CVE catalog

CVE-2026-31965

Severity: Medium · CVSS 6.9
Published: Mar 18, 2026, 6:50:37 PM UTC
Source: [NVD] · [CVE record]
EPSS: 0.39% · Oct 25, 2026

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. In the `cram_decode_slice()` function called while reading CRAM records, validation of the reference id field occurred too late, allowing two out of bounds reads to occur before the invalid data was detected. The bug does allow two values to be leaked to the caller, however as the function reports an error it may be difficult to exploit them. It is also possible that the program will crash due to trying to access invalid memory. Versions 1.23.1, 1.22.2 and 1.21.1 include fixes for this issue. There is no workaround for this issue.

Vulnerable and fixed packages

Distribution-reported package versions and fixes. These do not depend on matching against the OpenFactory package catalog.

Distribution	Package	Release	Version	Status
Debian	htslib	sid	`1.24-3`	fixed
Debian	htslib	forky	`1.24-3`	fixed
Debian	htslib	trixie	`1.21+ds-1`	vulnerable
Debian	htslib	bookworm	`1.16+ds-3`	vulnerable
Cpe	htslib	Not reported	Not reported	vulnerable
Cpe	htslib	Not reported	Not reported	unknown

Fixed-version evidence

Distribution	Package	Type	Release	Fixed version	Urgency	Origin	Bugs
Debian	htslib	source	sid	`1.24-2`	not yet assigned	Not reported	[1131493]
Debian	htslib	source	forky	`1.24-2`	not yet assigned	Not reported	[1131493]
Debian	htslib	source	trixie	`(unfixed)`	not yet assigned	Not reported	[1131493]
Debian	htslib	source	bookworm	`(unfixed)`	not yet assigned	Not reported	[1131493]

[Debian bug #1131493]

Notes

[trixie] htslib: Minor issue [bookworm] htslib: Minor issue

OpenFactory catalog packages

[Debian 12 (Bookworm)]

[htslib-test]Affected
Source package: [htslib]
Details (2)
- 1.16+ds-3 · all · bookworm
  Affected
  nvd · htslib · debian · bookworm; nvd · htslib · debian · 12
- 1.16+ds-3 · all · bookworm
  Affected
  nvd · htslib · debian · bookworm; nvd · htslib · debian · 12
[libhts3]Affected
Source package: [htslib]
Details (2)
- 1.16+ds-3 · amd64 · bookworm
  Affected
  nvd · htslib · debian · bookworm; nvd · htslib · debian · 12
- 1.16+ds-3 · arm64 · bookworm
  Affected
  nvd · htslib · debian · bookworm; nvd · htslib · debian · 12
[libhts-dev]Affected
Source package: [htslib]
Details (2)
- 1.16+ds-3 · amd64 · bookworm
  Affected
  nvd · htslib · debian · bookworm; nvd · htslib · debian · 12
- 1.16+ds-3 · arm64 · bookworm
  Affected
  nvd · htslib · debian · bookworm; nvd · htslib · debian · 12
[tabix]Affected
Source package: [htslib]
Details (2)
- 1.16+ds-3 · amd64 · bookworm
  Affected
  nvd · htslib · debian · bookworm; nvd · htslib · debian · 12
- 1.16+ds-3 · arm64 · bookworm
  Affected
  nvd · htslib · debian · bookworm; nvd · htslib · debian · 12

[Debian 13 (Trixie)]

[htslib-test]Affected
Source package: [htslib]
Details (2)
- 1.21+ds-1 · all · trixie
  Affected
  nvd · htslib · debian · 13
- 1.21+ds-1 · all · trixie
  Affected
  nvd · htslib · debian · 13
[libhts3t64]Affected
Source package: [htslib]
Details (2)
- 1.21+ds-1 · amd64 · trixie
  Affected
  nvd · htslib · debian · 13
- 1.21+ds-1 · arm64 · trixie
  Affected
  nvd · htslib · debian · 13
[libhts-dev]Affected
Source package: [htslib]
Details (2)
- 1.21+ds-1 · amd64 · trixie
  Affected
  nvd · htslib · debian · 13
- 1.21+ds-1 · arm64 · trixie
  Affected
  nvd · htslib · debian · 13
[tabix]Affected
Source package: [htslib]
Details (2)
- 1.21+ds-1 · amd64 · trixie
  Affected
  nvd · htslib · debian · 13
- 1.21+ds-1 · arm64 · trixie
  Affected
  nvd · htslib · debian · 13

Observed: Oct 23, 2026, 10:40:20 PM UTC

References

[Debian Security Tracker] · [FIRST EPSS] · [National Vulnerability Database (NVD)] · [OSV Package Vulnerability Database] · [Red Hat security advisories and VEX]