############################################################################## ############################################################################## ### ### Running command: ### ### chmod a+r DeepBlueR -R && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data DeepBlueR ### ############################################################################## ############################################################################## * checking for file 'DeepBlueR/DESCRIPTION' ... OK * preparing 'DeepBlueR': * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building 'DeepBlueR.Rmd' using rmarkdown Loading required package: XML Loading required package: RCurl Welcome to the DeepBlueR package DeepBlue is online Called method: deepblue_search Reported status was: okay Warning in deepblue_search(keyword = "'H3k27AC' 'blood' 'peak'", type = "experiments") : NAs introduced by coercion Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Warning in rpc.serialize(x) : Skipping names on vector! Called method: deepblue_info Reported status was: okay Called method: deepblue_list_experiments Reported status was: okay Called method: deepblue_info Reported status was: okay Called method: deepblue_select_experiments Reported status was: okay Called method: deepblue_count_regions Reported status was: okay Called method: deepblue_info Reported status was: okay fetching data Called method: deepblue_info Reported status was: okay Called method: deepblue_get_request_data Reported status was: okay Called method: deepblue_select_experiments Reported status was: okay Called method: deepblue_get_regions Reported status was: okay Quitting from lines 256-267 (DeepBlueR.Rmd) Error: processing vignette 'DeepBlueR.Rmd' failed with diagnostics: read failed --- failed re-building 'DeepBlueR.Rmd' Warning in file.remove(f) : cannot remove file 'DeepBlueR.cache', reason 'Permission denied' SUMMARY: processing the following file failed: 'DeepBlueR.Rmd' Error: Vignette re-building failed. Execution halted