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Repository: ome/bio-formats-build Already up to date. Merged PRs: - PR 604 dependabot[bot] 'Bump bio-formats-examples from `74d4def` to `9955ace`' - PR 608 dependabot[bot] 'Bump bioformats from `682bc7e` to `bf2c462`' - PR 609 dependabot[bot] 'Bump bio-formats-documentation from `afd4c11` to `7a2cfff`' Repository: ome/ZarrReader Excluded PRs: - PR 73 dgault 'Update ReadMe and Change Log' (status: failure) - PR 20 dgault 'ZarrReader: Use chunk API' (exclude comment) Already up to date. Merged PRs: - PR 75 dgault 'Update handling and parsing of acquisition metadata' - PR 82 dgault 'Reintroduce S3FileSystemStore' Repository: ome/bio-formats-documentation Already up to date. Repository: ome/bio-formats-examples Already up to date. Merged PRs: - PR 69 dgault 'Add macro examples from OME 2020 NGFF workshop' - PR 127 jburel 'Matlab Examples' - PR 128 sbesson 'Relicense Bio-Formats examples under BSD 2-clause' Repository: openmicroscopy/bioformats Excluded PRs: - PR 4181 melissalinkert 'Add support for reading compressed NDPI tiles' (label: exclude) - PR 4180 melissalinkert 'Columbus: update to use micrometers instead of `reference frame` for positions' (label: exclude) - PR 4172 sbesson 'testSaneUsedFiles: check getCurrentFile is the first file in the getUsedFiles list' (stage: draft) - PR 4164 melissalinkert 'Reduce DICOM write time' (stage: draft) - PR 4131 dgault 'VirtualImagePlus: Retain B&C settings for each slice' (status: failure) - PR 4092 NicoKiaru 'Commits an alternative Zeiss CZI Reader' (user: NicoKiaru) - PR 4000 XLEFReaderForBioformats 'Reworking LMSMetadata package and adding a new lif reader' (user: XLEFReaderForBioformats) - PR 3898 melissalinkert 'InCell 1000/2000 field count and plane metadata fixes' (stage: draft) - PR 3794 dgault 'Chunk API: Add new API and functionality for reading and writing chunks' (label: exclude) - PR 3680 iwbh15 'Performance increase in writeIFD' (user: iwbh15) - PR 3618 dgault 'Memoizer: Persist caching to sub readers' (label: breaking) - PR 3537 dgault 'Flex: Merge IDR changes and add new group plate option' (label: exclude) Already up to date. Merged PRs: - PR 4130 carandraug 'matlab/bfGetPlane.m: avoid use of makeDataArray2D when Octave (ome/bio-formats-octave-docker#29)' - PR 4188 melissalinkert 'Fix a few string comparisons, fixes #4184' Repository: ome/ome-codecs Already up to date. Merged PRs: - PR 37 melissalinkert 'JPEG: warn if quality is outside [0.25, 1.0]' Repository: ome/ome-common-java Excluded PRs: - PR 59 NicoKiaru 'adds AverageImageScaler implementation of IImageScaler' (user: NicoKiaru) Already up to date. Repository: ome/ome-jai Already up to date. Repository: ome/ome-mdbtools Already up to date. Repository: ome/ome-metakit Already up to date. Repository: ome/ome-model Excluded PRs: - PR 180 joshmoore 'xsd-fu: templates for linkml generation' (stage: draft) Already up to date. Conflicting PRs (not included): - PR 174 jburel 'Remove docs' Repository: ome/ome-poi Already up to date. Repository: ome/ome-stubs Already up to date. Generated by BIOFORMATS-push#19 (https://BRANCHCI.openmicroscopy.org/jenkins/job/BIOFORMATS-push/19/)
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[submodule "ome-common-java"] | ||
path = ome-common-java | ||
url = https://github.com/ome/ome-common-java.git | ||
branch = master | ||
url = https://github.com/snoopycrimecop/ome-common-java.git | ||
branch = snoopycrimecop_ci | ||
[submodule "ome-model"] | ||
path = ome-model | ||
url = https://github.com/ome/ome-model.git | ||
branch = master | ||
url = https://github.com/snoopycrimecop/ome-model.git | ||
