split smartcane in to smartcane and runcane

python_app/requirements.txt

@@ -1,28 +1,120 @@
 aenum==3.1.15
+anyio==4.0.0
+appnope==0.1.3
+argon2-cffi==23.1.0
+argon2-cffi-bindings==21.2.0
+asttokens==2.4.0
+async-lru==2.0.4
+attrs==23.1.0
+Babel==2.13.0
+backcall==0.2.0
+beautifulsoup4==4.12.2
+bleach==6.1.0
 certifi==2023.7.22
+cffi==1.16.0
 charset-normalizer==3.3.0
 click==8.1.7
+comm==0.1.4
+contourpy==1.1.1
+cycler==0.12.1
 dataclasses-json==0.6.1
-GDAL==3.4.1
+debugpy==1.8.0
+decorator==5.1.1
+defusedxml==0.7.1
+exceptiongroup==1.1.3
+executing==2.0.0
+fastjsonschema==2.18.1
+fonttools==4.43.1
+GDAL==3.7.2
 idna==3.4
+importlib-metadata==6.8.0
+importlib-resources==6.1.0
+ipykernel==6.25.2
+ipython==8.16.1
+ipython-genutils==0.2.0
+ipywidgets==8.1.1
+jedi==0.19.1
+Jinja2==3.1.2
+json5==0.9.14
+jsonschema==4.19.1
+jsonschema-specifications==2023.7.1
+jupyter==1.0.0
+jupyter-client==8.4.0
+jupyter-console==6.6.3
+jupyter-core==5.4.0
+jupyter-events==0.8.0
+jupyter-lsp==2.2.0
+jupyter-server==2.8.0
+jupyter-server-terminals==0.4.4
+jupyterlab==4.0.7
+jupyterlab-pygments==0.2.2
+jupyterlab-server==2.25.0
+jupyterlab-widgets==3.0.9
+kiwisolver==1.4.5
+MarkupSafe==2.1.3
 marshmallow==3.20.1
+matplotlib==3.8.0
+matplotlib-inline==0.1.6
+mistune==3.0.2
 mypy-extensions==1.0.0
+nbclient==0.8.0
+nbconvert==7.9.2
+nbformat==5.9.2
+nest-asyncio==1.5.8
+notebook==7.0.6
+notebook-shim==0.2.3
 numpy==1.26.1
 oauthlib==3.2.2
+overrides==7.4.0
 packaging==23.2
+pandocfilters==1.5.0
+parso==0.8.3
+pexpect==4.8.0
+pickleshare==0.7.5
 Pillow==10.1.0
+platformdirs==3.11.0
+prometheus-client==0.17.1
+prompt-toolkit==3.0.39
+psutil==5.9.6
+ptyprocess==0.7.0
+pure-eval==0.2.2
+pycparser==2.21
+Pygments==2.16.1
+pyparsing==3.1.1
 pyproj==3.6.1
 python-dateutil==2.8.2
+python-json-logger==2.0.7
+PyYAML==6.0.1
+pyzmq==25.1.1
+qtconsole==5.4.4
+QtPy==2.4.0
+referencing==0.30.2
 requests==2.31.0
 requests-oauthlib==1.3.1
+rfc3339-validator==0.1.4
+rfc3986-validator==0.1.1
+rpds-py==0.10.6
+Send2Trash==1.8.2
 sentinelhub==3.9.1
 shapely==2.0.2
 six==1.16.0
+sniffio==1.3.0
+soupsieve==2.5
+stack-data==0.6.3
+terminado==0.17.1
 tifffile==2023.9.26
+tinycss2==1.2.1
 tomli==2.0.1
-tomli_w==1.0.0
+tomli-w==1.0.0
+tornado==6.3.3
 tqdm==4.66.1
+traitlets==5.11.2
+typing-extensions==4.8.0
 typing-inspect==0.9.0
-typing_extensions==4.8.0
 urllib3==2.0.7
 utm==0.7.0
+wcwidth==0.2.8
+webencodings==0.5.1
+websocket-client==1.6.4
+widgetsnbextension==4.0.9
+zipp==3.17.0

runcane.sh

@@ -0,0 +1,22 @@
+#!/bin/bash
+# Directory waar de virtuele omgeving zal worden aangemaakt
+VENV_DIR="./python_app/myenv"
+
+# Activeer de virtuele omgeving
+source "$VENV_DIR/bin/activate"
+
+# Hier kan je verdere stappen toevoegen, zoals het uitvoeren van je Python-script of Jupyter Notebook
+jupyter nbconvert --execute --to script --stdout python_app/Chemba_download.ipynb
+
+# Deactiveer de virtuele omgeving (optioneel)
+deactivate
+## Runnen van R scripts 
+# Kopieer de excel file met harvesting data en maak directory aan indien nodig
+cd r_app
+Rscript 1_harvest_data_EcoFarm_v2.R
+Rscript 2_CI_data_prep.R
+#
+## Runnen van Rmd bestand
+# -e betekent "evalueren" en -i specificeert de input file
+Rscript -e "rmarkdown::render('CI_Report_dashboard_planet.Rmd', 'all')"
+cd ..

smartcane.sh

@@ -46,8 +46,6 @@ else
 fi
 
 # Hier kan je verdere stappen toevoegen, zoals het uitvoeren van je Python-script of Jupyter Notebook
-jupyter nbconvert --execute --to script --stdout python_app/Chemba_download.ipynb
-
 # Deactiveer de virtuele omgeving (optioneel)
 deactivate
 ## Runnen van R scripts 
@@ -55,11 +53,3 @@ deactivate
 mkdir -p laravel_app/storage/app/harvesting_data
 cp "Current - Pivots planting date and harevsting data.xlsx" "laravel_app/storage/app/harvesting_data/"
 cp "pivot_20210625.geojson" "laravel_app/storage/app/Data"
-cd r_app
-Rscript 1_harvest_data_EcoFarm_v2.R
-Rscript 2_CI_data_prep.R
-#
-## Runnen van Rmd bestand
-# -e betekent "evalueren" en -i specificeert de input file
-Rscript -e "rmarkdown::render('CI_Report_dashboard_planet.Rmd', 'all')"
-cd ..