outside image, avoid negative indices
selection = self._mask[
max(0, row) : row + height + 1, max(0, col) : col + width + 1
]
if mask:
selection[:, :] = level
else:
selection[selection == level] = 0
self._notify()
[docs]
def updatePolygon(self, level, vertices, mask=True):
"""Mask/Unmask a polygon of the given mask level.
:param int level: Mask level to update.
:param vertices: Nx2 array of polygon corners as (row, col)
:param bool mask: True to mask (default), False to unmask.
"""
fill = shapes.polygon_fill_mask(vertices, self._mask.shape)
if mask:
self._mask[fill != 0] = level
else:
self._mask[numpy.logical_and(fill != 0, self._mask == level)] = 0
self._notify()
[docs]
def updatePoints(self, level, rows, cols, mask=True):
"""Mask/Unmask points with given coordinates.
:param int level: Mask level to update.
:param rows: Rows of selected points
:type rows: 1D numpy.ndarray
:param cols: Columns of selected points
:type cols: 1D numpy.ndarray
:param bool mask: True to mask (default), False to unmask.
"""
valid = numpy.logical_and(
numpy.logical_and(rows >= 0, cols >= 0),
numpy.logical_and(rows < self._mask.shape[0], cols < self._mask.shape[1]),
)
rows, cols = rows[valid], cols[valid]
if mask:
self._mask[rows, cols] = level
else:
inMask = self._mask[rows, cols] == level
self._mask[rows[inMask], cols[inMask]] = 0
self._notify()
[docs]
def updateDisk(self, level, crow, ccol, radius, mask=True):
"""Mask/Unmask a disk of the given mask level.
:param int level: Mask level to update.
:param int crow: Disk center row.
:param int ccol: Disk center column.
:param float radius: Radius of the disk in mask array unit
:param bool mask: True to mask (default), False to unmask.
"""
rows, cols = shapes.circle_fill(crow, ccol, radius)
self.updatePoints(level, rows, cols, mask)
[docs]
def updateEllipse(self, level, crow, ccol, radius_r, radius_c, mask=True):
"""Mask/Unmask an ellipse of the given mask level.
:param int level: Mask level to update.
:param int crow: Row of the center of the ellipse
:param int ccol: Column of the center of the ellipse
:param float radius_r: Radius of the ellipse in the row
:param float radius_c: Radius of the ellipse in the column
:param bool mask: True to mask (default), False to unmask.
"""
rows, cols = shapes.ellipse_fill(crow, ccol, radius_r, radius_c)
self.updatePoints(level, rows, cols, mask)
[docs]
def updateLine(self, level, row0, col0, row1, col1, width, mask=True):
"""Mask/Unmask a line of the given mask level.
:param int level: Mask level to update.
:param int row0: Row of the starting point.
:param int col0: Column of the starting point.
:param int row1: Row of the end point.
:param int col1: Column of the end point.
:param int width: Width of the line in mask array unit.
:param bool mask: True to mask (default), False to unmask.
"""
rows, cols = shapes.draw_line(row0, col0, row1, col1, width)
self.updatePoints(level, rows, cols, mask)
[docs]
class MaskToolsWidget(BaseMaskToolsWidget):
"""Widget with tools for drawing mask on an image in a PlotWidget."""
_maxLevelNumber = 255
def __init__(self, parent=None, plot=None):
super(MaskToolsWidget, self).__init__(parent, plot, mask=ImageMask())
self._origin = (0.0, 0.0) # Mask origin in plot
self._scale = (1.0, 1.0) # Mask scale in plot
self._z = 1 # Mask layer in plot
self._data = numpy.zeros((0, 0), dtype=numpy.uint8) # Store image
self.__itemMaskUpdatedLock = LockReentrant()
self.__itemMaskUpdated = False
def __maskStateChanged(self) -> None:
"""Handle mask commit to update item mask"""
item = self._mask.getDataItem()
if item is not None:
with self.__itemMaskUpdatedLock:
item.setMaskData(self._mask.getMask(copy=True), copy=False)
[docs]
def setItemMaskUpdated(self, enabled: bool) -> None:
"""Toggle item mask and mask tool synchronisation.
