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motrpacrattraining6mowat's Issues

R-CMD-check fails on Windows and Linux machines - connection error

This may have to do with outdated root certificates.

  > ### ** Examples
  > 
  > x <- msigdbr2(species = "rat",
  +               genes = "gene_symbol",
  +               gs_subcat = c("CP:REACTOME", "GO:MF"))
  Warning in file(con, "r") :
    URL 'https://software.broadinstitute.org/cancer/software/gsea/wiki/index.php/MSigDB_v7.5.1_Release_Notes': status was 'SSL connect error'
  Error in file(con, "r") : 
    cannot open the connection to 'https://software.broadinstitute.org/cancer/software/gsea/wiki/index.php/MSigDB_v7.5.1_Release_Notes'
  Calls: msigdbr2 -> update_GO_names -> obo_file -> readLines -> file
  Execution halted

Error installing the package

When trying to install the package on R 4.3, I get this error:

ERROR: dependencies ‘BiocFileCache’, ‘fgsea’ are not available for package ‘MotrpacRatTraining6moWAT’
* removing ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/MotrpacRatTraining6moWAT’
Warning messages:
1: packages ‘GO.db’, ‘preprocessCore’, ‘impute’, ‘fgsea’, ‘BiocFileCache’ are not available for this version of R

Versions of these packages for your version of R might be available elsewhere,
see the ideas at
https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages 
2: In i.p(...) :
  installation of package ‘/var/folders/8w/hv26bl7j07qc2nzl8zswkc9r0000gp/T//RtmpHkWrAU/file3b734b6e0e5/MotrpacRatTraining6moWAT_1.0.1.tar.gz’ had non-zero exit status

I think this is happening because Bioconductor is not specified in the "Remotes" of the DESCRIPTION file. It should be an easy fix. Happy to submit a PR.

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