mite-schema
A repository containing the MITE JSON schema and auxiliary files
Science Score: 67.0%
This score indicates how likely this project is to be science-related based on various indicators:
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✓CITATION.cff file
Found CITATION.cff file -
✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
✓DOI references
Found 1 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
○Academic email domains
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (10.1%) to scientific vocabulary
Repository
A repository containing the MITE JSON schema and auxiliary files
Basic Info
- Host: GitHub
- Owner: mite-standard
- License: mit
- Language: Python
- Default Branch: main
- Size: 65.4 KB
Statistics
- Stars: 1
- Watchers: 1
- Forks: 0
- Open Issues: 0
- Releases: 13
Metadata Files
README.md
mite_schema
This repository contains the schema of the MITE data standard.
Furthermore, this repository provides functionality to validate files against said schema. It can be used as command line interface or as library. For command line use, see the installation instructions below.
For more information, see the MITE Data Standard Organization page.
Installation
pip install mite_schema
Quick Start
To validate your MITE-formatted .json-file(s), run:
mite_schema -i <input1.json input2.json ... inputN.json>
For developers
- Install
hatchusing one of the methods described here - Download or clone this repository
- Run
hatch -v env create dev. This will download and install the appropriate Python version and any required packages - Run
hatch run dev:pre-commit install. This will set uppre-commit - If necessary, remove the environment with
hatch env remove dev
Owner
- Name: MITE Data Standard
- Login: mite-standard
- Kind: organization
- Repositories: 1
- Profile: https://github.com/mite-standard
Governing body for MITE data standard and affiliated repositories
Citation (CITATION.cff)
# This CITATION.cff file was generated with cffinit.
# Visit https://bit.ly/cffinit to generate yours today!
cff-version: 1.2.0
title: mite_schema
message: >-
If you use this software, please cite the referenced
paper.
type: software
authors:
- affiliation: 'Wageningen University and Research'
family-names: Zdouc
given-names: Mitja M.
orcid: 'https://orcid.org/0000-0001-6534-6609'
- affiliation: 'Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland'
family-names: Rutz
given-names: Adriano
orcid: 'https://orcid.org/0000-0003-0443-9902'
repository-code: 'https://github.com/mite-standard/mite_schema'
abstract: >-
A repository containing the MITE JSON schema and auxiliary files .
keywords:
- python
- tailoring enzymes
- data standard
license: MIT
preferred-citation:
type: preprint
authors:
- address: 'Droevendaalsesteeg 1, 6708 PB Wageningen, the Netherlands'
affiliation: 'Wageningen University and Research'
family-names: Zdouc
given-names: Mitja M.
orcid: 'https://orcid.org/0000-0001-6534-6609'
- address: 'Droevendaalsesteeg 1, 6708 PB Wageningen, the Netherlands'
affiliation: 'Wageningen University and Research'
family-names: Meijer
given-names: David
orcid: 'https://orcid.org/0000-0001-6406-4394'
- address: 'Droevendaalsesteeg 1, 6708 PB Wageningen, the Netherlands'
affiliation: 'Wageningen University and Research'
family-names: Biermann
given-names: Friederike
- address: 'SINTEF Industry, P.O. Box 4760 Torgard, N-7465, Trondheim, Norway'
affiliation: 'Department of Biotechnology and Nanomedicine'
family-names: Holme
given-names: Jonathan
orcid: 'https://orcid.org/0009-0007-1652-9477'
- address: 'University of Tübingen, Germany'
affiliation: 'Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT)'
family-names: Korenskaia
given-names: Aleksandra
orcid: 'https://orcid.org/0000-0003-3002-6458'
- address: 'Droevendaalsesteeg 1, 6708 PB Wageningen, the Netherlands'
affiliation: 'Wageningen University and Research'
family-names: Lien
given-names: Annette
orcid: 'https://orcid.org/0009-0006-0578-9225'
- address: 'Droevendaalsesteeg 1, 6708 PB Wageningen, the Netherlands'
affiliation: 'Wageningen University and Research'
family-names: Louwen
given-names: Nico L. L.
orcid: 'https://orcid.org/0000-0002-4431-5499'
- address: 'Droevendaalsesteeg 1, 6708 PB Wageningen, the Netherlands'
affiliation: 'Wageningen University and Research'
family-names: Navarro-Muñoz
given-names: Jorge C.
