mcwimm · davidgiesemann · Oct 16, 2022
diff --git a/Dockerfile b/Dockerfile
@@ -0,0 +1,35 @@
+FROM rocker/shiny-verse
+
+RUN apt-get update && apt-get install -y --no-install-recommends \
+    sudo \
+    cmake \
+    libcurl4-gnutls-dev \
+	libcairo2-dev \
+	libxt-dev \
+	libssl-dev \
+	libssh2-1-dev
+
+RUN rm -rf /var/lib/apt/lists/*
+RUN rm -rf /tmp/downloaded_packages
+
+RUN install2.r --skipinstalled --error --deps TRUE shinydashboard
+RUN install2.r --skipinstalled --error --deps TRUE shinycssloaders
+RUN install2.r --skipinstalled --error --deps TRUE shinyFiles
+RUN install2.r --skipinstalled --error --deps TRUE markdown
+RUN install2.r --skipinstalled --error --deps TRUE DT
+RUN install2.r --skipinstalled --error --deps TRUE ggpubr
+RUN install2.r --skipinstalled --error --deps TRUE scales
+
+RUN addgroup --system app && adduser --system --ingroup app app
+
+WORKDIR /home/app
+
+COPY app .
+
+RUN chown app:app -R /home/app
+
+USER app
+
+EXPOSE 3838
+
+ENTRYPOINT R -e "shiny::runApp('/home/app',3838,FALSE,'0.0.0.0')"
diff --git a/.gitignore → app/.gitignore b/.gitignore → app/.gitignore
diff --git a/LICENSE → app/LICENSE b/LICENSE → app/LICENSE
diff --git a/R_scripts/doc.R → app/R_scripts/doc.R b/R_scripts/doc.R → app/R_scripts/doc.R
diff --git a/R_scripts/functions/fun_data.R → app/R_scripts/functions/fun_data.R b/R_scripts/functions/fun_data.R → app/R_scripts/functions/fun_data.R
diff --git a/R_scripts/functions/fun_graphics.R → app/R_scripts/functions/fun_graphics.R b/R_scripts/functions/fun_graphics.R → app/R_scripts/functions/fun_graphics.R
diff --git a/R_scripts/functions/fun_kEstimation.R → app/R_scripts/functions/fun_kEstimation.R b/R_scripts/functions/fun_kEstimation.R → app/R_scripts/functions/fun_kEstimation.R
diff --git a/R_scripts/functions/fun_sapflow.R → app/R_scripts/functions/fun_sapflow.R b/R_scripts/functions/fun_sapflow.R → app/R_scripts/functions/fun_sapflow.R
diff --git a/R_scripts/functions/fun_ui.R → app/R_scripts/functions/fun_ui.R b/R_scripts/functions/fun_ui.R → app/R_scripts/functions/fun_ui.R
diff --git a/R_scripts/functions/fun_ui_about.R → app/R_scripts/functions/fun_ui_about.R b/R_scripts/functions/fun_ui_about.R → app/R_scripts/functions/fun_ui_about.R
diff --git a/R_scripts/functions/fun_ui_data.R → app/R_scripts/functions/fun_ui_data.R b/R_scripts/functions/fun_ui_data.R → app/R_scripts/functions/fun_ui_data.R
diff --git a/R_scripts/functions/fun_ui_k_value.R → app/R_scripts/functions/fun_ui_k_value.R b/R_scripts/functions/fun_ui_k_value.R → app/R_scripts/functions/fun_ui_k_value.R
diff --git a/R_scripts/functions/fun_ui_sap_flow.R → app/R_scripts/functions/fun_ui_sap_flow.R b/R_scripts/functions/fun_ui_sap_flow.R → app/R_scripts/functions/fun_ui_sap_flow.R
diff --git a/R_scripts/functions/fun_ui_settings.R → app/R_scripts/functions/fun_ui_settings.R b/R_scripts/functions/fun_ui_settings.R → app/R_scripts/functions/fun_ui_settings.R
diff --git a/SapFlowTool.Rproj → app/SapFlowTool.Rproj b/SapFlowTool.Rproj → app/SapFlowTool.Rproj
diff --git a/data/default_Avicennia_g.csv → app/data/default_Avicennia_g.csv b/data/default_Avicennia_g.csv → app/data/default_Avicennia_g.csv
