Hello, I meet a problem when run the 6 step, where show a error for TCGAbiolinks shown below, but looks it already in the r-bib. I tried with remove the r-bib shortcut and re-run steps 1-5 and looks no problem. Not sure how to fix that, did any one have any experience for that? Thanks!^_^
R[write to console]: Error: package or namespace load failed for ‘TCGAbiolinks’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): there is no package called ‘Rcpp’
Error: package or namespace load failed for ‘TCGAbiolinks’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): there is no package called ‘Rcpp’
---------------------------------------------------------------------------
RRuntimeError Traceback (most recent call last)
/usr/local/lib/python3.7/dist-packages/rpy2/ipython/rmagic.py in eval(self, code) 267 # Need the newline in case the last line in code is a comment. --> 268 value, visible = ro.r("withVisible({%s\n})" % code) 269 except (ri.embedded.RRuntimeError, ValueError) as exception:
10 frames
RRuntimeError: Error: package or namespace load failed for ‘TCGAbiolinks’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): there is no package called ‘Rcpp’
During handling of the above exception, another exception occurred:
RInterpreterError Traceback (most recent call last)
<decorator-gen-119> in R(self, line, cell, local_ns)
/usr/local/lib/python3.7/dist-packages/rpy2/ipython/rmagic.py in eval(self, code) 271 warning_or_other_msg = self.flush() 272 raise RInterpreterError(code, str(exception), --> 273 warning_or_other_msg) 274 text_output = self.flush() 275 return text_output, value, visible[0]
RInterpreterError: Failed to parse and evaluate line 'library(scales)\nlibrary(BiocManager)\nlibrary(TCGAbiolinks)\nlibrary(SummarizedExperiment)\nlibrary(DT)\nlibrary(NOISeq)\nlibrary(ComplexHeatmap)\nlibrary(EDASeq)\n\nprint(sessionInfo())'. R error message: 'Error: package or namespace load failed for ‘TCGAbiolinks’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):\n there is no package called ‘Rcpp’'