branch = snoopycrimecop_ci | ||
[submodule "ome-poi"] | ||
path = ome-poi | ||
url = https://github.com/ome/ome-poi.git | ||
branch = master | ||
url = https://github.com/snoopycrimecop/ome-poi.git | ||
branch = snoopycrimecop_ci | ||
[submodule "ome-mdbtools"] | ||
path = ome-mdbtools | ||
url = https://github.com/ome/ome-mdbtools.git | ||
branch = master | ||
url = https://github.com/snoopycrimecop/ome-mdbtools.git | ||
branch = snoopycrimecop_ci | ||
[submodule "ome-jai"] | ||
path = ome-jai | ||
url = https://github.com/ome/ome-jai.git | ||
branch = master | ||
url = https://github.com/snoopycrimecop/ome-jai.git | ||
branch = snoopycrimecop_ci | ||
[submodule "ome-codecs"] | ||
path = ome-codecs | ||
url = https://github.com/ome/ome-codecs.git | ||
branch = master | ||
url = https://github.com/snoopycrimecop/ome-codecs.git | ||
branch = snoopycrimecop_ci | ||
[submodule "ome-metakit"] | ||
path = ome-metakit | ||
url = https://github.com/ome/ome-metakit.git | ||
branch = master | ||
url = https://github.com/snoopycrimecop/ome-metakit.git | ||
branch = snoopycrimecop_ci | ||
[submodule "ome-stubs"] | ||
path = ome-stubs | ||
url = https://github.com/ome/ome-stubs.git | ||
branch = master | ||
url = https://github.com/snoopycrimecop/ome-stubs.git | ||
branch = snoopycrimecop_ci | ||
[submodule "bioformats"] | ||
path = bioformats | ||
url = https://github.com/openmicroscopy/bioformats.git | ||
branch = develop | ||
url = https://github.com/snoopycrimecop/bioformats.git | ||
branch = snoopycrimecop_ci | ||
[submodule "bio-formats-documentation"] | ||
path = bio-formats-documentation | ||
url = https://github.com/ome/bio-formats-documentation.git | ||
branch = master | ||
url = https://github.com/snoopycrimecop/bio-formats-documentation.git | ||
branch = snoopycrimecop_ci | ||
[submodule "bio-formats-examples"] | ||
path = bio-formats-examples | ||
url = https://github.com/ome/bio-formats-examples.git | ||
branch = master | ||
url = https://github.com/snoopycrimecop/bio-formats-examples.git | ||
branch = snoopycrimecop_ci | ||
[submodule "ZarrReader"] | ||
path = ZarrReader | ||
url = https://github.com/ome/ZarrReader.git | ||
branch = main | ||
url = https://github.com/snoopycrimecop/ZarrReader.git | ||
branch = snoopycrimecop_ci |
Submodule ZarrReader
updated
5 files
Submodule bio-formats-examples
updated
24 files
+0 −20 | .classpath-template | |
+35 −0 | .github/workflows/tests.yml | |
+1 −0 | .gitignore | |
+10 −7 | .mailmap | |
+27 −339 | LICENSE.txt | |
+26 −5 | pom.xml | |
+3 −3 | src/main/java/ExampleSuite.java | |
+19 −12 | src/main/java/FileConvert.java | |
+19 −12 | src/main/java/FileExport.java | |
+19 −12 | src/main/java/FileExportSPW.java | |
+19 −12 | src/main/java/GeneratePyramidResolutions.java | |
+19 −12 | src/main/java/OrthogonalReader.java | |
+19 −12 | src/main/java/OverlappedTiledWriter.java | |
+21 −14 | src/main/java/ReadPhysicalSize.java | |
+19 −12 | src/main/java/ReadWriteInMemory.java | |
+19 −12 | src/main/java/SimpleTiledWriter.java | |
+19 −12 | src/main/java/SubResolutionExample.java | |
+19 −12 | src/main/java/TiledReaderWriter.java | |
+135 −0 | src/main/macros/groovy/OverlappedTiledPyramidConversion.groovy | |
+128 −0 | src/main/macros/jython/OverlappedTiledPyramidConversion.py | |
+58 −0 | src/main/macros/jython/PyramidConversion.py | |
+65 −0 | src/main/macros/jython/TiledConversion.py | |
+3 −0 | src/main/matlab/bftest.m | |
+32 −0 | src/main/resources/logback.xml |
Submodule bioformats
updated
2 files
+14 −3 | components/formats-bsd/matlab/bfGetPlane.m | |
+4 −2 | components/formats-bsd/src/loci/formats/gui/PreviewPane.java |