CRAN Package Check Results for Maintainer ‘Henrik Bengtsson <henrikb at braju.com>’

Last updated on 2024-02-29 15:54:18 CET.

Package FAIL ERROR NOTE OK
ACNE 12
aroma.affymetrix 7 5
aroma.apd 2 10
aroma.cn 2 10
aroma.core 12
calmate 1 11
dChipIO 12
doFuture 12
future 12
future.apply 12
future.batchtools 12
future.callr 12
future.tests 12
globals 12
listenv 12
matrixStats 12
parallelly 12
port4me 12
profmem 12
progressr 12
PSCBS 12
R.cache 4 8
R.devices 12
R.filesets 1 11
R.huge 12
R.matlab 2 4 6
R.methodsS3 12
R.oo 12
R.rsp 12
R.utils 1 11
startup 12
TopDom 4 8

Package ACNE

Current CRAN status: OK: 12

Package aroma.affymetrix

Current CRAN status: NOTE: 7, OK: 5

Version: 3.2.2
Check: installed package size
Result: NOTE installed size is 5.9Mb sub-directories of 1Mb or more: R 2.3Mb help 1.2Mb testScripts 1.3Mb Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-windows-x86_64

Version: 3.2.2
Check: package dependencies
Result: NOTE Packages suggested but not available for checking: 'affxparser', 'oligo', 'oligoClasses', 'pdInfoBuilder', 'AffymetrixDataTestFiles' Flavors: r-release-macos-arm64, r-release-macos-x86_64

Version: 3.2.2
Check: Rd cross-references
Result: NOTE Packages unavailable to check Rd xrefs: ‘affxparser’, ‘oligo’, ‘oligoClasses’ Flavors: r-release-macos-arm64, r-release-macos-x86_64

Version: 3.2.2
Check: package dependencies
Result: NOTE Packages suggested but not available for checking: 'oligo', 'oligoClasses', 'pdInfoBuilder', 'AffymetrixDataTestFiles' Flavor: r-oldrel-macos-arm64

Version: 3.2.2
Check: Rd cross-references
Result: NOTE Packages unavailable to check Rd xrefs: ‘oligo’, ‘oligoClasses’ Flavor: r-oldrel-macos-arm64

Package aroma.apd

Current CRAN status: NOTE: 2, OK: 10

Version: 0.7.0
Check: package dependencies
Result: NOTE Package suggested but not available for checking: ‘affxparser’ Flavors: r-release-macos-arm64, r-release-macos-x86_64

Version: 0.7.0
Check: Rd cross-references
Result: NOTE Package unavailable to check Rd xrefs: ‘affxparser’ Flavors: r-release-macos-arm64, r-release-macos-x86_64

Package aroma.cn

Current CRAN status: NOTE: 2, OK: 10

Version: 1.7.1
Check: package dependencies
Result: NOTE Package suggested but not available for checking: ‘GLAD’ Flavors: r-release-macos-arm64, r-release-macos-x86_64

Package aroma.core

Current CRAN status: NOTE: 12

Version: 3.3.1
Check: package dependencies
Result: NOTE Packages suggested but not available for checking: 'sfit', 'expectile', 'HaarSeg', 'mpcbs' 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-patched-linux-x86_64, r-release-linux-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-windows-x86_64

Version: 3.3.0
Check: package dependencies
Result: NOTE Packages suggested but not available for checking: 'sfit', 'expectile', 'HaarSeg', 'mpcbs' Flavor: r-devel-windows-x86_64

Version: 3.3.0
Check: Rd \usage sections
Result: NOTE Documented arguments not in \usage in Rd file 'fit.CopyNumberSegmentationModel.Rd': 'chromosome' Documented arguments not in \usage in Rd file 'getPath.Explorer.Rd': 'create' Documented arguments not in \usage in Rd file 'process.AromaTransform.Rd': 'force' 'verbose' Documented arguments not in \usage in Rd file 'process.ChromosomeExplorer.Rd': 'chromosome' Documented arguments not in \usage in Rd file 'process.Explorer.Rd': 'arrays' 'verbose' Documented arguments not in \usage in Rd file 'setArrays.Explorer.Rd': 'arrays' Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter 'Writing R documentation files' in the 'Writing R Extensions' manual. Flavor: r-devel-windows-x86_64

