v1.4.0

What's Changed

• Slim dependencies by @sfmig in #119
• Add brainglobe-atlasapi to latest-github-requirements by @sfmig in #120
• Standardise contact information in readme by @adamltyson in #121
• Update dependencies by @adamltyson in #123

Full Changelog: v1.3.0...v1.4.0

v1.3.0

What's Changed

• Update caching by @adamltyson in #109
• Increase benchmarks timeout by @sfmig in #111
• Remove calls to TensorFlow related cellfinder functions by @IgorTatarnikov in #112
• Update brainmapper to match cellfinder release candidate by @IgorTatarnikov in #113
• Force cpu usage on macos-latest runners by @IgorTatarnikov in #114
• Define two asv configurations for pip and latest-github dependencies by @alessandrofelder in #110
• Update default batch size to 64 by @adamltyson in #116
• Update supported Python versions and remove cibuildwheel config by @adamltyson in #117
• pin to pytorch-version of cellfinder by @alessandrofelder in #118

New Contributors

• @IgorTatarnikov made their first contribution in #112

Full Changelog: v1.2.0...v1.3.0

v1.2.0

What's Changed

• Add codecov token by @K-Meech in #91
• Update gitignore by @sfmig in #92
• Remove entry point for cellfinder workflow by @sfmig in #93
• Cache cellfinder model in CI by @sfmig in #97
• naive attempt at fixing HDF5 by @alessandrofelder in #100
• Run cellfinder benchmarks on small data by @sfmig in #94
• Cache atlases in CI for brainmapper tests by @sfmig in #101
• Cache for cellfinder workflow tests by @sfmig in #102
• Check benchmarks on CI by @sfmig in #96
• Rename cellfinder_core to cellfinder by @sfmig in #95
• Support single z-stack tif file for input by @matham in #88
• Update use of cellfinder.core download cli by @adamltyson in #107
• Follow numpy structure and add asv-specific README by @sfmig in #104
• Update use of brainglobe-utils image IO by @adamltyson in #108

New Contributors

• @K-Meech made their first contribution in #91

Full Changelog: v1.1.5...v1.2.0

v1.1.5

What's Changed

• update atlas api import with new name by @alessandrofelder in #86
• Replace source_custom_config_cellfinder with newer function by @matham in #89

New Contributors

• @matham made their first contribution in #89

Full Changelog: v1.1.4...v1.1.5

v1.1.4

What's Changed

• Update test_and_deploy.yml by @alessandrofelder in #81
• brainglobe_space name change by @sfmig in #82

Full Changelog: v1.1.3...v1.1.4

v1.1.3

What's Changed

• Remove unused code and refactor by @adamltyson in #79

Full Changelog: v1.1.2...v1.1.3

v1.1.2

What's Changed

• Update GH actions badge by @adamltyson in #77
• Cellfinder config + path change by @sfmig in #64
• Workflow tests caching by @sfmig in #62
• Move analysis functionality to brainglobe-utils by @adamltyson in #76

Full Changelog: v1.1.1...v1.1.2

v1.1.1

Minor updates to brainmapper

What's Changed

• Deal with cells falling outside of the registered atlas boundary by @adamltyson in #71
• Rename incorrect instances of cellfinder to brainmapper by @adamltyson in #67
• Simplify brainmapper export by @adamltyson in #69
• Update cellfinder dependency by @adamltyson in #66
• Move heatmap functionality to brainglobe-utils by @adamltyson in #74
• Add hard dependency on brainglobe-meta package by @willGraham01 in #72

Full Changelog: v1.1.0...v1.1.1

v1.1.0

cellfinder CLI name has been retired, use brainmapper instead

See the blog post for full information.

What's Changed

• transfer back from brainglobe-scripts by @alessandrofelder in #14
• Cellfinder workflow CLI input argument with tests by @sfmig in #23
• Benchmark for cellfinder workflow with CLI arguments by @sfmig in #24
• Update asv.conf.json to point to main branch by @sfmig in #28
• Migrate cellfinder into this package by @willGraham01 in #29

Full Changelog: https://github.com/brainglobe/brainglobe-workflows/commits/v1.0.0