cdec cleanup, remove bayesian stuff, parsing stuff

1 files changed, 0 insertions, 86 deletions

diff --git a/gi/posterior-regularisation/prjava/src/util/LogSummer.java b/gi/posterior-regularisation/prjava/src/util/LogSummer.java
deleted file mode 100644
index 117393b9..00000000
--- a/gi/posterior-regularisation/prjava/src/util/LogSummer.java
+++ /dev/null
@@ -1,86 +0,0 @@
-package util;
-
-import java.lang.Math;
-
-/*
- * Math tool for computing logs of sums, when the terms of the sum are already in log form.
- * (Useful if the terms of the sum are very small numbers.)
- */
-public class LogSummer {
-	
-	private LogSummer() {
-	}
-		
-	/**
-	 * Given log(a) and log(b), computes log(a + b).
-	 * 
-	 * @param  loga log of first sum term
-	 * @param  logb log of second sum term
-	 * @return     log(sum), where sum = a + b
-	 */
-	public static double sum(double loga, double logb) {
-		assert(!Double.isNaN(loga));
-		assert(!Double.isNaN(logb));
-		
-		if(Double.isInfinite(loga))
-			return logb;
-		if(Double.isInfinite(logb))
-			return loga;
-
-		double maxLog;
-		double difference;
-		if(loga > logb) {
-			difference = logb - loga;
-			maxLog = loga;
-		}
-		else {
-			difference = loga - logb;
-			maxLog = logb;
-		}
-
-		return Math.log1p(Math.exp(difference)) + maxLog;
-	}
-
-	/**
-	 * Computes log(exp(array[index]) + b), and
-	 * modifies array[index] to contain this new value.
-	 * 
-	 * @param array array to modify
-	 * @param index index at which to modify
-	 * @param logb  log of the second sum term
-	 */
-	public static void sum(double[] array, int index, double logb) {
-		array[index] = sum(array[index], logb);
-	}
-	
-	/**
-	 * Computes log(a + b + c + ...) from log(a), log(b), log(c), ...
-	 * by recursively splitting the input and delegating to the sum method.
-	 * 
-	 * @param  terms an array containing the log of all the terms for the sum
-	 * @return log(sum), where sum = exp(terms[0]) + exp(terms[1]) + ...
-	 */
-	public static double sumAll(double... terms) {
-		return sumAllHelper(terms, 0, terms.length);
-	}
-	
-	/**
-	 * Computes log(a_0 + a_1 + ...) from a_0 = exp(terms[begin]),
-	 * a_1 = exp(terms[begin + 1]), ..., a_{end - 1 - begin} = exp(terms[end - 1]).
-	 * 
-	 * @param  terms an array containing the log of all the terms for the sum,
-	 *               and possibly some other terms that will not go into the sum
-	 * @return log of the sum of the elements in the [begin, end) region of the terms array
-	 */
-	private static double sumAllHelper(final double[] terms, final int begin, final int end) {
-		int length = end - begin;
-		switch(length) {
-			case 0: return Double.NEGATIVE_INFINITY;
-			case 1: return terms[begin];
-			default:
-				int midIndex = begin + length/2;
-				return sum(sumAllHelper(terms, begin, midIndex), sumAllHelper(terms, midIndex, end));
-		}
-	}
-
-}
\ No newline at end of file