Version: 3.3.1
Check: package dependencies
Result: NOTE Packages suggested but not available for checking: 'GLAD', 'sfit', 'expectile', 'HaarSeg', 'mpcbs' Flavors: r-release-macos-arm64, r-release-macos-x86_64

Version: 3.3.1
Check: Rd cross-references
Result: NOTE Package unavailable to check Rd xrefs: ‘GLAD’ Flavors: r-release-macos-arm64, r-release-macos-x86_64

Package calmate

Current CRAN status: ERROR: 1, OK: 11

Version: 0.13.0
Check: package dependencies
Result: ERROR Package required but not available: ‘aroma.core’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. Flavor: r-release-macos-arm64

Package dChipIO

Current CRAN status: OK: 12

Package doFuture

Current CRAN status: OK: 12

Package future

Current CRAN status: OK: 12

Package future.apply

Current CRAN status: OK: 12

Package future.batchtools

Current CRAN status: OK: 12

Package future.callr

Current CRAN status: OK: 12

Package future.tests

Current CRAN status: OK: 12

Package globals

Current CRAN status: OK: 12

Package listenv

Current CRAN status: OK: 12

Package matrixStats

Current CRAN status: OK: 12

Package parallelly

Current CRAN status: OK: 12

Package port4me

Current CRAN status: OK: 12

Package profmem

Current CRAN status: OK: 12

Package progressr

Current CRAN status: OK: 12

Package PSCBS

Current CRAN status: OK: 12

Package R.cache

Current CRAN status: NOTE: 4, OK: 8

Version: 0.16.0
Check: Rd files
Result: NOTE checkRd: (-1) R.cache-package.Rd:28-30: Lost braces in \itemize; meant \describe ? checkRd: (-1) R.cache-package.Rd:31-34: Lost braces in \itemize; meant \describe ? 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

Package R.devices

Current CRAN status: OK: 12

Package R.filesets

Current CRAN status: FAIL: 1, OK: 11

Version: 2.15.1
Check: HTML version of manual
Result: FAIL Check process probably crashed or hung up for 20 minutes ... killed Most likely this happened in the example checks (?), if not, ignore the following last lines of example output: 39 8 1 g 40 1 2 j 41 1 1 r 42 4 3 t 43 2 7 g 44 1 6 s 45 6 10 f 46 6 2 a 47 2 4 e 48 7 24 c 49 8 1 g 50 1 2 j > > > > ### * <FOOTER> > ### > cleanEx() > options(digits = 7L) > base::cat("Time elapsed: ", proc.time() - base::get("ptime", pos = 'CheckExEnv'),"\n") Time elapsed: 8.64 0.42 9.28 NA NA > grDevices::dev.off() null device 1 > ### > ### Local variables: *** > ### mode: outline-minor *** > ### outline-regexp: "\\(> \\)?### [*]+" *** > ### End: *** > quit('no') ======== End of example output (where/before crash/hang up occured ?) ======== Flavor: r-oldrel-windows-x86_64

Package R.huge

Current CRAN status: OK: 12

Package R.matlab

Current CRAN status: FAIL: 2, NOTE: 4, OK: 6

Version: 3.7.0
Check: Rd files
Result: NOTE checkRd: (-1) setOption.Matlab.Rd:37-39: Lost braces in \itemize; meant \describe ? checkRd: (-1) setOption.Matlab.Rd:40-41: Lost braces in \itemize; meant \describe ? 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