:param bool enabled: True to synchronise. Default: False
"""
enabled = bool(enabled)
if enabled != self.__itemMaskUpdated:
if self.__itemMaskUpdated:
self._mask.sigStateChanged.disconnect(self.__maskStateChanged)
self.__itemMaskUpdated = enabled
if self.__itemMaskUpdated:
# Synchronize item and tool mask
self._setMaskedImage(self._mask.getDataItem())
self._mask.sigStateChanged.connect(self.__maskStateChanged)
[docs]
def isItemMaskUpdated(self) -> bool:
"""Returns whether or not item and mask tool masks are synchronised.
:rtype: bool
"""
return self.__itemMaskUpdated
[docs]
def setSelectionMask(self, mask, copy=True):
"""Set the mask to a new array.
:param numpy.ndarray mask:
The array to use for the mask or None to reset the mask.
:type mask: numpy.ndarray of uint8 of dimension 2, C-contiguous.
Array of other types are converted.
:param bool copy: True (the default) to copy the array,
False to use it as is if possible.
:return: None if failed, shape of mask as 2-tuple if successful.
The mask can be cropped or padded to fit active image,
the returned shape is that of the active image.
"""
if mask is None:
self.resetSelectionMask()
return self._data.shape[:2]
mask = numpy.asarray(mask, dtype=numpy.uint8)
if len(mask.shape) != 2:
_logger.error("Not an image, shape: %d", len(mask.shape))
return None
# Handle mask with single level
if self.multipleMasks() == "single":
mask = numpy.array(mask != 0, dtype=numpy.uint8)
# if mask has not changed, do nothing
if numpy.array_equal(mask, self.getSelectionMask()):
return mask.shape
if self._data.shape[0:2] == (0, 0) or mask.shape == self._data.shape[0:2]:
self._mask.setMask(mask, copy=copy)
self._mask.commit()
return mask.shape
else:
_logger.warning(
"Mask has not the same size as current image."
" Mask will be cropped or padded to fit image"
" dimensions. %s != %s",
str(mask.shape),
str(self._data.shape),
)
resizedMask = numpy.zeros(self._data.shape[0:2], dtype=numpy.uint8)
height = min(self._data.shape[0], mask.shape[0])
width = min(self._data.shape[1], mask.shape[1])
resizedMask[:height, :width] = mask[:height, :width]
self._mask.setMask(resizedMask, copy=False)
self._mask.commit()
return resizedMask.shape
# Handle mask refresh on the plot
def _updatePlotMask(self):
"""Update mask image in plot"""
mask = self.getSelectionMask(copy=False)
if mask is not None:
# get the mask from the plot
maskItem = self.plot.getImage(self._maskName)
mustBeAdded = maskItem is None
if mustBeAdded:
maskItem = items.MaskImageData()
maskItem.setName(self._maskName)
# update the items
maskItem.setData(mask, copy=False)
maskItem.setColormap(self._colormap)
maskItem.setOrigin(self._origin)
maskItem.setScale(self._scale)
maskItem.setZValue(self._z)
if mustBeAdded:
self.plot.addItem(maskItem)
elif self.plot.getImage(self._maskName):
self.plot.remove(self._maskName, kind="image")
[docs]
def showEvent(self, event):
try:
self.plot.sigActiveImageChanged.disconnect(
self._activeImageChangedAfterCare
)
except (RuntimeError, TypeError):
pass
# Sync with current active image
self._setMaskedImage(self.plot.getActiveImage())
self.plot.sigActiveImageChanged.connect(self._activeImageChanged)
[docs]
def hideEvent(self, event):
try:
self.plot.sigActiveImageChanged.disconnect(self._activeImageChanged)
except (RuntimeError, TypeError):
pass
image = self.getMaskedItem()
if image is not None:
try:
image.sigItemChanged.disconnect(self.__imageChanged)
except (RuntimeError, TypeError):
pass # TODO should not happen
if self.isMaskInteractionActivated():
# Disable drawing tool
self.plot.resetInteractiveMode()
if self.isItemMaskUpdated(): # No "after-care"
self._data = numpy.zeros((0, 0), dtype=numpy.uint8)
self._mask.setDataItem(None)
self._mask.reset()
if self.plot.getImage(self._maskName):
self.plot.remove(self._maskName, kind="image")
elif self.getSelectionMask(copy=False) is not None:
self.plot.sigActiveImageChanged.connect(self._activeImageChangedAfterCare)
def _activeImageChanged(self, previous, current):
"""Reacts upon active image change.
