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CVE-2026-31970
March 18, 2026
HTSlib is a library for reading and writing bioinformatics file formats. GZI files are used to index block-compressed GZIP [BGZF] files. In the GZI loading function, "bgzf_index_load_hfile()", it was possible to trigger an integer overflow, leading to an under- or zero-sized buffer being allocated to store the index. Sixteen zero bytes would then be written to this buffer, and, depending on the result of the overflow the rest of the file may also be loaded into the buffer as well. If the function did attempt to load the data, it would eventually fail due to not reading the expected number of records, and then try to free the overflowed heap buffer. Exploiting this bug causes a heap buffer overflow. If a user opens a file crafted to exploit this issue, it could lead to the program crashing, or overwriting of data and heap structures in ways not expected by 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. The easiest work-around is to discard any ".gzi" index files from untrusted sources, and use the "bgzip -r" option to recreate them.
Affected Packages
https://github.com/samtools/htslib.git (GITHUB):
Affected version(s) >=1.22 <1.22.2
Fix Suggestion:
Update to version 1.22.2
https://github.com/samtools/htslib.git (GITHUB):
Affected version(s) >=0.2.0-rc1 <1.21.1
Fix Suggestion:
Update to version 1.21.1
https://github.com/samtools/htslib.git (GITHUB):
Affected version(s) =1.23 <1.23.1
Fix Suggestion:
Update to version 1.23.1
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CVSS v4
Base Score:
7.1
Attack Vector
NETWORK
Attack Complexity
LOW
Attack Requirements
NONE
Privileges Required
NONE
User Interaction
PASSIVE
Vulnerable System Confidentiality
NONE
Vulnerable System Integrity
HIGH
Vulnerable System Availability
LOW
Subsequent System Confidentiality
NONE
Subsequent System Integrity
NONE
Subsequent System Availability
NONE
CVSS v3
Base Score:
7.1
Attack Vector
NETWORK
Attack Complexity
LOW
Privileges Required
NONE
User Interaction
REQUIRED
Scope
UNCHANGED
Confidentiality
NONE
Integrity
HIGH
Availability
LOW
Weakness Type (CWE)
Integer Overflow or Wraparound
Incorrect Calculation of Buffer Size
Improper Validation of Specified Quantity in Input
Out-of-bounds Write
Heap-based Buffer Overflow
EPSS
Base Score:
0.04