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bwpy's Introduction

Hi there 👋

  • 🔭 I’m currently working on lots of projects related to my PhD in neuroscience!
  • 💬 Ask me about cycling, hiking or doing things you shouldn't do in Python.
  • 📫 How to reach me: GitHub notifications are my go-to drugs.
  • 😄 Pronouns: they (or die/hun in my native language, Dutch)
  • ⚡ Fun fact: Whales have tiny feet in their skeleton and lobsters don't answer when you ask them for their age.

Some of my projects are in disarray or only up to snuff for personal use, but I'm highly susceptible to external motivation. If you're interested in any of them feel free to open an issue and I will be immediatly available to polish up my projects for your use!

bwpy's People

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bwpy's Issues

Prevent writing to things that shouldn't be written to

Add a list of things that shouldn't be written to and patch up all the ways to access them, like the __getitem__ function. Goal is this:

with bwpy.File(...) as f:
  f["3BRecInfo/3BRecVars/BitDepth"][0] = 12
>>> RuntimeError: The bit depth is a protected variable. If you wish to venture into dangerous lands open the file in unsafe mode.

BXR ChannelGroup reading causes error with h5py>=3.0.0

Reading an item from the ChannelGroup dataset /3BUserInfo/ChsGroups with h5py>=3.0.0 causes:

======================================================================
ERROR: test_channel_group_names (test_file.TestChannelGroups)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/mnt/c/Users/robin/Documents/GIT/bwpy/tests/test_file.py", line 61, in test_channel_group_names
    names = f.get_channel_group_names()
  File "/mnt/c/Users/robin/Documents/GIT/bwpy/bwpy/__init__.py", line 76, in get_channel_group_names
    print("GROUP0", self.get_raw_user_info()["ChsGroups"][()])
  File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper
  File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper
  File "/home/robin/.pyenv/versions/3.8.6/lib/python3.8/site-packages/h5py/_hl/dataset.py", line 784, in __getitem__
    self.id.read(mspace, fspace, arr, mtype, dxpl=self._dxpl)
  File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper
  File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper
  File "h5py/h5d.pyx", line 192, in h5py.h5d.DatasetID.read
  File "h5py/_proxy.pyx", line 141, in h5py._proxy.dset_rw
  File "h5py/_conv.pyx", line 670, in h5py._conv.vlen2ndarray
  File "h5py/_conv.pyx", line 717, in h5py._conv.conv_vlen2ndarray
ValueError: data type must provide an itemsize

----------------------------------------------------------------------

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