Debian 12 (Bookworm) native package

lumpy-sv

general probabilistic framework for structural variant discovery

Packages / Debian 12 (Bookworm) / science / lumpy-sv

Package: lumpy-sv (0.3.1+dfsg-7)

Maintainers:

Debian Med Packaging Team

External Resources:

Homepage: [github.com]

general probabilistic framework for structural variant discovery

Other Packages Related to lumpy-sv:

dep: [libbamtools2.5.2] (>= 2.5.2+dfsg)
dynamic library for manipulating BAM (genome alignment) files
dep: [libc6] (>= 2.34)
GNU C Library: Shared libraries
dep: [libgcc-s1] (>= 3.0)
GCC support library
dep: [libgzstream0] (>= 1.5+dfsg)
provide functionality of zlib C-library in a C++ iostream
dep: [libhts3] (>= 1.10)
C library for high-throughput sequencing data formats
dep: [libstdc++6] (>= 11)
GNU Standard C++ Library v3
dep: [python3] [any]
interactive high-level object-oriented language (default python3 version)
dep: [samblaster]
marks duplicates, extracts discordant/split reads
dep: [samtools]
processing sequence alignments in SAM, BAM and CRAM formats
dep: [python3]
interactive high-level object-oriented language (default python3 version)
dep: [python3-pysam]
interface for the SAM/BAM sequence alignment and mapping format (Python 3)
dep: [python3-numpy]
Fast array facility to the Python 3 language
dep: [bamkit]
tools for common BAM file manipulations

rec: [sambamba]
tools for working with SAM/BAM data

Download lumpy-sv

Architecture	Package Size	Installed Size	Files
amd64	191 KiB	656 KiB	[list of files]
arm64	167 KiB	676 KiB	[list of files]

Package file paths (30)

Paths come from the repository package-file index for the observed builds. They describe archive/package associations, not every file that will exist on a running system after maintainer scripts, alternatives, generated state, diversions, or installation choices.

/etc/lumpy-sv/lumpyexpress.config
/usr/bin/lumpy
/usr/bin/lumpyexpress
/usr/bin/lumpy_filter
/usr/share/doc/lumpy-sv/changelog.Debian.gz
/usr/share/doc/lumpy-sv/copyright
/usr/share/doc/lumpy-sv/README.md.gz
/usr/share/lumpy-sv/scripts/bedpe_sort.py
/usr/share/lumpy-sv/scripts/check_sorting.py
/usr/share/lumpy-sv/scripts/cnvanator_to_bedpes.py
/usr/share/lumpy-sv/scripts/extract-sites.py
/usr/share/lumpy-sv/scripts/extractSplitReads_BwaMem
/usr/share/lumpy-sv/scripts/get_coverages.py
/usr/share/lumpy-sv/scripts/get_exclude_regions.py
/usr/share/lumpy-sv/scripts/l_bp.py
/usr/share/lumpy-sv/scripts/l_merge.py
/usr/share/lumpy-sv/scripts/l_sort.py
/usr/share/lumpy-sv/scripts/lumpyexpress
/usr/share/lumpy-sv/scripts/lumpyexpress.config
/usr/share/lumpy-sv/scripts/lumpy_smooth
/usr/share/lumpy-sv/scripts/pairend_distro.py
/usr/share/lumpy-sv/scripts/par-svtyper.sh
/usr/share/lumpy-sv/scripts/prob_bedpe_to_bedgraph.py
/usr/share/lumpy-sv/scripts/run_histo.sh
/usr/share/lumpy-sv/scripts/split_unmapped_to_fasta.pl
/usr/share/lumpy-sv/scripts/vcfToBedpe
/usr/share/man/man1/lumpy.1.gz
/usr/share/man/man1/lumpyexpress.1.gz
/usr/share/man/man1/lumpy_filter.1.gz
/usr/share/python3/runtime.d/lumpy-sv.rtupdate

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5

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Versions, suites, and repositories

Each row is recorded package-index metadata for one version, architecture, suite, and repository. Names, URLs, and sizes are source-reported; a link is a potentially mutable retrieval location, not an OpenFactory redistribution claim or proof that OpenFactory retained the artifact bytes.

Version	Release	Architecture	Repository	Package size	Installed size	Publisher repository artifact
0.3.1+dfsg-7	bookworm / main	amd64	Debian 12 · main · amd64	191 KiB	656 KiB	pool/main/l/lumpy-sv/lumpy-sv_0.3.1+dfsg-7_amd64.deb
0.3.1+dfsg-7	bookworm / main	arm64	Debian 12 · main · arm64	167 KiB	676 KiB	pool/main/l/lumpy-sv/lumpy-sv_0.3.1+dfsg-7_arm64.deb

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5

Checksums and observation dates

For an APT source, signature verification authenticates the repository metadata chain and the Packages index containing this source-reported artifact digest. It does not certify package safety.

