Helper script that downloads the 2D HeLa dataset from the Murphy Lab at Carnegie Mellon University

script.sh

#!/bin/bash

echo "*********************"
echo "* LICENSE AGREEMENT *"
echo "*********************"
echo "All data downloaded from the Murphy Lab web site (http://murphylab.web.cmu.edu) remain the property of the 
Murphy" 
echo "Lab. You are granted a non-exclusive license to use these images for non-commercial, research purposes, with the" 
echo "following conditions: (a) you agree to include a reference to"
echo ""
echo "R. F. Murphy, M. V. Boland and M. Velliste (2000). Towards a Systematics for Protein Subcellular Location: Quantitative Description of Protein Localization Patterns and Automated Analysis of Fluorescence Microscope Images. Proc Int Conf Intell Syst Mol Biol (ISMB 2000) 8: 251-259."
echo "M. V. Boland and R. F. Murphy (2001). A Neural Network Classifier Capable of Recognizing the Patterns of all Major Subcellular Structures in Fluorescence Microscope Images of HeLa Cells. Bioinformatics 17:1213-1223."
echo "E.J.S. Roques and R.F. Murphy (2002). Objective evaluation of differences in protein subcellular distribution. Traffic 3: 61-65."
echo ""
echo "when presenting or publishing your results, (b) you agree to send a copy of any paper or abstract (upon its"
echo "acceptance for publication or presentation) by FAX, email or regular mail to Dr. Murphy, and (c) you agree not to "
echo "distribute these images without inclusion of this notice."

echo "Dr. Robert F. Murphy"
echo "Professor of Biological Sciences, Biomedical Engineering and Machine Learning"
echo "Carnegie Mellon University"
echo "4400 Fifth Ave., Pittsburgh, PA 15213"
echo "FAX: 412-268-6571"
echo "email: murphy@cmu.edu"
echo ""

WEBSITE="http://murphylab.web.cmu.edu/data"

URLS=( "HeLa10Class2DImages_16bit_tiff.tgz" 
"HeLa10Class2DImages_16bit_scaled.tgz" 
"HeLa10Class2DImages_16bit_unscaled.tgz"
"2Dhelaimage.txt" 
"HeLa10Class2DImages_16bit_dna_protein_png.tgz"
"HeLa10Class2DFeatures180.mat"
"HeLa10Class2DFeatures19990526.csv"
"HeLa10Class2DFeatures19990526.tab")

for URL in "${URLS[@]}"
do
	echo Downloading "$WEBSITE"/"$URL" to `pwd`
	wget --quiet -nc "$WEBSITE"/"$URL"
done

echo ""

for FILE in *.tgz
do
	if [ -f "$FILE" ]; then
		echo "Decompressing" "$FILE"
		tar -xf $FILE
		echo "Removing file" "$FILE"
		rm -fv $FILE
	fi
done