fix #107: still need to figure out the volume part + double check tha…

…t all necessary packages are included

DESCRIPTION

@@ -1,34 +1,28 @@
 Package: sampleDB
-Title: Organization for EPPIcenter Wetlab Samples
-Version: 0.0.0.9000
-Authors@R: 
-    person(given = "Severiano",
-           family = "Villarruel",
-           role = c("aut", "cre"),
-           email = "[email protected]",
-           comment = c(ORCID = "YOUR-ORCID-ID"))
-Description: Functions to imterface with EPPIcenter SampleDB database
-Imports:
+Title: A Management System for Wet Lab Samples
+Version: 1.2.0
+Authors@R: c(
+    person("Severiano", "Villarruel", , "[email protected]", role = c("aut", "cre")),
+    person("Brian", "Palmer", , "[email protected]", role = c("aut", "ctb"))
+  )
+Description: SampleDB is a Management System for Wet Lab Samples. It can
+    be used to track a sample’s storage address and metadata.
+License: MIT + file LICENSE
+Encoding: UTF-8
+Language: es
+Roxygen: TRUE
+RoxygenNote: 7.2.1
+Imports: 
     dplyr,
-    shiny,
-    RSQLite,
-    lubridate,
-    magrittr,
     emojifont,
-    fastmap,
-    shinyFeedback,
-    shinyWidgets,
+    lubridate,
+    markdown,
     purrr,
+    rappdirs,
     readr,
-    tidyr,
-    markdown,
+    RSQLite,
+    shinyFeedback,
     shinyjs,
-    DT,
-    rappdirs,
-    shinybusy
-License: MIT + file LICENSE
-Encoding: UTF-8
-LazyData: true
-Roxygen: list(markdown = TRUE)
-RoxygenNote: 7.2.1
-URL: https://eppicenter.github.io/sampleDB-rpackage/
+    shinyWidgets,
+    tidyr,
+    tools

Dockerfile

@@ -1,28 +1,34 @@
-FROM rocker/shiny-verse:4.2.1
-
-LABEL org.opencontainers.image.licenses="GPL-2.0-or-later" \
-      org.opencontainers.image.source="https://github.com/rocker-org/rocker-versioned2" \
-      org.opencontainers.image.vendor="Rocker Project" \
-      org.opencontainers.image.authors="Carl Boettiger <[email protected]>"
-
+FROM rocker/shiny:4.1.2
 RUN apt-get update && apt-get install -y  libpng-dev make zlib1g-dev && rm -rf /var/lib/apt/lists/*
 RUN mkdir -p /usr/local/lib/R/etc/ /usr/lib/R/etc/
 RUN echo "options(repos = c(CRAN = 'https://cran.rstudio.com/'), download.file.method = 'libcurl', Ncpus = 4)" | tee /usr/local/lib/R/etc/Rprofile.site | tee /usr/lib/R/etc/Rprofile.site
 RUN R -e 'install.packages("remotes")'
+RUN Rscript -e 'remotes::install_version("purrr",upgrade="never", version = "0.3.4")'
 RUN Rscript -e 'remotes::install_version("rappdirs",upgrade="never", version = "0.3.3")'
-RUN Rscript -e 'remotes::install_version("DT",upgrade="never", version = "0.24")'
+RUN Rscript -e 'remotes::install_version("dplyr",upgrade="never", version = "1.0.10")'
+RUN Rscript -e 'remotes::install_version("tidyr",upgrade="never", version = "1.2.1")'
+RUN Rscript -e 'remotes::install_version("shinyWidgets",upgrade="never", version = "0.7.3")'
 RUN Rscript -e 'remotes::install_version("shinyjs",upgrade="never", version = "2.1.0")'
+RUN Rscript -e 'remotes::install_version("shinyFeedback",upgrade="never", version = "0.4.0")'
+RUN Rscript -e 'remotes::install_version("RSQLite",upgrade="never", version = "2.2.17")'
+RUN Rscript -e 'remotes::install_version("readr",upgrade="never", version = "2.1.2")'
 RUN Rscript -e 'remotes::install_version("markdown",upgrade="never", version = "1.1")'
-RUN Rscript -e 'remotes::install_version("emojifont",upgrade="never", version = "0.5.5")'
 RUN Rscript -e 'remotes::install_version("lubridate",upgrade="never", version = "1.8.0")'
-RUN Rscript -e 'remotes::install_version("RSQLite",upgrade="never", version = "2.2.16")'
+RUN Rscript -e 'remotes::install_version("emojifont",upgrade="never", version = "0.5.5")'
+RUN Rscript -e 'remotes::install_version("DT",upgrade="never", version = "0.24")'
 
 RUN mkdir /build_zone
 ADD . /build_zone
 WORKDIR /build_zone
 RUN R -e 'remotes::install_local(upgrade="never")'
 RUN rm -rf /build_zone
-CMD R -e 'library(sampleDB)'
-CMD R -e 'sampleDB::SampleDB_Setup()'
+RUN R -e 'library(sampleDB); sampleDB::SampleDB_Setup();'
+RUN << EOT bash
+	export SDB_PATH=$(R --slave -e "Sys.getenv('SDB_PATH')" | cut -f 2 -d " ")
+EOT
+VOLUME "$SDB_PATH"
+RUN unset SDB_PATH 
 
 EXPOSE 3838
+
+CMD ["/usr/bin/shiny-server sampleDB"]