Last updated on 2025-04-04 18:53:32 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2.0.3 | 19.08 | 122.99 | 142.07 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 2.0.3 | 10.79 | 87.43 | 98.22 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 2.0.3 | 226.85 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 2.0.3 | 241.12 | NOTE | |||
| r-devel-macos-arm64 | 2.0.3 | 91.00 | NOTE | |||
| r-devel-macos-x86_64 | 2.0.3 | 129.00 | NOTE | |||
| r-devel-windows-x86_64 | 2.0.3 | 17.00 | 131.00 | 148.00 | NOTE | |
| r-patched-linux-x86_64 | 2.0.3 | 14.92 | 118.22 | 133.14 | NOTE | |
| r-release-linux-x86_64 | 2.0.3 | 17.07 | 114.89 | 131.96 | NOTE | |
| r-release-macos-arm64 | 2.0.3 | 66.00 | NOTE | |||
| r-release-macos-x86_64 | 2.0.3 | 98.00 | NOTE | |||
| r-release-windows-x86_64 | 2.0.3 | 17.00 | 130.00 | 147.00 | NOTE | |
| r-oldrel-macos-arm64 | 2.0.3 | NOTE | ||||
| r-oldrel-macos-x86_64 | 2.0.3 | 113.00 | NOTE | |||
| r-oldrel-windows-x86_64 | 2.0.3 | 22.00 | 159.00 | 181.00 | NOTE |
Version: 2.0.3
Check: Rd files
Result: NOTE
checkRd: (-1) mPhen.defineOptions.Rd:4: Escaped LaTeX specials: \$
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-macos-arm64, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64
Version: 2.0.3
Check: re-building of vignette outputs
Result: NOTE
Error(s) in re-building vignettes:
--- re-building ‘MultiPhen.Rnw’ using Sweave
Loading required package: MASS
Loading required package: abind
Loading required package: epitools
Loading required package: meta
Loading 'meta' package (version 6.2-1).
Type 'help(meta)' for a brief overview.
Readers of 'Meta-Analysis with R (Use R!)' should install
older version of 'meta' package: https://tinyurl.com/dt4y5drs
Warning in betasg/normg :
Recycling array of length 1 in vector-array arithmetic is deprecated.
Use c() or as.vector() instead.
Warning in betasg/normg :
Recycling array of length 1 in vector-array arithmetic is deprecated.
Use c() or as.vector() instead.
Warning in betasg/normg :
Recycling array of length 1 in vector-array arithmetic is deprecated.
Use c() or as.vector() instead.
Warning in plot.window(...) : "na.color" is not a graphical parameter
Warning in plot.window(...) : "dendrogram" is not a graphical parameter
Warning in plot.window(...) :
"density.info" is not a graphical parameter
Warning in plot.window(...) : "trace" is not a graphical parameter
Warning in plot.window(...) : "key" is not a graphical parameter
Warning in plot.window(...) : "symbreaks" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"na.color" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"dendrogram" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"density.info" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"trace" is not a graphical parameter
Warning in plot.xy(xy, type, ...) : "key" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"symbreaks" is not a graphical parameter
Warning in title(...) : "na.color" is not a graphical parameter
Warning in title(...) : "dendrogram" is not a graphical parameter
Warning in title(...) : "density.info" is not a graphical parameter
Warning in title(...) : "trace" is not a graphical parameter
Warning in title(...) : "key" is not a graphical parameter
Warning in title(...) : "symbreaks" is not a graphical parameter
Warning in plot.window(...) : "na.color" is not a graphical parameter
Warning in plot.window(...) : "dendrogram" is not a graphical parameter
Warning in plot.window(...) :
"density.info" is not a graphical parameter
Warning in plot.window(...) : "trace" is not a graphical parameter
Warning in plot.window(...) : "key" is not a graphical parameter
Warning in plot.window(...) : "symbreaks" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"na.color" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"dendrogram" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"density.info" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"trace" is not a graphical parameter
Warning in plot.xy(xy, type, ...) : "key" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"symbreaks" is not a graphical parameter
Warning in title(...) : "na.color" is not a graphical parameter
Warning in title(...) : "dendrogram" is not a graphical parameter
Warning in title(...) : "density.info" is not a graphical parameter
Warning in title(...) : "trace" is not a graphical parameter
Warning in title(...) : "key" is not a graphical parameter
Warning in title(...) : "symbreaks" is not a graphical parameter
Warning in .heatm(outC$beta, effPhe, logfun1, opts, TRUE, filek) :
unable to make heatmap resultsDir/resultsJoint.heatm.pdf all all beta
Warning in max(abs(as.vector(res[, snpinds, , 1]))[pvs < 0.05], na.rm = T) :
no non-missing arguments to max; returning -Inf
Warning in plot.window(...) : "na.color" is not a graphical parameter
Warning in plot.window(...) : "dendrogram" is not a graphical parameter
Warning in plot.window(...) :
"density.info" is not a graphical parameter
Warning in plot.window(...) : "trace" is not a graphical parameter
Warning in plot.window(...) : "key" is not a graphical parameter
Warning in plot.window(...) : "symbreaks" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"na.color" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"dendrogram" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"density.info" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"trace" is not a graphical parameter
Warning in plot.xy(xy, type, ...) : "key" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"symbreaks" is not a graphical parameter
Warning in title(...) : "na.color" is not a graphical parameter
Warning in title(...) : "dendrogram" is not a graphical parameter
Warning in title(...) : "density.info" is not a graphical parameter
Warning in title(...) : "trace" is not a graphical parameter
Warning in title(...) : "key" is not a graphical parameter
Warning in title(...) : "symbreaks" is not a graphical parameter
Warning in plot.window(...) : "na.color" is not a graphical parameter
Warning in plot.window(...) : "dendrogram" is not a graphical parameter
Warning in plot.window(...) :
"density.info" is not a graphical parameter
Warning in plot.window(...) : "trace" is not a graphical parameter
Warning in plot.window(...) : "key" is not a graphical parameter
