Ecosyste.ms: Issues

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

GitHub / ISA-tools/isa-api issues and pull requests

#567 - Mock pubmed 557

Pull Request - State: open - Opened by knirirr 3 months ago - 2 comments

#566 - Add new test to catch plink related issue when serializing to TAB

Issue - State: open - Opened by proccaserra 4 months ago - 1 comment
Labels: enhancement

#565 - adjusting bh23 workbook, and model class

Pull Request - State: open - Opened by proccaserra 4 months ago - 1 comment

#564 - Issue562 python312

Pull Request - State: closed - Opened by proccaserra 4 months ago - 2 comments

#563 - Test deprecation messages

Issue - State: open - Opened by knirirr 4 months ago
Labels: clean-up

#562 - Upgrading to Python 3.12

Issue - State: closed - Opened by knirirr 4 months ago
Labels: clean-up

#561 - Corrected values for test_get_ontology.

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

#560 - Fixed ontology source references comment in isa tab

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

#559 - ISA configurations & ISA-JSON

Issue - State: open - Opened by proccaserra 7 months ago

#558 - Test Data Validation Changes

Issue - State: open - Opened by ptth222 8 months ago - 1 comment

#557 - mock pubmed API call in test

Issue - State: open - Opened by proccaserra 8 months ago

#556 - Protocol types refactor

Pull Request - State: closed - Opened by ptth222 8 months ago - 1 comment

#555 - Refactor isatab loader

Pull Request - State: closed - Opened by terazus 8 months ago - 4 comments

#554 - Dom refactor tab loader

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

#553 - Add tracking to data file type column names 2.

Pull Request - State: closed - Opened by ptth222 8 months ago - 10 comments

#552 - Validate config changes

Pull Request - State: open - Opened by ptth222 8 months ago - 2 comments

#551 - Extended 511

Pull Request - State: closed - Opened by proccaserra 8 months ago - 1 comment

#550 - More changes

Pull Request - State: closed - Opened by ptth222 9 months ago - 1 comment

#549 - Testing changes to run on Windows.

Pull Request - State: closed - Opened by ptth222 9 months ago - 1 comment

#548 - Fix rule and check.

Pull Request - State: closed - Opened by terazus 9 months ago - 2 comments

#547 - Changed file opens to binary mode for to_csv calls.

Pull Request - State: closed - Opened by terazus 9 months ago - 4 comments

#546 - Fix to determining JSON directory location.

Pull Request - State: closed - Opened by terazus 9 months ago - 1 comment

#545 - derives_from relation on Material

Issue - State: open - Opened by proccaserra 9 months ago

#544 - Installation Before Testing

Issue - State: closed - Opened by ptth222 9 months ago - 1 comment
Labels: enhancement

#543 - implement a guard in material.py

Issue - State: open - Opened by proccaserra 9 months ago
Labels: enhancement

#542 - refactoring needed in assay_templates.py to properly handle Ontology Source

Issue - State: open - Opened by proccaserra 9 months ago
Labels: enhancement

#540 - Required Fields In Investigation XML Config

Issue - State: open - Opened by ptth222 9 months ago

#539 - Update defaults.py

Pull Request - State: closed - Opened by ptth222 9 months ago - 2 comments

#538 - Update ProcessSequenceFactory

Pull Request - State: closed - Opened by ptth222 9 months ago - 1 comment

#536 - documentation needed for requesting new context files for ISA

Issue - State: open - Opened by proccaserra 9 months ago
Labels: documentation

#534 - Inconsistencies Between Code, Documentation, and Schema

Issue - State: open - Opened by ptth222 9 months ago - 5 comments

#532 - Changed missing required properties to error

Pull Request - State: closed - Opened by ptth222 10 months ago - 7 comments

#531 - Fairly significant changes to check_protocol_fields

Pull Request - State: closed - Opened by ptth222 10 months ago - 4 comments

#530 - Changed messaging on study assays errors

Pull Request - State: closed - Opened by ptth222 10 months ago - 2 comments

#529 - Rename i_df and investigation_df.

Pull Request - State: closed - Opened by ptth222 10 months ago - 6 comments

#528 - rewrite test for test_get_ontology in test_isatools_utils.py

Issue - State: closed - Opened by proccaserra 10 months ago - 1 comment
Labels: bug, enhancement

#527 - Added better messaging

Pull Request - State: closed - Opened by ptth222 10 months ago - 3 comments
Labels: enhancement

#526 - Messages silenced in write and graph.

Pull Request - State: closed - Opened by ptth222 10 months ago - 2 comments
Labels: enhancement

#525 - Changed Tab and JSON validate

Pull Request - State: closed - Opened by ptth222 10 months ago - 4 comments
Labels: enhancement

#524 - Fix rule and check.

Pull Request - State: closed - Opened by ptth222 10 months ago - 2 comments
Labels: enhancement

#523 - Characteristic values are recast as string in ISA tab

Issue - State: open - Opened by terazus 10 months ago
Labels: bug, blocker

#522 - ISA Tab Validation Rule Exception Messaging

Issue - State: open - Opened by ptth222 10 months ago - 1 comment

#521 - Changed file opens to binary mode for to_csv calls.

Pull Request - State: closed - Opened by ptth222 10 months ago - 5 comments

#520 - ISA Validation Configurations Too Restrictive

Issue - State: open - Opened by ptth222 10 months ago - 5 comments

#519 - Fix to determining JSON directory location.

