cobrapy SKILL.md skillA
cobrapy from marielynneblock/arcanum-artifex is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add marielynneblock/arcanum-artifex/cobrapy@git:20260710.0115f49Pins git:20260710.0115f49 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- marielynneblock/arcanum-artifex
- Path
skills/scientific/cobrapy/SKILL.md- Versions recorded
- 5
- Latest version
- git:20260710.0115f49, committed Jul 10, 2026
- First version recorded
- Apr 6, 2026
- Size
- 12,451 bytes
- Repository stars
- 4
- License
- none declared
Constraint-based metabolic modelling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# COBRApy - Constraint-Based Reconstruction and Analysis
## Overview
COBRApy is a Python library for constraint-based reconstruction and analysis (COBRA) of metabolic models, essential for systems biology research. Work with genome-scale metabolic models, perform computational simulations of cellular metabolism, conduct metabolic engineering analyses, and predict phenotypic behaviours.
## Core Capabilities
COBRApy provides comprehensive tools organised into several key areas:
### 1. Model Management
Load existing models from repositories or files:
```python
from cobra.io import load_model
# Load bundled test models
model = load_model("textbook") # E. coli core model
model = load_model("ecoli") # Full E. coli model
model = load_model("salmonella")
# Load from files
from cobra.io import read_sbml_model, load_json_model, load_yaml_model
model = read_sbml_model("path/to/model.xml")
model = load_json_model("path/to/model.json")
model = load_yaml_model("path/to/model.yml")
```
Save models in various formats:
```python
from cobra.io import write_sbml_model, save_json_model, save_yaml_model
write_sbml_model(model, "output.xml") # Preferred format
…Read the whole file at its exact version.
How to install
mdr add marielynneblock/arcanum-artifex/cobrapy@sha256:becbc18d43bda8d2The line at the top of this page pins the label git:20260710.0115f49, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_hfqdc5lwfywspknp)
4 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 5 versions of this file, between Apr 6, 2026 and Jul 10, 2026, about one every 24 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260710.0115f49 latest | 2026-07-10 | 0115f49 | 12,451 B | A | view · diff |
| git:20260710.d1b3aa8 | 2026-07-10 | d1b3aa8 | 12,449 B | A | view · diff |
| git:20260710.ffb3400 | 2026-07-10 | ffb3400 | 12,449 B | A | view · diff |
| git:20260515.b861afb | 2026-05-15 | b861afb | 12,449 B | A | view · diff |
| git:20260406.05dff34 | 2026-04-06 | 05dff34 | 12,450 B | A | view |
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (12451 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
marielynneblock/arcanum-artifex · 4 stars · license none declared · pushed 2026-09-19 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_hfqdc5lwfywspknp GET https://markdownregistry.com/api/v1/resolve?ref=marielynneblock/arcanum-artifex/cobrapy GET https://markdownregistry.com/api/v1/blob/becbc18d43bda8d271b6f8199bdf0d02bc94eb98a3ade424023660c9043ba914
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.
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