0.3.1+dfsg-7 / amd64Observed Sep 1, 2026 to Sep 1, 2026

Verification status: Metadata observed; artifact bytes were not independently fetched or hashed by this catalog import. The digest below is source-reported.

Source-reported sha256: 58de2a437b6a9ece539737b73f9bfe84c4a41380357952980a53224701f3a857

After downloading that exact artifact, compare its bytes with the source-reported expected digest:

printf '%s  %s\n' '58de2a437b6a9ece539737b73f9bfe84c4a41380357952980a53224701f3a857' 'lumpy-sv_0.3.1+dfsg-7_amd64.deb' | sha256sum --check --strict -

A match establishes equality with the repository metadata value. It does not establish safety or catalog-side artifact retrieval.

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5

0.3.1+dfsg-7 / arm64Observed Sep 1, 2026 to Sep 1, 2026

Verification status: Metadata observed; artifact bytes were not independently fetched or hashed by this catalog import. The digest below is source-reported.

Source-reported sha256: 9d644701a3f4a4de67264b771f091d7b37e80f7d5f08a3f3c895781fe5ad6267

After downloading that exact artifact, compare its bytes with the source-reported expected digest:

printf '%s  %s\n' '9d644701a3f4a4de67264b771f091d7b37e80f7d5f08a3f3c895781fe5ad6267' 'lumpy-sv_0.3.1+dfsg-7_arm64.deb' | sha256sum --check --strict -

A match establishes equality with the repository metadata value. It does not establish safety or catalog-side artifact retrieval.

Field source: Debian 12 (Bookworm) main arm64 revision bookworm-main-arm64:2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00

Catalog record completeness

The completeness score measures metadata coverage, not software quality, security, compatibility, or suitability.

Summary and description: 25/25
Artifact path and source digest: 25/25
Dependency metadata: 15/15
Package-file index: 15/15
Homepage: 5/5
License text: 0/5
Source package or maintainer: 10/10

Recorded total: 95/100

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5, Debian 12 (Bookworm) main arm64 revision bookworm-main-arm64:2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00. The cross-OS mapping is catalog-derived from the source-reported homepage; it does not establish authorship or publisher identity

Sources and provenance

Field-source links above resolve here. Each source entry names the metadata publisher, trust tier, exact snapshot revision, signature result, and observation time; catalog-derived mappings are labeled separately.

Debian 12 (Bookworm) main amd64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5
Signature verification covers the configured repository metadata chain. It does not certify that the package is safe or suitable.
Repository-signature verification record
Signed object
https://deb.debian.org/debian/dists/bookworm/InRelease
Signed-object SHA-256
77737fa4b34f2693e982cc9ee35736816c35a7778fc2d326cc1bbf5b301fe1aa
Signer fingerprint
4CB50190207B4758A3F73A796ED0E7B82643E131
Keyring revision
debian-archive-keyring.gpg
SHA-256 506b815cbb32d9b6066b4a2aa524071e071761e7e7f68c3ac74f3061ba852017
Tool and policy
gpgv (GnuPG) 2.4.9
openfactory-software-catalog-signature-v1
Verification time
Sep 1, 2026
Signed Release → package-index hash linkage
Path: main/binary-amd64/Packages.xz
Expected SHA-256: 9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5
Observed SHA-256: 9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5
Result: match verified
Debian 12 (Bookworm) main arm64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision bookworm-main-arm64:2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00
Signature verification covers the configured repository metadata chain. It does not certify that the package is safe or suitable.
Repository-signature verification record
Signed object
https://deb.debian.org/debian/dists/bookworm/InRelease
Signed-object SHA-256
77737fa4b34f2693e982cc9ee35736816c35a7778fc2d326cc1bbf5b301fe1aa
Signer fingerprint
4CB50190207B4758A3F73A796ED0E7B82643E131
Keyring revision
debian-archive-keyring.gpg
SHA-256 506b815cbb32d9b6066b4a2aa524071e071761e7e7f68c3ac74f3061ba852017
Tool and policy
gpgv (GnuPG) 2.4.9
openfactory-software-catalog-signature-v1
Verification time
Sep 1, 2026
Signed Release → package-index hash linkage
Path: main/binary-arm64/Packages.xz
Expected SHA-256: 2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00
Observed SHA-256: 2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00
Result: match verified