Only handle change of active image items here.
"""
if previous != current:
image = self.plot.getActiveImage()
if image is not None and image.getName() == self._maskName:
image = None # Active image is the mask
self._setMaskedImage(image)
def _setOverlayColorForImage(self, image):
"""Set the color of overlay adapted to image
:param image: :class:`.items.ImageBase` object to set color for.
"""
if isinstance(image, items.ColormapMixIn):
colormap = image.getColormap()
self._defaultOverlayColor = rgba(cursorColorForColormap(colormap["name"]))
else:
self._defaultOverlayColor = rgba("black")
def _activeImageChangedAfterCare(self, *args):
"""Check synchro of active image and mask when mask widget is hidden.
If active image has no more the same size as the mask, the mask is
removed, otherwise it is adjusted to origin, scale and z.
"""
activeImage = self.plot.getActiveImage()
if activeImage is None or activeImage.getName() == self._maskName:
# No active image or active image is the mask...
self._data = numpy.zeros((0, 0), dtype=numpy.uint8)
self._mask.setDataItem(None)
self._mask.reset()
if self.plot.getImage(self._maskName):
self.plot.remove(self._maskName, kind="image")
self.plot.sigActiveImageChanged.disconnect(
self._activeImageChangedAfterCare
)
else:
self._setOverlayColorForImage(activeImage)
self._setMaskColors(
self.levelSpinBox.value(),
self.transparencySlider.value() / self.transparencySlider.maximum(),
)
self._origin = activeImage.getOrigin()
self._scale = activeImage.getScale()
self._z = activeImage.getZValue() + 1
self._data = activeImage.getData(copy=False)
if self._data.shape[:2] != self._mask.getMask(copy=False).shape:
# Image has not the same size, remove mask and stop listening
if self.plot.getImage(self._maskName):
self.plot.remove(self._maskName, kind="image")
self.plot.sigActiveImageChanged.disconnect(
self._activeImageChangedAfterCare
)
else:
# Refresh in case origin, scale, z changed
self._mask.setDataItem(activeImage)
self._updatePlotMask()
def _setMaskedImage(self, image):
"""Change the image that is used a reference to author the mask"""
previous = self.getMaskedItem()
if previous is not None and self.isVisible():
# Disconnect from previous image
try:
previous.sigItemChanged.disconnect(self.__imageChanged)
except (RuntimeError, TypeError):
pass # TODO fixme should not happen
# Set the image
self._mask.setDataItem(image)
if image is None: # No image, disable mask
self.setEnabled(False)
self._data = numpy.zeros((0, 0), dtype=numpy.uint8)
self._mask.reset()
self._mask.commit()
self._updateInteractiveMode()
else: # Update and connect to image's sigItemChanged
if self.isItemMaskUpdated():
if image.getMaskData(copy=False) is None:
# Image item has no mask: use current mask from the tool
image.setMaskData(self.getSelectionMask(copy=False), copy=True)
else: # Image item has a mask: set it in tool
self.setSelectionMask(image.getMaskData(copy=False), copy=True)
self._mask.resetHistory()
self.__imageUpdated()
if self.isVisible():
image.sigItemChanged.connect(self.__imageChanged)
def __imageChanged(self, event):
"""Reacts upon image item changes"""
image = self._mask.getDataItem()
if image is None:
_logger.error("Mask is not attached to an image")
return
if event in (
items.ItemChangedType.COLORMAP,
items.ItemChangedType.DATA,
items.ItemChangedType.POSITION,
items.ItemChangedType.SCALE,
items.ItemChangedType.VISIBLE,
items.ItemChangedType.ZVALUE,
):
self.__imageUpdated()
elif (
event == items.ItemChangedType.MASK
and self.isItemMaskUpdated()
and not self.__itemMaskUpdatedLock.locked()
):
# Update mask from the image item unless mask tool is updating it
self.setSelectionMask(image.getMaskData(copy=False), copy=True)
