Provenance Challenge 1 workflow part A -- mockup version

Value

Value

Script

// align warp shell wrapper

// mockup: creates output string based in input string values

String header = AnatomyInput.get(0);
String image  = AnatomyInput.get(1);

WarpParameters = "warp("+header+","+image+")";

Script

// reslice based on calculated warp parameters

List resliced = new ArrayList();

resliced.add("reslice("+warpParameters+".H");
resliced.add("reslice("+warpParameters+".I");

Script

// softmean

// combines list of pairs (header, image) into an average (header, image)

// it naively concats the headers together and the images together just to trace its input values

List atlasAverage = new ArrayList();

String averageHeader = "softmean(";
String averageImage  = "softmean(";

for (List reslicedEntry: resliced) {
       averageHeader = averageHeader+reslicedEntry.get(0)+"/";
       averageImage = averageImage+reslicedEntry.get(1)+"/";
}

atlasAverage.add(averageHeader.substring(0,averageHeader.length()-1)+")");
atlasAverage.add(averageImage.substring(0,averageImage.length()-1)+")");