pyqtgraph error for python3.5 with numpy1.11

[Yang Shize]

Problem Description:

I copied the basic plotting example to a .py file and then run it.

Then the following error appears.

Traceback (most recent call last):

  File "D:\Python35\Quantifit-0975-150729\pyqttest4.py", line 36, in <module>

    p3.plot(np.random.normal(size=100), pen=(200,200,200), symbolBrush=(255,0,0), symbolPen='w')

  File "D:\Python35\lib\site-packages\pyqtgraph\graphicsItems\PlotItem\PlotItem.py", line 630, in plot

    item = PlotDataItem(*args, **kargs)

  File "D:\Python35\lib\site-packages\pyqtgraph\graphicsItems\PlotDataItem.py", line 176, in __init__

    self.setData(*args, **kargs)

  File "D:\Python35\lib\site-packages\pyqtgraph\graphicsItems\PlotDataItem.py", line 460, in setData

    self.updateItems()

  File "D:\Python35\lib\site-packages\pyqtgraph\graphicsItems\PlotDataItem.py", line 492, in updateItems

    self.scatter.setData(x=x, y=y, **scatterArgs)

  File "D:\Python35\lib\site-packages\pyqtgraph\graphicsItems\ScatterPlotItem.py", line 297, in setData

    self.addPoints(*args, **kargs)

  File "D:\Python35\lib\site-packages\pyqtgraph\graphicsItems\ScatterPlotItem.py", line 398, in addPoints

    self.updateSpots(newData)

  File "D:\Python35\lib\site-packages\pyqtgraph\graphicsItems\ScatterPlotItem.py", line 553, in updateSpots

    self.fragmentAtlas.getAtlas() # generate atlas so source widths are available.

  File "D:\Python35\lib\site-packages\pyqtgraph\graphicsItems\ScatterPlotItem.py", line 193, in getAtlas

    self.buildAtlas()

  File "D:\Python35\lib\site-packages\pyqtgraph\graphicsItems\ScatterPlotItem.py", line 186, in buildAtlas

    self.atlasData[x:x+w, y:y+h] = rendered[key]

IndexError: invalid slice

[Yang Shize]

Problem solved.

I forced the data type into int, then it is running.

Hope the developer will fix this issue in the future.

在 2016年2月25日星期四 UTC-5上午12:35:27，Yang Shize写道：

[Guillaume_LOF]

Hi,

  I actually encountered the same kind of error:

Traceback (most recent call last):

File "C:\Users\guillaume\Documents\scripts_python\skimage_blob.py", line 212, in process_one_image

update_appearence(param, changed)

File "C:\Users\guillaume\Documents\scripts_python\skimage_blob.py", line 261, in update_appearence

circles.setPoints(int64(blobs[:, 1]), int64(blobs[:, 0]), size = int64(blobs[:, 2]))

File "c:\applis\miniconda3\lib\site-packages\pyqtgraph\graphicsItems\ScatterPlotItem.py", line 411, in setPoints

return self.setData(*args, **kargs)

File "c:\applis\miniconda3\lib\site-packages\pyqtgraph\graphicsItems\ScatterPlotItem.py", line 297, in setData

self.addPoints(*args, **kargs)

File "c:\applis\miniconda3\lib\site-packages\pyqtgraph\graphicsItems\ScatterPlotItem.py", line 398, in addPoints

self.updateSpots(newData)

File "c:\applis\miniconda3\lib\site-packages\pyqtgraph\graphicsItems\ScatterPlotItem.py", line 553, in updateSpots

self.fragmentAtlas.getAtlas() # generate atlas so source widths are available.

File "c:\applis\miniconda3\lib\site-packages\pyqtgraph\graphicsItems\ScatterPlotItem.py", line 193, in getAtlas

self.buildAtlas()

File "c:\applis\miniconda3\lib\site-packages\pyqtgraph\graphicsItems\ScatterPlotItem.py", line 186, in buildAtlas

self.atlasData[x:x+w, y:y+h] = rendered[key]

TypeError: slice indices must be integers or None or have an __index__ method

I found based on your post a way to resolve the problem by adding [y, x, h, w] = np.int64([y, x, h, w]) at line 186 and also at line 148 of ScatterPlotItem.py file. But I am not found of modifying a file of a module as I shared my scripts with other people. Is there a way to prevent the problem without modifying ScatterPlotItem.py ?

The problem emerge since I updated numpy and matplotlib with numpy+mkl (version 1.12b01) and matplotlib (version 2.0.0rc1) you can find for windows x64 here: http://www.lfd.uci.edu/~gohlke/pythonlibs/

In both cases the cp35-cp35m-win_amd64.whl variant.

As you may have guessed with the path to my ScatterPlotItem.py file I am using python 3.5 with miniconda.

Thanks in advance for any clue that may help me on this one.

PS: in case someone want to reply me to change to an older version or keep miniconda version of numpy and matplotlib: these version raise a bug implying cycler in matplotlib with skimage blobs functions if I do not update the packages. So I am stuck on this one.