def __imageUpdated(self):
"""Synchronize mask with current state of the image"""
image = self._mask.getDataItem()
if image is None:
_logger.error("No active image while expecting one")
return
self._setOverlayColorForImage(image)
self._setMaskColors(
self.levelSpinBox.value(),
self.transparencySlider.value() / self.transparencySlider.maximum(),
)
self._origin = image.getOrigin()
self._scale = image.getScale()
self._z = image.getZValue() + 1
self._data = image.getData(copy=False)
self._mask.setDataItem(image)
if self._data.shape[:2] != self._mask.getMask(copy=False).shape:
self._mask.reset(self._data.shape[:2])
self._mask.commit()
else:
# Refresh in case origin, scale, z changed
self._updatePlotMask()
# Visible and with data
self.setEnabled(image.isVisible() and self._data.size != 0)
# Threshold tools only available for data with colormap
self.thresholdGroup.setEnabled(self._data.ndim == 2)
self._updateInteractiveMode()
# Handle whole mask operations
[docs]
def load(self, filename):
"""Load a mask from an image file.
:param str filename: File name from which to load the mask
:raise Exception: An exception in case of failure
:raise RuntimeWarning: In case the mask was applied but with some
import changes to notice
"""
_, extension = os.path.splitext(filename)
extension = extension.lower()[1:]
if extension == "npy":
try:
mask = numpy.load(filename)
except IOError:
_logger.error("Can't load filename '%s'", filename)
_logger.debug("Backtrace", exc_info=True)
raise RuntimeError('File "%s" is not a numpy file.', filename)
elif extension in ("edf", "msk", "tif", "tiff"):
try:
mask = fabio.open(filename).data
except Exception as e:
_logger.error(f"Can't load filename {filename}")
_logger.debug("Backtrace", exc_info=True)
raise e
elif ("." + extension) in NEXUS_HDF5_EXT:
mask = self._loadFromHdf5(filename)
if mask is None:
raise IOError("Could not load mask from HDF5 dataset")
else:
msg = "Extension '%s' is not supported."
raise RuntimeError(msg % extension)
effectiveMaskShape = self.setSelectionMask(mask, copy=False)
if effectiveMaskShape is None:
return
if mask.shape != effectiveMaskShape:
msg = "Mask was resized from %s to %s"
msg = msg % (str(mask.shape), str(effectiveMaskShape))
raise RuntimeWarning(msg)
def _loadMask(self):
"""Open load mask dialog"""
dialog = qt.QFileDialog(self)
dialog.setWindowTitle("Load Mask")
dialog.setModal(1)
extensions = {}
extensions["EDF files"] = "*.edf"
extensions["TIFF files"] = "*.tif *.tiff"
extensions["NumPy binary files"] = "*.npy"
extensions["HDF5 files"] = _HDF5_EXT_STR
# Fit2D mask is displayed anyway fabio is here or not
# to show to the user that the option exists
extensions["Fit2D mask files"] = "*.msk"
filters = []
filters.append("All supported files (%s)" % " ".join(extensions.values()))
for name, extension in extensions.items():
filters.append("%s (%s)" % (name, extension))
filters.append("All files (*)")
dialog.setNameFilters(filters)
dialog.setFileMode(qt.QFileDialog.ExistingFile)
dialog.setDirectory(self.maskFileDir)
if not dialog.exec():
dialog.close()
return
filename = dialog.selectedFiles()[0]
dialog.close()
# Update the directory according to the user selection
self.maskFileDir = os.path.dirname(filename)
try:
self.load(filename)
except RuntimeWarning as e:
message = e.args[0]
msg = qt.QMessageBox(self)
msg.setIcon(qt.QMessageBox.Warning)
msg.setText("Mask loaded but an operation was applied.\n" + message)
msg.exec()
except Exception as e:
message = e.args[0]
msg = qt.QMessageBox(self)
msg.setIcon(qt.QMessageBox.Critical)
msg.setText("Cannot load mask from file. " + message)
msg.exec()
@staticmethod
def _loadFromHdf5(filename):
"""Load a mask array from a HDF5 file.
