0.9.4

What's Changed

• Update to Bio-Formats 7.3.1 by @melissalinkert in #253
• MCD: calculate channel count based on metadata, not pixel bytes by @melissalinkert in #255

Full Changelog: v0.9.3...v0.9.4

0.9.3

What's Changed

• Add Java 21 to the CI build matrix by @sbesson in #245
• Update to Bio-Formats 7.3.0 by @melissalinkert in #248
• Add artifact publication step to GitHub workflow by @sbesson in #246
• Add "--no-original-metadata" option to omit original metadata from METADATA.ome.xml by @melissalinkert in #251

Full Changelog: v0.9.2...v0.9.3

0.9.2

What's Changed

• Clarify that .*.bfmemo files won't always be created by @melissalinkert in #240
• Update to Bio-Formats 7.2.0 by @melissalinkert in #241
• Metaxpress: get the correct number of planes for each series by @melissalinkert in #242

Full Changelog: v0.9.1...v0.9.2

0.9.1

See #239.

Full Changelog: v0.9.0...v0.9.1

0.9.0

What's Changed

• Update to Bio-Formats 7.1.0 by @melissalinkert in #232
• Move logging configuration to beginning of call() method by @melissalinkert in #233
• Add support for INI files representing a Metaxpress plate by @melissalinkert in #213
• Add Fluidigm Hyperion .mcd reader by @melissalinkert in #218
• Fix progress and help options by @melissalinkert in #234
• Add notes on --downsample-type by @melissalinkert in #235

Full Changelog: v0.8.0...v0.9.0

0.8.0

What's Changed

• Update to Bio-Formats 7.0.0 by @melissalinkert in #211
• Add a separate README section describing each of the additional readers by @melissalinkert in #216
• Update opencv to 4.7.0-0 by @melissalinkert in #212
• Add variants of all options with underscore by @sbesson in #220
• Update progress listener API to provide tile counts at each start notification by @melissalinkert in #221
• Update to new jzarr 0.4.2 by @melissalinkert in #203
• Add GPL license metadata to published POM by @sbesson in #227
• Update to Bio-Formats 7.0.1 by @melissalinkert in #228
• Update setters to accept default values by @melissalinkert in #226
• Bump logback to version 1.3.13 by @sbesson in #229
• Bump logback to 1.3.14 by @melissalinkert in #231

Full Changelog: v0.7.0...v0.8.0

0.7.0

What's Changed

• Add getters and setters for each option by @melissalinkert in #190
• Update manifest to include more properties by @melissalinkert in #196
• Add progress API by @melissalinkert in #172
• Update Bio-Formats to 6.13.0 by @melissalinkert in #201
• Throw an informative exception if OpenCV is used to downsample int8/int32 by @melissalinkert in #199
• Set wildcard classpath on Windows by @melissalinkert in #202

Full Changelog: v0.6.1...v0.7.0

0.6.1

What's Changed

• Fix dataset paths when --scale-format-string is used by @melissalinkert in #181
• Pyramid TIFF: ignore files where the first/last IFDs have different pixel types by @melissalinkert in #177
• Add --debug flag to README.md by @will-moore in #185
• upgrade setup_java action to v3. by @jburel in #189
• Add some cautionary statements about adjusting tile sizes by @melissalinkert in #183
• Update readme with a few more options, including --log-level by @melissalinkert in #186
• Update to Bio-Formats 6.12.0 by @melissalinkert in #192

Full Changelog: v0.6.0...v0.6.1

0.6.0

What's Changed

• Readme: add links and references to OME-NGFF 0.4.1 specification by @sbesson in #166
• Explicitly declare logback as library dependencies by @sbesson in #167
• Set default channel color to grey for single channel images by @melissalinkert in #171
• Update to Bio-Formats 6.11.0 by @melissalinkert in #174
• Remove logback.xml from jar by @melissalinkert in #169
• Bump Bio-Formats to version 6.11.1 by @sbesson in #178
• Remove the "--pixel-type" option by @melissalinkert in #173

Full Changelog: v0.5.0...v0.6.0

0.5.0

What's Changed

• Build using GitHub action by @jburel in #115
• Use our ome.external repository by @melissalinkert in #125
• Support and run tests on Java 17 by @chris-allan in #129
• Feature/improve docker image by @ilveroluca in #123
• Clarify that Java 8 is required by @melissalinkert in #133
• Fix OME-NGFF metadata when writing flattened layout by @sbesson in #131
• Fix problems with missing groups/metadata and sparse plates by @chris-allan in #119
• Store dimension order using new "axes" spec by @melissalinkert in #121
• MRXS: log instead of throwing an exception if a date cannot be parsed by @melissalinkert in #128
• MRXS: update how 2 channel fluorescence JPEG data is handled by @melissalinkert in #143
• First try at scale transforms by @melissalinkert in #134
• Update to Bio-Formats 6.9.1 by @melissalinkert in #147
• Version bumps by @melissalinkert in #135
• Explicitly forbid converting datasets with multiple plates by @melissalinkert in #150
• Add ND2 plate reader by @melissalinkert in #142
• Update jna to 5.10.0 for arm64 support by @melissalinkert in #141
• Expand axes tests to check for correct units by @melissalinkert in #144
• Delete memo files by default by @melissalinkert in #145
• MRXS: fix PNG tile support by @melissalinkert in #146
• Update jzarr to 0.3.5 by @melissalinkert in #148
• HCS well sample/image mapping by @sbesson in #149
• checkstyle: update max line count to 10000 by @melissalinkert in #153
• Add MetadataOnly to METADATA.ome.xml by @melissalinkert in #156
• Add NGFF spec version to --version output by @melissalinkert in #155
• Fix the type for acquisitions.id under the plate metadata by @sbesson in #152
• Add info in installing via conda by @will-moore in #151
• Update Bio-Formats to 6.10.1 by @melissalinkert in #162
• Update README.md by @joshua-gould in #165
• Add group path to series index mapping in root attributes by @melissalinkert in #157
• BioTek: refine field and channel name regexes by @melissalinkert in #158
• Add optional OMERO rendering metadata by @melissalinkert in #160

Full Changelog: v0.4.0...v0.5.0