Ecosyste.ms: Issues

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

GitHub / bioimage-io/spec-bioimage-io issues and pull requests

#686 - Reduces border and padding noise

Pull Request - State: open - Opened by Tomaz-Vieira 14 days ago

#685 - Fix opt fields in docs

Pull Request - State: closed - Opened by Tomaz-Vieira 16 days ago

#684 - reproducibility field in 0.5.4.0

Pull Request - State: open - Opened by FynnBe 28 days ago - 1 comment
Labels: documentation, ci, github_actions

#683 - v0.5 example models

Issue - State: open - Opened by alanocallaghan about 1 month ago

#682 - Consider checking spec source code with bandit

Issue - State: open - Opened by FynnBe about 1 month ago

#681 - Improve documentation

Pull Request - State: closed - Opened by FynnBe about 1 month ago - 1 comment
Labels: ci, github_actions

#680 - move changelog to changelog.md

Pull Request - State: closed - Opened by FynnBe about 1 month ago - 1 comment
Labels: documentation

#679 - Loading model inside docker

Issue - State: closed - Opened by danifranco about 2 months ago - 5 comments

#678 - bump pyright and deepdiff

Pull Request - State: closed - Opened by FynnBe 2 months ago - 1 comment

#677 - Update tags

Pull Request - State: open - Opened by FynnBe 2 months ago - 2 comments
Labels: removal

#676 - use sigmoid postprocessing in unet2d example

Pull Request - State: closed - Opened by FynnBe 2 months ago - 1 comment

#675 - Serialization warnings for time and space axes

Issue - State: open - Opened by FynnBe 2 months ago

#674 - Update pyright

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

#673 - Udpate conda env

Pull Request - State: closed - Opened by FynnBe 3 months ago - 1 comment
Labels: documentation

#672 - conda env genreation

Issue - State: open - Opened by oeway 3 months ago - 1 comment

#671 - update docstrings

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

#670 - Add parameters input for non-tensor model inputs

Issue - State: open - Opened by FynnBe 3 months ago - 2 comments
Labels: enhancement, help wanted, question

#669 - multiple preprocessing using bioimageio spec

Issue - State: open - Opened by pr4deepr 3 months ago - 4 comments

#668 - Pin pydantic below 2.10 and improve docs

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

#667 - model-test-run

Issue - State: closed - Opened by marcus1337 3 months ago - 3 comments
Labels: bug

#666 - Representing -inf and inf in json

Issue - State: open - Opened by oeway 3 months ago - 3 comments

#665 - Add percentile dynamic clipping

Issue - State: open - Opened by danifranco 3 months ago - 1 comment
Labels: enhancement, help wanted, good first issue

#664 - Fix URL validation + housekeeping

Pull Request - State: closed - Opened by FynnBe 3 months ago - 1 comment
Labels: bug, documentation, ci, github_actions

#663 - `load_description()` can't load descriptions for previous working ones

Issue - State: closed - Opened by qin-yu 3 months ago - 1 comment

#662 - Improve docs and examples

Pull Request - State: closed - Opened by FynnBe 3 months ago - 1 comment
Labels: documentation

#661 - Improve publishing to PyPi

Issue - State: open - Opened by FynnBe 3 months ago

#660 - Add default Keras environments

Pull Request - State: closed - Opened by FynnBe 3 months ago - 1 comment
Labels: documentation, enhancement

#659 - add reproducibility_tolerance field in weight descriptions

Pull Request - State: open - Opened by FynnBe 3 months ago - 1 comment
Labels: enhancement

#658 - bump to 0.5.3.4

Pull Request - State: closed - Opened by FynnBe 3 months ago - 1 comment
Labels: documentation

#657 - Cleanup

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

#656 - Improve conda env handling

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

#655 - add more tests

Pull Request - State: closed - Opened by FynnBe 3 months ago - 1 comment
Labels: enhancement, ci, github_actions, testing

#654 - add arg max_input_shape to v0_5.Model.get_axis_sizes()

Pull Request - State: closed - Opened by FynnBe 3 months ago - 1 comment
Labels: documentation, enhancement, ci, github_actions

#653 - Update examples

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

#652 - TODO: Increase test coverage

Issue - State: open - Opened by FynnBe 3 months ago
Labels: help wanted, good first issue, testing