orcid: 'https://orcid.org/0000-0003-2992-1607'
- address: 'SINTEF Industry, P.O. Box 4760 Torgard, N-7465, Trondheim, Norway'
affiliation: 'Department of Biotechnology and Nanomedicinev'
family-names: Nguyen
given-names: Giang-Son
orcid: 'https://orcid.org/0000-0001-5730-3326'
- address: 'ETH Zurich, Zurich, Switzerland'
affiliation: 'Institute of Molecular Systems Biology'
family-names: Rutz
given-names: Adriano
orcid: 'https://orcid.org/0000-0003-0443-9902'
- address: 'Centre Medical Universitaire, 1 rue Michel Servet, CH-1211, Geneva, Switzerland'
affiliation: 'SIB Swiss Institute of Bioinformatics'
family-names: Sveshnikova
given-names: Anastasia
orcid: 'https://orcid.org/0000-0001-9291-0965'
- address: 'University of Denmark, Kgs. Lyngby, Denmark'
affiliation: 'The Novo Nordisk Foundation Center for Biosustainability, Technical'
family-names: Szenei
given-names: Judith
- address: 'Sylviusweg 72, 2333 BE Leiden, The Netherlands'
affiliation: 'Institute of Biology, Leiden University'
family-names: Terlouw
given-names: Barbara
- address: 'Droevendaalsesteeg 1, 6708 PB Wageningen, the Netherlands'
affiliation: 'Wageningen University and Research'
family-names: Torres Ortega
given-names: Rosina
- address: 'Centre Medical Universitaire, 1 rue Michel Servet, CH-1211, Geneva, Switzerland'
affiliation: 'SIB Swiss Institute of Bioinformatics'
family-names: Feuermann
given-names: Marc
- address: 'Centre Medical Universitaire, 1 rue Michel Servet, CH-1211, Geneva, Switzerland'
affiliation: 'SIB Swiss Institute of Bioinformatics'
family-names: Bridge
given-names: Alan J.
orcid: 'https://orcid.org/0000-0003-2148-9135'
- address: 'Droevendaalsesteeg 1, 6708 PB Wageningen, the Netherlands'
affiliation: 'Wageningen University and Research'
family-names: Hooft
name-particle: van der
given-names: Justin J. J.
orcid: 'https://orcid.org/0000-0002-9340-5511'
- address: 'University of Denmark, Kgs. Lyngby, Denmark'
affiliation: 'The Novo Nordisk Foundation Center for Biosustainability, Technical'
family-names: Weber
given-names: Tilmann
- address: 'University of Tübingen, Germany'
affiliation: 'Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT)'
family-names: Ziemert
given-names: Nadine
- address: 'University of Denmark, Kgs. Lyngby, Denmark'
affiliation: 'The Novo Nordisk Foundation Center for Biosustainability, Technical'
family-names: Blin
given-names: Kai
- address: 'Droevendaalsesteeg 1, 6708 PB Wageningen, the Netherlands'
affiliation: 'Wageningen University and Research'
family-names: Medema
given-names: Marnix H.
title: The Minimum Information about a Tailoring Enzyme/Maturase data standard for capturing natural product biosynthesis.
journal: ChemRxiv
year: 2024
doi: 10.26434/chemrxiv-2024-78mtl
GitHub Events
Total
- Create event: 13
- Release event: 7
- Issues event: 5
- Delete event: 8
- Issue comment event: 2
- Member event: 1
- Push event: 23
- Pull request event: 18
Last Year
- Create event: 13
- Release event: 7
- Issues event: 5
- Delete event: 8
- Issue comment event: 2
- Member event: 1
- Push event: 23
- Pull request event: 18
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 0
- Total pull requests: 5
- Average time to close issues: N/A
- Average time to close pull requests: about 18 hours
- Total issue authors: 0
- Total pull request authors: 1
- Average comments per issue: 0
- Average comments per pull request: 0.6
- Merged pull requests: 4
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 0
- Pull requests: 5
- Average time to close issues: N/A
- Average time to close pull requests: about 18 hours
- Issue authors: 0
- Pull request authors: 1
- Average comments per issue: 0
- Average comments per pull request: 0.6
- Merged pull requests: 4
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- mmzdouc (5)
Pull Request Authors
- mmzdouc (14)
- Adafede (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
-
Total downloads:
- pypi 174 last-month
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 13
- Total maintainers: 1
pypi.org: mite-schema
Containing the Minimum Information about a Tailoring Enzymes data standard schema and auxiliary methods
- Homepage: https://github.com/mite-standard/mite_schema
- Documentation: https://mite-schema.readthedocs.io/
- License: MIT License
-
Latest release: 1.8.1
published 7 months ago
Rankings
Maintainers (1)
Dependencies
- argparse ~=1.4
- coloredlogs ~=15.0
- jsonschema ~=4.23
- pydantic ~=2.8
- referencing ~=0.35
- requests ~=2.32
- actions/checkout v4 composite
- actions/setup-python v4 composite
- actions/checkout v4 composite
- actions/download-artifact v4 composite
- actions/setup-python v5 composite
- actions/upload-artifact v4 composite
- pypa/gh-action-pypi-publish release/v1 composite