Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / mehta-lab/waveorder issues and pull requests
#174 - Run CI on multiple platforms
Issue -
State: open - Opened by ziw-liu 3 months ago
#173 - Pin numpy <2
Pull Request -
State: closed - Opened by ziw-liu 3 months ago
#172 - Severe artifacts and blur in 2D phase reconstruction
Issue -
State: open - Opened by ziw-liu 3 months ago
- 1 comment
Labels: bug
#171 - Merge `alg-dev` into main ahead of release
Pull Request -
State: closed - Opened by talonchandler 3 months ago
- 1 comment
#170 - Vector-optics birefringence reconstruction prototype
Pull Request -
State: open - Opened by talonchandler 3 months ago
#169 - New release
Issue -
State: open - Opened by ziw-liu 4 months ago
- 3 comments
Labels: meta
#168 - Bump Python
Pull Request -
State: closed - Opened by ziw-liu 4 months ago
#167 - Bump Python
Issue -
State: closed - Opened by ziw-liu 4 months ago
#166 - Fluorescence deconvolution issues
Issue -
State: open - Opened by Alpaca233 4 months ago
- 1 comment
Labels: documentation, question
#165 - Authorship and release updates
Pull Request -
State: closed - Opened by talonchandler 4 months ago
#164 - Phase reconstruction is invariant to voxel-size
Pull Request -
State: closed - Opened by talonchandler 6 months ago
Labels: bug
#163 - Non-negative fluorescence output?
Issue -
State: open - Opened by ziw-liu 6 months ago
- 2 comments
#162 - fix bug finding focus in stack with only one slice
Pull Request -
State: closed - Opened by ieivanov 7 months ago
- 2 comments
Labels: bug
#161 - 3D phase reconstruction should not use reflection padding
Issue -
State: open - Opened by talonchandler 7 months ago
- 2 comments
Labels: bug
#160 - PTI example jupyter notebook to script and .html
Pull Request -
State: closed - Opened by talonchandler 7 months ago
- 7 comments
#159 - Update a single PTI example notebook
Pull Request -
State: closed - Opened by talonchandler 7 months ago
- 3 comments
Labels: documentation
#158 - Link BIA data next to examples
Pull Request -
State: closed - Opened by talonchandler 7 months ago
#157 - Prepare README for 2.0.0
Pull Request -
State: closed - Opened by talonchandler 7 months ago
#156 - M1 installation documentation
Pull Request -
State: closed - Opened by talonchandler 7 months ago
Labels: documentation
#155 - Document order-dependent scripts
Pull Request -
State: closed - Opened by talonchandler 7 months ago
#154 - Tests fail on macbook with incomplete MPS support
Issue -
State: open - Opened by talonchandler 7 months ago
- 6 comments
Labels: GPU
#153 - Update background estimation to use torch
Pull Request -
State: closed - Opened by ziw-liu 9 months ago
- 1 comment
Labels: enhancement, GPU
#152 - [Bug] Overlapping rings in phase transfer function
Issue -
State: open - Opened by ziw-liu about 1 year ago
- 5 comments
Labels: bug
#151 - Phase transfer function is numerically small
Issue -
State: open - Opened by ziw-liu about 1 year ago
- 3 comments
Labels: bug
#150 - Device agnostic compute for polarization
Pull Request -
State: closed - Opened by ziw-liu about 1 year ago
- 3 comments
Labels: enhancement, GPU
#149 - `waveorder` handles all rotational quantities (including retardance) in radians
Pull Request -
State: closed - Opened by talonchandler about 1 year ago
- 2 comments
#148 - Add rotate and flip orientation options to `waveorder` options
Pull Request -
State: closed - Opened by talonchandler about 1 year ago
- 3 comments
#147 - Simplify dependencies
Pull Request -
State: closed - Opened by talonchandler about 1 year ago
#146 - Unused `pycromanager>=0.13.2` requirement
Issue -
State: closed - Opened by ieivanov about 1 year ago
#145 - 5D padding
Pull Request -
State: closed - Opened by edyoshikun about 1 year ago
- 2 comments
#144 - Support GPUs via `torch`
Issue -
State: open - Opened by talonchandler about 1 year ago
- 1 comment
Labels: enhancement, GPU
#143 - Remove `waveorder_reconstructor` and `waveorder_simulator` files
Issue -
State: open - Opened by talonchandler about 1 year ago
- 1 comment
#142 - Move PTI reconstructions to `torch` and `models`
Issue -