Warning in plot.window(...) : "symbreaks" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"na.color" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"dendrogram" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"density.info" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"trace" is not a graphical parameter
Warning in plot.xy(xy, type, ...) : "key" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"symbreaks" is not a graphical parameter
Warning in title(...) : "na.color" is not a graphical parameter
Warning in title(...) : "dendrogram" is not a graphical parameter
Warning in title(...) : "density.info" is not a graphical parameter
Warning in title(...) : "trace" is not a graphical parameter
Warning in title(...) : "key" is not a graphical parameter
Warning in title(...) : "symbreaks" is not a graphical parameter
Warning in .heatm(outC$beta, effPhe, logfun1, opts, TRUE, filek) :
unable to make heatmap resultsDir/resultsBackwardSelection.heatm.pdf all all beta
Warning in plot.window(...) : "na.color" is not a graphical parameter
Warning in plot.window(...) : "dendrogram" is not a graphical parameter
Warning in plot.window(...) :
"density.info" is not a graphical parameter
Warning in plot.window(...) : "trace" is not a graphical parameter
Warning in plot.window(...) : "key" is not a graphical parameter
Warning in plot.window(...) : "symbreaks" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"na.color" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"dendrogram" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"density.info" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"trace" is not a graphical parameter
Warning in plot.xy(xy, type, ...) : "key" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"symbreaks" is not a graphical parameter
Warning in title(...) : "na.color" is not a graphical parameter
Warning in title(...) : "dendrogram" is not a graphical parameter
Warning in title(...) : "density.info" is not a graphical parameter
Warning in title(...) : "trace" is not a graphical parameter
Warning in title(...) : "key" is not a graphical parameter
Warning in title(...) : "symbreaks" is not a graphical parameter
Warning in plot.window(...) : "na.color" is not a graphical parameter
Warning in plot.window(...) : "dendrogram" is not a graphical parameter
Warning in plot.window(...) :
"density.info" is not a graphical parameter
Warning in plot.window(...) : "trace" is not a graphical parameter
Warning in plot.window(...) : "key" is not a graphical parameter
Warning in plot.window(...) : "symbreaks" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"na.color" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"dendrogram" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"density.info" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"trace" is not a graphical parameter
Warning in plot.xy(xy, type, ...) : "key" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"symbreaks" is not a graphical parameter
Warning in title(...) : "na.color" is not a graphical parameter
Warning in title(...) : "dendrogram" is not a graphical parameter
Warning in title(...) : "density.info" is not a graphical parameter
Warning in title(...) : "trace" is not a graphical parameter
Warning in title(...) : "key" is not a graphical parameter
Warning in title(...) : "symbreaks" is not a graphical parameter
Warning in .manhattan(topl, logfun, beta1 = NULL, paste(opts$mPhen.title, :
NAs introduced by coercion
Warning in plot.window(...) : "na.color" is not a graphical parameter
Warning in plot.window(...) : "dendrogram" is not a graphical parameter
Warning in plot.window(...) :
"density.info" is not a graphical parameter
Warning in plot.window(...) : "trace" is not a graphical parameter
Warning in plot.window(...) : "key" is not a graphical parameter
Warning in plot.window(...) : "symbreaks" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"na.color" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"dendrogram" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"density.info" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"trace" is not a graphical parameter
Warning in plot.xy(xy, type, ...) : "key" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"symbreaks" is not a graphical parameter
Warning in title(...) : "na.color" is not a graphical parameter
Warning in title(...) : "dendrogram" is not a graphical parameter
Warning in title(...) : "density.info" is not a graphical parameter
Warning in title(...) : "trace" is not a graphical parameter
Warning in title(...) : "key" is not a graphical parameter
Warning in title(...) : "symbreaks" is not a graphical parameter
Warning in plot.window(...) : "na.color" is not a graphical parameter
Warning in plot.window(...) : "dendrogram" is not a graphical parameter
Warning in plot.window(...) :
"density.info" is not a graphical parameter
Warning in plot.window(...) : "trace" is not a graphical parameter
Warning in plot.window(...) : "key" is not a graphical parameter
Warning in plot.window(...) : "symbreaks" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"na.color" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"dendrogram" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"density.info" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"trace" is not a graphical parameter
Warning in plot.xy(xy, type, ...) : "key" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
"symbreaks" is not a graphical parameter
Warning in title(...) : "na.color" is not a graphical parameter
Warning in title(...) : "dendrogram" is not a graphical parameter
Warning in title(...) : "density.info" is not a graphical parameter
Warning in title(...) : "trace" is not a graphical parameter
Warning in title(...) : "key" is not a graphical parameter
Warning in title(...) : "symbreaks" is not a graphical parameter
Warning in betag/(betag %*% betag) :
Recycling array of length 1 in vector-array arithmetic is deprecated.
Use c() or as.vector() instead.
Error: processing vignette 'MultiPhen.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'MultiPhen.tex' failed.
LaTeX errors:
! LaTeX Error: File `underscore.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.12 \usepackage
{Sweave}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘MultiPhen.Rnw’
SUMMARY: processing the following file failed:
‘MultiPhen.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-macos-x86_64