HTSlib CRAM decoder vulnerable to buffer overflow
Summary
HTSlib CRAM decoder vulnerable to buffer overflow
Original description
The description as published by the source.
HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data using a variety of encodings and compression methods. When reading data encoded using the BYTE_ARRAY_LEN method, the cram_byte_array_len_decode() failed to validate that the amount of data being unpacked matched the size of the output buffer where it was to be stored. Depending on the data series being read, this could result either in a heap or a stack overflow with attacker-controlled bytes. Depending on the data stream this could result either in a heap buffer overflow or a stack overflow. If a user opens a file crafted to exploit this issue it could lead to the program crashing, overwriting of data structures on the heap or stack in ways not expected by the program, or changing the control flow of the program. It may be possible to use this to obtain arbitrary code execution. Versions 1.23.1, 1.22.2 and 1.21.1 include fixes for this issue. There is no workaround for this issue.
Source: OSV.dev (Open Source Vulnerabilities) NVD GitHub Advisory OSV
Fix status by distribution
Fixed packages published by each distribution for this CVE
- Debian DEBIAN-CVE-2026-31971 htslib
- Ubuntu UBUNTU-CVE-2026-31971 htslib
References
- advisory github.com
- advisory github.com
- advisory nvd.nist.gov
- patch github.com