RSPM archived package (rgdal) cannot be resolved

[aronatkins]

Given the following Dockerfile:

FROM rstudio/r-base:4.0-jammy

RUN export DEBIAN_FRONTEND=noninteractive \
    && apt-get update \
    && apt-get install -y \
    curl \
    libcurl4-openssl-dev \
    libgdal-dev \
    && rm -rf /var/lib/apt/lists/*

ARG REPO=https://cran.rstudio.com
# ARG REPO=https://p3m.dev/cran/__linux__/jammy/latest
RUN R -e "install.packages('shiny', repos=c(CRAN='${REPO}')); library(shiny)"

RUN R -e "install.packages('remotes', repos=c(CRAN='${REPO}')); library(remotes)"
RUN R -e "remotes::install_version('rgdal','1.6-7', repos=c(CRAN='${REPO}')); library(rgdal)"

RUN R -e "install.packages('rsconnect', repos=c(CRAN='${REPO}')); library(rsconnect)"

COPY app.R /content/app.R

WORKDIR /content

RUN R -e "options(repos=c(CRAN='${REPO}/',RSPM='${REPO}')); rsconnect::appDependencies()" > dependencies.txt
RUN R -e "options(repos=c(CRAN='${REPO}/',RSPM='${REPO}')); rsconnect::writeManifest()"

and a very simple app.R:

library(shiny)
library(rgdal)

ui <- fluidPage("hello")
server <- function(input, output) {}

shinyApp(ui = ui, server = server)

Dependencies can be resolved from CRAN, but not from RSPM.

# succeeds
docker build -t shiny-rgdal .

# fails
docker build --build-arg REPO=https://p3m.dev/cran/__linux__/jammy/latest -t shiny-rgdal-p3m .

The error message:

0.519 > options(repos=c(CRAN='https://p3m.dev/cran/__linux__/jammy/latest/',RSPM='https://p3m.dev/cran/__linux__/jammy/latest')); rsconnect::writeManifest()
0.647 ℹ Capturing R dependencies with renv
11.65 ✔ Found 33 dependencies
11.75 Error in `createAppManifest()`:
11.75 ! All packages must be installed from a reproducible location.
11.75 ✖ Can't re-install packages installed from source: rgdal.
11.75 ℹ See `rsconnect::appDependencies()` for more details.
11.75 Backtrace:
11.75     ▆
11.75  1. └─rsconnect::writeManifest()
11.75  2.   └─rsconnect:::createAppManifest(...)
11.75  3.     └─rsconnect:::bundlePackages(...)
11.75  4.       └─rsconnect:::checkBundlePackages(deps, call = error_call)
11.75  5.         └─cli::cli_abort(...)
11.75  6.           └─rlang::abort(...)
11.76 Execution halted

This is caused by an inability to associate the rgdal package to a repository.

rsconnect/R/bundlePackageRenv.R

Lines 99 to 113 in 666bb37

	if (pkg$Source == "Repository") {
	if (identical(pkg$Repository, "CRAN")) {
	if (isDevVersion(pkg, availablePackages)) {
	pkg$Source <- NA_character_
	pkg$Repository <- NA_character_
	} else {
	pkg$Source <- "CRAN"
	pkg$Repository <- findRepoUrl(pkg$Package, availablePackages)
	}
	} else {
	# $Repository comes from DESCRIPTION and is set by repo, so can be
	# anything. So we must look up from the package name
	pkg$Repository <- findRepoUrl(pkg$Package, availablePackages)
	pkg$Source <- findRepoName(pkg$Repository, repos)
	}

This code handles "CRAN" differently from "RSPM". The calls to findRepoUrl() and findRepoName() both produce NA.