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Fedora 44 native package

R-qtl

Tools for analyzing QTL experiments

Packages / Fedora 44 / Unspecified / R-qtl

[Source: R-qtl]

Package: R-qtl (1.74-8.fc44)

[Project overview: r-cran-qtl]

External Resources:

Homepage: [cran.r-project.org]

Tools for analyzing QTL experiments

R-qtl is an extensible, interactive environment for mapping quantitative trait loci (QTLs) in experimental crosses. Our goal is to make complex QTL mapping methods widely accessible and allow users to focus on modeling rather than computing. A key component of computational methods for QTL mapping is the hidden Markov model (HMM) technology for dealing with missing genotype data. We have implemented the main HMM algorithms, with allowance for the presence of genotyping errors, for backcrosses, intercrosses, and phase-known four-way crosses. The current version of R-qtl includes facilities for estimating genetic maps, identifying genotyping errors, and performing single-QTL genome scans and two-QTL, two-dimensional genome scans, by interval mapping (with the EM algorithm), Haley-Knott regression, and multiple imputation. All of this may be done in the presence of covariates (such as sex, age or treatment). One may also fit higher-order QTL models by multiple imputation and Haley-Knott regression.

Other Packages Related to R-qtl:

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  • dep: [R-core] (>= 2.14.0)

    The minimal R components necessary for a functional runtime

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Download R-qtl

ArchitecturePackage SizeInstalled SizeFiles
aarch645.6 MiB11 MiB[list of files]
x86_645.6 MiB11 MiB[list of files]

Package file paths (744)

Showing the first 250 sorted package-associated paths. Use file search to locate a specific path.

