ome/omero-metadata issues and pull requests

#89 - Build

Pull Request - State: closed - Opened by jburel 2 months ago

#88 - Update gha

Pull Request - State: closed - Opened by jburel 3 months ago - 1 comment

#87 - Add entry for 0.13.0

Pull Request - State: closed - Opened by jburel 3 months ago

#86 - Add tablename option

Pull Request - State: closed - Opened by dominikl 5 months ago - 1 comment

#85 - Integration tests: call pytest directly

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

#84 - Fix flake8 issue raised following the Rocky Linux 9 image upgrade

Pull Request - State: closed - Opened by sbesson about 1 year ago - 12 comments

#83 - Remove mox3 test dependency

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

#82 - Update ParsingContext.parse() to return the ID of the table

Pull Request - State: closed - Opened by sbesson almost 2 years ago - 3 comments

#81 - Support import of ROIs by Roi Name for dataset/project & screen/plate levels

Issue - State: open - Opened by JensWendt about 2 years ago - 2 comments

#80 - Only perform header detection when --file is specified

Pull Request - State: closed - Opened by sbesson about 2 years ago - 5 comments

#79 - Remove leading whitespaces from csv

Pull Request - State: closed - Opened by dominikl over 2 years ago - 20 comments

#78 - "Nothing to do during post processing." from info to debug

Pull Request - State: closed - Opened by emilroz over 2 years ago - 1 comment

#77 - Fix header detection for tables with sparse numerical data

Pull Request - State: closed - Opened by sbesson over 2 years ago - 4 comments

#76 - Header detection: default behavior and handling sparse columns

Issue - State: closed - Opened by sbesson over 2 years ago - 2 comments
Labels: bug

#75 - Added column type tests

Pull Request - State: closed - Opened by muhanadz over 2 years ago - 3 comments

#74 - Refactor pandas-based header detection

Issue - State: open - Opened by sbesson almost 3 years ago
Labels: enhancement

#73 - Migrate reference documentation to readthedocs

Issue - State: open - Opened by sbesson almost 3 years ago
Labels: documentation

#72 - Automatic header detection tests

Pull Request - State: closed - Opened by muhanadz almost 3 years ago

#71 - Updating README

Pull Request - State: closed - Opened by muhanadz almost 3 years ago - 12 comments

#70 - Skip empty rows

Pull Request - State: closed - Opened by dominikl almost 3 years ago - 2 comments

#69 - populate metadata set namespace on OMERO.table annotation

Issue - State: open - Opened by will-moore almost 3 years ago - 1 comment

#68 - Bug in Exception Message for duplicate Image names

Issue - State: closed - Opened by JensWendt almost 3 years ago - 2 comments

#67 - Add --detect_header and DatasetColumn support

Pull Request - State: closed - Opened by muhanadz almost 3 years ago - 21 comments

#66 - Add Image IDs workflow to README

Pull Request - State: closed - Opened by will-moore about 3 years ago - 6 comments

#65 - Support Dataset IDs and Image IDs when target is Project

Issue - State: open - Opened by will-moore about 3 years ago - 1 comment

#64 - Support images_by_name for Screen and Plate

Pull Request - State: open - Opened by will-moore about 3 years ago - 16 comments

#63 - Importing plate data per image

Issue - State: open - Opened by abhamacher about 3 years ago - 1 comment

#62 - Support ROI table on Dataset, for table with ROI ID column

Pull Request - State: closed - Opened by will-moore about 3 years ago - 40 comments

#61 - Add table_name option to ParsingContext()

Pull Request - State: closed - Opened by will-moore over 3 years ago - 3 comments

#60 - add allow_nan flag to context

Pull Request - State: closed - Opened by jburel over 3 years ago - 1 comment

#59 - Regression caused by NaN support

Issue - State: closed - Opened by sbesson over 3 years ago - 1 comment

#58 - Roi name allowed none

Pull Request - State: closed - Opened by will-moore over 3 years ago - 11 comments

#57 - OMERO table space in column name

Issue - State: open - Opened by jburel over 3 years ago - 8 comments

#56 - Use 'Roi' for name of RoiColumn

Pull Request - State: closed - Opened by will-moore almost 4 years ago - 13 comments

#55 - Prevent users from creating columns with python keyword names

Pull Request - State: open - Opened by kkoz almost 4 years ago - 3 comments

#54 - Close callbacks

Pull Request - State: closed - Opened by joshmoore almost 4 years ago - 1 comment

#53 - Nan values for bulk annotation tables

Pull Request - State: closed - Opened by will-moore almost 4 years ago - 6 comments

#52 - Add deletebulkanns

Pull Request - State: closed - Opened by manics about 4 years ago - 5 comments

#51 - populate command fails if the target is a plate and the CSV contains a plate column

Issue - State: open - Opened by pwalczysko about 4 years ago - 9 comments

#50 - Create omero_plugin.yml

Pull Request - State: closed - Opened by sbesson about 4 years ago

#49 - populate metadata at image-level

Pull Request - State: closed - Opened by erindiel about 4 years ago - 6 comments

#48 - Add some linting checks to CSVs

Issue - State: open - Opened by manics over 4 years ago - 1 comment

#47 - Add dependency on version 5.8 or more recent of omero-py

Pull Request - State: closed - Opened by sbesson over 4 years ago - 1 comment

#46 - Fix usage --report option in the omero-metadata CLI plugin

Pull Request - State: closed - Opened by sbesson over 4 years ago - 1 comment

#45 - bulkmap populate step fails in non-default group

Issue - State: open - Opened by pwalczysko over 4 years ago - 1 comment
Labels: bug

