CaImAn

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Fixes infinite values in SNR

6

# Description SNR_comp sometimes contains `inf` values, probably due to some "bad" components having a trace at 0 except for one event. One problem is that it [breaks Mesmerize viz'...

pseudomanu

Kernel dying during motion correction

17

Your setup: 1. Operating System: Ubuntu 22.04.4 2. Hardware type (x86, ARM..) and RAM: Intel® Core™ i7-14700K × 28, 64GiB ram 3. Python Version (e.g. 3.9): 3.9 4. Caiman version...

Mraymon5

map_async causing issue when doing CNMF using ipyparallel

5

Your setup: 1. Operating System (Linux, MacOS, Windows): Linux 2. Hardware type (x86, ARM..) and RAM: x86, 128 GB 3. Python Version (e.g. 3.9): 3.11.8 4. Caiman version (e.g. 1.9.12):...

ethanbb

# Description The issue is that the `rois.com` function always assumes that each column of `A` is in F-order, but `get_contours` was not taking that into account when calling it...

ethanbb

linux run result file not readable in windows gui

5

I don't know why it runs extra slow on windows (i9, 32g; RTX1060), not sure if it's the configuration. Then I tried to run it on another computer and it...

lsookie

Input Array Dimension for concatenation size error

12

Hi, I am trying to use caiman to get a initialization file so that I can reuse it in the future. I am passing in a tif file generated from...

Kaiwen-Guo

Fix removeBL for 3D movies

8

# Description This PR is mainly focused on making sure `local_correlations_movie` works for 3D movies, by adding an `is3D` flag for passing to `caiman.load` and also slightly modifying `movie.removeBL`. I...

ethanbb

Make Keras 2 available for TensorFlow 2.16.1

5

# Description This provides a way to continue using Keras 2 with TensorFlow 2.16.1 (see #1355) by following the instructions here: https://github.com/tensorflow/tensorflow/releases/tag/v2.16.1 While sticking with 2.15.0 should still work for...

ethanbb

Tracking issue: Caiman and numpy 2.0

2

numpy 2.0 has release candidates, so a full release is just around the corner. Right now caiman pins numpy at

pgunn

Hi. My setup: 1. Operating System: MacOS 2. Hardware type, RAM: M1 Pro, 16 GB 3. Python Version: 3.11.8 4. Caiman version: 1.10.5 5. Which demo exhibits the problem (if...

wienecke