Last updated on 2018-07-17 01:46:51 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.6-6 | 3.25 | 88.30 | 91.55 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 0.6-6 | 2.73 | 78.07 | 80.80 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 0.6-6 | 131.47 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 0.6-6 | 120.64 | NOTE | |||
| r-devel-windows-ix86+x86_64 | 0.6-6 | 9.00 | 72.00 | 81.00 | WARN | |
| r-patched-linux-x86_64 | 0.6-6 | 3.40 | 98.00 | 101.40 | NOTE | |
| r-patched-solaris-x86 | 0.6-6 | 167.80 | NOTE | |||
| r-release-linux-x86_64 | 0.6-6 | 2.72 | 97.88 | 100.60 | NOTE | |
| r-release-windows-ix86+x86_64 | 0.6-6 | 7.00 | 104.00 | 111.00 | WARN | |
| r-release-osx-x86_64 | 0.6-6 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 0.6-6 | 5.00 | 94.00 | 99.00 | WARN | |
| r-oldrel-osx-x86_64 | 0.6-6 | NOTE |
Version: 0.6-6
Check: dependencies in R code
Result: NOTE
'library' or 'require' calls in package code:
‘Biobase’ ‘GO.db’ ‘annotate’ ‘kohonen’ ‘mclust’
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-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64
Version: 0.6-6
Check: R code for possible problems
Result: NOTE
BHI: no visible global function definition for ‘getGO’
BHI: no visible binding for global variable ‘dropECode’
BSI: no visible global function definition for ‘xtabs’
BSI: no visible global function definition for ‘getGO’
BSI: no visible binding for global variable ‘dropECode’
clValid: no visible global function definition for ‘as.dist’
clValid: no visible global function definition for ‘cor’
clValid: no visible global function definition for ‘dist’
connectivity: no visible global function definition for ‘dist’
dist.fn: no visible global function definition for ‘cor’
dunn: no visible global function definition for ‘dist’
mysilhouette: no visible global function definition for ‘dist’
plot.sota: no visible global function definition for ‘par’
plot.sota: no visible global function definition for ‘legend’
plot.sota: no visible global function definition for ‘lines’
stability: no visible global function definition for ‘xtabs’
stability: no visible global function definition for ‘dist’
vClusters: no visible global function definition for ‘hclust’
vClusters: no visible global function definition for ‘cutree’
vClusters: no visible global function definition for ‘kmeans’
vClusters: no visible global function definition for ‘Mclust’
vClusters: no visible global function definition for ‘som’
vClusters: no visible global function definition for ‘as.dist’
vClusters: no visible global function definition for ‘cor’
vClusters: no visible global function definition for ‘dist’
plot,clValid-missing: no visible global function definition for ‘par’
plot,clValid-missing: no visible global function definition for
‘dev.interactive’
plot,clValid-missing: no visible global function definition for
‘matplot’
plot,clValid-missing: no visible global function definition for ‘axis’
summary,clValid: no visible global function definition for ‘ftable’
Undefined global functions or variables:
Mclust as.dist axis cor cutree dev.interactive dist dropECode ftable
getGO hclust kmeans legend lines matplot par som xtabs
Consider adding
importFrom("grDevices", "dev.interactive")
importFrom("graphics", "axis", "legend", "lines", "matplot", "par")
importFrom("stats", "as.dist", "cor", "cutree", "dist", "ftable",
"hclust", "kmeans", "xtabs")
to your NAMESPACE file.
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-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64
Version: 0.6-6
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: 'moe430a.db'
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64
Version: 0.6-6
Check: re-building of vignette outputs
Result: WARN
Error in re-building vignettes:
...
Loading required package: cluster
Read 7 items
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, basename, cbind, colMeans, colSums, colnames,
dirname, do.call, duplicated, eval, evalq, get, grep, grepl,
intersect, is.unsorted, lapply, lengths, mapply, match, mget,
order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind,
rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply,
union, unique, unsplit, which, which.max, which.min
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: annotate
Loading required package: AnnotationDbi
Loading required package: stats4
Loading required package: IRanges
Loading required package: S4Vectors
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
Loading required package: XML
Attaching package: 'XML'
The following object is masked from 'package:tools':
toHTML
Loading required package: GO.db
Loading required package: moe430a.db
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
there is no package called 'moe430a.db'
Loading required package: RankAggreg
Warning in system(paste(shQuote(texi2dvi), if (quiet) "--quiet" else "", :
running command '"D:\compiler\texmf\miktex\bin\texify.exe" --quiet --pdf "clValid.tex" --max-iterations=20 -I "D:/RCompile/recent/R/share/texmf/tex/latex" -I "D:/RCompile/recent/R/share/texmf/bibtex/bst"' had status 1
Error: running 'texi2dvi' on 'clValid.tex' failed
LaTeX errors:
!pdfTeX error: pdflatex.EXE (file ./clValid-022.pdf): PDF inclusion: required p
age does not exist <0>
==> Fatal error occurred, no output PDF file produced!