State: open - Opened by talonchandler about 1 year ago
#141 - Fix readme figure
Pull Request -
State: closed - Opened by talonchandler about 1 year ago
#140 - Divide by zero during phase normalization
Issue -
State: open - Opened by talonchandler about 1 year ago
#139 - Torch warning about copying tensors
Issue -
State: open - Opened by talonchandler about 1 year ago
- 1 comment
#138 - Specify meshgrid indexing order
Pull Request -
State: closed - Opened by talonchandler about 1 year ago
#137 - torch meshgrid warning
Issue -
State: closed - Opened by talonchandler about 1 year ago
#136 - close figure after saving
Pull Request -
State: closed - Opened by ieivanov about 1 year ago
#135 - Fix threshold-free focus-finding edge case
Pull Request -
State: closed - Opened by talonchandler about 1 year ago
#134 - Remove `__init__` imports
Pull Request -
State: closed - Opened by talonchandler about 1 year ago
- 1 comment
#133 - waveorder changes matplotlib backend at import
Issue -
State: closed - Opened by ieivanov about 1 year ago
- 2 comments
#132 - Add optional parameters `plot_path` and `threshold_FWHM` to `focus_from_transverse_band`
Pull Request -
State: closed - Opened by talonchandler about 1 year ago
- 4 comments
#131 - Match parameters to simplify `recOrder`-`waveorder` interface
Pull Request -
State: closed - Opened by talonchandler about 1 year ago
#130 - Make `torch` optional dependency?
Issue -
State: closed - Opened by ieivanov about 1 year ago
- 4 comments
#129 - Focus-finding features
Issue -
State: closed - Opened by talonchandler about 1 year ago
#128 - `isotropic_fluorescent_thick_3d` model
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
- 1 comment
#127 - Rename model from `anisotropic_thin` to `oriented_thick`
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
#126 - Adding padding and tile processing
Pull Request -
State: closed - Opened by edyoshikun over 1 year ago
- 4 comments
#125 - Remove duplicate test
Pull Request -
State: closed - Opened by ziw-liu over 1 year ago
- 1 comment
#124 - Add option for axial flip of `phase_thick_3d` transfer function
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
- 2 comments
#123 - `illumination_wavelength` -> `wavelength_illumination`
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
#122 - Migrate fluorescence reconstructions to `torch` and `model`-based structure
Issue -
State: open - Opened by talonchandler over 1 year ago
- 4 comments
Labels: enhancement
#121 - `alg-dev` branch merge to `main`
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
- 2 comments
#119 - Remove kwargs from reconstructions
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
#118 - Prepare polarization algorithms for integration with `recOrder`
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
- 1 comment
#117 - Phase 2D + 3D refactor
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
- 2 comments
#116 - Pin README links
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
#115 - Fix link to example
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
#114 - Prepare for `waveorder==1.0.0` release
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
- 5 comments
#112 - Removing I/O module
Issue -
State: closed - Opened by ziw-liu over 1 year ago
- 5 comments
#111 - PR docs
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
- 1 comment
#110 - New Stokes and Mueller module
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
- 16 comments
#109 - Add .git-blame-ignore-revs
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
#108 - Replace OpenCV with pillow
Pull Request -
State: closed - Opened by ziw-liu over 1 year ago
- 2 comments
Labels: enhancement
#107 - `opencv-python` is taking >30 minutes to build on M1
Issue -
State: closed - Opened by talonchandler over 1 year ago
- 5 comments
#106 - README figure is low-res and transparent
Issue -
State: closed - Opened by talonchandler over 1 year ago
- 2 comments
Labels: documentation
#105 - README copy edits
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
#104 - uPTI -> PTI; black formatting; improved comments
