kushalkolar/MESmerize issues and pull requests

#111 - [BUG] <PeakDetect_AttributeError>

Issue - State: closed - Opened by sorayascuderi about 1 year ago - 1 comment
Labels: bug

#110 - [INSTALLATION HELP Numpy error during pip install mesmerize ]

Issue - State: closed - Opened by ambtetl over 1 year ago - 1 comment
Labels: help wanted

#109 - Work Environment reported empty when Add to Project

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

#108 - ImageJ ROIs fileTraceback

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

#107 - [INSTALLATION HELP] tensorflow=1.15 installs tensorflow-estimator 2.6.0 incompatibility issue

Issue - State: closed - Opened by s-j-k over 2 years ago - 1 comment
Labels: help wanted

#106 - docs on how to open imaging data in hdf5 files in the viewer, see #105

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

#105 - [INSTALLATION HELP] opening .h5 instead of .tiff

Issue - State: closed - Opened by s-j-k over 2 years ago
Labels: help wanted

#104 - [INSTALLATION HELP]

Issue - State: closed - Opened by ckluong over 2 years ago - 2 comments
Labels: help wanted

#103 - [BUG] CNMFe error

Issue - State: closed - Opened by WhereWolf72 over 2 years ago - 2 comments
Labels: bug

#102 - [INSTALLATION HELP]

Issue - State: closed - Opened by engineeringjoy over 2 years ago - 8 comments
Labels: help wanted

#101 - Script Editor not opening

Issue - State: closed - Opened by BenjaminEscribano over 2 years ago - 3 comments

#100 - dF F0 gives error 'bool' object has no attribute 'all'

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

#99 - Extract and load metadata from Zeiss czi image stacks

Issue - State: closed - Opened by JCKMes over 2 years ago - 12 comments
Labels: enhancement

#98 - Issue with batch manager first run (motion correction not starting)

Issue - State: closed - Opened by AlbertoLombardini13 over 2 years ago - 2 comments
Labels: help wanted

#97 - [FEATURE REQUEST] Is it possible to load several tiffs simultaneously

Issue - State: closed - Opened by maristanye over 2 years ago - 1 comment
Labels: enhancement

#96 - restricting CNMF ROI detection to specific regions of the image

Issue - State: closed - Opened by pr4deepr over 2 years ago - 1 comment
Labels: enhancement

#95 - [BUG] <CNMF saving bug>

Issue - State: closed - Opened by daiyh98 over 2 years ago - 3 comments
Labels: bug

#94 - [BUG] <CNMF>

Issue - State: closed - Opened by daiyh98 over 2 years ago - 2 comments
Labels: bug

#93 - Issue with using console

Issue - State: closed - Opened by daiyh98 over 2 years ago - 3 comments

#92 - fix the edge artifact problem with correlation plot

Pull Request - State: closed - Opened by EricThomson over 2 years ago - 3 comments

#91 - [FEATURE REQUEST] Export ROI manager data to CSV

Issue - State: closed - Opened by kushalkolar over 2 years ago
Labels: enhancement

#90 - Csv export curves

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

#89 - update cnmfe.py with spinbox data type changes

Pull Request - State: closed - Opened by EricThomson over 2 years ago - 1 comment

#88 - updated ui and compiled template file for cnmfe gui

Pull Request - State: closed - Opened by EricThomson over 2 years ago - 1 comment

#87 - update cnmfe ui

Pull Request - State: closed - Opened by EricThomson over 2 years ago - 3 comments

#86 - unexpected issues to a new man

Issue - State: closed - Opened by PPPPolish over 2 years ago - 4 comments
Labels: bug

#85 - caiman package not found

Issue - State: closed - Opened by katesal327 over 2 years ago - 36 comments
Labels: help wanted

#84 - fixed ptime issue for Python 3.8

Pull Request - State: closed - Opened by EricThomson over 2 years ago - 1 comment

#83 - [BUG] ROIs are rotated 90degrees using CNMF

Issue - State: closed - Opened by cawarwick almost 3 years ago
Labels: bug

#82 - [BUG] Error running full CNMFe

Issue - State: closed - Opened by WhereWolf72 almost 3 years ago - 6 comments
Labels: bug

#81 - Towards v0.9, conda install, update package versions etc.

Issue - State: closed - Opened by kushalkolar almost 3 years ago
Labels: enhancement

#80 - [INSTALLATION HELP]

Issue - State: closed - Opened by kevinpan0127 almost 3 years ago - 5 comments
Labels: help wanted

#79 - New Mesmerize README

Pull Request - State: closed - Opened by Blastorios almost 3 years ago

#78 - updated tifffile.imsave to save in imagej False/bigtiff True format

Pull Request - State: closed - Opened by EricThomson almost 3 years ago - 1 comment

#77 - Readme

Pull Request - State: closed - Opened by Blastorios about 3 years ago - 2 comments

#76 - Compnent registartion across multiple sessions

Issue - State: closed - Opened by TundeSzungyi about 3 years ago - 1 comment
Labels: enhancement

#75 - Improve CNMF with evenly lighted recordings?

