CRAN Package Check Results for Maintainer ‘Charlie Beirnaert <charlie_beirnaert at icloud.com>’

Last updated on 2024-05-02 00:59:19 CEST.

Package	ERROR	NOTE	OK
speaq	2	9	2

Package speaq

Current CRAN status: ERROR: 2, NOTE: 9, OK: 2

Version: 2.7.0
Check: Rd files
Result: NOTE checkRd: (-1) findRef.Rd:39: Lost braces 39 | Vu TN, Valkenborg D, Smets K, Verwaest KA, Dommisse R, Lemi\`{e}re F, Verschoren A, Goethals B, Laukens K. (2011) An integrated workflow for robust alignment and simplified quantitative analysis of NMR spectrometry data. BMC Bioinformatics. 2011 Oct 20;12:405. | ^ checkRd: (-1) hClustAlign.Rd:70: Lost braces 70 | Vu TN, Valkenborg D, Smets K, Verwaest KA, Dommisse R, Lemi\`{e}re F, Verschoren A, Goethals B, Laukens K. (2011) An integrated workflow for robust alignment and simplified quantitative analysis of NMR spectrometry data. BMC Bioinformatics. 2011 Oct 20;12:405. | ^ 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-windows-x86_64

Version: 2.7.0
Check: examples
Result: ERROR Running examples in ‘speaq-Ex.R’ failed The error most likely occurred in: > ### Name: BWR > ### Title: BW ratio calculation > ### Aliases: BWR > > ### ** Examples > > res=makeSimulatedData(); > X=res$data; > groupLabel=res$label; > peakList <- detectSpecPeaks(X, + nDivRange = c(128), + scales = seq(1, 16, 2), + baselineThresh = 50000, + SNR.Th = -1, + verbose=FALSE + ); > resFindRef<- findRef(peakList); > refInd <- resFindRef$refInd; > maxShift = 50; > Y <- dohCluster(X, + peakList = peakList, + refInd = refInd, + maxShift = maxShift, + acceptLostPeak = TRUE, verbose=FALSE); Warning in min(peakList) : no non-missing arguments to min; returning Inf Warning in max(peakList) : no non-missing arguments to max; returning -Inf Error in startP:(minpeakList - 1) : result would be too long a vector Calls: dohCluster -> .withMaxShift -> hClustAlign Execution halted Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Version: 2.7.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘classic_speaq_vignette.Rmd’ using rmarkdown Quitting from lines 111-120 (classic_speaq_vignette.Rmd) Error: processing vignette 'classic_speaq_vignette.Rmd' failed with diagnostics: result would be too long a vector --- failed re-building ‘classic_speaq_vignette.Rmd’ --- re-building ‘speaq2_illustrations.Rmd’ using rmarkdown Quitting from lines 71-83 (speaq2_illustrations.Rmd) Error: processing vignette 'speaq2_illustrations.Rmd' failed with diagnostics: invalid 'times' argument --- failed re-building ‘speaq2_illustrations.Rmd’ SUMMARY: processing the following files failed: ‘classic_speaq_vignette.Rmd’ ‘speaq2_illustrations.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-oldrel-macos-arm64

Version: 2.7.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘classic_speaq_vignette.Rmd’ using rmarkdown Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed. 2023-07-10 23:48:34.091 R[19637:2290508776] XType: Using static font registry. Quitting from lines 111-120 [Spectral_alignment] (classic_speaq_vignette.Rmd) Error: processing vignette 'classic_speaq_vignette.Rmd' failed with diagnostics: result would be too long a vector --- failed re-building ‘classic_speaq_vignette.Rmd’ --- re-building ‘speaq2_illustrations.Rmd’ using rmarkdown Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed. 2023-07-10 23:48:40.223 R[20964:2290511430] XType: Using static font registry. Quitting from lines 71-83 [detect winepeaks] (speaq2_illustrations.Rmd) Error: processing vignette 'speaq2_illustrations.Rmd' failed with diagnostics: invalid 'times' argument --- failed re-building ‘speaq2_illustrations.Rmd’ SUMMARY: processing the following files failed: ‘classic_speaq_vignette.Rmd’ ‘speaq2_illustrations.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-oldrel-macos-x86_64