Last updated on 2019-10-13 10:47:09 CEST.
Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
---|---|---|---|---|---|---|
r-devel-linux-x86_64-debian-clang | 0.1.1 | 3.89 | 38.07 | 41.96 | ERROR | |
r-devel-linux-x86_64-debian-gcc | 0.1.1 | 2.86 | 29.94 | 32.80 | ERROR | |
r-devel-linux-x86_64-fedora-clang | 0.1.1 | 49.91 | ERROR | |||
r-devel-linux-x86_64-fedora-gcc | 0.1.1 | 51.98 | ERROR | |||
r-devel-windows-ix86+x86_64 | 0.1.1 | 8.00 | 47.00 | 55.00 | ERROR | |
r-patched-linux-x86_64 | 0.1.1 | 3.70 | 36.53 | 40.23 | ERROR | |
r-patched-solaris-x86 | 0.1.1 | 73.90 | ERROR | |||
r-release-linux-x86_64 | 0.1.1 | 3.34 | 36.64 | 39.98 | ERROR | |
r-release-windows-ix86+x86_64 | 0.1.1 | 12.00 | 58.00 | 70.00 | ERROR | |
r-release-osx-x86_64 | 0.1.1 | WARN | ||||
r-oldrel-windows-ix86+x86_64 | 0.1.1 | 5.00 | 115.00 | 120.00 | NOTE | |
r-oldrel-osx-x86_64 | 0.1.1 | WARN |
Version: 0.1.1
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: 'r2cytoscape'
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-oldrel-windows-ix86+x86_64
Version: 0.1.1
Check: dependencies in R code
Result: NOTE
Missing or unexported object: 'gRbase::is.TUG.graphNEL'
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
Version: 0.1.1
Check: examples
Result: ERROR
Running examples in 'SourceSet-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: ripAllRootsClique
> ### Title: All possible RIP orderings
> ### Aliases: ripAllRootsClique
>
> ### ** Examples
>
> if(require(gRbase)){
+
+ ## decomposable graph
+ ug.graph<-ug(~1:2:3+3:4+4:5:6:7)
+ ug.rip.all<-ripAllRootsClique(ug.graph)
+ # 7 variables
+ length(ug.rip.all$elements$variables)
+ # 3 max.cliques
+ length(ug.rip.all$elements$cliques)
+ # 7 unique components
+ nrow(ug.rip.all$elements$components)
+ # all rip orderings:
+ ug.rip.all$indices$ordering
+
+ ## directed graph
+ dag.graph<-dag(~3:1+3:2+4:3)
+ dag.rip.all<-ripAllRootsClique(dag.graph)
+ # triangulated and morliazed graph
+ dag.rip.all$graph
+ # all rip orderings
+ dag.rip.all$indices$ordering
+ }
Loading required package: gRbase
Error: 'is.TUG.graphNEL' is not an exported object from 'namespace:gRbase'
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 0.1.1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building 'SourceSet.Rmd' using rmarkdown
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
Identifing all possible orderings..
Quitting from lines 164-166 (SourceSet.Rmd)
Error: processing vignette 'SourceSet.Rmd' failed with diagnostics:
'is.TUG.graphNEL' is not an exported object from 'namespace:gRbase'
--- failed re-building 'SourceSet.Rmd'
SUMMARY: processing the following file failed:
'SourceSet.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 0.1.1
Check: examples
Result: ERROR
Running examples in ‘SourceSet-Ex.R’ failed
The error most likely occurred in:
> ### Name: ripAllRootsClique
> ### Title: All possible RIP orderings
> ### Aliases: ripAllRootsClique
>
> ### ** Examples
>
> if(require(gRbase)){
+
+ ## decomposable graph
+ ug.graph<-ug(~1:2:3+3:4+4:5:6:7)
+ ug.rip.all<-ripAllRootsClique(ug.graph)
+ # 7 variables
+ length(ug.rip.all$elements$variables)
+ # 3 max.cliques
+ length(ug.rip.all$elements$cliques)
+ # 7 unique components
+ nrow(ug.rip.all$elements$components)
+ # all rip orderings:
+ ug.rip.all$indices$ordering
+
+ ## directed graph
+ dag.graph<-dag(~3:1+3:2+4:3)
+ dag.rip.all<-ripAllRootsClique(dag.graph)
+ # triangulated and morliazed graph
+ dag.rip.all$graph
+ # all rip orderings
+ dag.rip.all$indices$ordering
+ }
Loading required package: gRbase
Error: 'is.TUG.graphNEL' is not an exported object from 'namespace:gRbase'
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-solaris-x86, r-release-windows-ix86+x86_64
Version: 0.1.1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘SourceSet.Rmd’ using rmarkdown
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
Identifing all possible orderings..
