I am trying to get the metadata to run a PCA analysis using the package pcaExplorer, Help needed with the error...

Question

[roysense]

    > library(cmapR)
> g_file<-system.file("extdata/Elucidata_assignment","PAAD.gct",package="cmapR")
> g<-parse_gctx(g_file)
parsing as GCT v1.3
C:/Users/Praveen Roy D S/Documents/R/win-library/4.0/cmapR/extdata/Elucidata_assignment/PAAD.gct 18465 rows, 183 cols, 0 row descriptors, 124 col descriptors
> row_meta <- read_gctx_meta(g_file)
Error in H5Fopen(file, "H5F_ACC_RDONLY", native = native) : 
  HDF5. File accessibilty. Unable to open file.
> col_meta <- read_gctx_meta(g_file, dim="column")
Error in H5Fopen(file, "H5F_ACC_RDONLY", native = native) : 
  HDF5. File accessibilty. Unable to open file.

[Kevin Blighe]

This error comes up in different context. Can you provide your operating system and R session information? Please also try installing R and these packages via conda / bioconda / miniconda, which should resolve the error.