This page was generated on 2019-04-09 12:01:28 -0400 (Tue, 09 Apr 2019).
pRoloc 1.23.2 Laurent Gatto
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019) |
URL: https://git.bioconductor.org/packages/pRoloc |
Branch: master |
Last Commit: 12e9698 |
Last Changed Date: 2019-03-15 05:37:41 -0400 (Fri, 15 Mar 2019) |
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | ERROR | skipped | | |
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | [ ERROR ] | skipped | skipped | |
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | ERROR | skipped | skipped | |
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### Running command:
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### chmod a+r pRoloc -R && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data pRoloc
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* checking for file 'pRoloc/DESCRIPTION' ... OK
* preparing 'pRoloc':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'v01-pRoloc-tutorial.Rmd' using rmarkdown
Registered S3 methods overwritten by 'ggplot2':
method from
[.quosures rlang
c.quosures rlang
print.quosures rlang
Registered S3 methods overwritten by 'ggplot2':
method from
[.quosures rlang
c.quosures rlang
print.quosures rlang
Registered S3 methods overwritten by 'ggplot2':
method from
[.quosures rlang
c.quosures rlang
print.quosures rlang
Registered S3 methods overwritten by 'ggplot2':
method from
[.quosures rlang
c.quosures rlang
print.quosures rlang
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/plotdist1-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/plotdist1-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/dendro-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/dendro-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/plotavrprof-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/plotavrprof-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/plot2d-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/plot2d-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/plot2dorg-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/plot2dorg-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/scree-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/scree-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/plotfoi-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/plotfoi-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/qsep-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/qsep-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/qsep-2.png" -trim "v01-pRoloc-tutorial_files/figure-html/qsep-2.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/plot2dnull-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/plot2dnull-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/plotKmeans-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/plotKmeans-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/plotHclust-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/plotHclust-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/plotPam-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/plotPam-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/params-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/params-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/params-2.png" -trim "v01-pRoloc-tutorial_files/figure-html/params-2.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/predscores-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/predscores-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/svmres-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/svmres-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/pdres-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/pdres-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v01-pRoloc-tutorial_files/figure-html/pdres2-1.png" -trim "v01-pRoloc-tutorial_files/figure-html/pdres2-1.png"' execution failed with error code 4
Warning: The label(s) fig:params not found
Warning: The label(s) fig:params not found
--- finished re-building 'v01-pRoloc-tutorial.Rmd'
--- re-building 'v02-pRoloc-ml.Rmd' using rmarkdown
Warning in lapply(X = X, FUN = FUN, ...) :
NaNs found in 'precision' with hyperparameters cost:1 sigma:1.
Warning in lapply(X = X, FUN = FUN, ...) :
NaNs found in 'precision' with hyperparameters cost:2 sigma:1.
--- finished re-building 'v02-pRoloc-ml.Rmd'
--- re-building 'v03-pRoloc-bayesian.Rmd' using rmarkdown
--- finished re-building 'v03-pRoloc-bayesian.Rmd'
--- re-building 'v04-pRoloc-goannotations.Rmd' using rmarkdown
Loading required namespace: GO.db
Retaining 80 out of 549 in GOAnnotations
Retaining 79 out of 80 in GOAnnotations
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v04-pRoloc-goannotations_files/figure-html/visualiseRes-1.png" -trim "v04-pRoloc-goannotations_files/figure-html/visualiseRes-1.png"' execution failed with error code 4
Invalid Parameter - /figure-html
Warning in shell(paste(c(cmd, args), collapse = " ")) :
'convert "v04-pRoloc-goannotations_files/figure-html/visualiseRes-2.png" -trim "v04-pRoloc-goannotations_files/figure-html/visualiseRes-2.png"' execution failed with error code 4
--- finished re-building 'v04-pRoloc-goannotations.Rmd'
--- re-building 'v05-pRoloc-transfer-learning.Rmd' using rmarkdown
Quitting from lines 143-147 (v05-pRoloc-transfer-learning.Rmd)
Error: processing vignette 'v05-pRoloc-transfer-learning.Rmd' failed with diagnostics:
biomaRt error: looks like we're connecting to incompatible version of BioMart suite.
--- failed re-building 'v05-pRoloc-transfer-learning.Rmd'
SUMMARY: processing the following file failed:
'v05-pRoloc-transfer-learning.Rmd'
Error: Vignette re-building failed.
Execution halted