  • /usr/lib64/R/library/qtl
  • /usr/lib64/R/library/qtl/BUGS.txt
  • /usr/lib64/R/library/qtl/CITATION
  • /usr/lib64/R/library/qtl/contrib
  • /usr/lib64/R/library/qtl/contrib/bin
  • /usr/lib64/R/library/qtl/contrib/bin/CMakeLists.txt
  • /usr/lib64/R/library/qtl/contrib/bin/FindRLibs.cmake
  • /usr/lib64/R/library/qtl/contrib/bin/mqmdebugout.cpp
  • /usr/lib64/R/library/qtl/contrib/bin/mqmmain.cpp
  • /usr/lib64/R/library/qtl/contrib/bin/README
  • /usr/lib64/R/library/qtl/contrib/bin/regressiontests.bat
  • /usr/lib64/R/library/qtl/contrib/bin/rtest
  • /usr/lib64/R/library/qtl/contrib/bin/rtest/regression
  • /usr/lib64/R/library/qtl/contrib/bin/rtest/regression/mqm_listeria1.rtest
  • /usr/lib64/R/library/qtl/contrib/bin/rtest/regression/scanone_mr.rtest
  • /usr/lib64/R/library/qtl/contrib/bin/rtest/test_augmentation.R
  • /usr/lib64/R/library/qtl/contrib/bin/rtest/test_mqm_hyper_prob.R
  • /usr/lib64/R/library/qtl/contrib/bin/rtest/test_mqm_listeria1.R
  • /usr/lib64/R/library/qtl/contrib/bin/rtest/test_scanone_mr.R
  • /usr/lib64/R/library/qtl/contrib/bin/scripts
  • /usr/lib64/R/library/qtl/contrib/bin/scripts/cleanup.sh
  • /usr/lib64/R/library/qtl/contrib/bin/scripts/create-diff.sh
  • /usr/lib64/R/library/qtl/contrib/bin/scripts/profiler.sh
  • /usr/lib64/R/library/qtl/contrib/bin/scripts/regression_tests.sh
  • /usr/lib64/R/library/qtl/contrib/bin/scripts/regression_tests_windows.bat
  • /usr/lib64/R/library/qtl/contrib/bin/scripts/r.sh
  • /usr/lib64/R/library/qtl/contrib/bin/test
  • /usr/lib64/R/library/qtl/contrib/bin/test/chrid.dat
  • /usr/lib64/R/library/qtl/contrib/bin/test/chridhyper.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/cofactors.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/filledgenohyper.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/geno.dat
  • /usr/lib64/R/library/qtl/contrib/bin/test/genohyper.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/markerposhyper.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/markerpos.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/pheno.dat
  • /usr/lib64/R/library/qtl/contrib/bin/test/phenohyper.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/regression
  • /usr/lib64/R/library/qtl/contrib/bin/test/regression/debugout_dnorm.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/regression/debugout_pbeta.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/regression/t11out-test0.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/regression/t11out.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/regression/t12out.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/regression/t13out.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/regression/t21out.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/regression/t22out.txt
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  • /usr/lib64/R/library/qtl/contrib/bin/test/regression/t31out.txt
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  • /usr/lib64/R/library/qtl/contrib/bin/test/settings.dat
  • /usr/lib64/R/library/qtl/contrib/bin/test/settingshyper.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/genotypes1.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/genotypes2m.txt
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  • /usr/lib64/R/library/qtl/contrib/bin/test/std/genotypes3m.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/genotypes3.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/markers1.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/markers2.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/markers3.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/phenotypes1.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/phenotypes2.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/phenotypes3.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/settings1.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/settings2.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/std/settings3.txt
  • /usr/lib64/R/library/qtl/contrib/bin/test/t11
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  • /usr/lib64/R/library/qtl/contrib/bin/test/t12
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  • /usr/lib64/R/library/qtl/contrib/bin/test/t22
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  • /usr/lib64/R/library/qtl/contrib/bin/test/t23
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  • /usr/lib64/R/library/qtl/contrib/bin/test/t33
  • /usr/lib64/R/library/qtl/contrib/bin/test/t33/cofactors.txt
  • /usr/lib64/R/library/qtl/contrib/bin/wincompile.bat
  • /usr/lib64/R/library/qtl/contrib/biolib
  • /usr/lib64/R/library/qtl/contrib/biolib/CMakeLists.txt
  • /usr/lib64/R/library/qtl/contrib/biolib/README
  • /usr/lib64/R/library/qtl/contrib/scripts
  • /usr/lib64/R/library/qtl/contrib/scripts/check_rqtl.sh
  • /usr/lib64/R/library/qtl/contrib/scripts/cleanup.sh
  • /usr/lib64/R/library/qtl/contrib/scripts/install_rqtl.sh
  • /usr/lib64/R/library/qtl/contrib/scripts/repl_inputs.rb
  • /usr/lib64/R/library/qtl/contrib/scripts/run_all_tests.sh
  • /usr/lib64/R/library/qtl/contrib/scripts/update_header.rb
  • /usr/lib64/R/library/qtl/data
