Merge pull request #5 from acpennlab/jammy

Jammy

.binder/environment.yml

@@ -20,6 +20,7 @@ dependencies:
   - plotnine == 0.13.0
   # R (including package manager)
   # R 4.1.3 is the latest version to use R_GE_version == 14, which is compatible with RStudio server 2022.12.0+353 on binder
+  # Packages not available via conda-forge are installed using install.R
   - r-essentials == 4.1
   - r-markdown == 1.7
   - r-bootstrap == 2019.6
@@ -29,12 +30,13 @@ dependencies:
   - r-gridsvg == 1.7_5
   - r-hmisc == 5.1_0
   - r-ggsignif == 0.6.4
-  - r-emmeans == 1.8.6
   - r-car == 3.1_2
   - r-lmperm == 2.1.0
   - r-lme4 == 1.1_33
   - r-lmertest == 3.1_3
   - r-parameters == 0.21.1
+  - r-emmeans == 1.8.6
+  - r-multcomp == 1.4_23
   # Jupyter Lab extensions
   - jupyterlab-spreadsheet-editor == 0.6.1
   - jupyterlab-drawio == 0.9.0

.binder/postBuild

@@ -5,8 +5,8 @@ set -o errexit
 set -o nounset
 
 # Uninstall jupyter-offlinenotebook extension since the 'Download' button function is buggy
-# Download from the 'File' menu instead
-micromamba remove -yn notebook jupyter-offlinenotebook
+# Download/upload to/from browser storage then download from the 'File' menu instead
+# micromamba remove -yn notebook jupyter-offlinenotebook
 
 # Installation of Octave packages is dependent on current user.
 # This works because postBuild user is the same as user running Binder.
@@ -17,3 +17,6 @@ micromamba run -n notebook octave-cli --eval 'pkg install "https://downloads.sou
 micromamba run -n notebook octave-cli --eval 'pkg install "https://github.com/apjanke/octave-tablicious/releases/download/v0.4.2/tablicious-0.4.2.tar.gz"'
 micromamba run -n notebook octave-cli --eval 'pkg install "https://github.com/gnu-octave/statistics/archive/refs/tags/release-1.6.5.tar.gz"'
 micromamba run -n notebook octave-cli --eval 'pkg install "https://github.com/gnu-octave/statistics-resampling/archive/refs/tags/5.5.7.tar.gz"'
+
+# Installation of R packages that are not avalable through conda-forge.
+micromamba run -n notebook Rscript -e 'install.packages(c("lmboot"), repos="https://cloud.r-project.org", lib="/srv/conda/envs/notebook/lib/R/library")'