config.yml

---
versions:
    release:
        version_number: "3.10" # change this at release time
        r_url: "https://cran.rstudio.com/src/base/R-latest.tar.gz"
        parent: "rocker/rstudio:3.6.2"
        use_r_devel: false # should always be false
    devel:
        version_number: "3.11" # change this at release time
        ## IMPORTANT: Change r_url at release time if new bioc devel does(not) use R-devel
        #parent: "rocker/rstudio:3.6.1"
        parent: "rocker/rstudio:devel"
        # currently known bug/issue in rocker/rstudio-daily
        #"rocker/rstudio-daily" # should be rocker/rstudio-daily if
                                 # use_r_devel is true, otherwise
                                 # rocker/rstudio
        use_r_devel: false # true half the year
        # The following variable (use_numbered_branch) is only relevant if
        # use_r_devel is true.
        # use_numbered_branch should be false OR should be the (quoted) version number from
        # which to pull R. Set to false if you want to use the default R installed
        # by rocker, which pulls from trunk. Or set to a number (i.e. 3.2) to
        # install R from that branch. This is appropriate when R-devel becomes R-alpha.
        # For example, around March 19th, 2015, an R-3-2-branch was created and
        # the R in trunk became R-3.3. However, the contemporaneous Bioconductor
        # devel branch uses R-3.2, NOT 3.3, so we would set the below variable
        # to "3.2" (be sure to quote the value so it's forced to be a string).
        use_numbered_branch: false

containers: # FIXME (?) rename this to 'images' (?)
    base:
        parent: bogus
    core:
        parent: bioconductor/base
    mscore:
        parent: bioconductor/base	
    protmetcore:
        parent: bioconductor/mscore
        biocViews:
            - Metabolomics
            - Proteomics
    metabolomics:
        parent: bioconductor/protmetcore
        biocViews:
            - Metabolomics
    protcore:
        parent: bioconductor/protmetcore
    proteomics:
        parent: bioconductor/protcore
        biocViews:
            - Proteomics
            - MassSpectrometryData        
    cytometry:
            parent: bioconductor/base
            biocViews:
                - FlowCytometry