Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / ome/bioformats issues and pull requests

#4042 - ARM64 libturbojpeg mac

Pull Request - State: closed - Opened by CGDogan about 1 year ago - 1 comment

#4041 - Bump native-lib-loader for ARM-readiness

Pull Request - State: closed - Opened by CGDogan about 1 year ago - 3 comments
Labels: include

#4040 - Remove support for proprietary LuraWave license

Pull Request - State: closed - Opened by sbesson about 1 year ago - 2 comments

#4039 - Bump version to 7.0.0-SNAPSHOT

Pull Request - State: closed - Opened by dgault about 1 year ago

#4038 - Bump version to 6.14.0

Pull Request - State: closed - Opened by dgault about 1 year ago

#4037 - Bump ome-common version to 6.0.17

Pull Request - State: closed - Opened by dgault about 1 year ago

#4036 - AFI / SVS: getMagnification results in NullPointerException

Issue - State: closed - Opened by dgault over 1 year ago - 3 comments
Labels: reader:SVS

#4035 - LIF reader Illegal argument exception

Issue - State: open - Opened by jburel over 1 year ago - 5 comments

#4034 - Gel Tiff: IndexOutOfBoundsException

Issue - State: closed - Opened by dgault over 1 year ago - 1 comment

#4033 - PhotoShop Tiff: NullPointerException - tag is null

Issue - State: closed - Opened by dgault over 1 year ago - 1 comment

#4031 - Add deprecation flags for LegacyQTTools/LegacyQTReader/LegacyQTWriter

Pull Request - State: closed - Opened by sbesson over 1 year ago

#4030 - Deprecate LegacyND2Reader

Pull Request - State: closed - Opened by sbesson over 1 year ago - 4 comments

#4029 - CZI: Incorrect Detector Gain

Issue - State: open - Opened by dgault over 1 year ago
Labels: reader:ZeissCZI, bug

#4028 - Add mapping entry for Abraham Sorber

Pull Request - State: closed - Opened by sbesson over 1 year ago

#4027 - Plugins: Attempt to close readers after exception

Pull Request - State: closed - Opened by dgault over 1 year ago

#4026 - Update top-level Git mailmap to normalize commit author variants

Pull Request - State: closed - Opened by sbesson over 1 year ago - 1 comment

#4025 - MicroManager: Prevent infinite loop and don't swallow IOException

Pull Request - State: closed - Opened by dgault over 1 year ago

#4024 - BDV: Z downsampling not currently supported in viewers

Issue - State: closed - Opened by dgault over 1 year ago - 3 comments

#4023 - Add deprecation tags for Woolz format

Pull Request - State: closed - Opened by dgault over 1 year ago - 1 comment

#4022 - Support for JPEG XL in a future release

Issue - State: open - Opened by MustafaArikan over 1 year ago - 2 comments
Labels: enhancement

#4021 - Metamorph reader reads .nd files using wrong encoding

Issue - State: open - Opened by anntzer over 1 year ago - 3 comments

#4020 - Unsupported tsmvps format

Issue - State: open - Opened by dgault over 1 year ago - 1 comment
Labels: enhancement

#4018 - Infinite loop in MicromanagerReader

Issue - State: closed - Opened by aherbert over 1 year ago - 1 comment

#4017 - Convert scn file to jpg error

Issue - State: closed - Opened by SinnoSong over 1 year ago - 2 comments

#4015 - VSI: not recognizing image pyramid

Issue - State: open - Opened by jboulanger over 1 year ago - 3 comments
Labels: reader:VSI

#4014 - Remove Woolz support

Pull Request - State: closed - Opened by melissalinkert over 1 year ago - 1 comment

#4013 - Update CV7000 isThisType test to skip extended type checking

Pull Request - State: closed - Opened by melissalinkert over 1 year ago - 3 comments

#4012 - LIFReader: NPE translateMetadata

Issue - State: closed - Opened by dominikl over 1 year ago
Labels: reader:LeicaLIF

#4011 - CV8000: fix channel indexing

Pull Request - State: closed - Opened by melissalinkert over 1 year ago - 2 comments

#4010 - RFE: Check filesize of files referenced by companion.ome.xml

Issue - State: closed - Opened by dominikl over 1 year ago - 2 comments

#4009 - ZeissCZIReader rewrite - fast opening by reading directory segments.

