fix: fixed and updated version number for ncbi-datasets-cli and unzip

[cmeesters]

Summary by CodeRabbit

• Chores
  • Updated minimum version requirements for core project dependencies to ensure compatibility and system stability.

_{✏️ Tip: You can customize this high-level summary in your review settings.}

[coderabbitai]

Walkthrough

Updates version constraints in the conda environment specification for two packages: ncbi-datasets-cli now requires a minimum version of 18.12.0, and unzip requires a minimum version of 6.0.0, replacing previous exact-version pinning.

Changes

Cohort / File(s)	Change Summary
Dependency Version Constraints workflow/envs/reference.yml	Updates ncbi-datasets-cli minimum version to >=18.12.0 and unzip minimum version to >=6.0.0, replacing exact-version specifications with flexible version requirements

Estimated code review effort

🎯 1 (Trivial) | ⏱️ ~2 minutes

• Single configuration file with straightforward version constraint updates
• No logic changes or functional modifications

Poem

🐰 Versions hop and bounds do change,
From fixed to flexible, a lighter range!
Two dependencies now breathe with grace,
Minimum versions win the race! ✨

Pre-merge checks and finishing touches

✅ Passed checks (3 passed)

Check name	Status	Explanation
Description Check	✅ Passed	Check skipped - CodeRabbit’s high-level summary is enabled.
Title check	✅ Passed	The title accurately describes the main change: updating version constraints for ncbi-datasets-cli and unzip in the workflow environment file.
Docstring Coverage	✅ Passed	No functions found in the changed files to evaluate docstring coverage. Skipping docstring coverage check.

✨ Finishing touches

🧪 Generate unit tests (beta)

• Create PR with unit tests
• Post copyable unit tests in a comment
• Commit unit tests in branch fix/update_dataset_env

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[coderabbitai]

Actionable comments posted: 0

🧹 Nitpick comments (1)

workflow/envs/reference.yml (1)

4-5: Consider adding an upper bound (or a lockfile) to keep the env reproducible.

Both ncbi-datasets-cli>=18.12.0 and unzip>=6.0.0 are valid on conda-forge. However, using only lower bounds (>=) can introduce silent upgrades that may break workflows over time. Given the repo's apparent preference for stability (as seen in flair.yml), consider constraining with upper bounds (e.g., ncbi-datasets-cli>=18.12.0,<19, unzip>=6.0.0,<7) or adopting a conda-lock file to ensure reproducibility across environments and CI runs.

📜 Review details

Configuration used: CodeRabbit UI

Review profile: CHILL

Plan: Pro

📥 Commits

Reviewing files that changed from the base of the PR and between 16012bb and a82457e.

📒 Files selected for processing (1)

• workflow/envs/reference.yml (1 hunks)

🧰 Additional context used

🧠 Learnings (2)

📓 Common learnings

Learnt from: cmeesters
Repo: snakemake-workflows/rna-longseq-de-isoform PR: 115
File: workflow/envs/flair.yml:5-5
Timestamp: 2025-08-01T14:33:59.639Z
Learning: In the flair conda environment (workflow/envs/flair.yml), the version is intentionally hard-pinned to flair=2.0.0 because upstream versions are considered experimental and should not be used for stability reasons.

📚 Learning: 2025-08-01T14:33:59.639Z

Learnt from: cmeesters
Repo: snakemake-workflows/rna-longseq-de-isoform PR: 115
File: workflow/envs/flair.yml:5-5
Timestamp: 2025-08-01T14:33:59.639Z
Learning: In the flair conda environment (workflow/envs/flair.yml), the version is intentionally hard-pinned to flair=2.0.0 because upstream versions are considered experimental and should not be used for stability reasons.

Applied to files:

• workflow/envs/reference.yml

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• GitHub Check: Testing