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Open Source Science

https://github.com/databio/bulker

Manager for multi-container computing environments

https://github.com/databio/bulker

Science Score: 23.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ○
    .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    1 of 5 committers (20.0%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (1.7%) to scientific vocabulary

Keywords

containers docker environments reproducible-research

Keywords from Contributors

bioinformatics bioinformatics-pipeline ngs pipeline-submission-engine
Last synced: 5 months ago · JSON representation

Repository

Manager for multi-container computing environments

Basic Info
  • Host: GitHub
  • Owner: databio
  • License: bsd-2-clause
  • Language: Jupyter Notebook
  • Default Branch: master
  • Homepage: https://bulker.io
  • Size: 366 KB
Statistics
  • Stars: 24
  • Watchers: 15
  • Forks: 2
  • Open Issues: 23
  • Releases: 17
Topics
containers docker environments reproducible-research
Created over 6 years ago · Last pushed over 1 year ago
Metadata Files
Readme License

README.md

Bulker

Bulker builds multi-container computing environments that are both modular and interactive.

For details, see the bulker documentation. You can find and share manifests at bulker hub.

Owner

  • Name: Databio
  • Login: databio
  • Kind: organization
  • Location: University of Virginia

Solving problems in computational biology

GitHub Events

Total
  • Issues event: 1
  • Watch event: 1
  • Delete event: 1
  • Issue comment event: 1
  • Push event: 1
  • Pull request event: 1
  • Create event: 2
Last Year
  • Issues event: 1
  • Watch event: 1
  • Delete event: 1
  • Issue comment event: 1
  • Push event: 1
  • Pull request event: 1
  • Create event: 2

Committers

Last synced: almost 3 years ago

All Time
  • Total Commits: 233
  • Total Committers: 5
  • Avg Commits per committer: 46.6
  • Development Distribution Score (DDS): 0.082
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
nsheff n****f@u****m 214
nsheff n****n@c****g 15
Michal Stolarczyk s****3@g****m 2
Jason Smith j****h@v****u 1
Michael R. Crusoe 1****c@u****m 1
Committer Domains (Top 20 + Academic)
virginia.edu: 1 code.databio.org: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 72
  • Total pull requests: 24
  • Average time to close issues: 2 months
  • Average time to close pull requests: about 1 month
  • Total issue authors: 14
  • Total pull request authors: 4
  • Average comments per issue: 4.03
  • Average comments per pull request: 0.0
  • Merged pull requests: 21
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 1
  • Pull requests: 1
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 1
  • Pull request authors: 1
  • Average comments per issue: 0.0
  • Average comments per pull request: 0.0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • nsheff (35)
  • lwaldron (11)
  • stolarczyk (7)
  • rcorces (6)
  • jpsmith5 (3)
  • gbloeb (1)
  • mr-c (1)
  • jemma-nelson (1)
  • pvanheus (1)
  • ccrobertson (1)
  • lgatto (1)
  • Kmrouj (1)
  • donaldcampbelljr (1)
  • jwokaty (1)
  • ndusek (1)
Pull Request Authors
  • nsheff (21)
  • stolarczyk (2)
  • mr-c (1)
  • lwaldron (1)
Top Labels
Issue Labels
enhancement (11) bug (8) brainstorming (3) docs (3) question (2) likely-solved (1) good first issue (1) low priority (1)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads: unknown
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 1
conda-forge.org: bulker

Bulker builds multi-container computing environments that are both modular and interactive. A bulker environment consists of an individual container image for each command. Bulker environments are portable, interactive, and independent of any specific workflow. Bulker simplifies both interactive analysis and workflow development by building drop-in replacements to command-line tools that act like native tools, but run in containers. Think of bulker as a lightweight wrapper for docker/singularity to simplify sharing complete, containerized environments.

  • Versions: 1
  • Dependent Packages: 0
  • Dependent Repositories: 0
Rankings
Dependent repos count: 34.0%
Average: 46.6%
Stargazers count: 46.8%
Dependent packages count: 51.2%
Forks count: 54.2%
Last synced: 6 months ago

Dependencies

requirements/requirements-all.txt pypi
  • jinja2 *
  • logmuse >=0.2.0
  • psutil *
  • pyyaml >=5.1
  • ubiquerg >=0.5.1
  • yacman >=0.8.4
requirements/requirements-docs.txt pypi
  • bulker *
requirements/requirements-test.txt pypi
  • pytest * test
.github/workflows/python-publish.yml actions
  • actions/checkout v2 composite
  • actions/setup-python v2 composite
.github/workflows/run-pytest.yml actions
  • actions/checkout v2 composite
  • actions/setup-python v2 composite
setup.py pypi