Issue - State: closed - Opened by TundeSzungyi about 3 years ago - 2 comments
Labels: enhancement

#74 - Issue with cnmf-e on HPC

Issue - State: closed - Opened by smbaca about 3 years ago - 2 comments

#73 - update branch

Pull Request - State: closed - Opened by kushalkolar about 3 years ago - 1 comment

#72 - Inscopix importer

Pull Request - State: closed - Opened by kushalkolar about 3 years ago - 4 comments

#71 - CaImAn Install Issue - Windows/Linux Dual Boot[INSTALLATION HELP]

Issue - State: closed - Opened by WhereWolf72 about 3 years ago - 7 comments
Labels: help wanted

#69 - [BUG] <Loading k-shape project plot error>

Issue - State: closed - Opened by pr4deepr about 3 years ago - 7 comments
Labels: bug

#68 - Add support for importing different ROIs from ImageJ

Pull Request - State: closed - Opened by pr4deepr about 3 years ago - 5 comments

#67 - [BUG Daemonic processes are not allowed to have children

Issue - State: closed - Opened by mestmas about 3 years ago - 17 comments
Labels: bug

#66 - CaImAn instalattion error

Issue - State: closed - Opened by szocs93 about 3 years ago - 4 comments

#65 - Help with VM installation

Issue - State: closed - Opened by AyusoAa about 3 years ago - 15 comments
Labels: help wanted

#64 - Added support for importing different ROI types from ImageJ

Pull Request - State: closed - Opened by pr4deepr about 3 years ago - 12 comments

#63 - Import ROI ImageJ error

Issue - State: closed - Opened by pr4deepr about 3 years ago - 2 comments
Labels: bug

#62 - [BUG] correlation_pnr() output has edge artifacts not present when I run same in caiman

Issue - State: closed - Opened by EricThomson over 3 years ago - 15 comments
Labels: bug

#61 - KShape bug

Issue - State: closed - Opened by pr4deepr over 3 years ago - 11 comments
Labels: bug

#60 - Add demo notebook to show how to pull Mesmerize batch data

Pull Request - State: closed - Opened by EricThomson over 3 years ago - 1 comment

#59 - [FEATURE REQUEST] Option to save memmap files for caiman batch items

Issue - State: closed - Opened by kushalkolar over 3 years ago
Labels: enhancement

#58 - ModuleNotFoundError: No module named 'caiman'

Issue - State: closed - Opened by katherinekelly2012 over 3 years ago - 5 comments
Labels: bug

#57 - Problem Exporting Video

Issue - State: closed - Opened by katherinekelly2012 over 3 years ago - 5 comments
Labels: bug

#56 - [BUG] Python hangs in jupyter/ipython after mesmerize import when any exception is hit

Issue - State: closed - Opened by EricThomson over 3 years ago - 9 comments
Labels: bug

#55 - [BUG] mesmerize sometimes hangs on logfile removal and will not open

Issue - State: closed - Opened by EricThomson over 3 years ago - 3 comments
Labels: bug

#54 - [BUG] CNMF-E correlation and PNR batch process not working

Issue - State: closed - Opened by EricThomson over 3 years ago - 3 comments
Labels: bug

#53 - [BUG] System configuration setting yields an error

Issue - State: closed - Opened by EricThomson over 3 years ago - 3 comments
Labels: bug

#52 - No module named 'cv2'

Issue - State: closed - Opened by VivoNeuro over 3 years ago - 4 comments
Labels: bug

#51 - [FEATURE REQUEST] Add Rejected ROIs to the ROI Manager

Issue - State: closed - Opened by Bilalgp over 3 years ago - 5 comments
Labels: enhancement

#50 - [BUG] ROIs in HDF5 file are not matching with their respective traces correctly

Issue - State: closed - Opened by Bilalgp over 3 years ago - 5 comments
Labels: bug

#49 - OSX install failure, psutil

Issue - State: closed - Opened by ASiliciano almost 4 years ago - 8 comments
Labels: help wanted

#48 - RuntimeError Using CNMF Module

Issue - State: closed - Opened by kevinpan0127 almost 4 years ago - 5 comments

#47 - ModuleNotFoundError: No module named 'caiman'

Issue - State: closed - Opened by kevinpan0127 almost 4 years ago - 3 comments

#46 - Motion correction error: ModuleNotFoundError: No module named 'caiman'