#651 - add coverage thresholds

Pull Request - State: closed - Opened by FynnBe 3 months ago - 1 comment
Labels: enhancement, ci, github_actions

#650 - Custom License Text

Issue - State: open - Opened by mese79 3 months ago - 4 comments

#649 - Add factory methods for descriptions and their sub nodes

Issue - State: open - Opened by FynnBe 3 months ago
Labels: enhancement, help wanted

#648 - Improve keras support

Issue - State: open - Opened by FynnBe 3 months ago

#647 - Add coverage badge

Pull Request - State: closed - Opened by FynnBe 4 months ago - 1 comment
Labels: documentation, enhancement, ci, github_actions

#646 - Fix 638

Pull Request - State: closed - Opened by FynnBe 4 months ago - 1 comment
Labels: bug

#645 - fix pyright issues after pyright update

Pull Request - State: closed - Opened by FynnBe 4 months ago - 1 comment
Labels: bug

#644 - WIP use alert warning level to indicate important metadata

Pull Request - State: open - Opened by FynnBe 4 months ago

#643 - add code coverage for py3.12 tests

Pull Request - State: closed - Opened by FynnBe 4 months ago - 1 comment
Labels: enhancement, ci, github_actions, testing

#642 - bump release-drafter

Pull Request - State: closed - Opened by FynnBe 4 months ago
Labels: ci, github_actions

#641 - Add module for conda env creation

Pull Request - State: closed - Opened by FynnBe 4 months ago - 1 comment
Labels: enhancement

#640 - Support ZipFile IO

Pull Request - State: closed - Opened by FynnBe 4 months ago - 1 comment
Labels: documentation, enhancement, ci, github_actions

#639 - Improve logging messages and Validation summary formatting

Pull Request - State: closed - Opened by FynnBe 4 months ago

#637 - add customizable progressbar and release

Pull Request - State: closed - Opened by FynnBe 4 months ago
Labels: documentation, enhancement

#636 - Interactive docs improvements

Pull Request - State: closed - Opened by Tomaz-Vieira 4 months ago

#635 - Pins pyright to 1.1.378

Pull Request - State: closed - Opened by Tomaz-Vieira 4 months ago

#634 - Specify encoding when reading document

Pull Request - State: closed - Opened by thodkatz 5 months ago

#633 - codec error on v0_5.Https() using windows

Issue - State: closed - Opened by thodkatz 5 months ago

#631 - SpaceInputAxis id not taken into account with Pydantic 2.9

Issue - State: closed - Opened by jdeschamps 6 months ago - 4 comments

#630 - Scripts for generating interactive spec docs

Pull Request - State: closed - Opened by Tomaz-Vieira 6 months ago
Labels: documentation, ci, github_actions

#629 - v4 issues and design ideas

Issue - State: closed - Opened by thodkatz 6 months ago - 2 comments

#628 - Fix pyright checking

Pull Request - State: closed - Opened by Tomaz-Vieira 6 months ago
Labels: bug, ci, github_actions

#627 - Fixes breaking pyright checks across py versions

Pull Request - State: closed - Opened by Tomaz-Vieira 6 months ago - 1 comment

#626 - switch back to rdf.yaml

Pull Request - State: closed - Opened by FynnBe 6 months ago - 2 comments
Labels: documentation

#625 - Scripts for generating interactive spec docs

Pull Request - State: closed - Opened by Tomaz-Vieira 6 months ago - 1 comment

#624 - Fixes broken json schemas link

Pull Request - State: closed - Opened by Tomaz-Vieira 6 months ago
Labels: bug

#623 - Bugfix: make optional pre-/postprocessing kwargs truly optional

Pull Request - State: closed - Opened by FynnBe 6 months ago
Labels: bug, documentation

#622 - Validation error for subsequent call of `load_description`

Issue - State: closed - Opened by thodkatz 6 months ago - 3 comments

#621 - Missing output channel description for instance segmentation

Issue - State: open - Opened by danifranco 6 months ago - 1 comment

#620 - reset known files if root changes

Pull Request - State: closed - Opened by FynnBe 7 months ago
Labels: documentation

#619 - BUG: Calling `save_bioimage_package` twice causes validation error.

