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33 changes: 33 additions & 0 deletions .github/workflows/run-tests.yaml
Original file line number Diff line number Diff line change
@@ -0,0 +1,33 @@
name: run-tests

on:
pull_request:
push:

jobs:
run-tests:
runs-on: ubuntu-latest
strategy:
matrix:
python-version: ["3.10", "3.11", "3.12", "3.13"]

steps:
- name: Checkout repository
uses: actions/checkout@v4

- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v5
with:
python-version: ${{ matrix.python-version }}

- name: install dependencies
run: pip install .[dev]
shell: bash

- name: run Ruff linter
run: ruff check .
shell: bash

- name: run test
run: pytest -rs
shell: bash
40 changes: 40 additions & 0 deletions .zenodo.json
Original file line number Diff line number Diff line change
@@ -0,0 +1,40 @@
{
"creators": [
{
"name": "Thompson, Matthew J.",
"orcid": "0000-0003-0583-8585"
},
{
"name": "Campolongo, Elizabeth G.",
"orcid": "0000-0003-0846-2413"
},
{
"name": "Lapp, Hilmar",
"orcid": "0000-0001-9107-0714"
},
{
"name": "Gu, Jianyang",
"orcid": "0000-0002-4060-7427"
}
],
"description": "A Python package for efficiently aligning organismal taxonomic hierarchies using the Global Names Verifier.",
"keywords": [
"imageomics",
"taxonomy",
"taxonomic resolution",
"tree of life",
"alignment",
"hierarchy"
],
"license": {
"id": "MIT"
},
"publication_date": "2026-02-12",
"title": "TaxonoPy",
"version": "0.2.0",
"grants": [
{
"id": "021nxhr62::2118240"
}
]
}
24 changes: 15 additions & 9 deletions CITATION.cff
Original file line number Diff line number Diff line change
Expand Up @@ -6,15 +6,21 @@ authors:
- family-names: "Campolongo"
given-names: "Elizabeth G."
orcid: "https://orcid.org/0000-0003-0846-2413"
- family-names: "Lapp"
given-names: "Hilmar"
orcid: "https://orcid.org/0000-0001-9107-0714"
- family-names: "Gu"
given-names: "Jianyang"
orcid: "https://orcid.org/0000-0002-4060-7427"
cff-version: 1.2.0
date-released: "2025-05-23"
date-released: "2026-02-12"
identifiers:
- description: "The GitHub release URL of tag v0.1.0-beta."
- description: "The GitHub release URL of tag v0.2.0."
type: url
value: "https://github.com/Imageomics/TaxonoPy/releases/tag/v0.1.0-beta"
- description: "The GitHub URL of the commit tagged with v0.1.0-beta"
value: "https://github.com/Imageomics/TaxonoPy/releases/tag/v0.2.0"
- description: "The GitHub URL of the commit tagged with v0.2.0"
type: url
value: "https://github.com/Imageomics/TaxonoPy/tree/b3ddeb8eb05d09c15c417ce2d2a4354a2a6fa49d"
value: "https://github.com/Imageomics/TaxonoPy/tree/<update-after-release>"
keywords:
- imageomics
- taxonomy
Expand All @@ -25,19 +31,19 @@ keywords:
references:
- type: software
title: "GNverifier -- a reconciler and resolver of scientific names against more than 100 data sources."
version: "v1.2.2"
version: "v1.2.5"
authors:
- family-names: "Mozzherin"
given-names: "Dmitry"
orcid: "https://orcid.org/0000-0003-1593-1417"
repository-code: "https://github.com/gnames/gnverifier"
date-released: "2024-11-04"
doi: 10.5281/zenodo.10070488
date-released: "2025-04-02"
doi: 10.5281/zenodo.5111542
license: MIT
license: MIT
message: "If you use this software, please cite it using the metadata from this file."
repository-code: "https://github.com/Imageomics/TaxonoPy"
title: "TaxonoPy"
version: "0.1.0-beta"
version: "0.2.0"
doi: "10.5281/zenodo.15499454"
type: software
2 changes: 1 addition & 1 deletion src/taxonopy/__init__.py
Original file line number Diff line number Diff line change
Expand Up @@ -5,7 +5,7 @@
the TreeOfLife (TOL) dataset.
"""

__version__ = "0.1.0b0"
__version__ = "0.2.0"

from taxonopy.types.data_classes import (
ResolutionStatus,
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