:param str filename: name of an existing HDF5 file
:returns: A mask as a numpy array, or None if the interactive dialog
was cancelled
"""
dataPath = _selectDataset(filename, mode=DatasetDialog.LoadMode)
if dataPath is None:
return None
with h5py.File(filename, "r") as h5f:
dataset = h5f.get(dataPath)
if not is_dataset(dataset):
raise IOError("%s is not a dataset" % dataPath)
mask = dataset[()]
return mask
def _saveMask(self):
"""Open Save mask dialog"""
dialog = qt.QFileDialog(self)
dialog.setWindowTitle("Save Mask")
dialog.setOption(qt.QFileDialog.DontUseNativeDialog)
dialog.setModal(1)
hdf5Filter = "HDF5 (%s)" % _HDF5_EXT_STR
filters = [
"EDF (*.edf)",
"TIFF (*.tif)",
"NumPy binary file (*.npy)",
hdf5Filter,
# Fit2D mask is displayed anyway fabio is here or not
# to show to the user that the option exists
"Fit2D mask (*.msk)",
]
dialog.setNameFilters(filters)
dialog.setFileMode(qt.QFileDialog.AnyFile)
dialog.setAcceptMode(qt.QFileDialog.AcceptSave)
dialog.setDirectory(self.maskFileDir)
def onFilterSelection(filt_):
# disable overwrite confirmation for HDF5,
# because we append the data to existing files
if filt_ == hdf5Filter:
dialog.setOption(qt.QFileDialog.DontConfirmOverwrite)
else:
dialog.setOption(qt.QFileDialog.DontConfirmOverwrite, False)
dialog.filterSelected.connect(onFilterSelection)
if not dialog.exec():
dialog.close()
return
nameFilter = dialog.selectedNameFilter()
filename = dialog.selectedFiles()[0]
dialog.close()
if "HDF5" in nameFilter:
has_allowed_ext = False
for ext in NEXUS_HDF5_EXT:
if (
len(filename) > len(ext)
and filename[-len(ext) :].lower() == ext.lower()
):
has_allowed_ext = True
extension = ext
if not has_allowed_ext:
extension = ".h5"
filename += ".h5"
else:
