Hello,

I am using 4.1.1 version of R and 3.13 version of Bioconductor and there is no way to install AnnotationHub package. I think there is general problem with package installations.

After using the command BiocManager::install("AnnotationHub"), I get following error message:

ERROR: configuration failed for package ‘curl’
* removing ‘/home/teki/R/x86_64-pc-linux-gnu-library/4.1/curl’
ERROR: dependency ‘RCurl’ is not available for package ‘GenomeInfoDb’
* removing ‘/home/teki/R/x86_64-pc-linux-gnu-library/4.1/GenomeInfoDb’
ERROR: dependency ‘curl’ is not available for package ‘httr’
* removing ‘/home/teki/R/x86_64-pc-linux-gnu-library/4.1/httr’
ERROR: dependency ‘GenomeInfoDb’ is not available for package ‘Biostrings’
* removing ‘/home/teki/R/x86_64-pc-linux-gnu-library/4.1/Biostrings’
ERROR: dependencies ‘curl’, ‘httr’ are not available for package ‘BiocFileCache’
* removing ‘/home/teki/R/x86_64-pc-linux-gnu-library/4.1/BiocFileCache’
ERROR: dependencies ‘httr’, ‘Biostrings’ are not available for package ‘KEGGREST’
* removing ‘/home/teki/R/x86_64-pc-linux-gnu-library/4.1/KEGGREST’
ERROR: dependency ‘KEGGREST’ is not available for package ‘AnnotationDbi’
* removing ‘/home/teki/R/x86_64-pc-linux-gnu-library/4.1/AnnotationDbi’
ERROR: dependencies ‘BiocFileCache’, ‘curl’, ‘AnnotationDbi’, ‘httr’ are not available for package ‘AnnotationHub’
* removing ‘/home/teki/R/x86_64-pc-linux-gnu-library/4.1/AnnotationHub’

The downloaded source packages are in
    ‘/tmp/RtmpOG7MjX/downloaded_packages’
Installation paths not writeable, unable to update
  packages
  path: /usr/lib/R/library
  packages:
    nlme, spatial
  path: /usr/lib/R/site-library
  packages:
    BH
Warning messages:
1: In .inet_warning(msg) :
  installation of package ‘RCurl’ had non-zero exit status
2: In .inet_warning(msg) :
  installation of package ‘curl’ had non-zero exit status
3: In .inet_warning(msg) :
  installation of package ‘GenomeInfoDb’ had non-zero exit status
4: In .inet_warning(msg) :
  installation of package ‘httr’ had non-zero exit status
5: In .inet_warning(msg) :
  installation of package ‘Biostrings’ had non-zero exit status
6: In .inet_warning(msg) :
  installation of package ‘BiocFileCache’ had non-zero exit status
7: In .inet_warning(msg) :
  installation of package ‘KEGGREST’ had non-zero exit status
8: In .inet_warning(msg) :
  installation of package ‘AnnotationDbi’ had non-zero exit status
9: In .inet_warning(msg) :
  installation of package ‘AnnotationHub’ had non-zero exit status

Do you have any advice what to do? I have tried a lot of suggestion I came upon while googling but they are all regarding older versions of R and are not helpful.

Please, if you have any ideas I'll be willing to try them!