diff --git a/man/des_data.md → app/man/des_data.md b/man/des_data.md → app/man/des_data.md
diff --git a/man/des_data_filter.md → app/man/des_data_filter.md b/man/des_data_filter.md → app/man/des_data_filter.md
diff --git a/man/des_k_diagrams.md → app/man/des_k_diagrams.md b/man/des_k_diagrams.md → app/man/des_k_diagrams.md
diff --git a/man/des_k_diagrams2.md → app/man/des_k_diagrams2.md b/man/des_k_diagrams2.md → app/man/des_k_diagrams2.md
diff --git a/man/des_k_value.md → app/man/des_k_value.md b/man/des_k_value.md → app/man/des_k_value.md
diff --git a/man/des_main_guide.md → app/man/des_main_guide.md b/man/des_main_guide.md → app/man/des_main_guide.md
diff --git a/man/des_main_meth.md → app/man/des_main_meth.md b/man/des_main_meth.md → app/man/des_main_meth.md
diff --git a/man/des_main_out.md → app/man/des_main_out.md b/man/des_main_out.md → app/man/des_main_out.md
diff --git a/man/des_main_rm.md → app/man/des_main_rm.md b/man/des_main_rm.md → app/man/des_main_rm.md
diff --git a/man/des_sf_metrics.md → app/man/des_sf_metrics.md b/man/des_sf_metrics.md → app/man/des_sf_metrics.md
diff --git a/man/des_sf_twu.md → app/man/des_sf_twu.md b/man/des_sf_twu.md → app/man/des_sf_twu.md
diff --git a/readMe.md → app/readMe.md b/readMe.md → app/readMe.md
diff --git a/server.R → app/server.R b/server.R → app/server.R
diff --git a/set-up.R → app/set-up.R b/set-up.R → app/set-up.R
@@ -2,13 +2,13 @@
 ## PACKAGES ##
 ##############
 
-if(!require("shiny")) install.packages("shiny")  
-if(!require("shinydashboard")) install.packages("shinydashboard")  
-if(!require("shinycssloaders")) install.packages("shinycssloaders") 
-if(!require("shinyFiles")) install.packages("shinyFiles") 
-if(!require("markdown")) install.packages("markdown")  
-if(!require("DT")) install.packages("DT")  
-if(!require("tidyverse")) install.packages("tidyverse") 
+if(!require("shiny")) install.packages("shiny")
+if(!require("shinydashboard")) install.packages("shinydashboard")
+if(!require("shinycssloaders")) install.packages("shinycssloaders")
+if(!require("shinyFiles")) install.packages("shinyFiles")
+if(!require("markdown")) install.packages("markdown")
+if(!require("DT")) install.packages("DT")
+if(!require("tidyverse")) install.packages("tidyverse")
 if(!require("ggpubr")) install.packages("ggpubr") # draw regression line in ggplot
 if(!require("scales")) install.packages("scales") # modify datetime format in ggpplot
 

diff --git a/ui.R → app/ui.R b/ui.R → app/ui.R
diff --git a/www/Nadezhdina_2018_fig1.png → app/www/Nadezhdina_2018_fig1.png b/www/Nadezhdina_2018_fig1.png → app/www/Nadezhdina_2018_fig1.png
diff --git a/www/hfd_principle.png → app/www/hfd_principle.png b/www/hfd_principle.png → app/www/hfd_principle.png
diff --git a/www/project-settings.js → app/www/project-settings.js b/www/project-settings.js → app/www/project-settings.js
diff --git a/www/stemProfile.png → app/www/stemProfile.png b/www/stemProfile.png → app/www/stemProfile.png
diff --git a/www/styles.css → app/www/styles.css b/www/styles.css → app/www/styles.css