CaImAn

CaImAn copied to clipboard

# Description This pull request fixes the cropping method in the movie class, which gives a ValueError when run (e.g., "ValueError: could not broadcast input array from shape (1000,340,348) into...

emelon8

Tracking bug: VSCode's "Jupyter mode" does not support all Jupyter UI in caiman

3

Some UI elements in the demo_dendridic nodebook don't show up when being evaluated in VSCode's Jupyter-like mode; in particular the accepted and rejected components (which have an interactive widget, which...

pgunn

Negative spatial correlation

1

1. Operating system (Linux/macOS/Windows): macOS 2. Python version (3.x): 3.10 3. Working environment (Python IDE/Jupyter Notebook/other): Spyder 4. Which of the demo scripts you're using for your analysis (if applicable):...

MarziyehPourmousavi

tensorflow run from caimina fails to find CUDA device yet tensorflow from cli does it.

16

For better support, please use the template below to submit your issue. When your issue gets resolved please remember to close it. Sometimes errors while running CNMF occur during parallel...

pbl007

API docs not rendering

1

Seems like the API docs aren't rendering, I'm pretty sure these used to render until recently? https://caiman.readthedocs.io/en/master/core_functions.html

kushalkolar

Fix cnmf utils get file size for tiff files created in append mode

3

# Description Tiff files created in append mode raise an IndexError when saving the memmaped motion correction movie. This is due to `cnmf.utilities.get_file_size()` returning the wrong dims. Example: ```python #...

kushalkolar

Rerun with the same options bug

2

Hi, This bug is also quite straightforward. When I re-run cnmf pipeline with the same options, the patch size option somehow gets reset to None. So, it is not really...

fatihdinc

Volpy GUI unable to load summary images

3

- **Tell us a bit about your setup**: 1. Windows 10 2. Python version: 3.7.12 3. Working environment: Jupyter Notebook 4. Which of the demo scripts you're using for your...

cawarwick

Index out of bounds

8

For better support, please use the template below to submit your issue. When your issue gets resolved please remember to close it. Sometimes errors while running CNMF occur during parallel...

clay34207

Temporal components with negative values (in estimates.C)

4

For better support, please use the template below to submit your issue. When your issue gets resolved please remember to close it. Sometimes errors while running CNMF occur during parallel...

NataliaFavila