Bioconductor Single Package Builder - Build History

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

Hostname OS /Arch BUILD CHECK BUILD BIN POST-PROCESSING
lconway macOS 12.6.5 Monterey/x86_64   ERROR     skipped     skipped     skipped  
nebbiolo2 Linux (Ubuntu 22.04.2 LTS)/x86_64   ERROR     skipped     skipped     skipped  

lconway Summary

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Package: AlphaMissenseR
Version: 0.99.13
RVersion: 4.3
BiocVersion: 3.18
BuildCommand: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data AlphaMissenseR
BuildTime: 0 minutes 41.49 seconds
CheckCommand:
CheckTime:
BuildBinCommand:
BuildBinTime:
PackageFileSize: -1.00 KiB
BuildID:: AlphaMissenseR_20231104230132
PreProcessing: Starting Git clone. Installing dependencies. Checking Git Clone. Installing package: AlphaMissenseR. Starting Build package.
PostProcessing: Finished Git clone. Package type: Software. Installing dependency status: 0. Checking git clone status: 0. Installing package status: 0. Build Package status: 1.

lconway BUILD SRC output

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

 R CMD BUILD

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

--- re-building ‘issues.Rmd’ using rmarkdown
--- finished re-building ‘issues.Rmd’

--- re-building ‘visualization.Rmd’ using rmarkdown

Quitting from lines 84-85 [median-pathogenicity] (visualization.Rmd)
Error: processing vignette 'visualization.Rmd' failed with diagnostics:
object 'uniprot_id' not found
--- failed re-building ‘visualization.Rmd’

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

Error: Vignette re-building failed.
Execution halted
Warning messages:
1: Connection is garbage-collected, use dbDisconnect() to avoid this. 
2: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this.

lconway CHECK output

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lconway BUILD BIN output
 
                    			
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nebbiolo2 Summary
 
                			
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Package: AlphaMissenseR
 
                					
Version: 0.99.13
 
                					
RVersion: 4.3
                
 
                					
BiocVersion: 3.18
                
 

                					
BuildCommand: /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data AlphaMissenseR
 
                					
BuildTime: 0 minutes 41.76 seconds
 
                					
CheckCommand: 

   							
CheckTime: 

                 					
BuildBinCommand: 

 							
BuildBinTime: 

                					
PackageFileSize: -1.00 KiB
 
                					
BuildID:: AlphaMissenseR_20231104230132
 
                					
PreProcessing: Starting Git clone. Installing dependencies. Checking Git Clone. Installing package: AlphaMissenseR. Starting Build package. 
 
                					
PostProcessing: Finished Git clone. Package type: Software. Installing dependency status: 0. Checking git clone status: 0. Installing package status: 0. Build Package status: 1. 
        				
                				
 
                			
 
                			
 
                			    
                				
nebbiolo2 BUILD SRC output
 
                    			
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===============================

 R CMD BUILD

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

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

--- re-building ‘issues.Rmd’ using rmarkdown
--- finished re-building ‘issues.Rmd’

--- re-building ‘visualization.Rmd’ using rmarkdown

Quitting from lines 84-85 [median-pathogenicity] (visualization.Rmd)
Error: processing vignette 'visualization.Rmd' failed with diagnostics:
object 'uniprot_id' not found
--- failed re-building ‘visualization.Rmd’

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

Error: Vignette re-building failed.
Execution halted
Warning messages:
1: Connection is garbage-collected, use dbDisconnect() to avoid this. 
2: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 


                				
 

                			
 
                			    
                				
nebbiolo2 CHECK output
 
                    			
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nebbiolo2 BUILD BIN output
 
                    			
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