############################################################################## ############################################################################## ### ### Running command: ### ### chmod a+r GeomxTools -R && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data GeomxTools ### ############################################################################## ############################################################################## * checking for file 'GeomxTools/DESCRIPTION' ... OK * preparing 'GeomxTools': * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building 'Developer_Introduction_to_the_NanoStringGeoMxSet.Rmd' using rmarkdown --- finished re-building 'Developer_Introduction_to_the_NanoStringGeoMxSet.Rmd' --- re-building 'GeomxSet_coercions.Rmd' using rmarkdown Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| | | | 0% | |=================================== | 50% | |======================================================================| 100% Using method 'umap' 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| | | | 0% | |=================================== | 50% | |======================================================================| 100% Using method 'umap' 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| --- finished re-building 'GeomxSet_coercions.Rmd' --- re-building 'Protein_in_GeomxTools.Rmd' using rmarkdown