SpatialDataLab- Spatiotemporal Innovation Workshop 2024

This Repository is for Spatiotemporal Innovation Workshop Held by Spatial Data Lab , Center for Geographic Analysis, Harvard Univeristy

More Detail :Spatiotemporal Innovation Summer Workshop 2024

Harvard DataVerse : https://dataverse.harvard.edu/dataverse/sdl_dataverse

KNIME Geospatial Extension : https://github.com/spatial-data-lab/knime-geospatial-extension

The workshop mainly use KNIME Analytic Platform and its Python Extension.

Step 1: KNIME Installation

• Go to the KNIME website （choose suitable version of Operation System）

  https://www.knime.com/downloads/download-knime

  Note:as the updating of KNIME is frequent, self-extrating archive is highly recommended for Windows**

• Extract to a folder, double click KNIME.exe to start KNIME

• To get the best performance of KNIME, open knime.ini with Notepad(Windows)

  revise -Xmx2048m as -Xmx8g ( 8 Giga Byte, or half for your computer memory)

• Choose a directory as workspace（e.g. E:\KNIMEworkspace）,While starting KNIME

  user can execute multiple KNIME APP simultaneously (same or different versions), but each KNIME Analysis Platform must use a unique directory as workspace;

  While run only one KNIME APP at a time, different versions of KNIME software can use the same workspace directory.

Step 2: Python Installation（Anaconda）

• Go to Anaconda website and download

  https://www.anaconda.com/

  Double click the installation file to run Anaconda

• Star Anaconda Prompt or Anaconda，build a new Conda enviroment of Python 3.9 for KNIME

  conda create -n geoai python=3.9 knime-extension knime-python-base -c conda-forge -c knime

  

• Python packages

  2-2-GeoAI

  pip install XGeoML mgwr geoshapley matplotlib pygam

  pip install git+https://github.com/hyperopt/hyperopt-sklearn

  remember to install git first

  3-1-Network Community

  pip install fiona python-igraph leidenalg pygeoda

  pip install torch torch_geometric

  refer to: https://pytorch-geometric.readthedocs.io/en/latest/install/installation.html

  3-2-Remote Sensing

  pip install rasterio folium mapclassify

  pip install earthengine-api geemap

Step 3: KNIME Extension

• Install Python and R extension in KNIME

  open KNIME > File > Install KNIME extension , in the dialog

  input "Python" in the box of type filter text bar > check KNIME Python Integration > input "R Statistics" in the box of type filter text bar > check KNIME Interactive R Statistics Integration > next >... > Restart KNIME

• Commomly used Extensions

  Geospatial Analytics Extension for KNIME

  KNIME H2O Machine Learning Integration

  KNIME XGBoost Integration

  KNIME Al Assistant (Labs)

  KNIME Al Extension

  KNlME Deep Learning - Keras Integration

  KNIME H20 Machine Learning Integration

  KNlME Machine Learning Interpretability Extension

  KNIME XGBoost Integration

  KNIME Column Expressions (Labs)

  KNIME Plotly

  KNIME Data Generation

  KNlME Textprocessing Chinese Language Pack

  *KNIME Email Processing

  *KNIME Nodes for Scikit-Learn (sklearn) Algorithm

  *KNIME Parallel Chunk Loop Nodes

  *KNIME Statistics Nodes (Labs)

  *KNIME Web Interaction (Labs)

  *KNlME Interactive R Statistics Integration

  *Redfield NLP Nodes

  *Redfield BERT Nodes

Step 4: Default Python Environment for Deep learning

KNIME > Preferences > KNIME > Python Deep Learning > click "New environment"

Step 5: Scripting Extension Configuration

• Configuring R and Python enviroment in KNIME

open KNIME > File > Preference, in the dialog

KNIME > Conda > click Browse... to choose the installed Anaconada directory, such as : D:\ProgramData\Anaconda3

KNIME > Python > choose geoai(or other environment) for Python3 (defult)

KNIME >R >click Browse... to choose the installed R directory, such as C:\Program Files\R\R-4.2.1

click Apply and Close.

Optional： R and RStudio Desktop

• Go to CRAN website to download R package

  https://cran.r-project.org/

  choose suitable version of Operation System

  e.g. R 4.2.1 for Windows : https://cran.r-project.org/bin/windows/base/

  Recommend : Download R for Windows > Install R for the first time > Previous releases> R 4.1.3 (March, 2022)

• RStudio Installation （RStudio is not necessary）

  Go to RStudio website

  https://www.rstudio.com/products/rstudio/download/

  https://download1.rstudio.org/desktop/windows/RStudio-2022.07.1-554.exe

  Double click to install it.

• Install Rserve package

  Rserve is the basic pacakge to run R extension

  for KNIME R 4.2.x might need to install its source data directly.https://www.rforge.net/Rserve/files/

  the best way to install Rserve without installing RStudio

  install.packages('Rserve', dependencies = TRUE)