#44 - default idr workflows fail in outreach situation

Issue - State: open - Opened by pwalczysko over 4 years ago - 6 comments

#43 - Deploy sdist and bdist_wheel from travis

Pull Request - State: closed - Opened by jburel about 5 years ago

#42 - remove bin/omero

Pull Request - State: closed - Opened by jburel about 5 years ago

#41 - Define jinja2 as a requirement of omero-metadata

Pull Request - State: closed - Opened by sbesson about 5 years ago - 1 comment

#40 - Improved support for annotations with Unicode characters

Pull Request - State: closed - Opened by sbesson about 5 years ago - 5 comments

#39 - Handle byte-order-mark (BOM) gracefully

Issue - State: closed - Opened by manics about 5 years ago - 1 comment
Labels: bug

#38 - Don't require user to manually set PLUGIN

Pull Request - State: closed - Opened by manics over 5 years ago

#37 - Add missing -k test-string to pytest

Pull Request - State: closed - Opened by manics over 5 years ago - 1 comment

#36 - Python 3 support

Pull Request - State: closed - Opened by manics over 5 years ago - 7 comments

#35 - readme dev install

Pull Request - State: closed - Opened by will-moore over 5 years ago

#34 - Do not warn on missing well/plate names when the target is non HCS

Pull Request - State: closed - Opened by sbesson over 5 years ago - 2 comments

#33 - bulkmap context: default configuration

Issue - State: open - Opened by sbesson over 5 years ago
Labels: enhancement

#32 - Add documentation for bulkmap and deletemap context

Issue - State: open - Opened by sbesson over 5 years ago
Labels: documentation

#31 - populate --context delemap: fix default wait argument

Issue - State: open - Opened by sbesson over 5 years ago
Labels: bug

#30 - Internal Server Error after Adding Metadata Tables to Dataset

Issue - State: closed - Opened by Borthralla over 5 years ago - 1 comment

#29 - Inconsistent CSV format required for populate metadata on Plate vv Project

Issue - State: open - Opened by will-moore over 5 years ago - 1 comment

#28 - Usage instructions in readme

Pull Request - State: closed - Opened by will-moore over 5 years ago - 3 comments

#27 - Strip all csv values of whitespace

Pull Request - State: closed - Opened by will-moore over 5 years ago - 1 comment

#26 - populate metadata Image column adds Image Name column

Issue - State: closed - Opened by will-moore over 5 years ago - 2 comments

#25 - populate metadata: Allow no Parent column

Issue - State: open - Opened by will-moore over 5 years ago
Labels: enhancement

#24 - populate metadata should strip CSV values

Issue - State: closed - Opened by will-moore over 5 years ago - 5 comments
Labels: enhancement

#23 - Delay closing tables (API semantic change)

Pull Request - State: closed - Opened by joshmoore over 5 years ago - 18 comments

#22 - populate_metadata module is not under omero*

Issue - State: closed - Opened by manics over 5 years ago - 1 comment

#21 - UnboundLocalError: local variable 'value' referenced before assignment

Issue - State: closed - Opened by Borthralla over 5 years ago - 4 comments
Labels: bug

#20 - Adjust integration test for change in global metadata.

Pull Request - State: closed - Opened by mtbc over 5 years ago - 2 comments

#19 - Package renaming

Pull Request - State: closed - Opened by sbesson almost 6 years ago - 4 comments

#18 - Add roi utils for creating masks

Pull Request - State: closed - Opened by manics almost 6 years ago - 5 comments

#17 - Allow multiple targets

Pull Request - State: closed - Opened by dominikl almost 6 years ago - 5 comments

#16 - Drop Python 2.6

Pull Request - State: closed - Opened by jburel about 6 years ago - 1 comment

#15 - Only add the metadata for the specific dataset

Pull Request - State: closed - Opened by dominikl over 6 years ago - 5 comments

#14 - 0.3.0a1 pre-release of omero-metadata

Pull Request - State: closed - Opened by sbesson over 6 years ago - 2 comments

#13 - DeleteMapAnnotationContext: handling large number of multi-linked annotations

Issue - State: open - Opened by sbesson over 6 years ago
Labels: enhancement

#12 - Deletemap subcommand: proposed renaming and default behavior

Issue - State: open - Opened by sbesson over 6 years ago - 1 comment
Labels: enhancement

#11 - Implement dry-run option in delete map context class

Pull Request - State: closed - Opened by sbesson over 6 years ago - 4 comments

#10 - Image column name

Pull Request - State: closed - Opened by sbesson over 6 years ago - 4 comments

#9 - ImageColumn called

Issue - State: closed - Opened by will-moore over 6 years ago

#8 - CLI metadata populate integration tests

Issue - State: open - Opened by sbesson over 6 years ago
Labels: enhancement

#7 - Add usage info to README

Issue - State: closed - Opened by will-moore over 6 years ago - 9 comments
Labels: enhancement

#6 - Support --columns in CLI

Issue - State: open - Opened by will-moore over 6 years ago - 1 comment
Labels: enhancement

#5 - Bulk annotations and streaming

Pull Request - State: closed - Opened by kkoz over 6 years ago - 12 comments

#4 - Flake8 and integration tests

Pull Request - State: closed - Opened by sbesson over 6 years ago - 5 comments

#3 - 0.2.0 release

Pull Request - State: closed - Opened by sbesson over 6 years ago - 1 comment

#2 - 0.2.0 final fixes

Pull Request - State: closed - Opened by sbesson over 6 years ago - 2 comments

#1 - Initial setup

Pull Request - State: closed - Opened by sbesson almost 7 years ago - 8 comments

GitHub / ome/omero-metadata issues and pull requests