  • /usr/lib64/R/library/qtl/data/badorder.RData
  • /usr/lib64/R/library/qtl/data/bristle3.RData
  • /usr/lib64/R/library/qtl/data/bristleX.RData
  • /usr/lib64/R/library/qtl/data/fake.4way.RData
  • /usr/lib64/R/library/qtl/data/fake.bc.RData
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  • /usr/lib64/R/library/qtl/data/hyper.RData
  • /usr/lib64/R/library/qtl/data/listeria.RData
  • /usr/lib64/R/library/qtl/data/locations.RData
  • /usr/lib64/R/library/qtl/data/map10.RData
  • /usr/lib64/R/library/qtl/data/mapthis.RData
  • /usr/lib64/R/library/qtl/data/multitrait.RData
  • /usr/lib64/R/library/qtl/DESCRIPTION
  • /usr/lib64/R/library/qtl/doc
  • /usr/lib64/R/library/qtl/doc/bcsft.pdf
  • /usr/lib64/R/library/qtl/doc/bcsft.R
  • /usr/lib64/R/library/qtl/doc/bcsft.Rnw
  • /usr/lib64/R/library/qtl/doc/geneticmaps.pdf
  • /usr/lib64/R/library/qtl/doc/geneticmaps.R
  • /usr/lib64/R/library/qtl/doc/index.html
  • /usr/lib64/R/library/qtl/doc/new_multiqtl.pdf
  • /usr/lib64/R/library/qtl/doc/new_multiqtl.R
  • /usr/lib64/R/library/qtl/doc/new_summary_scanone.pdf
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  • /usr/lib64/R/library/qtl/doc/new_summary_scantwo.pdf
  • /usr/lib64/R/library/qtl/doc/new_summary_scantwo.R
  • /usr/lib64/R/library/qtl/doc/rqtltour2.pdf
  • /usr/lib64/R/library/qtl/doc/rqtltour2.R
  • /usr/lib64/R/library/qtl/doc/rqtltour.pdf
  • /usr/lib64/R/library/qtl/doc/rqtltour.R
  • /usr/lib64/R/library/qtl/doc/Sources
  • /usr/lib64/R/library/qtl/doc/Sources/geneticmaps.Rnw
  • /usr/lib64/R/library/qtl/doc/Sources/MQM
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/mqm
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/mqm/advantages_latex.txt
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/mqm/advantages_Rd.txt
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/mqm/description.txt
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/mqm/limitations.txt
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/mqm/parallelisation_references.txt
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/mqm/significance_references.txt
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/mqm/standard_example.txt
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/mqm/standard_references.txt
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/mqm/standard_seealso.txt
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/MQM-tour.R
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/MQM-tour.Rnw
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/MQM-tour.tex
  • /usr/lib64/R/library/qtl/doc/Sources/MQM/sweaveit.bat
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  • /usr/lib64/R/library/qtl/doc/Sources/MQM/sweaveit.sh
  • /usr/lib64/R/library/qtl/doc/Sources/new_multiqtl.Rnw
  • /usr/lib64/R/library/qtl/doc/Sources/new_summary_scanone.Rnw
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  • /usr/lib64/R/library/qtl/doc/Sources/rqtltour2.tex
  • /usr/lib64/R/library/qtl/doc/Sources/rqtltour.tex
  • /usr/lib64/R/library/qtl/help
  • /usr/lib64/R/library/qtl/help/+2B.scanone.html
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  • /usr/lib64/R/library/qtl/help/add.cim.covar.html
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  • /usr/lib64/R/library/qtl/help/addqtl.html
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  • /usr/lib64/R/library/qtl/help/addtoqtl.html
  • /usr/lib64/R/library/qtl/help/aliases.rds
  • /usr/lib64/R/library/qtl/help/allchrsplits.html
  • /usr/lib64/R/library/qtl/help/AnIndex
  • /usr/lib64/R/library/qtl/help/argmax.geno.html
  • /usr/lib64/R/library/qtl/help/arithscan.html
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  • /usr/lib64/R/library/qtl/help/bayesint.html
  • /usr/lib64/R/library/qtl/help/bristle3.html
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  • /usr/lib64/R/library/qtl/help/calc.penalties.html
  • /usr/lib64/R/library/qtl/help/calc.plod.html
  • /usr/lib64/R/library/qtl/help/cbind.scanone.html
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  • /usr/lib64/R/library/qtl/help/c.cross.html
  • /usr/lib64/R/library/qtl/help/checkAlleles.html
  • /usr/lib64/R/library/qtl/help/checkcovar.html
  • /usr/lib64/R/library/qtl/help/checkformula.html
  • /usr/lib64/R/library/qtl/help/checkStepwiseqtlStart.html
  • /usr/lib64/R/library/qtl/help/chrlen.html
  • /usr/lib64/R/library/qtl/help/chrnames.html
  • /usr/lib64/R/library/qtl/help/cim.html
  • /usr/lib64/R/library/qtl/help/clean.cross.html
  • /usr/lib64/R/library/qtl/help/cleanGeno.html
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  • /usr/lib64/R/library/qtl/help/comparecrosses.html
  • /usr/lib64/R/library/qtl/help/comparegeno.html
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  • /usr/lib64/R/library/qtl/help/condense.html
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  • /usr/lib64/R/library/qtl/help/convert2bcsft.html
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  • /usr/lib64/R/library/qtl/help/genAllPartitions.html
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Field source: Fedora 44 updates aarch64 revision 44-updates-aarch64:6ecf7f9a3a707e537dd0c542e2f5fabb365c3c76c03b091b23e9c82d7f8ff88b