Issue - State: closed - Opened by melisande-c 7 months ago - 3 comments

#618 - Improve API

Pull Request - State: closed - Opened by FynnBe 7 months ago
Labels: documentation

#617 - Adds scripts for generating json schemas for humans

Pull Request - State: closed - Opened by Tomaz-Vieira 7 months ago - 4 comments
Labels: documentation, enhancement, ci, github_actions

#616 - Update load_model_and_create_your_own.ipynb

Pull Request - State: closed - Opened by FynnBe 8 months ago

#614 - POC of using sphinx + pydantic

Pull Request - State: closed - Opened by Tomaz-Vieira 8 months ago - 8 comments

#613 - Automatic documentation

Pull Request - State: closed - Opened by esgomezm 8 months ago - 2 comments

#612 - fix pydantic pin

Pull Request - State: closed - Opened by FynnBe 8 months ago
Labels: bug, documentation

#611 - bump post

Pull Request - State: closed - Opened by FynnBe 8 months ago
Labels: documentation

#610 - use id_map.json to resolve resource ids

Pull Request - State: closed - Opened by FynnBe 8 months ago

#609 - use attribute docstrings

Pull Request - State: closed - Opened by FynnBe 8 months ago - 2 comments

#608 - Fix sha issues for versioned RDFs

Pull Request - State: closed - Opened by FynnBe 8 months ago
Labels: bug, documentation

#607 - Update dataset_creation.ipynb

Pull Request - State: closed - Opened by FynnBe 8 months ago

#606 - Improve user documentation of the spec

Issue - State: open - Opened by FynnBe 9 months ago - 3 comments

#605 - Improve pretty validation errors and update example notebook

Pull Request - State: closed - Opened by FynnBe 9 months ago - 5 comments
Labels: documentation, ci, github_actions

#604 - Examples: Load PlantSeg from and package Cellpose to BioImage.IO model zoo

Pull Request - State: closed - Opened by qin-yu 9 months ago - 11 comments
Labels: documentation

#603 - add timeout to all get requests

Pull Request - State: closed - Opened by FynnBe 9 months ago
Labels: enhancement

#602 - Add timeout to requests calls

Issue - State: closed - Opened by constantinpape 9 months ago
Labels: enhancement

#601 - Remove version_number field

Pull Request - State: closed - Opened by FynnBe 9 months ago
Labels: documentation, removal

#600 - Update SPDX license list

Pull Request - State: closed - Opened by FynnBe 9 months ago
Labels: documentation

#599 - test our axis definitions for ambiguity

Pull Request - State: closed - Opened by FynnBe 9 months ago
Labels: testing

#598 - Example on Description: 5.2 `ParameterizedSize` should be `SizeReference`

Issue - State: closed - Opened by qin-yu 9 months ago - 5 comments

#597 - remove user documentation links

Pull Request - State: closed - Opened by FynnBe 9 months ago
Labels: removal

#596 - tighten some pins

Pull Request - State: closed - Opened by FynnBe 9 months ago

#595 - Improve validation summary

Pull Request - State: closed - Opened by FynnBe 9 months ago - 1 comment
Labels: documentation

#594 - Postrelease

Pull Request - State: closed - Opened by FynnBe 10 months ago
Labels: documentation

#593 - Example notebooks and documentation

Pull Request - State: closed - Opened by esgomezm 10 months ago - 2 comments
Labels: documentation

#592 - Load from DOI

Pull Request - State: closed - Opened by FynnBe 10 months ago
Labels: documentation

#591 - pretty validation errors does not work

Issue - State: closed - Opened by esgomezm 10 months ago - 1 comment

#590 - validate urls with requests.get(..., stream=True) (0.5.2post3)

Pull Request - State: closed - Opened by FynnBe 10 months ago
Labels: documentation

#589 - Resolve version specific collection IDs

Pull Request - State: closed - Opened by FynnBe 10 months ago - 2 comments
Labels: documentation

#588 - Creation of processing operations

Issue - State: closed - Opened by constantinpape 10 months ago - 2 comments
Labels: bug

#587 - Pre and post processing: denormalize

Issue - State: closed - Opened by jdeschamps 10 months ago - 2 comments