Execution halted
Flavor: r-devel-windows-ix86+x86_64
Version: 0.6-6
Check: re-building of vignette outputs
Result: WARN
Error in re-building vignettes:
...
Loading required package: cluster
Read 7 items
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, basename, cbind, colMeans, colSums, colnames,
dirname, do.call, duplicated, eval, evalq, get, grep, grepl,
intersect, is.unsorted, lapply, lengths, mapply, match, mget,
order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind,
rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply,
union, unique, unsplit, which, which.max, which.min
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: annotate
Loading required package: AnnotationDbi
Loading required package: stats4
Loading required package: IRanges
Loading required package: S4Vectors
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
Loading required package: XML
Attaching package: 'XML'
The following object is masked from 'package:tools':
toHTML
Loading required package: GO.db
Loading required package: moe430a.db
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
there is no package called 'moe430a.db'
Loading required package: RankAggreg
Warning in system(paste(shQuote(texi2dvi), if (quiet) "--quiet" else "", :
running command '"D:\compiler\texmf\miktex\bin\texify.exe" --quiet --pdf "clValid.tex" --max-iterations=20 -I "D:/RCompile/recent/R-3.5.1/share/texmf/tex/latex" -I "D:/RCompile/recent/R-3.5.1/share/texmf/bibtex/bst"' had status 1
Error: running 'texi2dvi' on 'clValid.tex' failed
LaTeX errors:
!pdfTeX error: pdflatex.EXE (file ./clValid-022.pdf): PDF inclusion: required p
age does not exist <0>
==> Fatal error occurred, no output PDF file produced!
Execution halted
Flavor: r-release-windows-ix86+x86_64
Version: 0.6-6
Check: re-building of vignette outputs
Result: NOTE
Error in re-building vignettes:
...
expand.grid
Loading required package: XML
Attaching package: ‘XML’
The following object is masked from ‘package:tools’:
toHTML
Loading required package: GO.db
Loading required package: moe430a.db
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
there is no package called ‘moe430a.db’
Loading required package: RankAggreg
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
Running 'texi2dvi' on 'clValid.tex' failed.
LaTeX errors:
!pdfTeX error: pdflatex (file ./clValid-022.pdf): PDF inclusion: required page
does not exist <0>
==> Fatal error occurred, no output PDF file produced!
Calls: buildVignettes -> texi2pdf -> texi2dvi
Execution halted
Flavor: r-release-osx-x86_64
Version: 0.6-6
Check: re-building of vignette outputs
Result: WARN
Error in re-building vignettes:
...
Loading required package: cluster
Read 7 items
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colMeans, colSums, colnames, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
setdiff, sort, table, tapply, union, unique, unsplit, which,
which.max, which.min
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: annotate
Loading required package: AnnotationDbi
Loading required package: stats4
Loading required package: IRanges
Loading required package: S4Vectors
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Loading required package: XML
Attaching package: 'XML'
The following object is masked from 'package:tools':
toHTML
Loading required package: GO.db
Loading required package: moe430a.db
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
there is no package called 'moe430a.db'
Loading required package: RankAggreg
Warning: running command '"D:\compiler\texmf\miktex\bin\texify.exe" --quiet --pdf "clValid.tex" --max-iterations=20 -I "D:/RCompile/recent/R-3.4.4/share/texmf/tex/latex" -I "D:/RCompile/recent/R-3.4.4/share/texmf/bibtex/bst"' had status 1
Error: running 'texi2dvi' on 'clValid.tex' failed
LaTeX errors:
!pdfTeX error: pdflatex.EXE (file ./clValid-022.pdf): PDF inclusion: required p
age does not exist <0>
==> Fatal error occurred, no output PDF file produced!
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64
Version: 0.6-6
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
‘Biobase’ ‘annotate’ ‘GO.db’ ‘moe430a.db’
Flavor: r-oldrel-osx-x86_64
Version: 0.6-6
Check: Rd cross-references
Result: NOTE
Package unavailable to check Rd xrefs: ‘Biobase’
Flavor: r-oldrel-osx-x86_64
Version: 0.6-6
Check: re-building of vignette outputs
Result: NOTE
Error in re-building vignettes:
...
Loading required package: cluster
Read 7 items
Loading required package: Biobase
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
there is no package called ‘Biobase’
Loading required package: RankAggreg
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
Running 'texi2dvi' on 'clValid.tex' failed.
LaTeX errors:
! LaTeX Error: File `relsize.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.29 \usepackage
[mathcal]{euscript}^^M
! ==> Fatal error occurred, no output PDF file produced!
Calls: buildVignettes -> texi2pdf -> texi2dvi
Execution halted
Flavor: r-oldrel-osx-x86_64