stuarteberg

# Colors for the prompt
blue="\033[0;34m"
white="\033[0;37m"
green="\033[0;32m"

# Brackets needed around non-printable characters in PS1
ps1_blue='\['"$blue"'\]'
ps1_green='\['"$green"'\]'
ps1_white='\['"$white"'\]'

stuarteberg

import numpy

original_labels = None
mapping = None

# TODO: Ensure that all labels are present in mapping dict
#       because none of these functions work otherwise.

def using_index_array():
    consecutivized_labels = numpy.searchsorted( sorted( mapping.iterkeys() ), original_labels )

stuarteberg

from PyQt4.QtCore import Qt, QPointF, QRectF
from PyQt4.QtGui import QApplication, QWidget, QGraphicsView, QGraphicsScene, QGraphicsItem, QVBoxLayout, QSpacerItem, QSizePolicy, QCursor

class DraggableBox( QGraphicsItem ):
    """
    A simple QGraphicsItem that can be dragged around the scene.
    Of course, this behavior is easier to achieve if you simply use the default 
    event handler implementations in place and call 
    QGraphicsItem.setFlags( QGraphicsItem.ItemIsMovable )
    

stuarteberg

from PyQt4.QtCore import QRect
from PyQt4.QtGui import QApplication, QWidget, QLabel

class DraggableLabel( QLabel ):
    """
    A QLabel subclass that can be dragged around within its parent widget.
    Note: Not intended to work if the parent widget has a layout (e.g. QVBoxLayout).
    """
    
    def __init__(self, *args, **kwargs):

stuarteberg

# License: public domain
class SimpleView(object):
    """
    Simple view-like object of an array-like object.

    Slices taken with __getitem__ are combined and stored for later use, 
      but the actual data is not extracted from the underlying array-like 
      object until __array__ is called.
      
    Warnings about the current implementation: 

stuarteberg

"""
Utility function relabel_superpixels_to_bodies(), along with a main() function providing a command-line interface.
See usage documentation in main(), below.
"""
from __future__ import print_function
import collections
import numpy as np
import vigra

def main():

stuarteberg

stuarteberg

Normally, if you create an app bundle with py2app, it will copy the files from your
conda environment into the app bundle, but it will completely reorganize the
directory structure that you started with.  That has various downsides.

But there's a way to avoid that:  You can exploit py2app's "alias mode" to create an
app bundle that doesn't actually change the directory structure of your conda environment.
Just place the environment inside the app bundle, wholesale!  Instructions below,
with links to a real project that uses this method.

---

stuarteberg

In [20]: import numpy as np
    ...: import lz4.frame
    ...:
    ...: a = np.random.randint(2**16, size=1_000_000, dtype=int)
    ...: buf = lz4.frame.compress(a)
    ...: print("Compressed size without shuffling:", len(buf))
    ...:
    ...: shuffled = a.view(np.uint8).reshape(-1, 8).transpose().copy(order='C')
    ...: buf2 = lz4.frame.compress(shuffled)
    ...: print("Compressed size with shuffling:   ", len(buf2))

stuarteberg

import numpy as np
import scipy

def fill_hull(image):
    """
    Compute the convex hull of the given binary image and
    return a mask of the filled hull.
    
    Adapted from:
    https://stackoverflow.com/a/46314485/162094