############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data ReUseData ### ############################################################################## ############################################################################## * checking for file ‘ReUseData/DESCRIPTION’ ... OK * preparing ‘ReUseData’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘ReUseData_data.Rmd’ using rmarkdown Quitting from lines 92-98 [unnamed-chunk-2] (ReUseData_data.Rmd) Error: processing vignette 'ReUseData_data.Rmd' failed with diagnostics: NA/NaN argument --- failed re-building ‘ReUseData_data.Rmd’ --- re-building ‘ReUseData_quickStart.Rmd’ using rmarkdown Traceback (most recent call last): File "/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.12.1/Rcwl/1.16.0/env_Rcwl/bin/cwltool", line 6, in from cwltool.main import run File "/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.12.1/Rcwl/1.16.0/env_Rcwl/lib/python3.8/site-packages/cwltool/main.py", line 47, in from . import CWL_CONTENT_TYPES, workflow File "/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.12.1/Rcwl/1.16.0/env_Rcwl/lib/python3.8/site-packages/cwltool/workflow.py", line 22, in from . import command_line_tool, context, procgenerator File "/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.12.1/Rcwl/1.16.0/env_Rcwl/lib/python3.8/site-packages/cwltool/command_line_tool.py", line 42, in from .builder import ( File "/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.12.1/Rcwl/1.16.0/env_Rcwl/lib/python3.8/site-packages/cwltool/builder.py", line 17, in from cwl_utils import expression ModuleNotFoundError: No module named 'cwl_utils' Quitting from lines 79-88 [unnamed-chunk-4] (ReUseData_quickStart.Rmd) Error: processing vignette 'ReUseData_quickStart.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘ReUseData_quickStart.Rmd’ --- re-building ‘ReUseData_recipe.Rmd’ using rmarkdown Traceback (most recent call last): File "/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.12.1/Rcwl/1.16.0/env_Rcwl/bin/cwltool", line 6, in from cwltool.main import run File "/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.12.1/Rcwl/1.16.0/env_Rcwl/lib/python3.8/site-packages/cwltool/main.py", line 47, in from . import CWL_CONTENT_TYPES, workflow File "/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.12.1/Rcwl/1.16.0/env_Rcwl/lib/python3.8/site-packages/cwltool/workflow.py", line 22, in from . import command_line_tool, context, procgenerator File "/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.12.1/Rcwl/1.16.0/env_Rcwl/lib/python3.8/site-packages/cwltool/command_line_tool.py", line 42, in from .builder import ( File "/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.12.1/Rcwl/1.16.0/env_Rcwl/lib/python3.8/site-packages/cwltool/builder.py", line 17, in from cwl_utils import expression ModuleNotFoundError: No module named 'cwl_utils' Quitting from lines 166-172 [unnamed-chunk-4] (ReUseData_recipe.Rmd) Error: processing vignette 'ReUseData_recipe.Rmd' failed with diagnostics: argument is of length zero --- failed re-building ‘ReUseData_recipe.Rmd’ SUMMARY: processing the following files failed: ‘ReUseData_data.Rmd’ ‘ReUseData_quickStart.Rmd’ ‘ReUseData_recipe.Rmd’ Error: Vignette re-building failed. Execution halted