Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / nel-lab/mesmerize-core issues and pull requests

#212 - Cannot run multiple successive iterations of mcorr?

Issue - State: closed - Opened by wmsheer over 1 year ago - 7 comments

#211 - Create CODE_OF_CONDUCT.md

Pull Request - State: closed - Opened by kushalkolar over 1 year ago

#210 - added n_processes kwarg to caiman.run()

Pull Request - State: open - Opened by happyqiu over 1 year ago - 1 comment

#209 - batch files cannot be used cross-platform

Issue - State: open - Opened by kushalkolar over 1 year ago - 5 comments

#208 - Visualize patches and overlaps for mcorr and cnmf

Issue - State: closed - Opened by kushalkolar over 1 year ago - 1 comment

#207 - Cloud files

Issue - State: closed - Opened by vkonan over 1 year ago - 2 comments

#206 - Cannot import name 'get_color' when importing fastplotlib

Issue - State: closed - Opened by msoheib over 1 year ago - 3 comments

#205 - ValueError: need at most 63 handles, got a sequence of length 65

Issue - State: closed - Opened by Forest-Speed over 1 year ago - 2 comments

#204 - allow passing kwargs from `LazyVideo` to `decord.VideoReader`

Pull Request - State: closed - Opened by kushalkolar over 1 year ago

#203 - progress bar

Issue - State: closed - Opened by vkonan over 1 year ago - 13 comments

#202 - allow removing failed or not run items

Pull Request - State: closed - Opened by kushalkolar over 1 year ago

#201 - `LazyTiff` is slow even if shape is provided

Issue - State: closed - Opened by kushalkolar over 1 year ago - 1 comment

#199 - allow more file formats, specific more columns in create_batch(), update tests

Pull Request - State: closed - Opened by kushalkolar over 1 year ago - 5 comments

#198 - Caiman Notebook Demo Error

Issue - State: closed - Opened by ambtetl over 1 year ago - 17 comments

#197 - How to pass var_name_hdf5 when running mcorr

Issue - State: open - Opened by oterocoronel over 1 year ago - 2 comments

#196 - Using list of paths for input_movie_paths

Issue - State: closed - Opened by oterocoronel over 1 year ago - 2 comments

#195 - Error while computing reconstructed background or residuals

Issue - State: closed - Opened by X4ndri over 1 year ago - 12 comments

#194 - conversion of old mesmerize batches

Issue - State: closed - Opened by kushalkolar almost 2 years ago - 1 comment

#193 - avi files for 1p cnmfe

Issue - State: closed - Opened by yunip20 almost 2 years ago - 2 comments

#192 - allow manually setting shape

Pull Request - State: closed - Opened by kushalkolar almost 2 years ago

#191 - disable cache for windows users

Pull Request - State: closed - Opened by clewis7 almost 2 years ago

#190 - concatenation of LazyArrays

Issue - State: closed - Opened by kushalkolar almost 2 years ago - 2 comments

#189 - fix WrongAlgorithMException error message in `@validate()`

Pull Request - State: closed - Opened by kushalkolar almost 2 years ago

#188 - fixing bug in time()

Pull Request - State: closed - Opened by clewis7 almost 2 years ago

#187 - consider offering a MongoDB backend

Issue - State: closed - Opened by kushalkolar almost 2 years ago - 2 comments

#186 - use `n_processes` kwarg for `caiman.run()`

Issue - State: open - Opened by kushalkolar almost 2 years ago

#185 - cnmfe demo

Pull Request - State: closed - Opened by kushalkolar almost 2 years ago

#184 - fix cnmfe algo runner

Pull Request - State: closed - Opened by kushalkolar almost 2 years ago

#183 - make corr_image optional when running mcorr

Pull Request - State: open - Opened by kushalkolar almost 2 years ago

#181 - visualize components one by one using a slider

Issue - State: closed - Opened by kushalkolar almost 2 years ago - 1 comment
Labels: priority

#180 - mcorr fails if input video has less than 1000 frames

Issue - State: open - Opened by kushalkolar almost 2 years ago - 1 comment

#179 - zmq issue AssertionError

Issue - State: closed - Opened by dprotter almost 2 years ago - 4 comments

#178 - movie dimension changed from 3d to 4d when loading using lazytiff

Issue - State: closed - Opened by asharma11 almost 2 years ago - 3 comments
Labels: priority

#177 - LazyMongo array for accessing data in a MongoDB

Pull Request - State: closed - Opened by kushalkolar almost 2 years ago - 1 comment

#176 - expand docs

Issue - State: closed - Opened by kushalkolar almost 2 years ago

#175 - more `LazyArray` stuff

Pull Request - State: closed - Opened by kushalkolar almost 2 years ago

#174 - CONDA_PREFIX_1 error when running , row.caiman.run() on jupyter lab mac m1

Issue - State: closed - Opened by Vignesh-786 almost 2 years ago - 5 comments

#173 - lazy loading hdf5 files

Issue - State: closed - Opened by vncntprvst almost 2 years ago - 2 comments

#172 - 1-p/cnmfe

Issue - State: closed - Opened by katesal327 almost 2 years ago - 12 comments

#171 - Look into arrow

Issue - State: closed - Opened by kushalkolar almost 2 years ago - 1 comment

#170 - Add ability to read .avi files

Issue - State: closed - Opened by emelon8 almost 2 years ago - 28 comments

#169 - Add ability to remove items that have not been run

Issue - State: closed - Opened by X4ndri almost 2 years ago - 1 comment
Labels: priority