Pull Request - State: closed - Opened by ptth222 10 months ago - 2 comments

#518 - Add new tests to check serialization to TAB/JSON of Quantitative Values with Units (for Characterististics. FV, PV)

Issue - State: open - Opened by proccaserra 11 months ago - 1 comment
Labels: enhancement, documentation

#517 - ISA converter - use of default configuration - update needed to cope with new assay definitions

Issue - State: open - Opened by proccaserra 11 months ago
Labels: bug, blocker, documentation

#516 - copy function invoked by json2isatab converter has side effects

Issue - State: open - Opened by proccaserra 11 months ago
Labels: enhancement, documentation

#514 - Issue 511

Pull Request - State: closed - Opened by proccaserra about 1 year ago - 1 comment
Labels: bug, enhancement

#511 - Comments[] attached to assays aren't serialized

Issue - State: closed - Opened by proccaserra about 1 year ago - 2 comments
Labels: high priority

#510 - Add tracking to data file type column names.

Pull Request - State: closed - Opened by ptth222 about 1 year ago - 4 comments

#509 - Multiple Data Files of The Same Type Will Only Have 1 Name in Assay Conversion

Issue - State: open - Opened by ptth222 about 1 year ago - 2 comments

#508 - allow more than one identifier for ISA.Study

Issue - State: open - Opened by proccaserra about 1 year ago

#507 - Issue 497 fix

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

#506 - OLS3->OLS4 update

Issue - State: closed - Opened by proccaserra about 1 year ago - 1 comment

#505 - Develop

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

#504 - PR on dev

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

#502 - Update write.py

Pull Request - State: closed - Opened by ptth222 about 1 year ago

#501 - Different Protocol Names In Study Sequence Cause An Error

Issue - State: open - Opened by ptth222 about 1 year ago

#500 - Are Multiple "<entity> Name" Columns Allowed?

Issue - State: open - Opened by ptth222 about 1 year ago - 3 comments

#499 - Update requirements.txt

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

#498 - Unable to install isatools due to PyYAML build failure

Issue - State: closed - Opened by JeremyLeland over 1 year ago - 4 comments

#497 - "Performer" field missing

Issue - State: closed - Opened by proccaserra over 1 year ago - 1 comment
Labels: bug, blocker

#496 - Typo in publication name shown in README.md

Issue - State: closed - Opened by djcomlab almost 2 years ago
Labels: doc, low priority

#495 - merge from master

Pull Request - State: closed - Opened by terazus almost 2 years ago - 1 comment

#493 - Merge from master

Pull Request - State: closed - Opened by terazus almost 2 years ago - 1 comment

#492 - fixing tests for 3.10

Pull Request - State: closed - Opened by terazus almost 2 years ago - 1 comment

#491 - Develop

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

#490 - Dom fix contexts and schemas

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

#489 - Dom fix contexts and schemas

Pull Request - State: closed - Opened by terazus almost 2 years ago - 1 comment

#488 - Issue469 dev

Pull Request - State: closed - Opened by proccaserra almost 2 years ago - 1 comment

#487 - 0.13.0 installation error

Issue - State: closed - Opened by jundahuang9123 almost 2 years ago - 4 comments

#486 - make clear that the readthedocs page is outdated

Issue - State: open - Opened by glyg almost 2 years ago - 5 comments

#485 - create a repository under ISA-tools organisation for all ISA JSON-LD contexts

Issue - State: closed - Opened by proccaserra almost 2 years ago - 1 comment

#483 - comment_schema.json is different depending on the source

Issue - State: open - Opened by rabuono almost 2 years ago - 4 comments

#482 - Bump certifi from 2021.5.30 to 2022.12.7

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 4 comments
Labels: dependencies

#481 - Wikidata namespace(s)

Issue - State: closed - Opened by egonw almost 2 years ago - 1 comment

#480 - ISA-JSON validation error for JSON from createSimpleJSON documentation

Issue - State: open - Opened by Hannah-Doerpholz almost 2 years ago - 2 comments

#479 - Develop

Pull Request - State: closed - Opened by terazus about 2 years ago - 1 comment

#478 - Test isacreate v2

Pull Request - State: closed - Opened by proccaserra about 2 years ago - 1 comment

#477 - Dom sql alchemy

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

#476 - ImportError: cannot import name 'soft_unicode' from 'markupsafe'

Issue - State: open - Opened by erlefloch about 2 years ago - 5 comments

#472 - Develop

Pull Request - State: closed - Opened by terazus about 2 years ago - 1 comment

#471 - Dom mtbls

Pull Request - State: closed - Opened by terazus about 2 years ago - 1 comment

#470 - Develop

Pull Request - State: closed - Opened by terazus about 2 years ago

#469 - [TODO] Tasks for release

Issue - State: closed - Opened by terazus about 2 years ago
Labels: blocker, discussion required, clean-up, high priority

#468 - adding more tests to the create mode

Pull Request - State: closed - Opened by proccaserra about 2 years ago

#467 - Terazus update mzml2isa

Pull Request - State: closed - Opened by terazus about 2 years ago

#466 - Develop

Pull Request - State: closed - Opened by terazus about 2 years ago - 1 comment

#465 - Dom refactor tab

Pull Request - State: closed - Opened by terazus about 2 years ago - 1 comment