Code

Multiscale labeled images#45

Code

Merged

joshmoore merged 39 commits intoome:masterome/ome-zarr-py:masterfrom joshmoore:multiscalejoshmoore/ome-zarr-py:multiscaleCopy head branch name to clipboardSep 4, 2020

Commits

Commits on Aug 19, 2020

• Open images for a mask via the array link

  joshmoore

  committed
  c45f450

  Copy full SHA for c45f450

• Move python code to a module

  joshmoore

  committed
  47d8563

  Copy full SHA for 47d8563

• Fix mypy errors

  joshmoore

  committed
  aafd5ed

  Copy full SHA for aafd5ed

• Refactor to re-use multiscale loading

  joshmoore

  committed
  185157f

  Copy full SHA for 185157f

• Have mypy check all API methods

  joshmoore

  committed
  266b357

  Copy full SHA for 266b357

• Enfore mypy annotations on all definitions

  joshmoore

  committed
  fc8df8f

  Copy full SHA for fc8df8f

• Fix 'bool(false)' in color test

  joshmoore

  committed
  db43af5

  Copy full SHA for db43af5

Commits on Aug 21, 2020

• move create_test_data to ome_zarr.data

  joshmoore

  committed
  967b36c

  Copy full SHA for 967b36c

• Add isort as the first pre-commit step

  joshmoore

  committed
  c146101

  Copy full SHA for c146101

• refactor create_zarr method for use from CLI

  joshmoore

  committed
  1c50a26

  Copy full SHA for 1c50a26

Commits on Aug 25, 2020

• Major API refactoring

  Show description for 3a9f360
  joshmoore

  committed
  3a9f360

  Copy full SHA for 3a9f360

• More tests and bug fixes

  joshmoore

  committed
  7c8cff1

  Copy full SHA for 7c8cff1

Commits on Aug 26, 2020

• Deal with empty labels from astronauts

  Show description for b57d439
  joshmoore

  committed
  b57d439

  Copy full SHA for b57d439

• ome_zarr.scale: migrate scale.py to ome_zarr

  Show description for 9665c4c
  joshmoore

  committed
  9665c4c

  Copy full SHA for 9665c4c

• Enable make_test_viewer from napari

  joshmoore

  committed
  6b18581

  Copy full SHA for 6b18581

• Fix recursive reading, info, and downloading

  joshmoore

  committed
  4fb4213

  Copy full SHA for 4fb4213

• Fix number of channels in coins()

  joshmoore

  committed
  c4ef738

  Copy full SHA for c4ef738

Commits on Aug 31, 2020

• Fix CLI tools incl. prefix stripping

  joshmoore

  committed
  77e631a

  Copy full SHA for 77e631a

• Update style and fill out well-formed docs

  joshmoore

  committed
  7a4f865

  Copy full SHA for 7a4f865

• Use GH Actions & Conda for tests

  Show description for 56f7ef5
  joshmoore

  committed
  56f7ef5

  Copy full SHA for 56f7ef5

• Fix "loaded as" doc sentence

  Show description for 12b9493
  

  joshmoore

  and

  mtbc

  authored
  12b9493

  Copy full SHA for 12b9493

• Activate doctests

  joshmoore

  committed
  b90b68d

  Copy full SHA for b90b68d

• Correct channel array for grayscale images

  Show description for 151c52e
  joshmoore

  committed
  151c52e

  Copy full SHA for 151c52e

• Use latest setup-conda for posix and windows

  joshmoore

  committed
  930c303

  Copy full SHA for 930c303

• Try pyside2 for all platforms

  joshmoore

  committed
  b7e8196

  Copy full SHA for b7e8196

• Fix label colors key

  joshmoore

  committed
  69288fc

  Copy full SHA for 69288fc

Commits on Sep 1, 2020

• Fix 'colormap' key thanks to Will

  joshmoore

  committed
  ab0cdc1

  Copy full SHA for ab0cdc1

• Remove unwrapping of pyramids thanks to Will

  joshmoore

  committed
  723fe0c

  Copy full SHA for 723fe0c

Commits on Sep 2, 2020

• Change 'Layer' to 'Node'

  joshmoore

  committed
  8125dd4

  Copy full SHA for 8125dd4

Commits on Sep 3, 2020

• Remove is_zarr() in favor of exists()

  joshmoore

  committed
  31082bc

  Copy full SHA for 31082bc

• Fix double negative

  Show description for 0a95ff2
  

  joshmoore

  and

  mtbc

  authored
  0a95ff2

  Copy full SHA for 0a95ff2

• Remove extra 'of'

  joshmoore

  authored
  f2cff53

  Copy full SHA for f2cff53

• Rename test_layer to test_node

  joshmoore

  committed
  c0806ec

  Copy full SHA for c0806ec

• Re-instate visiblility via a property

  joshmoore

  committed
  6cc1c25

  Copy full SHA for 6cc1c25

Commits on Sep 4, 2020

• Use 'greyscale'

  joshmoore

  committed
  171e122

  Copy full SHA for 171e122

• Restore downloading without --output

  joshmoore

  committed
  ee73e06

  Copy full SHA for ee73e06

• Rework Node.add documentation

  joshmoore

  committed
  d2f9f1c

  Copy full SHA for d2f9f1c

• Disable napari viewer test on non-OSX platforms

  joshmoore

  committed
  fbfa932

  Copy full SHA for fbfa932

• Use bash script with activated conda environment on Windows

  joshmoore

  committed
  4ed3078

  Copy full SHA for 4ed3078