gfbio-data-submission
GFBio Data Submission and Brokerage System
Science Score: 59.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
✓DOI references
Found 3 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
✓Committers with academic emails
1 of 12 committers (8.3%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (14.1%) to scientific vocabulary
Repository
GFBio Data Submission and Brokerage System
Basic Info
- Host: GitHub
- Owner: gfbio
- License: mit
- Language: Python
- Default Branch: master
- Size: 395 MB
Statistics
- Stars: 1
- Watchers: 12
- Forks: 0
- Open Issues: 0
- Releases: 1
Metadata Files
README.md
GFBio Data Submission and Brokerage System
Description
The system provides the central entry point for the submission services provided by GFBio e.V. for the long-term data archival and publication of biodiversity, ecology and environmental science data. Users can submit their data to one or more of the GFBio data centers. Submissions can be performed either via a web-based user interface or over a REST API, where the latter is suitable for high-throughput programmatic submissions.
The system requires a working connection to an JIRA Service Management (server/data center) instance, since all communication with the users is organised via JIRA issues.
Developer Guide
Settings
Moved to settings
Basic Commands
Setting Up Your Users
To create a normal user account, just go to Sign Up and fill out the form. Once you submit it, you'll see a " Verify Your E-mail Address" page. Go to your console to see a simulated email verification message. Copy the link into your browser. Now the user's email should be verified and ready to go.
To create an superuser account, use this command::
$ python manage.py createsuperuser
For convenience, you can keep your normal user logged in on Chrome and your superuser logged in on Firefox (or similar), so that you can see how the site behaves for both kinds of users.
Type checks
Running type checks with mypy:
$ mypy gfbio_submissions
Test coverage
To run the tests, check your test coverage, and generate an HTML coverage report::
$ coverage run -m pytest
$ coverage html
$ open htmlcov/index.html
Running tests with py.test
$ pytest
Live reloading and Sass CSS compilation
Moved to Live reloading and SASS compilation.
Celery
This app comes with Celery.
To run a celery worker:
cd gfbio_submissions
celery -A config.celery_app worker -l info
Please note: For Celery's import magic to work, it is important where the celery commands are run. If you are in the same folder with manage.py, you should be right.
Contact Us
Please email any questions and comments to our Service Helpdesk (info@gfbio.org).
- This work was supported by the German Research Foundation (DFG) within the project Establishment of the National Research Data Infrastructure (NFDI) in the consortium NFDI4Biodiversity (project number 442032008).
- This work was supported by the German Research Foundation (DFG) within the project "German Federation for Biological Data e.V.: Concept for a sustainable research data management of environmental data for Germany." (project number 408180549).
- This work was supported by the German Research Foundation (DFG) within the project "German Federation for the Curation of Biological Data (GFBio)" (project number 229241684).
Owner
- Name: GFBio
- Login: gfbio
- Kind: organization
- Location: Germany
- Website: https://www.gfbio.org/
- Repositories: 18
- Profile: https://github.com/gfbio
German Federation for Biological Data
GitHub Events
Total
- Watch event: 1
- Push event: 102
- Create event: 13
Last Year
- Watch event: 1
- Push event: 102
- Create event: 13
Committers
Last synced: 8 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| Marc Weber | m****r@m****e | 1,649 |
| Marc Weber | m****r@g****g | 426 |
| barbara.wagner | b****r@g****g | 171 |
| Tobias Hauhut | t****t@g****g | 158 |
| Deniss Marinuks | d****s@g****m | 125 |
| Deniss Marinuks | d****s@j****e | 105 |
| linus | l****z@g****g | 88 |
| Jakob Schwabauer | j****r@g****g | 55 |
| Ivaylo Kostadinov | i****i@g****g | 4 |
| ctpfaff | C****f@g****g | 2 |
| root | r****t@m****l | 1 |
| Deniss Marinuks | d****s@g****g | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 7 months ago
All Time
- Total issues: 0
- Total pull requests: 0
- Average time to close issues: N/A
- Average time to close pull requests: N/A
- Total issue authors: 0
- Total pull request authors: 0
- Average comments per issue: 0
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 0
- Pull requests: 0
- Average time to close issues: N/A
- Average time to close pull requests: N/A
- Issue authors: 0
- Pull request authors: 0
- Average comments per issue: 0
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
Pull Request Authors
Top Labels
Issue Labels
Pull Request Labels
Dependencies
- python 3.10-slim-bullseye build
- python ${PYTHON_VERSION} build
- python latest build
- python ${PYTHON_VERSION} build
- python latest build
- python ${PYTHON_VERSION} build
- python latest build
- postgres 11.3 build
- traefik v2.2.11 build
- frolvlad/alpine-oraclejre8 latest build