Version: 3.7.0
Check: tests
Result: FAIL Check process probably crashed or hung up for 20 minutes ... killed Most likely this happened in the example checks (?), if not, ignore the following last lines of example output: + }) ERROR: Detected objects with duplicated names (A). Only the last occurance of each duplicated object will be available in MATLAB if completed: writeMat.default(filename, A = A, B = B, A = C) > > > ## Not run: > ##D # When writing to a stream connection the receiver needs to know on > ##D # beforehand how many bytes are available. This can be done by using > ##D # the 'onWrite' argument. > ##D onWrite <- function(x) > ##D writeBin(x$length, con = x$con, size = 4, endian = "little") > ##D writeMat(con, A = A, B = B, onWrite = onWrite) > ## End(Not run) > > > > ### * <FOOTER> > ### > cleanEx() > options(digits = 7L) > base::cat("Time elapsed: ", proc.time() - base::get("ptime", pos = 'CheckExEnv'),"\n") Time elapsed: 138.5 486.12 628.22 NA NA > grDevices::dev.off() null device 1 > ### > ### Local variables: *** > ### mode: outline-minor *** > ### outline-regexp: "\\(> \\)?### [*]+" *** > ### End: *** > quit('no') ======== End of example output (where/before crash/hang up occured ?) ======== Flavor: r-release-windows-x86_64

Version: 3.7.0
Check: tests
Result: FAIL Check process probably crashed or hung up for 20 minutes ... killed Most likely this happened in the example checks (?), if not, ignore the following last lines of example output: + }) ERROR: Detected objects with duplicated names (A). Only the last occurance of each duplicated object will be available in MATLAB if completed: writeMat.default(filename, A = A, B = B, A = C) > > > ## Not run: > ##D # When writing to a stream connection the receiver needs to know on > ##D # beforehand how many bytes are available. This can be done by using > ##D # the 'onWrite' argument. > ##D onWrite <- function(x) > ##D writeBin(x$length, con = x$con, size = 4, endian = "little") > ##D writeMat(con, A = A, B = B, onWrite = onWrite) > ## End(Not run) > > > > ### * <FOOTER> > ### > cleanEx() > options(digits = 7L) > base::cat("Time elapsed: ", proc.time() - base::get("ptime", pos = 'CheckExEnv'),"\n") Time elapsed: 176.03 535.89 714.65 NA NA > grDevices::dev.off() null device 1 > ### > ### Local variables: *** > ### mode: outline-minor *** > ### outline-regexp: "\\(> \\)?### [*]+" *** > ### End: *** > quit('no') ======== End of example output (where/before crash/hang up occured ?) ======== Flavor: r-oldrel-windows-x86_64

Package R.methodsS3

Current CRAN status: OK: 12

Package R.oo

Current CRAN status: OK: 12

Package R.rsp

Current CRAN status: OK: 12

Package R.utils

Current CRAN status: FAIL: 1, OK: 11

Version: 2.12.3
Check: tests
Result: FAIL Check process probably crashed or hung up for 20 minutes ... killed Most likely this happened in the example checks (?), if not, ignore the following last lines of example output: > nameEx("writeBinFragments") > ### * writeBinFragments > > flush(stderr()); flush(stdout()) > > ### Name: writeBinFragments > ### Title: Writes binary data to disjoint sections of a connection or a > ### file > ### Aliases: writeBinFragments.default writeBinFragments > ### Keywords: IO > > ### ** Examples > ## Not run: # See example(readBinFragments.connection) > > > ### * <FOOTER> > ### > cleanEx() > options(digits = 7L) > base::cat("Time elapsed: ", proc.time() - base::get("ptime", pos = 'CheckExEnv'),"\n") Time elapsed: 278.07 694.28 982.5 NA NA > grDevices::dev.off() null device 1 > ### > ### Local variables: *** > ### mode: outline-minor *** > ### outline-regexp: "\\(> \\)?### [*]+" *** > ### End: *** > quit('no') ======== End of example output (where/before crash/hang up occured ?) ======== Flavor: r-oldrel-windows-x86_64

Package startup

Current CRAN status: OK: 12

Package TopDom

Current CRAN status: NOTE: 4, OK: 8

Version: 0.10.1
Check: Rd files
Result: NOTE checkRd: (-1) TopDom.Rd:21: Lost braces; missing escapes or markup? 21 | Recommended range is in {5, ..., 20}.} | ^ 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