===============================
R CMD BUILD
===============================
* checking for file SpaceMarkers/DESCRIPTION ... OK
* preparing SpaceMarkers:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building SpaceMarkers_vignette.Rmd using rmarkdown
trying URL 'https://cf.10xgenomics.com/samples/spatial-exp/1.3.0/Visium_Human_Breast_Cancer/Visium_Human_Breast_Cancer_filtered_feature_bc_matrix.h5'
Content type 'binary/octet-stream' length 23942611 bytes (22.8 MB)
==================================================
downloaded 22.8 MB
trying URL 'https://cf.10xgenomics.com/samples/spatial-exp/1.3.0/Visium_Human_Breast_Cancer/Visium_Human_Breast_Cancer_spatial.tar.gz'
Content type 'application/x-tar' length 5262726 bytes (5.0 MB)
==================================================
downloaded 5.0 MB
--- finished re-building SpaceMarkers_vignette.Rmd
--- re-building vignette.Rmd using rmarkdown
trying URL 'https://cf.10xgenomics.com/samples/spatial-exp/1.3.0/Visium_FFPE_Human_Breast_Cancer/Visium_FFPE_Human_Breast_Cancer_spatial.tar.gz'
Content type 'application/x-tar' length 8316248 bytes (7.9 MB)
==================================================
downloaded 7.9 MB
Quitting from lines 182-185 [unnamed-chunk-10] (vignette.Rmd)
Error: processing vignette 'vignette.Rmd' failed with diagnostics:
object 'optParams_breast_cancer' not found
--- failed re-building vignette.Rmd
SUMMARY: processing the following file failed:
vignette.Rmd
Error: Vignette re-building failed.
Execution halted
===============================
R CMD BUILD
===============================
* checking for file SpaceMarkers/DESCRIPTION ... OK
* preparing SpaceMarkers:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building SpaceMarkers_vignette.Rmd using rmarkdown
trying URL 'https://cf.10xgenomics.com/samples/spatial-exp/1.3.0/Visium_Human_Breast_Cancer/Visium_Human_Breast_Cancer_filtered_feature_bc_matrix.h5'
Content type 'binary/octet-stream' length 23942611 bytes (22.8 MB)
==================================================
downloaded 22.8 MB
trying URL 'https://cf.10xgenomics.com/samples/spatial-exp/1.3.0/Visium_Human_Breast_Cancer/Visium_Human_Breast_Cancer_spatial.tar.gz'
Content type 'application/x-tar' length 5262726 bytes (5.0 MB)
==================================================
downloaded 5.0 MB
2024-02-11 22:59:29.012 R[2205:759295321] XType: com.apple.fonts is not accessible.
2024-02-11 22:59:29.013 R[2205:759295321] XType: XTFontStaticRegistry is enabled.
--- finished re-building SpaceMarkers_vignette.Rmd
--- re-building vignette.Rmd using rmarkdown
sh: wget: command not found
Quitting from lines 83-89 [unnamed-chunk-5] (vignette.Rmd)
Error: processing vignette 'vignette.Rmd' failed with diagnostics:
length(name) == 1 is not TRUE
--- failed re-building vignette.Rmd
SUMMARY: processing the following file failed:
vignette.Rmd
Error: Vignette re-building failed.
Execution halted