girder/large_image issues and pull requests

#1802 - Add a bit more to a zarr sink example

Pull Request - State: closed - Opened by manthey 1 day ago

#1802 - Add a bit more to a zarr sink example

Pull Request - State: closed - Opened by manthey 1 day ago

#1802 - Add a bit more to a zarr sink example

Pull Request - State: closed - Opened by manthey 1 day ago

#1801 - Use zarr.empty not np.empty when creating large zarr sinks

Pull Request - State: closed - Opened by manthey 1 day ago

#1801 - Use zarr.empty not np.empty when creating large zarr sinks

Pull Request - State: closed - Opened by manthey 1 day ago

#1801 - Use zarr.empty not np.empty when creating large zarr sinks

Pull Request - State: closed - Opened by manthey 1 day ago

#1800 - Convert Dicom Web Assetstore Plugin to Girder 5

Pull Request - State: open - Opened by naglepuff 1 day ago

#1800 - Convert Dicom Web Assetstore Plugin to Girder 5

Pull Request - State: open - Opened by naglepuff 1 day ago

#1800 - Convert Dicom Web Assetstore Plugin to Girder 5

Pull Request - State: open - Opened by naglepuff 1 day ago

#1799 - Merge recent changes from `master` into `girder-5`

Pull Request - State: closed - Opened by naglepuff 1 day ago

#1799 - Merge recent changes from `master` into `girder-5`

Pull Request - State: closed - Opened by naglepuff 1 day ago

#1799 - Merge recent changes from `master` into `girder-5`

Pull Request - State: closed - Opened by naglepuff 1 day ago

#1798 - Clear just one source in cache

Issue - State: open - Opened by manthey 1 day ago

#1797 - Fix an issue with lazy tiles that have non power of two scaling

Pull Request - State: closed - Opened by manthey 2 days ago

#1796 - Revisit ICC correction on float data

Issue - State: open - Opened by manthey 3 days ago

#1795 - Be more specific in casting when converting images via vips

Pull Request - State: closed - Opened by manthey 3 days ago

#1794 - Improve how we use vips to read lower tile levels

Pull Request - State: closed - Opened by manthey 3 days ago

#1794 - Improve how we use vips to read lower tile levels

Pull Request - State: closed - Opened by manthey 3 days ago

#1793 - Fix multiple histogram queries in Girder frame selector

Pull Request - State: closed - Opened by manthey 4 days ago

#1792 - Check that aiohttp is present in Jupyter environments

Pull Request - State: closed - Opened by manthey 5 days ago - 1 comment

#1792 - Check that aiohttp is present in Jupyter environments

Pull Request - State: closed - Opened by manthey 5 days ago - 1 comment

#1791 - Better detect multiframe images in PIL

Pull Request - State: closed - Opened by manthey 5 days ago

#1790 - List a few more known extensions for different sources

Pull Request - State: closed - Opened by manthey 6 days ago

#1790 - List a few more known extensions for different sources

Pull Request - State: closed - Opened by manthey 6 days ago

#1790 - List a few more known extensions for different sources

Pull Request - State: closed - Opened by manthey 6 days ago

#1789 - For leaflet or ipyleaflet viewers, handle non-square tiles

Issue - State: open - Opened by manthey 9 days ago - 2 comments

#1788 - Get unstyled histograms for the jupyter component.

Pull Request - State: closed - Opened by manthey 9 days ago - 1 comment

#1788 - Get unstyled histograms for the jupyter component.

Pull Request - State: closed - Opened by manthey 9 days ago - 1 comment

#1787 - Better repr of large_image classes

Pull Request - State: closed - Opened by manthey 9 days ago

#1787 - Better repr of large_image classes

Pull Request - State: closed - Opened by manthey 9 days ago

#1787 - Better repr of large_image classes

Pull Request - State: closed - Opened by manthey 9 days ago

#1786 - Combine the wheels and check-release CI jobs

Pull Request - State: closed - Opened by manthey 10 days ago - 2 comments

#1785 - Update precommit config

Pull Request - State: closed - Opened by manthey 10 days ago

#1785 - Update precommit config

Pull Request - State: closed - Opened by manthey 10 days ago

#1784 - Speed up style composition.

Pull Request - State: closed - Opened by manthey 11 days ago

#1784 - Speed up style composition.

Pull Request - State: closed - Opened by manthey 11 days ago

#1784 - Speed up style composition.

