Fixed missing last frames fusion bug (#136)

* fixed missing last frames fusion bug

* fixed denoising test / ssim api was updated

fix dask-cuda import in linux (#132)

dev to master branch (#123)

* New click parsing auxiliary functions

* updated denoising cli

* fixed click --help

* updated datasets paths

* refactoring dexp click commands

* added cli tests

* refactored stabilization function

* fixed pytest skip cpu only

* updated dexp view

* deprecreated serve and remote datasets

* minor fixes

* updated tiff command

* removed serve from docs

* updated dexp registration

* adding dev branch

* adding dexp generic function command (#109)

* added dexp generic

* minor fixes

* Merging changes from master to dev (#110)

* Added sum of intensities to segmentation (#104)

* added sum of intensities to segmentation

* Fixing sum of intensities

* Added multi-scale dexp -> ome zarr conversion (#105)

* added multiscale ome zarr conversion

* added multiscale ome zarr conversion

* added channel scaling

* fixed tuple error

* fix denoising patch search and added aux function to ds writing

* added time translation

* Improved dexp segm and view (#108)

* improved dexp segm and view

* minor changes to segm post-filtering and view

* Adding background command (#112)

* added skimage/cucim import and refactored backend detection

* moved generic parsing functions to parse module

* added background removal command

* refactored scatter_gather args order

* fixing channels reduction

* dexp crop bug fix

* cleaning up dexp cli (#113)

* removed isonet command

* updated extract-psf command

* refactoring deskew

* updated zarr dataset to be multi-process safe

* updated projrender command

* minor fixes

* fixed tensorstore -> numpy loading

* [fix] tensorstore open relative path (#115)

* fixing tensorstore loading error

* black update

* fixing tensorstore version (rollback)

Co-authored-by: Jordao Bragantini <jordao.bragantini@login01.clusternet>

* [feature] added clear control time metadata (#116)

* added cc time metadata

* numpy and numba compatibility change

* moving backend dispatch function (#118)

* refactoring deconv cli

* refactoring deconv cli (#121)

* [feature] refactoring fuse command (#122)

* refactoring deconv cli

* refactored fusion command

* updated docs

Added multi-scale dexp -> ome zarr conversion (#105)

* added multiscale ome zarr conversion

* added multiscale ome zarr conversion

* added channel scaling

* fixed tuple error

Added segmentation function (#100)

* implemented initial version of dexp-segment

* added segmentation cli

* added multi-channel segmentation support

* fixing multi-channel ws basins

* added gamma parameter

* updating parse_devices

updated parse devices function name (#102)

Added butterworth denoiser from Aydin (#97)

* wip

* basic implementation of butterworth ready

* further tuning of optimiser and new bayesian opt.

* added new optimisers

* some old code in sandbox

* added new optimisers

* removed some unnecessary code

* pre-commit formatting

* fixing tests

* initial denoise cli

* updated parameters name and added multiple solver options

* optimized butterworth execution

* added dask distributed computation

* added tests

Co-authored-by: royer (rapanui) <royerloic@gmail.com>
Co-authored-by: Loic Royer <loic.royer@czbiohub.org>

Fixing docs req and removing warnings (#92)

reverting chunk size change

reverting chunk size change