Last updated on 2020-10-11 15:49:01 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0-1 | 4.14 | 52.07 | 56.21 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 1.0-1 | 3.34 | 39.05 | 42.39 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.0-1 | 79.40 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0-1 | 69.98 | NOTE | |||
| r-devel-windows-ix86+x86_64 | 1.0-1 | 9.00 | 83.00 | 92.00 | NOTE | |
| r-patched-linux-x86_64 | 1.0-1 | 3.53 | 60.53 | 64.06 | NOTE | |
| r-patched-solaris-x86 | 1.0-1 | 119.10 | NOTE | |||
| r-release-linux-x86_64 | 1.0-1 | 3.98 | 61.82 | 65.80 | NOTE | |
| r-release-macos-x86_64 | 1.0-1 | NOTE | ||||
| r-release-windows-ix86+x86_64 | 1.0-1 | 8.00 | 99.00 | 107.00 | NOTE | |
| r-oldrel-macos-x86_64 | 1.0-1 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 1.0-1 | 7.00 | 93.00 | 100.00 | NOTE |
Version: 1.0-1
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: 'DESeq'
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: 1.0-1
Check: DESCRIPTION meta-information
Result: NOTE
Malformed Description field: should contain one or more complete sentences.
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-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0-1
Check: dependencies in R code
Result: NOTE
'library' or 'require' calls in package code:
'DESeq' 'seqinr' 'topGO'
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
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-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0-1
Check: R code for possible problems
Result: NOTE
DESeqWrapper: no visible global function definition for
'newCountDataSet'
DESeqWrapper: no visible global function definition for
'estimateSizeFactors'
DESeqWrapper: no visible global function definition for 'counts'
DESeqWrapper: no visible global function definition for 'write.table'
DESeqWrapper: no visible global function definition for
'estimateDispersions'
DESeqWrapper: no visible global function definition for 'nbinomTest'
DESeqWrapper: no visible global function definition for 'pdf'
DESeqWrapper: no visible global function definition for 'hist'
DESeqWrapper: no visible global function definition for
'getVarianceStabilizedData'
DESeqWrapper: no visible global function definition for
'colorRampPalette'
DESeqWrapper: no visible global function definition for 'legend'
DESeqWrapper: no visible global function definition for 'dist'
DESeqWrapper: no visible global function definition for 'heatmap'
DESeqWrapper: no visible global function definition for 'pData'
DESeqWrapper: no visible global function definition for 'dev.off'
heatmap.mark: no visible binding for global variable 'dist'
heatmap.mark: no visible binding for global variable 'hclust'
heatmap.mark: no visible global function definition for 'par'
heatmap.mark: no visible global function definition for 'median'
heatmap.mark: no visible global function definition for
'colorRampPalette'
heatmap.mark: no visible global function definition for
'order.dendrogram'
heatmap.mark: no visible global function definition for 'as.dendrogram'
heatmap.mark: no visible global function definition for 'reorder'
heatmap.mark: no visible binding for global variable 'sd'
heatmap.mark: no visible global function definition for 'layout'
heatmap.mark: no visible global function definition for 'image'
heatmap.mark: no visible global function definition for 'axis'
heatmap.mark: no visible global function definition for 'text'
heatmap.mark: no visible global function definition for 'strheight'
heatmap.mark: no visible global function definition for 'strwidth'
heatmap.mark: no visible global function definition for 'mtext'
heatmap.mark: no visible global function definition for 'rect'
heatmap.mark: no visible global function definition for 'abline'
heatmap.mark: no visible global function definition for 'lines'
heatmap.mark: no visible global function definition for 'plot.new'
heatmap.mark: no visible global function definition for 'title'
heatmap.mark: no visible global function definition for 'density'
heatmap.mark: no visible global function definition for 'hist'
kaksFromVariants : <anonymous>: no visible global function definition
for 'as.alignment'
kaksFromVariants : <anonymous>: no visible global function definition
for 'kaks'
mergeCountFiles: no visible global function definition for 'read.table'
nSynNonSites : <anonymous>: no visible global function definition for
'as.alignment'
nSynNonSites : <anonymous>: no visible global function definition for
'kaks'
parseVarScan: no visible global function definition for 'read.table'
plotDispEsts: no visible global function definition for 'counts'
plotDispEsts: no visible global function definition for 'fitInfo'
plotDispEsts: no visible global function definition for 'lines'
readVariantFiles: no visible global function definition for
'read.table'
runGOAnalysis: no visible global function definition for 'new'
runGOAnalysis: no visible binding for global variable 'annFUN.gene2GO'
runGOAnalysis: no visible global function definition for 'runTest'
runGOAnalysis: no visible global function definition for 'score'
runGOAnalysis: no visible global function definition for 'termStat'
runGOAnalysis: no visible global function definition for 'Term'
runGOAnalysis: no visible binding for global variable 'GOTERM'
runGOAnalysis: no visible global function definition for
'showSigOfNodes'
Undefined global functions or variables:
GOTERM Term abline annFUN.gene2GO as.alignment as.dendrogram axis
colorRampPalette counts density dev.off dist estimateDispersions
estimateSizeFactors fitInfo getVarianceStabilizedData hclust heatmap
hist image kaks layout legend lines median mtext nbinomTest new
newCountDataSet order.dendrogram pData par pdf plot.new read.table
rect reorder runTest score sd showSigOfNodes strheight strwidth
termStat text title write.table
Consider adding
importFrom("grDevices", "colorRampPalette", "dev.off", "pdf")
importFrom("graphics", "abline", "axis", "hist", "image", "layout",