Pull Request - State: closed - Opened by NicoKiaru over 1 year ago - 8 comments

#4008 - KLB: Use z index to increment block input offset

Pull Request - State: closed - Opened by dgault over 1 year ago - 4 comments
Labels: include

#4006 - CV7000: handle case where wells are recorded, but all files were removed

Pull Request - State: closed - Opened by melissalinkert over 1 year ago - 2 comments

#4005 - CV7000: unexpected offset when reading plates with missing wells

Issue - State: closed - Opened by sbesson over 1 year ago - 2 comments
Labels: bug, reader:CV7000

#4004 - Plugin: Exception when deleting slice with Virtual Stack

Issue - State: open - Opened by dgault over 1 year ago - 1 comment

#4003 - BFConvert: Ensure crop size is used for all series

Pull Request - State: closed - Opened by dgault over 1 year ago - 2 comments

#4002 - CZI: Remove condition for first detector gain

Pull Request - State: closed - Opened by dgault over 1 year ago - 3 comments

#4001 - CZI: Invalid C index

Issue - State: closed - Opened by dominikl over 1 year ago - 1 comment

#4000 - Reworking LMSMetadata package and adding a new lif reader

Pull Request - State: open - Opened by XLEFReaderForBioformats over 1 year ago - 22 comments

#3999 - Fix artifact uploading in GitHub Actions Ant workflow

Pull Request - State: closed - Opened by melissalinkert over 1 year ago

#3998 - Consider prefixing command line tools with `bf-`

Issue - State: open - Opened by melissalinkert over 1 year ago
Labels: enhancement

#3997 - DICOM: fix raw RGB tile reading

Pull Request - State: closed - Opened by melissalinkert over 1 year ago - 2 comments

#3996 - Zeiss CZI: Initialisation failure due to 'Invalid C index'

Issue - State: open - Opened by dgault over 1 year ago
Labels: reader:ZeissCZI

#3995 - Bump version to 6.13.1-SNAPSHOT

Pull Request - State: closed - Opened by dgault over 1 year ago

#3994 - Bump version to 6.13.0

Pull Request - State: closed - Opened by dgault over 1 year ago

#3993 - Bump version to 6.13.0-rc1

Pull Request - State: closed - Opened by dgault over 1 year ago

#3992 - Allow reading and writing compressed tiles

Pull Request - State: closed - Opened by melissalinkert over 1 year ago - 19 comments

#3991 - ND2: Metadata (acquisition date) lost when parsing TextInfoItems

Issue - State: open - Opened by dgault over 1 year ago - 1 comment
Labels: reader:NativeND2

#3990 - Point to Release

Pull Request - State: closed - Opened by jburel over 1 year ago - 3 comments

#3989 - Revert back to 6.13.0-SNAPSHOT

Pull Request - State: closed - Opened by dgault over 1 year ago

#3988 - add releases to pom

Pull Request - State: closed - Opened by jburel over 1 year ago

#3987 - Bump version to 6.13.0

Pull Request - State: closed - Opened by dgault over 1 year ago

#3986 - Label and Macro images are incorrected indexed since 6.8.0

Issue - State: closed - Opened by jamescooper-gd over 1 year ago - 1 comment
Labels: reader:SVS

#3985 - Rewrite of ZeissCZIReader to support Tb files (fast blocks retrieval …

Pull Request - State: closed - Opened by NicoKiaru over 1 year ago - 9 comments
Labels: include

#3982 - CV7000: ignore any extra folders mixed in with the plate data

Pull Request - State: closed - Opened by melissalinkert over 1 year ago

#3981 - STK: use CreateTime as alternate AcquisitionDate

Issue - State: open - Opened by anntzer over 1 year ago - 3 comments

#3980 - Leica LIF: Mergedimage displaying tiles incorrectly

Issue - State: open - Opened by dgault over 1 year ago - 1 comment
Labels: reader:LeicaLIF

#3978 - Bump json from 20090211 to 20230227 in /components/formats-gpl

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 4 comments
Labels: dependencies

#3977 - CV7000: adjust channel index if a subset of channels were acquired

Pull Request - State: closed - Opened by melissalinkert over 1 year ago - 1 comment

#3976 - Bump low level component versions

Pull Request - State: closed - Opened by dgault over 1 year ago

#3975 - MRC: read IMOD flags to determine int8 vs uint8 pixel type

Pull Request - State: closed - Opened by melissalinkert over 1 year ago - 1 comment

