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security-updates
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Security updates#1
github-actions[bot] wants to merge 1 commit intosRNA-regulationfrom
security-updates

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@github-actions github-actions bot commented Sep 3, 2025

Security Vulnerability Report

Generated on: 2026-03-05 01:43:48

Summary

Found vulnerabilities in 15 packages requiring updates.

Package Upgrades Overview

Package Current Version Recommended Version Vulnerabilities
aiohttp 3.12.13 3.13.3 9
biopython 1.85 Unknown 1
filelock 3.18.0 3.20.3 2
fonttools 4.58.4 4.60.2 1
jupyterlab 4.4.3 4.4.8 1
marimo 0.14.7 0.16.4 1
nbconvert 7.16.6 7.17.0 1
orjson 3.10.18 Unknown 1
pillow 11.3.0 12.1.1 1
protobuf 6.31.1 6.33.5 1
pyasn1 0.6.1 0.6.2 1
pymdown-extensions 10.16 10.16.1 1
starlette 0.47.1 0.49.1 2
urllib3 2.5.0 2.6.3 3
virtualenv 20.31.2 20.36.1 1

Detailed Vulnerability Information

aiohttp (v3.12.13)

Vulnerability ID Fix Versions Aliases
CVE-2025-53643 3.12.14 GHSA-9548-qrrj-x5pj
CVE-2025-69223 3.13.3 GHSA-6mq8-rvhq-8wgg
CVE-2025-69224 3.13.3 GHSA-69f9-5gxw-wvc2
CVE-2025-69228 3.13.3 GHSA-6jhg-hg63-jvvf
CVE-2025-69229 3.13.3 GHSA-g84x-mcqj-x9qq
CVE-2025-69230 3.13.3 GHSA-fh55-r93g-j68g
CVE-2025-69226 3.13.3 GHSA-54jq-c3m8-4m76
CVE-2025-69227 3.13.3 GHSA-jj3x-wxrx-4x23
CVE-2025-69225 3.13.3 GHSA-mqqc-3gqh-h2x8

biopython (v1.85)

Vulnerability ID Fix Versions Aliases
CVE-2025-68463 GHSA-x3vf-39hj-gxr4

filelock (v3.18.0)

Vulnerability ID Fix Versions Aliases
CVE-2025-68146 3.20.1 GHSA-w853-jp5j-5j7f
CVE-2026-22701 3.20.3 GHSA-qmgc-5h2g-mvrw

fonttools (v4.58.4)

Vulnerability ID Fix Versions Aliases
CVE-2025-66034 4.60.2 GHSA-768j-98cg-p3fv

jupyterlab (v4.4.3)

Vulnerability ID Fix Versions Aliases
CVE-2025-59842 4.4.8 GHSA-vvfj-2jqx-52jm, BIT-jupyterlab-2025-59842

marimo (v0.14.7)

Vulnerability ID Fix Versions Aliases
GHSA-xjv7-6w92-42r7 0.16.4

nbconvert (v7.16.6)

Vulnerability ID Fix Versions Aliases
CVE-2025-53000 7.17.0 GHSA-xm59-rqc7-hhvf

orjson (v3.10.18)

Vulnerability ID Fix Versions Aliases
CVE-2025-67221 GHSA-hx9q-6w63-j58v

pillow (v11.3.0)

Vulnerability ID Fix Versions Aliases
CVE-2026-25990 12.1.1 GHSA-cfh3-3jmp-rvhc, BIT-pillow-2026-25990

protobuf (v6.31.1)

Vulnerability ID Fix Versions Aliases
CVE-2026-0994 5.29.6, 6.33.5 GHSA-7gcm-g887-7qv7

pyasn1 (v0.6.1)

Vulnerability ID Fix Versions Aliases
CVE-2026-23490 0.6.2 GHSA-63vm-454h-vhhq

pymdown-extensions (v10.16)

Vulnerability ID Fix Versions Aliases
CVE-2025-68142 10.16.1 GHSA-r6h4-mm7h-8pmq

starlette (v0.47.1)

Vulnerability ID Fix Versions Aliases
CVE-2025-54121 0.47.2 GHSA-2c2j-9gv5-cj73
CVE-2025-62727 0.49.1 GHSA-7f5h-v6xp-fcq8

urllib3 (v2.5.0)

Vulnerability ID Fix Versions Aliases
CVE-2025-66418 2.6.0 GHSA-gm62-xv2j-4w53
CVE-2025-66471 2.6.0 GHSA-2xpw-w6gg-jr37
CVE-2026-21441 2.6.3 GHSA-38jv-5279-wg99

virtualenv (v20.31.2)

Vulnerability ID Fix Versions Aliases
CVE-2026-22702 20.36.1 BIT-virtualenv-2026-22702, GHSA-597g-3phw-6986

Recommended Actions

  1. Review the vulnerability details above.
  2. Close and reopen this PR to trigger CI/CD tests.
  3. Approve and merge the PR if everything looks good.

This report was generated automatically. Please verify all upgrades before applying.

@github-actions github-actions bot force-pushed the security-updates branch 2 times, most recently from 0a80cfb to e9c94be Compare September 27, 2025 01:03
@github-actions github-actions bot force-pushed the security-updates branch 3 times, most recently from 889e7e8 to 4e45e51 Compare November 26, 2025 01:12
@github-actions github-actions bot force-pushed the security-updates branch 3 times, most recently from a550a8e to 8f62a1f Compare December 7, 2025 01:20
@github-actions github-actions bot force-pushed the security-updates branch 3 times, most recently from 2d3edee to 12b7e85 Compare December 12, 2025 01:15
@github-actions github-actions bot force-pushed the security-updates branch 3 times, most recently from 4517173 to 71364cb Compare January 8, 2026 01:18
@github-actions github-actions bot force-pushed the security-updates branch 3 times, most recently from ad32188 to 64f11e5 Compare January 20, 2026 01:17
@github-actions github-actions bot force-pushed the security-updates branch 3 times, most recently from 393cbfd to 210217b Compare February 4, 2026 01:29
@github-actions github-actions bot force-pushed the security-updates branch 2 times, most recently from 755f023 to 004dbcb Compare February 12, 2026 01:48
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