Issue - State: closed - Opened by kevinpan0127 almost 4 years ago
Labels: bug

#44 - add some stuff to @present_exceptions

Issue - State: closed - Opened by kushalkolar almost 4 years ago - 1 comment

#43 - Windows and unicode encoding

Issue - State: closed - Opened by kushalkolar almost 4 years ago - 1 comment

#42 - HOME environment variable is not set on some Windows machines

Issue - State: closed - Opened by kushalkolar almost 4 years ago - 5 comments

#41 - Cross-correlation plot fails when stimulus mapping are absent

Issue - State: closed - Opened by kushalkolar almost 4 years ago

#40 - Probable multiprocessing issue on Windows 10

Issue - State: closed - Opened by kushalkolar almost 4 years ago - 1 comment

#39 - Added issue where HOME env variable is not set on windows to FAQ

Pull Request - State: closed - Opened by DanielDondorp almost 4 years ago - 3 comments

#38 - Still struggling with Caiman installation with Windows 10

Issue - State: closed - Opened by mirandarobbins almost 4 years ago - 7 comments

#37 - Caimen installation issue on Windows 10

Issue - State: closed - Opened by mirandarobbins almost 4 years ago - 1 comment

#36 - Using mesmerize to select cells by tuning Caiman Quality parameters

Issue - State: closed - Opened by akatav almost 4 years ago - 3 comments

#35 - Link for downloading data not allowing access

Issue - State: closed - Opened by mirandarobbins almost 4 years ago - 1 comment

#34 - Download data link not allowing access

Issue - State: closed - Opened by OptoGenie almost 4 years ago

#33 - Install caiman for Caiman feature failed on Mac

Issue - State: closed - Opened by nrandel almost 4 years ago - 16 comments

#32 - Ease installation

Issue - State: closed - Opened by clbarnes almost 4 years ago - 8 comments

#31 - CalmAn features not enabled and working

Issue - State: closed - Opened by akatav almost 4 years ago - 11 comments

#30 - Final changes for V0.4

Pull Request - State: closed - Opened by kushalkolar about 4 years ago - 7 comments

#29 - Could not find Caiman

Issue - State: closed - Opened by leironf about 4 years ago - 5 comments

#28 - Mesmerize representation

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

#27 - Merge v0.4 progress

Pull Request - State: closed - Opened by kushalkolar about 4 years ago - 1 comment

#26 - Segmentation fault on macos when trying to start mesmerize

Issue - State: closed - Opened by kitchell about 4 years ago - 5 comments

#25 - not able to get mesmerize to work with caiman?

Issue - State: closed - Opened by cudmore about 4 years ago - 3 comments

#24 - [WIP] Merging dev 0.3.1

Pull Request - State: closed - Opened by kushalkolar about 4 years ago

#23 - Merging dev-0.3

Pull Request - State: closed - Opened by kushalkolar about 4 years ago - 1 comment

#22 - Added Travis CI

Pull Request - State: closed - Opened by Blastorios over 4 years ago - 4 comments
Labels: enhancement

#21 - added Travis CI

Pull Request - State: closed - Opened by Blastorios over 4 years ago

#20 - readme

Pull Request - State: closed - Opened by kushalkolar over 4 years ago

#19 - Make tslearn optional & use readthedocs to build docs

Pull Request - State: closed - Opened by kushalkolar over 4 years ago - 1 comment

#18 - Added the Mesmerize Logo and Icon files

Pull Request - State: closed - Opened by Blastorios over 4 years ago - 1 comment

#17 - 3D ROI support, update Caiman, add suite2p importer

Pull Request - State: closed - Opened by kushalkolar over 4 years ago - 1 comment

#16 - CNMFE goes to orange

Issue - State: closed - Opened by maxrioux100 over 4 years ago - 12 comments

#15 - Need help using Mesmerize

Issue - State: closed - Opened by maxrioux100 over 4 years ago - 9 comments

#14 - Installation fails on Mac Mojave

Issue - State: closed - Opened by rem7101 over 4 years ago - 2 comments

#13 - [WIP] Windows support

Pull Request - State: closed - Opened by kushalkolar almost 5 years ago - 1 comment

#12 - Bump pillow from 5.4.1 to 6.2.0

Pull Request - State: closed - Opened by dependabot[bot] about 5 years ago - 1 comment
Labels: dependencies

#11 - merge changes from master into snap

Pull Request - State: closed - Opened by kushalkolar about 5 years ago

#10 - Changes from master into snap

Pull Request - State: closed - Opened by kushalkolar about 5 years ago

GitHub / kushalkolar/MESmerize issues and pull requests