CRAN Package Check Results for Maintainer ‘Toby Hocking <toby.hocking at r-project.org>’

Last updated on 2023-01-29 11:56:55 CET.

Package ERROR WARN NOTE OK
animint2 1 12
atime 13
aum 13
binsegRcpp 13
directlabels 13
inlinedocs 1 12
LOPART 13
namedCapture 12 1
nc 12 1
PeakError 13
PeakSegDisk 3 10
PeakSegDP 13
PeakSegJoint 1 4 8
PeakSegOptimal 3 10
penaltyLearning 5 8
plotHMM 13
WeightedROC 13

Package animint2

Current CRAN status: WARN: 1, OK: 12

Version: 2022.9.14
Check: for unstated dependencies in ‘tests’
Result: WARN
    Warning: unable to access index for repository https://bioconductor.org/packages/3.14/bioc/src/contrib:
     cannot open URL 'https://bioconductor.org/packages/3.14/bioc/src/contrib/PACKAGES'
    Warning: unable to access index for repository https://bioconductor.org/packages/3.14/data/annotation/src/contrib:
     cannot open URL 'https://bioconductor.org/packages/3.14/data/annotation/src/contrib/PACKAGES'
    Warning: unable to access index for repository https://bioconductor.org/packages/3.14/data/experiment/src/contrib:
     cannot open URL 'https://bioconductor.org/packages/3.14/data/experiment/src/contrib/PACKAGES'
Flavor: r-oldrel-windows-ix86+x86_64

Package atime

Current CRAN status: OK: 13

Package aum

Current CRAN status: OK: 13

Package binsegRcpp

Current CRAN status: OK: 13

Package directlabels

Current CRAN status: OK: 13

Additional issues

noSuggests

Package inlinedocs

Current CRAN status: NOTE: 1, OK: 12

Version: 2019.12.5
Check: Rd cross-references
Result: NOTE
    Undeclared package ‘R.methodsS3’ in Rd xrefs
Flavor: r-devel-linux-x86_64-fedora-clang

Package LOPART

Current CRAN status: OK: 13

Package namedCapture

Current CRAN status: NOTE: 12, OK: 1

Version: 2020.4.1
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘re2r’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Package nc

Current CRAN status: NOTE: 12, OK: 1

Version: 2020.8.6
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘re2r’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Package PeakError

Current CRAN status: OK: 13

Package PeakSegDisk

Current CRAN status: NOTE: 3, OK: 10

Version: 2022.2.1
Check: C++ specification
Result: NOTE
     Specified C++11: please update to current default of C++17
Flavors: r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64

Package PeakSegDP

Current CRAN status: OK: 13

Package PeakSegJoint

Current CRAN status: ERROR: 1, WARN: 4, OK: 8

Version: 2022.4.6
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     PeakSegJoint_interface.c:113:32: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
    See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PeakSegJoint.Rcheck/00install.out’ for details.
    * used C compiler: ‘Debian clang version 15.0.6’
Flavor: r-devel-linux-x86_64-debian-clang

Version: 2022.4.6
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     PeakSegJoint_interface.c:113:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
    See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/PeakSegJoint.Rcheck/00install.out’ for details.
    * used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Flavor: r-devel-linux-x86_64-debian-gcc

Version: 2022.4.6
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     PeakSegJoint_interface.c:113:32: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
    See ‘/data/gannet/ripley/R/packages/tests-clang/PeakSegJoint.Rcheck/00install.out’ for details.
    * used C compiler: ‘clang version 15.0.6’
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 2022.4.6
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     PeakSegJoint_interface.c:113:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
    See ‘/data/gannet/ripley/R/packages/tests-devel/PeakSegJoint.Rcheck/00install.out’ for details.
    * used C compiler: ‘gcc (GCC) 12.2.1 20221121 (Red Hat 12.2.1-4)’
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 2022.4.6
Check: running examples for arch ‘x64’
Result: ERROR
    Running examples in 'PeakSegJoint-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: PeakSegJointError
    > ### Title: PeakSegJointError
    > ### Aliases: PeakSegJointError
    >
    > ### ** Examples
    >
    >
    > library(PeakSegJoint)
    > data(H3K36me3.TDH.other.chunk1, envir=environment())
    > lims <- c(43000000, 43200000) # left
    > some.counts <-
    + subset(H3K36me3.TDH.other.chunk1$counts,
    + lims[1] < chromEnd & chromStart < lims[2])
    > some.regions <-
    + subset(H3K36me3.TDH.other.chunk1$regions,
    + lims[1] < chromEnd & chromStart < lims[2])
    > fit <- PeakSegJointSeveral(some.counts)
Flavor: r-oldrel-windows-ix86+x86_64

Version: 2022.4.6
Check: running tests for arch ‘x64’
Result: ERROR
     Running 'testthat.R' [3s]
    Running the tests in 'tests/testthat.R' failed.
    Complete output:
     > library(testthat)
     > suite <- Sys.getenv("TEST_SUITE")
     > if(suite=="")suite <- NULL
     > test_check("PeakSegJoint", filter=suite)
     Loading required package: PeakSegJoint
Flavor: r-oldrel-windows-ix86+x86_64

Package PeakSegOptimal

Current CRAN status: NOTE: 3, OK: 10

Version: 2018.05.25
Check: C++ specification
Result: NOTE
     Specified C++11: please update to current default of C++17
Flavors: r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64

Package penaltyLearning

Current CRAN status: NOTE: 5, OK: 8

Version: 2020.5.13
Check: C++ specification
Result: NOTE
     Specified C++11: please update to current default of C++17
Flavors: r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64

Version: 2020.5.13
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘jointseg’
Flavor: r-release-macos-arm64

Package plotHMM

Current CRAN status: OK: 13

Package WeightedROC

Current CRAN status: OK: 13