Quitting from lines 164-166 (SourceSet.Rmd)
Error: processing vignette 'SourceSet.Rmd' failed with diagnostics:
'is.TUG.graphNEL' is not an exported object from 'namespace:gRbase'
--- failed re-building ‘SourceSet.Rmd’
SUMMARY: processing the following file failed:
‘SourceSet.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64
Version: 0.1.1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building ‘SourceSet.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Loading required package: graph
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect,
is.unsorted, lapply, mapply, match, mget, order, paste, pmax,
pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply,
setdiff, sort, table, tapply, union, unique, unsplit, which,
which.max, which.min
Identifing all possible orderings..
Quitting from lines 164-166 (SourceSet.Rmd)
Error: processing vignette 'SourceSet.Rmd' failed with diagnostics:
'is.TUG.graphNEL' is not an exported object from 'namespace:gRbase'
--- failed re-building ‘SourceSet.Rmd’
SUMMARY: processing the following file failed:
‘SourceSet.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-solaris-x86
Version: 0.1.1
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
'r2cytoscape', 'BiocStyle', 'hgu95av2.db', 'ALL', 'org.Hs.eg.db'
Flavor: r-release-osx-x86_64
Version: 0.1.1
Check: Rd cross-references
Result: NOTE
Packages unavailable to check Rd xrefs: ‘ALL’, ‘simPATHy’
Flavor: r-release-osx-x86_64
Version: 0.1.1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘SourceSet.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
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
Identifing all possible orderings..
Total run time: 1.42 secs
Identifing all possible orderings..
Total run time: 0.79 secs
PhantomJS not found. You can install it with webshot::install_phantomjs(). If it is installed, please make sure the phantomjs executable can be found via the PATH variable.
Warning in normalizePath(f2) :
path[1]="webshotb0c21dfb4fd0.png": No such file or directory
Warning in file(con, "rb") :
cannot open file 'webshotb0c21dfb4fd0.png': No such file or directory
Quitting from lines 346-347 (SourceSet.Rmd)
Error: processing vignette 'SourceSet.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘SourceSet.Rmd’
SUMMARY: processing the following file failed:
‘SourceSet.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-osx-x86_64
Version: 0.1.1
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
‘r2cytoscape’ ‘BiocStyle’ ‘graphite’ ‘hgu95av2.db’
Flavor: r-oldrel-osx-x86_64
Version: 0.1.1
Check: Rd cross-references
Result: NOTE
Packages unavailable to check Rd xrefs: ‘simPATHy’, ‘graphite’
Flavor: r-oldrel-osx-x86_64
Version: 0.1.1
Check: re-building of vignette outputs
Result: WARN
Error in re-building vignettes:
...
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
Identifing all possible orderings..
Total run time: 1.21 secs
Identifing all possible orderings..
Total run time: 0.86 secs
PhantomJS not found. You can install it with webshot::install_phantomjs(). If it is installed, please make sure the phantomjs executable can be found via the PATH variable.
Warning in normalizePath(f2) :
path[1]="./webshotf9064431846f.png": No such file or directory
Warning in file(con, "rb") :
cannot open file './webshotf9064431846f.png': No such file or directory
Quitting from lines 346-347 (SourceSet.Rmd)
Error: processing vignette 'SourceSet.Rmd' failed with diagnostics:
cannot open the connection
Execution halted
Flavor: r-oldrel-osx-x86_64