From: Sasha Sherstnev <a.sherstnev@dundee.ac.uk>
Date: Thu, 3 Oct 2013 12:08:41 +0000 (+0100)
Subject: Fix problem with old Probcons code: couldn't be complied with modern gcc since string... 
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=3a68654d8602e3f3a6501ab78ee1af02bda6b35a;p=jabaws.git

Fix problem with old Probcons code: couldn't be complied with modern gcc since string.h is needed
---

diff --git a/binaries/src/probcons/CompareToRef.cc b/binaries/src/probcons/CompareToRef.cc
index 142fa4c..6e49693 100644
--- a/binaries/src/probcons/CompareToRef.cc
+++ b/binaries/src/probcons/CompareToRef.cc
@@ -18,6 +18,7 @@
 #include <cstdlib>
 #include <cerrno>
 #include <iomanip>
+#include <string.h>
 
 const char CORE_BLOCK = 'h';
 typedef pair<int,int> PII;
diff --git a/binaries/src/probcons/Main.cc b/binaries/src/probcons/Main.cc
index 399b1a2..0542917 100644
--- a/binaries/src/probcons/Main.cc
+++ b/binaries/src/probcons/Main.cc
@@ -23,6 +23,7 @@
 #include <cstdlib>
 #include <cerrno>
 #include <iomanip>
+#include <string.h>
 
 string parametersInputFilename = "";
 string parametersOutputFilename = "no training";
diff --git a/binaries/src/probcons/ProjectPairwise.cc b/binaries/src/probcons/ProjectPairwise.cc
index 4696ba1..d2622b2 100644
--- a/binaries/src/probcons/ProjectPairwise.cc
+++ b/binaries/src/probcons/ProjectPairwise.cc
@@ -18,6 +18,7 @@
 #include <cstdlib>
 #include <cerrno>
 #include <iomanip>
+#include <string.h>
 
 bool compressGaps = true;
 
diff --git a/binaries/src/probcons/SafeVector.h b/binaries/src/probcons/SafeVector.h
index abf4b64..103e894 100644
--- a/binaries/src/probcons/SafeVector.h
+++ b/binaries/src/probcons/SafeVector.h
@@ -10,6 +10,7 @@
 
 #include <cassert>
 #include <vector>
+#include <cstddef>
 
 /////////////////////////////////////////////////////////////////
 // SafeVector
diff --git a/binaries/src/probcons/compare b/binaries/src/probcons/compare
index bae79b5..8cbeac3 100644
Binary files a/binaries/src/probcons/compare and b/binaries/src/probcons/compare differ
diff --git a/binaries/src/probcons/makegnuplot b/binaries/src/probcons/makegnuplot
index fb52860..2327c39 100644
Binary files a/binaries/src/probcons/makegnuplot and b/binaries/src/probcons/makegnuplot differ
diff --git a/binaries/src/probcons/probcons b/binaries/src/probcons/probcons
index 04906ea..fc8451f 100644
Binary files a/binaries/src/probcons/probcons and b/binaries/src/probcons/probcons differ
diff --git a/binaries/src/probcons/project b/binaries/src/probcons/project
index 991ac2c..93d4500 100644
Binary files a/binaries/src/probcons/project and b/binaries/src/probcons/project differ