I am trying to install the package MafH5.gnomAD.r3.0.GRCh38. I have tried to install it on RStudio on my personal computer but got the error message below. To troubleshoot I also tried running the same code on RStudio Cloud but got the error below. I also searched this forum for " Installation path not writeable" but only got to one post that was incomplete. Please advise.
Below is the output on my Personal Computer: R version 4.0.1, RStudio version 1.3.959
> library(BiocManager)
Bioconductor version 3.11 (BiocManager 1.30.10), ?BiocManager::install for help
> install("MafH5.gnomAD.r3.0.GRCh38")
Bioconductor version 3.11 (BiocManager 1.30.10), R 4.0.1 (2020-06-06) Installing package(s) 'MafH5.gnomAD.r3.0.GRCh38'
installing the source package ‘MafH5.gnomAD.r3.0.GRCh38’
trying URL
'https://bioconductor.org/packages/3.11/data/annotation/src/contrib/MafH5.gnomAD.r3.0.GRCh38_3.11.0.tar.gz'
Content type 'application/x-gzip' length unknown downloaded 3743.9 MB
Error in untar2(tarfile, files, list, exdir, restore_times) :
incomplete block on file
The downloaded source packages are in
‘C:\Users\Owner\AppData\Local\Temp\RtmpcLveSl\downloaded_packages’
Installation path not writeable, unable to update packages: survival
Old packages: 'bit64' Update all/some/none? [a/s/n]: a
There is a binary version available but the source version is later:
binary source needs_compilation bit64 0.9-7 0.9-7.1 TRUE
Binaries will be installed trying URL
'https://cran.rstudio.com/bin/windows/contrib/4.0/bit64_0.9-7.zip'
Content type 'application/zip' length 540636 bytes (527 KB) downloaded
527 KB
package ‘bit64’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in
C:\Users\Owner\AppData\Local\Temp\RtmpcLveSl\downloaded_packages
Warning message: In install.packages(...) : installation of package
‘MafH5.gnomAD.r3.0.GRCh38’ had non-zero exit status
Below is the output on RStudio Cloud:
> library(BiocManager)
Bioconductor version 3.10 (BiocManager 1.30.10), R 3.6.3 (2020-02-29)
> install("MafH5.gnomAD.r3.0.GRCh38")
Installing package(s) 'MafH5.gnomAD.r3.0.GRCh38'
Installation path not writeable, unable to update packages: boot, class, KernSmooth, lattice, MASS, nlme, nnet, spatial, survival
Warning message:
package ‘MafH5.gnomAD.r3.0.GRCh38’ is not available (for R version 3.6.3)
> library("MafH5.gnomAD.r3.0.GRCh38")
Error in library("MafH5.gnomAD.r3.0.GRCh38") :
there is no package called ‘MafH5.gnomAD.r3.0.GRCh38’
Yep. That file is a monster!
And note that you only downloaded 3743.9 MB. So please try again