[Snyk] Fix for 3 vulnerabilities

[q1blue]

Snyk has created this PR to fix 3 vulnerabilities in the pip dependencies of this project.

Snyk changed the following file(s):

• requirements.txt

⚠️ Warning

tyro 0.9.17 requires backports-cached-property, which is not installed.
trl 0.9.4 requires torch, which is not installed.
trl 0.9.4 requires transformers, which is not installed.
trl 0.9.4 requires accelerate, which is not installed.
pyzstd 0.18.0 has requirement typing-extensions>=4.13.2, but you have typing-extensions 4.7.1.
py7zr 0.21.0 requires pyppmd, which is not installed.
py7zr 0.21.0 requires inflate64, which is not installed.
invisible-watermark 0.2.0 requires torch, which is not installed.
datasets 2.13.2 has requirement dill<0.3.7,>=0.3.0, but you have dill 0.3.7.

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Important

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• Max score is 1000. Note that the real score may have changed since the PR was raised.
• This PR was automatically created by Snyk using the credentials of a real user.
• Some vulnerabilities couldn't be fully fixed and so Snyk will still find them when the project is tested again. This may be because the vulnerability existed within more than one direct dependency, but not all of the affected dependencies could be upgraded.

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EntelligenceAI PR Summary

Security update pinning minimum versions for transitive dependencies to address vulnerabilities identified by Snyk.

• Added filelock>=3.20.3 version constraint
• Added torch>=2.9.0 version constraint
• Added urllib3>=2.6.3 version constraint
• Fixed file formatting by adding trailing newline
• All three dependencies are indirect/transitive dependencies not directly imported by the application

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[entelligence-ai-pr-reviews]

Walkthrough

This PR implements a security-focused dependency update to address vulnerabilities identified by Snyk. It adds explicit minimum version constraints for three transitive dependencies: filelock (>=3.20.3), torch (>=2.9.0), and urllib3 (>=2.6.3). These packages are indirect dependencies that aren't directly imported by the application but require version pinning to ensure secure versions are used throughout the dependency tree. The update also includes a minor formatting fix by adding a newline at the end of the requirements file, following standard file formatting conventions.

Changes

File(s)	Summary
requirements.txt	Added minimum version constraints for three transitive dependencies (filelock>=3.20.3, torch>=2.9.0, urllib3>=2.6.3) to address Snyk-identified security vulnerabilities; added trailing newline for proper file formatting.

Sequence Diagram

This diagram shows the interactions between components:

sequenceDiagram
    participant Dev as Developer
    participant Snyk as Snyk Security Scanner
    participant Req as requirements.txt
    participant Pip as Package Manager
    participant Deps as Dependencies

    Dev->>Snyk: Run security scan
    Snyk->>Deps: Analyze current versions
    Snyk-->>Dev: Report vulnerabilities found
    Note over Snyk,Dev: filelock, torch, urllib3<br/>have known vulnerabilities
    Dev->>Req: Update dependency versions
    Note over Req: Pin filelock>=3.20.3<br/>Pin torch>=2.9.0<br/>Pin urllib3>=2.6.3
    Dev->>Pip: Install updated dependencies
    Pip->>Deps: Fetch and install secure versions
    Deps-->>Pip: Installation complete
    Pip-->>Dev: Dependencies updated successfully

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Correctness: ⚠️ The pinned constraint torch>=2.9.0 conflicts with existing dependencies. Multiple packages in this file (e.g., torchmetrics==1.4.0, timm==1.0.7, bitsandbytes==0.43.1) require torch versions in the 2.x range (typically <2.5). torch 2.9.0 does not exist as of current releases (latest stable is 2.x series). This will cause installation failures. Verify the actual vulnerable torch version from Snyk and use a realistic constraint like torch>=2.3.0,<3.0.0 that addresses the vulnerability without breaking compatibility.

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File: requirements.txt, Line 56

Problem: The constraint `torch>=2.9.0` is invalid - torch 2.9.0 doesn't exist and conflicts with other dependencies (torchmetrics, timm, bitsandbytes) that require torch 2.x versions.

Fix Instructions:
1. Check the actual Snyk vulnerability report to identify the minimum safe torch version
2. Replace `torch>=2.9.0` with a realistic constraint that:
   - Addresses the security vulnerability
   - Maintains compatibility with torch 2.x ecosystem
   - Uses an upper bound to prevent breaking changes
3. Suggested replacement: `torch>=2.3.1,<3.0.0` (adjust 2.3.1 based on actual Snyk recommendation)
4. Test installation with `pip install -r requirements.txt` to verify no conflicts

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Suggested change

	timm==1.0.7
	torchmetrics==1.4.0
	pycocotools==2.0.7
	sentence-transformers==3.0.1
	\ No newline at end of file
	sentence-transformers==3.0.1
	filelock>=3.20.3 # not directly required, pinned by Snyk to avoid a vulnerability
	torch>=2.9.0 # not directly required, pinned by Snyk to avoid a vulnerability
	urllib3>=2.6.3 # not directly required, pinned by Snyk to avoid a vulnerability
	pyyaml==6.0.1
	timm==1.0.7
	torchmetrics==1.4.0
	pycocotools==2.0.7
	sentence-transformers==3.0.1
	filelock>=3.20.3 # not directly required, pinned by Snyk to avoid a vulnerability
	torch>=2.3.1,<3.0.0 # not directly required, pinned by Snyk to avoid a vulnerability
	urllib3>=2.6.3 # not directly required, pinned by Snyk to avoid a vulnerability

[augmentcode]

🤖 Augment PR Summary

Summary: Updates requirements.txt to remediate 3 Snyk-reported pip vulnerabilities by adding explicit dependency constraints.

Changes: Adds minimum versions for filelock, torch, and urllib3 alongside existing pinned dependencies.

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[augmentcode]

Review completed. 2 suggestions posted.

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[augmentcode]

Most dependencies in this file are pinned with ==, but these new entries use >=, which can make installs non-reproducible and allow unexpected upgrades. Consider whether you want to pin exact versions (or otherwise lock deps) to keep environments stable.

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[augmentcode]

Raising the minimum torch to >=2.9.0 is a large jump and may affect wheel availability/compatibility (e.g., CUDA support) with other pinned packages like bitsandbytes==0.43.1. It may be worth validating that your supported platforms can still install and run with this floor.

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[snyk-io]

✅ Snyk checks have passed. No issues have been found so far.

Status	Scanner	Critical	High	Medium	Low	Total (0)
✅	Open Source Security	0	0	0	0	0 issues

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