CVE-2026-31968
Received
Received - Intake
Heap and Stack Buffer Overflow in HTSlib CRAM Encoding
Publication date: 2026-03-18
Last updated on: 2026-03-19
Assigner: GitHub, Inc.
Description
Description
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. For the `VARINT` and `CONST` encodings, incomplete validation of the context in which the encodings were used could result in up to eight bytes being written beyond the end of a heap allocation, or up to eight bytes being written to the location of a one byte variable on the stack, possibly causing the values to adjacent variables to change unexpectedly. 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.
CVSS Scores
EPSS Scores
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Meta Information
Affected Vendors & Products
| Vendor | Product | Version / Range |
|---|---|---|
| htslib | htslib | to 1.21.1 (exc) |
| htslib | htslib | From 1.22 (inc) to 1.22.2 (exc) |
| htslib | htslib | 1.23 |
Helpful Resources
Exploitability
CWE
KEV
| CWE ID | Description |
|---|---|
| CWE-787 | The product writes data past the end, or before the beginning, of the intended buffer. |
| CWE-121 | A stack-based buffer overflow condition is a condition where the buffer being overwritten is allocated on the stack (i.e., is a local variable or, rarely, a parameter to a function). |
| CWE-122 | A heap overflow condition is a buffer overflow, where the buffer that can be overwritten is allocated in the heap portion of memory, generally meaning that the buffer was allocated using a routine such as malloc(). |
| CWE-843 | The product allocates or initializes a resource such as a pointer, object, or variable using one type, but it later accesses that resource using a type that is incompatible with the original type. |
