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105 followers · 34 following

Achievements

Achievement: QuickdrawAchievement: YOLOAchievement: Pair Extraordinairex3Achievement: Galaxy BrainAchievement: StarstruckAchievement: Arctic Code Vault ContributorAchievement: Pull Sharkx3

Achievements

Achievement: QuickdrawAchievement: YOLOAchievement: Pair Extraordinairex3Achievement: Galaxy BrainAchievement: StarstruckAchievement: Arctic Code Vault ContributorAchievement: Pull Sharkx3

Organizations

@opencobra @AGHerwig @metacollect-org @UnseenBio @PrinciplesInCellPhysiologyScholars @opentecr

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Midnighter/README.md

About Me

As a bioinformatician, one of my guiding questions is, "How can I use my knowledge of biological research and software development for the good of humanity?"

This question leads me to the following topics that I am very passionate about:

  • Thinking in systems, both biological networks and software architecture.
  • Designing automated solutions for and with human beings.
  • Access to and transparency of knowledge as embodied by, for example, the open science movement or the Open Knowledge Foundation and Wikipedia to name but a few.

Contact

You can also find me on the following platforms:

Pinned Loading

  1. dependency-info Public

    Retrieve and print Python package dependencies.

    Python 4 3

  2. metanetx-sdk Public

    Parse and process information from MetaNetX for MIRIAM compatibility using the Identifiers.org registries.

    Python 5

  3. structurizr-python Public archive

    A Python 3 port of Simon Brown's Structurizr diagrams-as-code architecture description tool.

    Python 66 16

  4. fastapi-base Public

    A base Docker image for microservices using FastAPI. The Docker image environment is based on Alpine Linux or Debian.

    Shell 9 2

  5. opencobra/cobrapy Public

    COBRApy is a package for constraint-based modeling of metabolic networks.

    Python 492 217

  6. opencobra/memote Public

    memote – the genome-scale metabolic model test suite

    HTML 131 31

601 contributions in the last year

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Activity overview

Contributed to Midnighter/knowledge-chat, pyOpenSci/pyos-package-template, Midnighter/xunit and 62 other repositories
Loading A graph representing Midnighter's contributions from March 24, 2024 to March 24, 2025. The contributions are 77% commits, 10% code review, 7% issues, 6% pull requests.

Contribution activity

March 2025

Created 7 commits in 4 repositories
Created 1 repository

Created a pull request in opencobra/cobrapy that received 2 comments

Pin lint tools versions

This PR pins our lint tools versions as proposed here. Additionally, I suggest to offer pre-commit hooks with the same versions to catch these duri…

+36 −7 lines changed • 2 comments
Reviewed 7 pull requests in 5 repositories
Opened 2 issues in 1 repository
dilgerma/course-implementing-eventsourcing 2 open
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