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VersionReleaseArchitectureRepositoryPackage sizeInstalled sizePublisher repository artifact
1.74-8.fc4444 / updatesaarch64Fedora 44 · updates · aarch645.6 MiB11 MiBPackages/r/R-qtl-1.74-8.fc44.aarch64.rpm
1.74-8.fc4444 / updatesx86_64Fedora 44 · updates · x86_645.6 MiB11 MiBPackages/r/R-qtl-1.74-8.fc44.x86_64.rpm
1.74-6.fc4444 / everythingaarch64Fedora 44 · Everything · aarch645.6 MiB11 MiBPackages/r/R-qtl-1.74-6.fc44.aarch64.rpm
1.74-6.fc4444 / everythingx86_64Fedora 44 · Everything · x86_645.6 MiB11 MiBPackages/r/R-qtl-1.74-6.fc44.x86_64.rpm

Field source: Fedora 44 updates aarch64 revision 44-updates-aarch64:6ecf7f9a3a707e537dd0c542e2f5fabb365c3c76c03b091b23e9c82d7f8ff88b

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1.74-8.fc44 / aarch64Observed 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: 9e68ffbe16c191aa0de64d6690c0aa4c6bace0e3186f8a71698715262389be75

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

printf '%s %s\n' '9e68ffbe16c191aa0de64d6690c0aa4c6bace0e3186f8a71698715262389be75' 'R-qtl-1.74-8.fc44.aarch64.rpm' | sha256sum --check --strict -

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

Field source: Fedora 44 updates aarch64 revision 44-updates-aarch64:6ecf7f9a3a707e537dd0c542e2f5fabb365c3c76c03b091b23e9c82d7f8ff88b

1.74-8.fc44 / x86_64Observed 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: 57431b5930f6cd03d552e49cb10bbc88afe40ba25cfcdb71bce3dca2e81decd5

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

printf '%s %s\n' '57431b5930f6cd03d552e49cb10bbc88afe40ba25cfcdb71bce3dca2e81decd5' 'R-qtl-1.74-8.fc44.x86_64.rpm' | sha256sum --check --strict -

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

Field source: Fedora 44 updates x86_64 revision 44-updates-x86_64:ffcac72d41afd8a62019714dd668a27f333f8ac19678580178b5b67c23ca6419

1.74-6.fc44 / aarch64Observed 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: 12d87856c02afb2f6d1419aaf9ef49d971eb4d29159cdbb2a14c898f93f024a0

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

printf '%s %s\n' '12d87856c02afb2f6d1419aaf9ef49d971eb4d29159cdbb2a14c898f93f024a0' 'R-qtl-1.74-6.fc44.aarch64.rpm' | sha256sum --check --strict -

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

Field source: Fedora 44 Everything aarch64 revision 44-everything-aarch64:ad124f8125666e9059d7a8180427bdaea80f6286f71140457e5c7edd95883eee

1.74-6.fc44 / x86_64Observed 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: e339a70cdc15596c4f5dcfd25b0ea58305b8725cf5fe125614ffe6dc21483486

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

printf '%s %s\n' 'e339a70cdc15596c4f5dcfd25b0ea58305b8725cf5fe125614ffe6dc21483486' 'R-qtl-1.74-6.fc44.x86_64.rpm' | sha256sum --check --strict -

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

Field source: Fedora 44 Everything x86_64 revision 44-everything-x86_64:da3845427d188097f6fd71b417a039bdfb8efefc4f38ca44b5cbb94f95a18991

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
5/5
Source package or maintainer
10/10

Recorded total: 100/100

Field source: Fedora 44 Everything aarch64 revision 44-everything-aarch64:ad124f8125666e9059d7a8180427bdaea80f6286f71140457e5c7edd95883eee, Fedora 44 Everything x86_64 revision 44-everything-x86_64:da3845427d188097f6fd71b417a039bdfb8efefc4f38ca44b5cbb94f95a18991, Fedora 44 updates aarch64 revision 44-updates-aarch64:6ecf7f9a3a707e537dd0c542e2f5fabb365c3c76c03b091b23e9c82d7f8ff88b, Fedora 44 updates x86_64 revision 44-updates-x86_64:ffcac72d41afd8a62019714dd668a27f333f8ac19678580178b5b67c23ca6419. 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.