"legend", "lines", "mtext", "par", "plot.new", "rect",
"strheight", "strwidth", "text", "title")
importFrom("methods", "new")
importFrom("stats", "as.dendrogram", "density", "dist", "hclust",
"heatmap", "median", "order.dendrogram", "reorder", "sd")
importFrom("utils", "read.table", "write.table")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
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-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64
Version: 1.0-1
Check: Rd cross-references
Result: NOTE
Unknown package 'DESeq' in Rd xrefs
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: 1.0-1
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking: 'topGO', 'DESeq'
Flavor: r-oldrel-macos-x86_64
Version: 1.0-1
Check: R code for possible problems
Result: NOTE
DESeqWrapper: no visible global function definition for
‘newCountDataSet’
DESeqWrapper: no visible global function definition for
‘estimateSizeFactors’
DESeqWrapper: no visible global function definition for ‘counts’
DESeqWrapper: no visible global function definition for ‘write.table’
DESeqWrapper: no visible global function definition for
‘estimateDispersions’
DESeqWrapper: no visible global function definition for ‘nbinomTest’
DESeqWrapper: no visible global function definition for ‘pdf’
DESeqWrapper: no visible global function definition for ‘hist’
DESeqWrapper: no visible global function definition for
‘getVarianceStabilizedData’
DESeqWrapper: no visible global function definition for
‘colorRampPalette’
DESeqWrapper: no visible global function definition for ‘legend’
DESeqWrapper: no visible global function definition for ‘dist’
DESeqWrapper: no visible global function definition for ‘heatmap’
DESeqWrapper: no visible global function definition for ‘pData’
DESeqWrapper: no visible global function definition for ‘dev.off’
heatmap.mark: no visible binding for global variable ‘dist’
heatmap.mark: no visible binding for global variable ‘hclust’
heatmap.mark: no visible global function definition for ‘par’
heatmap.mark: no visible global function definition for ‘median’
heatmap.mark: no visible global function definition for
‘colorRampPalette’
heatmap.mark: no visible global function definition for
‘order.dendrogram’
heatmap.mark: no visible global function definition for ‘as.dendrogram’
heatmap.mark: no visible global function definition for ‘reorder’
heatmap.mark: no visible binding for global variable ‘sd’
heatmap.mark: no visible global function definition for ‘layout’
heatmap.mark: no visible global function definition for ‘image’
heatmap.mark: no visible global function definition for ‘axis’
heatmap.mark: no visible global function definition for ‘text’
heatmap.mark: no visible global function definition for ‘strheight’
heatmap.mark: no visible global function definition for ‘strwidth’
heatmap.mark: no visible global function definition for ‘mtext’
heatmap.mark: no visible global function definition for ‘rect’
heatmap.mark: no visible global function definition for ‘abline’
heatmap.mark: no visible global function definition for ‘lines’
heatmap.mark: no visible global function definition for ‘plot’
heatmap.mark: no visible global function definition for ‘plot.new’
heatmap.mark: no visible global function definition for ‘title’
heatmap.mark: no visible global function definition for ‘density’
heatmap.mark: no visible global function definition for ‘hist’
kaksFromVariants : <anonymous>: no visible global function definition
for ‘as.alignment’
kaksFromVariants : <anonymous>: no visible global function definition
for ‘kaks’
mergeCountFiles: no visible global function definition for ‘read.table’
nSynNonSites : <anonymous>: no visible global function definition for
‘as.alignment’
nSynNonSites : <anonymous>: no visible global function definition for
‘kaks’
parseVarScan: no visible global function definition for ‘read.table’
plotDE: no visible global function definition for ‘plot’
plotDispEsts: no visible global function definition for ‘plot’
plotDispEsts: no visible global function definition for ‘counts’
plotDispEsts: no visible global function definition for ‘fitInfo’
plotDispEsts: no visible global function definition for ‘lines’
readVariantFiles: no visible global function definition for
‘read.table’
runGOAnalysis: no visible global function definition for ‘new’
runGOAnalysis: no visible binding for global variable ‘annFUN.gene2GO’
runGOAnalysis: no visible global function definition for ‘runTest’
runGOAnalysis: no visible global function definition for ‘score’
runGOAnalysis: no visible global function definition for ‘termStat’
runGOAnalysis: no visible global function definition for ‘Term’
runGOAnalysis: no visible binding for global variable ‘GOTERM’
runGOAnalysis: no visible global function definition for
‘showSigOfNodes’
Undefined global functions or variables:
GOTERM Term abline annFUN.gene2GO as.alignment as.dendrogram axis
colorRampPalette counts density dev.off dist estimateDispersions
estimateSizeFactors fitInfo getVarianceStabilizedData hclust heatmap
hist image kaks layout legend lines median mtext nbinomTest new
newCountDataSet order.dendrogram pData par pdf plot plot.new
read.table rect reorder runTest score sd showSigOfNodes strheight
strwidth termStat text title write.table
Consider adding
importFrom("grDevices", "colorRampPalette", "dev.off", "pdf")
importFrom("graphics", "abline", "axis", "hist", "image", "layout",
"legend", "lines", "mtext", "par", "plot", "plot.new",
"rect", "strheight", "strwidth", "text", "title")
importFrom("methods", "new")
importFrom("stats", "as.dendrogram", "density", "dist", "hclust",
"heatmap", "median", "order.dendrogram", "reorder", "sd")
importFrom("utils", "read.table", "write.table")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
Flavors: r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0-1
Check: Rd cross-references
Result: NOTE
Packages unavailable to check Rd xrefs: ‘DESeq’, ‘topGO’
Flavor: r-oldrel-macos-x86_64