Last updated on 2020-08-07 01:49:52 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.2 | 2.05 | 318.85 | 320.90 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 1.0.2 | 1.64 | 198.32 | 199.96 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.0.2 | 382.88 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0.2 | 369.34 | NOTE | |||
| r-devel-windows-ix86+x86_64 | 1.0.2 | 8.00 | 39.00 | 47.00 | NOTE | --no-vignettes |
| r-patched-linux-x86_64 | 1.0.2 | 2.12 | 304.21 | 306.33 | NOTE | |
| r-patched-solaris-x86 | 1.0.2 | 739.50 | NOTE | --no-build-vignettes | ||
| r-release-linux-x86_64 | 1.0.2 | 2.05 | 295.61 | 297.66 | NOTE | |
| r-release-macos-x86_64 | 1.0.2 | WARN | ||||
| r-release-windows-ix86+x86_64 | 1.0.2 | 11.00 | 49.00 | 60.00 | NOTE | --no-vignettes |
| r-oldrel-macos-x86_64 | 1.0.2 | WARN | ||||
| r-oldrel-windows-ix86+x86_64 | 1.0.2 | 4.00 | 46.00 | 50.00 | NOTE | --no-vignettes |
Version: 1.0.2
Check: R code for possible problems
Result: NOTE
fishercomb: no visible global function definition for 'pchisq'
fishercomb: no visible global function definition for 'p.adjust'
invnorm : <anonymous>: no visible global function definition for
'qnorm'
invnorm: no visible global function definition for 'pnorm'
invnorm: no visible global function definition for 'p.adjust'
sim.function : <anonymous>: no visible global function definition for
'rnorm'
sim.function : <anonymous>: no visible global function definition for
'rnbinom'
Undefined global functions or variables:
p.adjust pchisq pnorm qnorm rnbinom rnorm
Consider adding
importFrom("stats", "p.adjust", "pchisq", "pnorm", "qnorm", "rnbinom",
"rnorm")
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-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-x86_64, r-oldrel-macos-x86_64
Version: 1.0.2
Flags: --no-vignettes
Check: R code for possible problems
Result: NOTE
fishercomb: no visible global function definition for 'pchisq'
fishercomb: no visible global function definition for 'p.adjust'
invnorm : <anonymous>: no visible global function definition for
'qnorm'
invnorm: no visible global function definition for 'pnorm'
invnorm: no visible global function definition for 'p.adjust'
sim.function : <anonymous>: no visible global function definition for
'rnorm'
sim.function : <anonymous>: no visible global function definition for
'rnbinom'
Undefined global functions or variables:
p.adjust pchisq pnorm qnorm rnbinom rnorm
Consider adding
importFrom("stats", "p.adjust", "pchisq", "pnorm", "qnorm", "rnbinom",
"rnorm")
to your NAMESPACE file.
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0.2
Flags: --no-build-vignettes
Check: R code for possible problems
Result: NOTE
fishercomb: no visible global function definition for ‘pchisq’
fishercomb: no visible global function definition for ‘p.adjust’
invnorm : <anonymous>: no visible global function definition for
‘qnorm’
invnorm: no visible global function definition for ‘pnorm’
invnorm: no visible global function definition for ‘p.adjust’
sim.function : <anonymous>: no visible global function definition for
‘rnorm’
sim.function : <anonymous>: no visible global function definition for
‘rnbinom’
Undefined global functions or variables:
p.adjust pchisq pnorm qnorm rnbinom rnorm
Consider adding
importFrom("stats", "p.adjust", "pchisq", "pnorm", "qnorm", "rnbinom",
"rnorm")
to your NAMESPACE file.
