Bioconductor Single Package Builder - Build History

Snapshot Date: 
URL:  https://git.bioconductor.org/packages/updateObject
Last Changed Rev:  / Revision: 
Last Changed Date: 

Hostname OS /Arch BUILD CHECK BUILD BIN POST-PROCESSING
merida1 macOS 10.14.6 Mojave/x86_64   ERROR     skipped     skipped     skipped  
nebbiolo1 Linux (Ubuntu 20.04.4 LTS)/x86_64   ERROR     skipped     skipped     skipped  

merida1 Summary

[top]

Package: updateObject
Version: 0.99.2
RVersion: 4.2
BiocVersion: 3.15
BuildCommand: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data updateObject
BuildTime: 0 minutes 7.40 seconds
CheckCommand:
CheckTime:
BuildBinCommand:
BuildBinTime:
PackageFileSize: -1.00 KiB
BuildID:: updateObject_20220208143553
PreProcessing: Starting Git clone. Installing dependencies. Checking Git Clone. Installing package: updateObject. Starting Build package.
PostProcessing: Finished Git clone. Package type: Software. Installing dependency status: 0. Checking git clone status: 1. Installing package status: 0. Build Package status: 1.

merida1 BUILD SRC output

[top]

===============================

 R CMD BUILD

===============================

* checking for file ‘updateObject/DESCRIPTION’ ... OK
* preparing ‘updateObject’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘updateObject.Rmd’ using rmarkdown
Loading required package: BiocGenerics

Attaching package: 'BiocGenerics'

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.max, which.min

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    I, expand.grid, unname

Quitting from lines 132-134 (updateObject.Rmd) 
Error: processing vignette 'updateObject.Rmd' failed with diagnostics:

  Command:

    /usr/bin/git clone --branch RELEASE_3_13 git@git.bioconductor.org:packages/TimiRGeN.git /var/folders/7y/c__3_48d5y18p1_rhfs_4x9c0000gt/T//RtmpQcpBZh/TimiRGeN

  returned error code 128.
--- failed re-building ‘updateObject.Rmd’

SUMMARY: processing the following file failed:
  ‘updateObject.Rmd’

Error: Vignette re-building failed.
Execution halted

merida1 CHECK output

[top]


                				
 

                            
 
                                
                				
merida1 BUILD BIN output
 
                    			
[top]

                				
 
                					

                				
 
                
		    
		        			

                			
                			
nebbiolo1 Summary
 
                			
[top]

                			
 
                				
 
						        
Package: updateObject
 
                					
Version: 0.99.2
 
                					
RVersion: 4.2
                
 
                					
BiocVersion: 3.15
                
 

                					
BuildCommand: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data updateObject
 
                					
BuildTime: 0 minutes 12.31 seconds
 
                					
CheckCommand: 

   							
CheckTime: 

                 					
BuildBinCommand: 

 							
BuildBinTime: 

                					
PackageFileSize: -1.00 KiB
 
                					
BuildID:: updateObject_20220208143553
 
                					
PreProcessing: Starting Git clone. Installing dependencies. Checking Git Clone. Installing package: updateObject. Starting Build package. 
 
                					
PostProcessing: Finished Git clone. Package type: Software. Installing dependency status: 0. Checking git clone status: 1. Installing package status: 0. Build Package status: 1. 
        				
                				
 
                			
 
                			
 
                			    
                				
nebbiolo1 BUILD SRC output
 
                    			
[top]

                				
 
                					
===============================

 R CMD BUILD

===============================

* checking for file ‘updateObject/DESCRIPTION’ ... OK
* preparing ‘updateObject’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘updateObject.Rmd’ using rmarkdown
Loading required package: BiocGenerics

Attaching package: 'BiocGenerics'

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.max, which.min

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    I, expand.grid, unname

Quitting from lines 132-134 (updateObject.Rmd) 
Error: processing vignette 'updateObject.Rmd' failed with diagnostics:

  Command:

    /usr/bin/git commit -a -m "Pass serialized S4 instances thru updateObject()"

  returned error code 128.
--- failed re-building ‘updateObject.Rmd’

SUMMARY: processing the following file failed:
  ‘updateObject.Rmd’

Error: Vignette re-building failed.
Execution halted


                				
 

                			
 
                			    
                				
nebbiolo1 CHECK output
 
                    			
[top]

                				
 
                					

                				
 

                            
 
                                
                				
nebbiolo1 BUILD BIN output
 
                    			
[top]