bioRad installed successfully

flavors/vol2bird/environment.yaml

@@ -1,9 +1,70 @@
 name: vol2bird
 channels:
   - conda-forge
+  - bioconda
 dependencies:
   - h5py
   - ipykernel
   - minio
   - webdavclient3
   - git
+  - r-base
+  - hdf5
+  - pkg-config
+  - gdal
+  - libgdal
+  - libgdal-hdf5
+  - openssl
+  - proj
+  - gsl
+  - r-raster
+  - r-sf
+  - libexpat
+  - udunits2
+  - bioconductor-rhdf5
+  - r-labeling
+  - r-bit64
+  - r-progress
+  - r-cli
+  - r-colorspace
+  - r-rcolorbrewer
+  - r-matrix
+  - r-fansi
+  - r-dotcall64
+  - r-nlme
+  - r-munsell
+  - r-generics
+  - r-tibble
+  - r-spam
+  - r-maps
+  - r-isoband
+  - r-mgcv
+  - r-scales
+  - r-gtable
+  - r-utf8
+  - r-munsell
+  - r-withr
+  - r-timechange
+  - r-clipr
+  - r-vroom
+  - r-tzdb
+  - r-stringi
+  - r-purrr
+  - r-curl
+  - r-dplyr
+  - r-fields
+  - r-ggplot2
+  - r-jsonlite
+  - r-lubridate
+  - r-stringr
+  - r-tidyr
+  - r-tidyselect
+  - r-viridis
+  - r-readr
+  - r-gridextra
+  - r-classint
+  - r-s2
+  - r-proxy
+  - r-sf
+  - r-wk
+  - r-udunits2

flavors/vol2bird/naavre-jupyter.Dockerfile

@@ -20,31 +20,20 @@ RUN rm /test_vol2bird.sh
 RUN rm version KNMI_vol_h5_to_ODIM_h5_out
 CMD vol2bird
 
-
-FROM ubuntu:22.04 AS biorad
-
-ARG DEBIAN_FRONTEND=noninteractive
-
-RUN apt update && apt upgrade && apt install -y libhdf5-dev libproj-dev gsl-bin libgsl-dev r-base-dev libudunits2-dev libgdal-dev gdal-bin r-bioc-rhdf5
-RUN R -e "install.packages('bioRad', repos='https://cran.r-project.org')"
-RUN R -e "library('bioRad')"
-RUN R -e "install.packages('generics', repos='https://cran.r-project.org')"
-
-
 FROM qcdis/n-a-a-vre:${NAAVRE_VERSION}
 
 ARG CONDA_ENV_FILE
 
-
 COPY ${CONDA_ENV_FILE} environment.yaml
 RUN mamba env create -f environment.yaml
 
+# RUN R -e "install.packages('suntools', repos='https://cran.r-project.org')"
+# RUN R -e "install.packages('bioRad', repos='https://cran.r-project.org')"
+# RUN R -e "library('bioRad')"
+
+
 COPY --from=vol2bird /opt/radar/ /opt/radar/
 COPY --from=vol2bird /usr/lib/x86_64-linux-gnu /usr/lib/x86_64-linux-gnu
 ENV LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:/opt/radar/lib:/opt/radar/rave/lib:/opt/radar/rsl/lib:/opt/radar/vol2bird/lib:/usr/lib/x86_64-linux-gnu
 ENV PATH=${PATH}:/opt/radar/vol2bird/bin:/opt/radar/rsl/bin
 
-COPY --from=biorad /usr/local/lib/R/site-library /venv/lib/R/library
-
-RUN ldd --version
-