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
- 3 comments
#103 - Make "Stokes transform" consistent between full (used by QLIPP) and linear (used by PTI) Stokes polarimeters
Pull Request -
State: closed - Opened by talonchandler over 1 year ago
- 2 comments
#102 - Slow birefringence reconstruction for z-stacks
Issue -
State: closed - Opened by edyoshikun over 1 year ago
- 6 comments
#101 - Improve README.md
Pull Request -
State: closed - Opened by talonchandler almost 2 years ago
- 2 comments
#100 - Improve README.md
Pull Request -
State: closed - Opened by talonchandler almost 2 years ago
- 1 comment
#99 - Drop 3.7 and add 3.8, 3.9, 3.10
Pull Request -
State: closed - Opened by talonchandler almost 2 years ago
#98 - Bump Python version
Issue -
State: closed - Opened by ziw-liu almost 2 years ago
Labels: enhancement
#97 - `napari.Viewer()` fails after `import waveorder` in OnDemand session
Issue -
State: closed - Opened by talonchandler almost 2 years ago
- 1 comment
#96 - Added example for multiple input deconvolution
Pull Request -
State: closed - Opened by Soorya19Pradeep almost 2 years ago
- 3 comments
#95 - `WaveorderReader` uses `glob` to read a folder of ome-tiffs
Issue -
State: closed - Opened by talonchandler almost 2 years ago
- 6 comments
#94 - `WaveorderWriter` is not compatible with `napari-ome-zarr` reader
Issue -
State: closed - Opened by talonchandler almost 2 years ago
- 6 comments
Labels: bug
#93 - `WaveorderReader` should give more informative error messages
Issue -
State: closed - Opened by talonchandler almost 2 years ago
- 2 comments
#92 - Find focus by optimizing a transverse spatial frequency band
Pull Request -
State: closed - Opened by talonchandler almost 2 years ago
- 3 comments
#91 - `lambda_illu`, `NA_obj`, and `NA_illu` names can be improved
Issue -
State: closed - Opened by talonchandler almost 2 years ago
- 1 comment
#90 - Odd-sized dimensions use incorrect frequency coordinates
Issue -
State: closed - Opened by talonchandler almost 2 years ago
- 1 comment
#89 - estimate focus slice during 2D phase from brightfield reconstruction
Issue -
State: closed - Opened by mattersoflight almost 2 years ago
- 1 comment
#88 - Replace custom CuPy implementation of SciPy APIs
Issue -
State: open - Opened by ziw-liu almost 2 years ago
- 3 comments
Labels: enhancement
#87 - Rename `master` to `main`
Issue -
State: closed - Opened by ziw-liu almost 2 years ago
Labels: meta
#86 - Pin pywavelets version
Pull Request -
State: closed - Opened by talonchandler about 2 years ago
- 3 comments
#85 - improve readability of waveOrder
Pull Request -
State: closed - Opened by mattersoflight about 2 years ago
#84 - BSD 3-clause
Pull Request -
State: closed - Opened by talonchandler about 2 years ago
#83 - Don't delete test data
Pull Request -
State: closed - Opened by talonchandler about 2 years ago
#82 - Bump version to 1.0.0rc0
Pull Request -
State: closed - Opened by ieivanov about 2 years ago
- 3 comments
#81 - Fix typo and update contact info in `setup.py`
Pull Request -
State: closed - Opened by talonchandler about 2 years ago
#80 - Update documentation of waveorder_reconstructor.py
Pull Request -
State: closed - Opened by mattersoflight about 2 years ago
#79 - Pycromanager data reader for WaveorderReader class
Pull Request -
State: closed - Opened by ieivanov about 2 years ago
- 6 comments
#78 - `setup.py` includes line: `python_requies = '==3.7'`
Issue -
State: closed - Opened by talonchandler about 2 years ago
#77 - Fix ome-tif to zarr converter for acquisitions with micromanager beta
Pull Request -
State: closed - Opened by talonchandler over 2 years ago
#76 - Waveorder multiprocessing scripts in example folder
Pull Request -
State: closed - Opened by talonchandler over 2 years ago
#75 - multiprocess for QLIPP & deconvolution
Pull Request -
State: closed - Opened by JohannaRahm over 2 years ago
#74 - updated documentation of waveorder_microscopy
Pull Request -
State: closed - Opened by lihaoyeh over 2 years ago
#73 - multiprocess script refactoring, set default to run full job
Pull Request -
State: closed - Opened by JohannaRahm over 2 years ago