# convert filter name to extension name with the .
extension = nameFilter.split()[-1][2:-1]
if not filename.lower().endswith(extension):
filename += extension
if os.path.exists(filename) and "HDF5" not in nameFilter:
try:
os.remove(filename)
except IOError as e:
msg = qt.QMessageBox(self)
msg.setWindowTitle("Removing existing file")
msg.setIcon(qt.QMessageBox.Critical)
if hasattr(e, "strerror"):
strerror = e.strerror
else:
strerror = sys.exc_info()[1]
msg.setText("Cannot save.\n" "Input Output Error: %s" % strerror)
msg.exec()
return
# Update the directory according to the user selection
self.maskFileDir = os.path.dirname(filename)
try:
self.save(filename, extension[1:])
except Exception as e:
msg = qt.QMessageBox(self)
msg.setWindowTitle("Saving mask file")
msg.setIcon(qt.QMessageBox.Critical)
if hasattr(e, "strerror"):
strerror = e.strerror
else:
strerror = sys.exc_info()[1]
msg.setText("Cannot save file %s\n%s" % (filename, strerror))
msg.exec()
[docs]
def resetSelectionMask(self):
"""Reset the mask"""
self._mask.reset(shape=self._data.shape[:2])
self._mask.commit()
def _plotDrawEvent(self, event):
"""Handle draw events from the plot"""
if self._drawingMode is None or event["event"] not in (
"drawingProgress",
"drawingFinished",
):
return
if not len(self._data):
return
level = self.levelSpinBox.value()
if self._drawingMode == "rectangle":
if event["event"] == "drawingFinished":
# Convert from plot to array coords
doMask = self._isMasking()
ox, oy = self._origin
sx, sy = self._scale
height = int(abs(event["height"] / sy))
width = int(abs(event["width"] / sx))
row = int((event["y"] - oy) / sy)
if sy < 0:
row -= height
col = int((event["x"] - ox) / sx)
if sx < 0:
col -= width
self._mask.updateRectangle(
level, row=row, col=col, height=height, width=width, mask=doMask
)
self._mask.commit()
elif self._drawingMode == "ellipse":
if event["event"] == "drawingFinished":
doMask = self._isMasking()
# Convert from plot to array coords
center = (event["points"][0] - self._origin) / self._scale
size = event["points"][1] / self._scale
center = center.astype(numpy.int64) # (row, col)
self._mask.updateEllipse(
level, center[1], center[0], size[1], size[0], doMask
)
self._mask.commit()
elif self._drawingMode == "polygon":
if event["event"] == "drawingFinished":
doMask = self._isMasking()
# Convert from plot to array coords
vertices = (event["points"] - self._origin) / self._scale
vertices = vertices.astype(numpy.int64)[:, (1, 0)] # (row, col)
self._mask.updatePolygon(level, vertices, doMask)
self._mask.commit()
elif self._drawingMode == "pencil":
doMask = self._isMasking()
# convert from plot to array coords
col, row = (event["points"][-1] - self._origin) / self._scale
col, row = int(col), int(row)
brushSize = self._getPencilWidth()
if self._lastPencilPos != (row, col):
if self._lastPencilPos is not None:
# Draw the line
self._mask.updateLine(
level,
self._lastPencilPos[0],
self._lastPencilPos[1],
row,
col,
brushSize,
doMask,
)
# Draw the very first, or last point
self._mask.updateDisk(level, row, col, brushSize / 2.0, doMask)
if event["event"] == "drawingFinished":
self._mask.commit()
self._lastPencilPos = None
else:
self._lastPencilPos = row, col
else:
_logger.error("Drawing mode %s unsupported", self._drawingMode)
def _loadRangeFromColormapTriggered(self):
"""Set range from active image colormap range"""
activeImage = self.plot.getActiveImage()
if (
isinstance(activeImage, items.ColormapMixIn)
and activeImage.getName() != self._maskName
):
# Update thresholds according to colormap
colormap = activeImage.getColormap()
if colormap["autoscale"]:
min_ = numpy.nanmin(activeImage.getData(copy=False))
max_ = numpy.nanmax(activeImage.getData(copy=False))
else:
min_, max_ = colormap["vmin"], colormap["vmax"]
self.minLineEdit.setText(str(min_))
self.maxLineEdit.setText(str(max_))
[docs]
class MaskToolsDockWidget(BaseMaskToolsDockWidget):
""":class:`MaskToolsWidget` embedded in a QDockWidget.
For integration in a :class:`PlotWindow`.
:param parent: See :class:`QDockWidget`
:param plot: The PlotWidget this widget is operating on
:paran str name: The title of this widget
"""
def __init__(self, parent=None, plot=None, name="Mask"):
widget = MaskToolsWidget(plot=plot)
super(MaskToolsDockWidget, self).__init__(parent, name, widget)