lettersim-ot-rsa/run.sh

#!/bin/bash

# This is a short script that runs the desired script through the correct conda environment, assuming `conda` is in path.
# The environments are specified in `env/`.

# check for arguments
if [ $# -eq 0 ]
  then
    echo "File not specified! The first argument should be a .py or .R script"
    exit 1
fi

# check first argument is a file that exists
if [ ! -f $1 ]; then
    echo "File not found! Expected first argument to be a .py or .R script"
    exit 1
fi

# extract file name and extension
filename=$(basename -- "$1")
extension="${filename##*.}"
extension_lwr="${extension,,}"
filename="${filename%.*}"

# identify language from file extension
if [ $extension_lwr = "py" ]
    then
        # identify which environment to use based on filename
        if [ "$filename" = "00_get_orth_model_rdms" ]
        then 
            env="rdms"
        elif [ "$filename" = "01_get_corpus_model_rdms" ]
        then
            env="rdms"
        elif [ "$filename" = "02_preprocessing" ]
        then
            env="mne"
        elif [ "$filename" = "03_get_neural_rdms" ]
        then
            env="mne"
        # these are the two visualisation scripts that use the mne environment
        elif [ "$filename" = "99_plot_ica_N_change_examples" ]
        then
            env="mne"
        elif [ "$filename" = "99_plot_ica_filter_change_examples" ]
        then
            env="mne"
        else
        # every other python script (probably) uses rdms environment
            echo "Assuming rdms as Python env"
            env="rdms"
        fi
        # run script
        conda run -n $env --no-capture-output python $1
elif [ $extension_lwr = "r" ]
    then
        # only one environment for R scripts
        conda run -n r --no-capture-output Rscript $1
else
    echo "Expected file with .py or .R extension"
    exit 1
fi