BioNet 1.46.0
Marcus Dittrich
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/BioNet |
| Branch: RELEASE_3_10 |
| Last Commit: b438d2c |
| Last Changed Date: 2019-10-29 13:08:17 -0400 (Tue, 29 Oct 2019) |
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | |  |
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | [ ERROR ] | skipped | skipped | |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data BioNet
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* checking for file ‘BioNet/DESCRIPTION’ ... OK
* preparing ‘BioNet’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘Tutorial.Rnw’ using Sweave
Loading required package: graph
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
Loading required package: RBGL
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: hgu95av2.db
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: org.Hs.eg.db
Attaching package: ‘limma’
The following object is masked from ‘package:BiocGenerics’:
plotMA
dev.new(): using pdf(file="Rplots1.pdf")
Error: processing vignette 'Tutorial.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'Tutorial.tex' failed.
LaTeX errors:
! Undefined control sequence.
\UseRawInputEncoding ...tencodingname \@undefined
\let \DeclareFontEncoding@...
l.85 ... the scoring function \citep{Dittrich2008}
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\let
l.85 ... the scoring function \citep{Dittrich2008}
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\let
l.85 ... the scoring function \citep{Dittrich2008}
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! Missing \endcsname inserted.
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\let
l.85 ... the scoring function \citep{Dittrich2008}
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! Undefined control sequence.
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l.85 ... the scoring function \citep{Dittrich2008}
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! Undefined control sequence.
\UseRawInputEncoding ...tencodingname \@undefined
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l.85 ... the scoring function \citep{Dittrich2008}
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! Missing \endcsname inserted.
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\let
l.85 ... the scoring function \citep{Dittrich2008}
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! Missing \endcsname inserted.
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\let
l.85 ... the scoring function \citep{Dittrich2008}
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! Missing \endcsname inserted.
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\let
l.85 ... the scoring function \citep{Dittrich2008}
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! Undefined control sequence.
<argument> \@undefined
l.85 ... the scoring function \citep{Dittrich2008}
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! Undefined control sequence.
\UseRawInputEncoding ...tencodingname \@undefined
\let \DeclareFontEncoding@...
l.95 ...the \heinz algorithm \citep{Dittrich2008}
requiring a commercial CP...
! Missing \endcsname inserted.
<to be read again>
\let
l.95 ...the \heinz algorithm \citep{Dittrich2008}
requiring a commercial CP...
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\let
l.95 ...the \heinz algorithm \citep{Dittrich2008}
requiring a commercial CP...
! Missing \endcsname inserted.
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\let
l.95 ...the \heinz algorithm \citep{Dittrich2008}
requiring a commercial CP...
! Undefined control sequence.
<argument> \@undefined
l.95 ...the \heinz algorithm \citep{Dittrich2008}
requiring a commercial CP...
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\UseRawInputEncoding ...tencodingname \@undefined
\let \DeclareFontEncoding@...
l.95 ...the \heinz algorithm \citep{Dittrich2008}
requiring a commercial CP...
! Missing \endcsname inserted.
<to be read again>
\let
l.95 ...the \heinz algorithm \citep{Dittrich2008}
requiring a commercial CP...
! Missing \endcsname inserted.
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\let
l.95 ...the \heinz algorithm \citep{Dittrich2008}
requiring a commercial CP...
! Missing \endcsname inserted.
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\let
l.95 ...the \heinz algorithm \citep{Dittrich2008}
requiring a commercial CP...
! Undefined control sequence.
<argument> \@undefined
l.95 ...the \heinz algorithm \citep{Dittrich2008}
requiring a commercial CP...
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\UseRawInputEncoding ...tencodingname \@undefined
\let \DeclareFontEncoding@...
l.162 ...ata, for details see \citet{Dittrich2008}
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! Missing \endcsname inserted.
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l.162 ...ata, for details see \citet{Dittrich2008}
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l.162 ...ata, for details see \citet{Dittrich2008}
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l.162 ...ata, for details see \citet{Dittrich2008}
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l.162 ...ata, for details see \citet{Dittrich2008}
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\let \DeclareFontEncoding@...
l.162 ...ata, for details see \citet{Dittrich2008}
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! Missing \endcsname inserted.
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\let
l.162 ...ata, for details see \citet{Dittrich2008}
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! Missing \endcsname inserted.
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\let
l.162 ...ata, for details see \citet{Dittrich2008}
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! Missing \endcsname inserted.
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\let
l.162 ...ata, for details see \citet{Dittrich2008}
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<argument> \@undefined
l.162 ...ata, for details see \citet{Dittrich2008}
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\UseRawInputEncoding ...tencodingname \@undefined
\let \DeclareFontEncoding@...
l.178 ...l lymphomas (DLBCL) \citep{Rosenwald2002}
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! Missing \endcsname inserted.
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\let
l.178 ...l lymphomas (DLBCL) \citep{Rosenwald2002}
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! Missing \endcsname inserted.
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\let
l.178 ...l lymphomas (DLBCL) \citep{Rosenwald2002}
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\let
l.178 ...l lymphomas (DLBCL) \citep{Rosenwald2002}
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l.178 ...l lymphomas (DLBCL) \citep{Rosenwald2002}
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l.178 ...l lymphomas (DLBCL) \citep{Rosenwald2002}
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! Missing \endcsname inserted.
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\let
l.178 ...l lymphomas (DLBCL) \citep{Rosenwald2002}
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! Missing \endcsname inserted.
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\let
l.178 ...l lymphomas (DLBCL) \citep{Rosenwald2002}
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! Missing \endcsname inserted.
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\let
l.178 ...l lymphomas (DLBCL) \citep{Rosenwald2002}
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! Undefined control sequence.
<argument> \@undefined
l.178 ...l lymphomas (DLBCL) \citep{Rosenwald2002}
--- failed re-building ‘Tutorial.Rnw’
SUMMARY: processing the following file failed:
‘Tutorial.Rnw’
Error: Vignette re-building failed.
Execution halted