  • Authoritative source; repository metadata signature verified, revision 44-everything-aarch64:ad124f8125666e9059d7a8180427bdaea80f6286f71140457e5c7edd95883eee

    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 SHA-256
    236514c32119ab3c85b81fbb9e5e9d92b07aeba0d19d64c9b4fc9117a1863769
    Signer fingerprint
    Not recorded
    Keyring revision
    RPM-GPG-KEY-fedora-44-primary
    SHA-256 93642aec521a1e5e96dd715f7ae0ec0850ebc9de09a94ce03cae5263f26cc18a
    Tool and policy
    1
    openfactory-software-catalog-signature-v1
    Verification time
    Sep 1, 2026
    Signed Release → package-index hash linkage

    Path: Not recorded
    Expected SHA-256: Not recorded
    Observed SHA-256: Not recorded
    Result: match verified

  • Authoritative source; repository metadata signature verified, revision 44-everything-x86_64:da3845427d188097f6fd71b417a039bdfb8efefc4f38ca44b5cbb94f95a18991

    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 SHA-256
    1300b99ac5d04b5561ad901320c8bd59ed1553f4971c3ce2ca48c40242c66676
    Signer fingerprint
    Not recorded
    Keyring revision
    RPM-GPG-KEY-fedora-44-primary
    SHA-256 93642aec521a1e5e96dd715f7ae0ec0850ebc9de09a94ce03cae5263f26cc18a
    Tool and policy
    1
    openfactory-software-catalog-signature-v1
    Verification time
    Sep 1, 2026
    Signed Release → package-index hash linkage

    Path: Not recorded
    Expected SHA-256: Not recorded
    Observed SHA-256: Not recorded
    Result: match verified

  • Authoritative source; repository metadata signature verified, revision 44-updates-aarch64:6ecf7f9a3a707e537dd0c542e2f5fabb365c3c76c03b091b23e9c82d7f8ff88b

    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 SHA-256
    2ec0ba92e556309075d8efe3c3301b36bb7ecd47c4e17566f0192c9c5436ed5f
    Signer fingerprint
    Not recorded
    Keyring revision
    RPM-GPG-KEY-fedora-44-primary
    SHA-256 93642aec521a1e5e96dd715f7ae0ec0850ebc9de09a94ce03cae5263f26cc18a
    Tool and policy
    1
    openfactory-software-catalog-signature-v1
    Verification time
    Sep 1, 2026
    Signed Release → package-index hash linkage

    Path: Not recorded
    Expected SHA-256: Not recorded
    Observed SHA-256: Not recorded
    Result: match verified

  • Authoritative source; repository metadata signature verified, revision 44-updates-x86_64:ffcac72d41afd8a62019714dd668a27f333f8ac19678580178b5b67c23ca6419

    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 SHA-256
    a69a0ab020457a7af2515066b7caccb3950bcf9dc7bedb52b1850098d9857ae1
    Signer fingerprint
    Not recorded
    Keyring revision
    RPM-GPG-KEY-fedora-44-primary
    SHA-256 93642aec521a1e5e96dd715f7ae0ec0850ebc9de09a94ce03cae5263f26cc18a
    Tool and policy
    1
    openfactory-software-catalog-signature-v1
    Verification time
    Sep 1, 2026
    Signed Release → package-index hash linkage

    Path: Not recorded
    Expected SHA-256: Not recorded
    Observed SHA-256: Not recorded
    Result: match verified