Flavor: r-patched-solaris-x86
Version: 1.0.2
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘HTSFilter’
Flavor: r-release-macos-x86_64
Version: 1.0.2
Check: running R code from vignettes
Result: WARN
Errors in running code in vignettes:
when running code in ‘metaRNASeq.Rnw’
...
estimateSizeFactorsForMatrix,
getVarianceStabilizedData,
varianceStabilizingTransformation
> library(HTSFilter)
When sourcing ‘metaRNASeq.R’:
Error: there is no package called ‘HTSFilter’
Execution halted
‘metaRNASeq.Rnw’... failed
Flavor: r-release-macos-x86_64
Version: 1.0.2
Check: re-building of vignette outputs
Result: NOTE
Error(s) in re-building vignettes:
--- re-building ‘metaRNASeq.Rnw’ using Sweave
Loading required package: S4Vectors
Loading required package: stats4
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, colnames, dirname, do.call, duplicated,
eval, evalq, get, grep, grepl, intersect,
is.unsorted, lapply, mapply, match, mget, order,
paste, pmax, pmax.int, pmin, pmin.int, rank,
rbind, rownames, sapply, setdiff, sort, table,
tapply, union, unique, unsplit, which, which.max,
which.min
Attaching package: ‘S4Vectors’
The following object is masked from ‘package:base’:
expand.grid
Loading required package: IRanges
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
Loading required package: SummarizedExperiment
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view
with 'browseVignettes()'. To cite Bioconductor,
see 'citation("Biobase")', and for packages
'citation("pkgname")'.
Loading required package: DelayedArray
Loading required package: matrixStats
Attaching package: ‘matrixStats’
The following objects are masked from ‘package:Biobase’:
anyMissing, rowMedians
Attaching package: ‘DelayedArray’
The following objects are masked from ‘package:matrixStats’:
colMaxs, colMins, colRanges, rowMaxs, rowMins,
rowRanges
The following objects are masked from ‘package:base’:
aperm, apply, rowsum
converting counts to integer mode
estimating size factors
estimating dispersions
gene-wise dispersion estimates
mean-dispersion relationship
final dispersion estimates
fitting model and testing
converting counts to integer mode
estimating size factors
estimating dispersions
gene-wise dispersion estimates
mean-dispersion relationship
final dispersion estimates
fitting model and testing
Loading required package: locfit
locfit 1.5-9.4 2020-03-24
Loading required package: lattice
Welcome to 'DESeq'. For improved performance,
usability and functionality, please consider
migrating to 'DESeq2'.
Attaching package: ‘DESeq’
The following objects are masked from ‘package:DESeq2’:
estimateSizeFactorsForMatrix,
getVarianceStabilizedData,
varianceStabilizingTransformation
Error: processing vignette 'metaRNASeq.Rnw' failed with diagnostics:
chunk 9 (label = DESeq1study)
Error in library(HTSFilter) : there is no package called ‘HTSFilter’
--- failed re-building ‘metaRNASeq.Rnw’
SUMMARY: processing the following file failed:
‘metaRNASeq.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-macos-x86_64
Version: 1.0.2
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
'HTSFilter', 'DESeq', 'DESeq2'
Flavor: r-oldrel-macos-x86_64
Version: 1.0.2
Check: running R code from vignettes
Result: WARN
Errors in running code in vignettes:
when running code in ‘metaRNASeq.Rnw’
...
> options(width = 60)
> library(metaRNASeq)
> library(DESeq2)
When sourcing ‘metaRNASeq.R’:
Error: there is no package called ‘DESeq2’
Execution halted
Flavor: r-oldrel-macos-x86_64
Version: 1.0.2
Check: re-building of vignette outputs
Result: NOTE
Error(s) in re-building vignettes:
...
--- re-building ‘metaRNASeq.Rnw’ using Sweave
Error: processing vignette 'metaRNASeq.Rnw' failed with diagnostics:
chunk 2 (label = loadparameters)
Error in library(DESeq2) : there is no package called ‘DESeq2’
--- failed re-building ‘metaRNASeq.Rnw’
SUMMARY: processing the following file failed:
‘metaRNASeq.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-macos-x86_64