#168 - more better demo nbs

Pull Request - State: closed - Opened by kushalkolar almost 2 years ago

#167 - allow movie_reader kwargs for caiman.get_input_movie()

Pull Request - State: closed - Opened by kushalkolar almost 2 years ago

#166 - Pass kwargs to movie reader functions

Issue - State: closed - Opened by kushalkolar almost 2 years ago

#165 - probably bug in common

Issue - State: closed - Opened by kushalkolar almost 2 years ago - 3 comments
Labels: bug, priority

#163 - set default `swap_dim=False` for `cnmf.get_contours()`

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#162 - cnmfe fails with keyerror: downsample_ratio

Issue - State: closed - Opened by X4ndri about 2 years ago - 2 comments

#161 - Updating from 0.1.0.b1 to 0.1.0

Issue - State: closed - Opened by EricThomson about 2 years ago - 1 comment

#159 - put batch runfiles in the batch dir

Issue - State: open - Opened by kushalkolar about 2 years ago

#158 - things to add to `ImageGraphic` and `ImageWidget`

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#157 - smaller tests

Issue - State: closed - Opened by kushalkolar about 2 years ago

#156 - Better demo nb

Pull Request - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#155 - V0.1 dev -> master

Pull Request - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#154 - caiman changed memmap naming

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment
Labels: critical

#153 - Better example notebooks

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#152 - add OnACID algo

Issue - State: closed - Opened by kushalkolar about 2 years ago - 2 comments

#151 - Example notebook using fastplotlib to toggle components as good or bad

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#150 - not all tiff files support memmaping

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment
Labels: critical

#149 - Better demo nb

Pull Request - State: closed - Opened by kushalkolar about 2 years ago - 2 comments

#148 - Popen.wait() called by default using 'wait' kwarg to caiman.run()

Pull Request - State: closed - Opened by kushalkolar about 2 years ago

#147 - made better docstrings

Pull Request - State: closed - Opened by kushalkolar about 2 years ago

#146 - movie reader, tiff memmap, caiman memmap and pims

Pull Request - State: closed - Opened by kushalkolar about 2 years ago

#145 - better docstrings

Issue - State: closed - Opened by kushalkolar about 2 years ago

#144 - LazyArray for file reading

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#143 - Update demos to use `ImageWidget`

Issue - State: closed - Opened by kushalkolar about 2 years ago - 2 comments

#141 - adding timestamp features

Pull Request - State: closed - Opened by clewis7 about 2 years ago - 4 comments

#140 - Lazy arrays

Pull Request - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#139 - create array-like object for reconstructed movie, background and residuals

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#138 - add a `wait=True` kwarg to `caiman.run()`

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#137 - Update demo nb to use ImageWidget

Issue - State: closed - Opened by kushalkolar about 2 years ago

#136 - Check that all UUIDs match with caiman.save_to_disk()

Issue - State: open - Opened by kushalkolar about 2 years ago

#135 - lockfile to protect batch dataframe

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#134 - automate caimanmanager stuff in mesmerize-core

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#133 - remove older tests and use smaller groundtruths file

Issue - State: closed - Opened by kushalkolar about 2 years ago

#132 - figure out what's up with mac CI runs

Pull Request - State: closed - Opened by kushalkolar about 2 years ago

#131 - add local backend to `caiman.run()`

Pull Request - State: closed - Opened by kushalkolar about 2 years ago

#130 - Add local backend to `caiman.run()`

Issue - State: closed - Opened by kushalkolar about 2 years ago

#129 - reuse memmaps across batch items

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#127 - Add "added timestamp" and "ran timestamp" as default columns

Issue - State: closed - Opened by kushalkolar about 2 years ago - 1 comment

#123 - Try regular multiprocessing.Process for running algos for windows

Issue - State: closed - Opened by kushalkolar over 2 years ago - 1 comment

#122 - no batch output - Windows OS

Issue - State: closed - Opened by katesal327 over 2 years ago

#121 - dataframe extensions to copy and rsync all batch data.

Issue - State: closed - Opened by kushalkolar over 2 years ago - 1 comment

#120 - try to fix windows weird cache uuid test

Pull Request - State: closed - Opened by kushalkolar over 2 years ago

#119 - add caiman.backup_dataframe(), change index parsing

Pull Request - State: open - Opened by kushalkolar over 2 years ago

#118 - make sure parent raw data path exists, else throw exception

Pull Request - State: closed - Opened by kushalkolar over 2 years ago

#117 - fresh ubuntu install - caiman

Issue - State: closed - Opened by katesal327 over 2 years ago - 7 comments

#116 - running caiman motion correction, file not found

Issue - State: closed - Opened by GarrettBlair over 2 years ago - 16 comments

#115 - fixing threshold for tests to pass in pipeline

Pull Request - State: closed - Opened by clewis7 over 2 years ago - 2 comments

#114 - last bits of features before initial beta release

Pull Request - State: closed - Opened by kushalkolar over 2 years ago

#112 - added get_params_diffs() feature, works

Pull Request - State: closed - Opened by kushalkolar over 2 years ago

#110 - organizing stuff for release

Pull Request - State: closed - Opened by kushalkolar over 2 years ago