#3974 - Bump imagej version to 1.54c

Pull Request - State: closed - Opened by dgault over 1 year ago - 1 comment

#3973 - Remove unneeded joda-time dependency

Pull Request - State: closed - Opened by dgault over 1 year ago - 4 comments

#3972 - Micromanager tile positions reported as timepoints

Issue - State: open - Opened by melissalinkert over 1 year ago - 1 comment

#3971 - Leica FLIM: Incorrect lifetime values

Issue - State: open - Opened by dgault over 1 year ago - 1 comment
Labels: reader:LeicaLIF

#3970 - 6.13.0 dependency updates

Issue - State: closed - Opened by melissalinkert over 1 year ago - 8 comments

#3969 - OBF file produces multiple 1-C images rather than 1 multi-C image

Issue - State: open - Opened by joshmoore over 1 year ago - 2 comments

#3968 - c++ source code on git?

Issue - State: closed - Opened by jackyko1991 over 1 year ago - 2 comments

#3967 - Update kryo to 5.4.0

Pull Request - State: closed - Opened by melissalinkert over 1 year ago - 10 comments

#3966 - Bump json dependency to 20220924

Pull Request - State: closed - Opened by dgault over 1 year ago - 5 comments

#3965 - Bump snakeyaml from 1.32 to 2.0 in /components/formats-bsd

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago
Labels: dependencies

#3964 - ND2: 8 bit RGB channels being read as single 8 bit channels

Issue - State: open - Opened by dgault over 1 year ago - 4 comments

#3963 - Add API to configure the value of undefined pixels

Pull Request - State: closed - Opened by melissalinkert over 1 year ago

#3962 - SVS: Remove broken special case path when there is only one (pyramidal) image.

Pull Request - State: closed - Opened by alex-virodov over 1 year ago - 3 comments
Labels: include

#3960 - push to releases

Pull Request - State: closed - Opened by jburel over 1 year ago

#3959 - Add writer options to preserve the OME Creator attribute

Pull Request - State: closed - Opened by melissalinkert over 1 year ago - 1 comment

#3958 - Memoizer: minor API updates

Pull Request - State: closed - Opened by melissalinkert over 1 year ago

#3957 - BDV: Remove absolute file paths

Issue - State: open - Opened by dgault over 1 year ago - 2 comments
Labels: reader:BDV

#3956 - Bump sl4j-api to 2.x

Pull Request - State: closed - Opened by sbesson over 1 year ago

#3955 - Metamorph TIFF: prevent NPE on missing stage positions

Pull Request - State: closed - Opened by melissalinkert over 1 year ago

#3954 - Change link to Imaris 5.5 file spec

Pull Request - State: closed - Opened by rharkes over 1 year ago - 3 comments

#3953 - OperettaReader: Do not skip the first filename when validating series

Pull Request - State: closed - Opened by aherbert over 1 year ago - 3 comments
Labels: include

#3952 - Metamorph: don't try to read metadata keys that don't exist

Pull Request - State: closed - Opened by melissalinkert over 1 year ago

#3951 - OperettaReader does not set the pixel type for single plane images

Issue - State: closed - Opened by aherbert over 1 year ago - 2 comments

#3950 - OMETiffReader: normalize paths rather than resolving symlinks

Pull Request - State: closed - Opened by sbesson over 1 year ago

#3949 - Less verbose output when loading multifile TIFFs

Issue - State: open - Opened by anntzer over 1 year ago - 3 comments

#3947 - Fix NPEs when a no-op file pattern is encountered

Pull Request - State: closed - Opened by melissalinkert over 1 year ago - 2 comments

#3946 - Bump version to 6.12.1-SNAPSHOT

Pull Request - State: closed - Opened by dgault over 1 year ago

#3941 - NDPI: IllegalArgumentException when parsing IFD values on Mac

Issue - State: closed - Opened by dgault over 1 year ago - 6 comments
Labels: reader:NDPI

#3939 - ImagePlusReader: handle IndexColorModel

Pull Request - State: closed - Opened by dgault over 1 year ago - 4 comments

#3938 - Gatan: StringIndexOutOfBoundsException when parsing Mode

Issue - State: closed - Opened by dgault over 1 year ago