Pull Request - State: closed - Opened by manthey 11 days ago

#1783 - Expose the channelNames property in all tile sources

Pull Request - State: closed - Opened by manthey 11 days ago

#1782 - Unpin numpy in girder 5

Pull Request - State: closed - Opened by naglepuff 12 days ago

#1782 - Unpin numpy in girder 5

Pull Request - State: closed - Opened by naglepuff 12 days ago

#1781 - Automatically set the JUPYTER_PROXY value

Pull Request - State: closed - Opened by manthey 12 days ago

#1781 - Automatically set the JUPYTER_PROXY value

Pull Request - State: closed - Opened by manthey 12 days ago

#1780 - Allow umap-learn for graphing in girder annotations in python 3.13

Pull Request - State: closed - Opened by manthey 12 days ago

#1780 - Allow umap-learn for graphing in girder annotations in python 3.13

Pull Request - State: closed - Opened by manthey 12 days ago

#1779 - Remove unused type: ignore

Pull Request - State: closed - Opened by naglepuff 12 days ago

#1779 - Remove unused type: ignore

Pull Request - State: closed - Opened by naglepuff 12 days ago

#1778 - Add utility functions for converting between frame and axes

Pull Request - State: closed - Opened by manthey 16 days ago

#1778 - Add utility functions for converting between frame and axes

Pull Request - State: closed - Opened by manthey 16 days ago

#1777 - Build plugin client code on release

Pull Request - State: open - Opened by naglepuff 16 days ago

#1777 - Build plugin client code on release

Pull Request - State: closed - Opened by naglepuff 16 days ago - 2 comments

#1776 - Default to not caching sources in notebooks

Pull Request - State: closed - Opened by manthey 16 days ago - 1 comment

#1775 - ipyleaflet 0.19 fixes an issue with inverting bounds coordinates

Pull Request - State: closed - Opened by manthey 16 days ago

#1774 - Harden sources based on more fuzz testing

Pull Request - State: closed - Opened by manthey 18 days ago

#1773 - Fix scaling tiles from stripped tiffs in some instances

Pull Request - State: closed - Opened by manthey 19 days ago

#1773 - Fix scaling tiles from stripped tiffs in some instances

Pull Request - State: closed - Opened by manthey 19 days ago

#1773 - Fix scaling tiles from stripped tiffs in some instances

Pull Request - State: closed - Opened by manthey 19 days ago

#1772 - Don't read multiplane ndpi files with openslide

Pull Request - State: closed - Opened by manthey 23 days ago

#1772 - Don't read multiplane ndpi files with openslide

Pull Request - State: closed - Opened by manthey 23 days ago

#1772 - Don't read multiplane ndpi files with openslide

Pull Request - State: closed - Opened by manthey 23 days ago

#1771 - Update the synthetic ndpi test file.

Pull Request - State: closed - Opened by manthey 23 days ago

#1770 - Be slightly more flexible in reading multi-frames from vips

Pull Request - State: closed - Opened by manthey 23 days ago

#1769 - Better report if rasterized vector files are geospatial

Pull Request - State: closed - Opened by manthey 23 days ago

#1768 - Harden reading a variety of test files

Pull Request - State: closed - Opened by manthey 24 days ago

#1767 - Pin zarr < 3

Pull Request - State: closed - Opened by manthey 24 days ago

#1766 - When clearing all caches, better clear vips and gdal caches

Pull Request - State: closed - Opened by manthey 24 days ago

#1765 - Manage images with z-stack

Issue - State: open - Opened by alevangel 25 days ago - 11 comments

#1764 - Update how some associated images are read in tiff files

Pull Request - State: closed - Opened by manthey 25 days ago

#1763 - Allow gdal to read and rasterize vector formats

Pull Request - State: closed - Opened by manthey 25 days ago

#1762 - Cast histogram ranges to floats

Pull Request - State: closed - Opened by manthey 25 days ago

#1761 - Slightly faster GDAL validateCOG

Pull Request - State: closed - Opened by manthey 26 days ago

#1760 - Specify empty_dir=yes when constructing vsicurl parameters

Pull Request - State: closed - Opened by manthey 26 days ago

#1759 - Get Available Levels Fails with Large SVS Images: Not a JPEG file: starts with 0xff 0x11

Issue - State: open - Opened by amrosado 26 days ago - 5 comments

#1758 - Don't include cache libraries in [common]

Pull Request - State: closed - Opened by manthey 26 days ago

#1757 - Several small code readability cleanups

Pull Request - State: closed - Opened by manthey 27 days ago

#1757 - Several small code readability cleanups

Pull Request - State: closed - Opened by manthey 27 days ago

#1756 - Harden a test.

Pull Request - State: closed - Opened by manthey 30 days ago

#1755 - Zero empty areas in tile frames

Pull Request - State: closed - Opened by manthey 30 days ago