unanimity: Add patches to work around boost bug

[Jason Bacon <bacon4000%gmail.com@localhost>]

Module Name:	pkgsrc-wip
Committed By:	Jason Bacon <bacon4000%gmail.com@localhost>
Pushed By:	outpaddling
Date:		Sun Jul 2 21:08:59 2017 -0500
Changeset:	9b63d5cd8f5cf254aff70aa3434be76feb90d912

Added Files:
	unanimity/patches/patch-src_align_AffineAlignment.cpp
	unanimity/patches/patch-src_align_LinearAlignment.cpp
	unanimity/patches/patch-src_align_PairwiseAlignment.cpp

Log Message:
unanimity: Add patches to work around boost bug

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=9b63d5cd8f5cf254aff70aa3434be76feb90d912

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

diffstat:
 unanimity/patches/patch-src_align_AffineAlignment.cpp   | 16 ++++++++++++++++
 unanimity/patches/patch-src_align_LinearAlignment.cpp   | 16 ++++++++++++++++
 unanimity/patches/patch-src_align_PairwiseAlignment.cpp | 16 ++++++++++++++++
 3 files changed, 48 insertions(+)

diffs:
diff --git a/unanimity/patches/patch-src_align_AffineAlignment.cpp b/unanimity/patches/patch-src_align_AffineAlignment.cpp
new file mode 100644
index 0000000000..65bb463678
--- /dev/null
+++ b/unanimity/patches/patch-src_align_AffineAlignment.cpp
@@ -0,0 +1,16 @@
+$NetBSD$
+
+# Work around a boost ublas heade bug
+
+--- src/align/AffineAlignment.cpp.orig	2016-09-12 19:55:43.000000000 +0000
++++ src/align/AffineAlignment.cpp
+@@ -41,6 +41,9 @@
+ #include <string>
+ #include <vector>
+ 
++// Bug workaround: https://stackoverflow.com/questions/44534516/error-make-array-is-not-a-member-of-boostserialization
++#include <boost/serialization/array_wrapper.hpp>
++
+ #include <boost/numeric/ublas/matrix.hpp>
+ #include <boost/numeric/ublas/matrix_proxy.hpp>
+ 
diff --git a/unanimity/patches/patch-src_align_LinearAlignment.cpp b/unanimity/patches/patch-src_align_LinearAlignment.cpp
new file mode 100644
index 0000000000..5f8f15f55c
--- /dev/null
+++ b/unanimity/patches/patch-src_align_LinearAlignment.cpp
@@ -0,0 +1,16 @@
+$NetBSD$
+
+# Work around a boost ublas heade bug
+
+--- src/align/LinearAlignment.cpp.orig	2016-09-12 19:55:43.000000000 +0000
++++ src/align/LinearAlignment.cpp
+@@ -53,6 +53,9 @@
+ #include <string>
+ #include <vector>
+ 
++// Bug workaround: https://stackoverflow.com/questions/44534516/error-make-array-is-not-a-member-of-boostserialization
++#include <boost/serialization/array_wrapper.hpp>
++
+ #include <boost/numeric/ublas/io.hpp>
+ #include <boost/numeric/ublas/matrix.hpp>
+ #include <boost/numeric/ublas/vector.hpp>
diff --git a/unanimity/patches/patch-src_align_PairwiseAlignment.cpp b/unanimity/patches/patch-src_align_PairwiseAlignment.cpp
new file mode 100644
index 0000000000..ca9df7f7fa
--- /dev/null
+++ b/unanimity/patches/patch-src_align_PairwiseAlignment.cpp
@@ -0,0 +1,16 @@
+$NetBSD$
+
+# Work around a boost ublas heade bug
+
+--- src/align/PairwiseAlignment.cpp.orig	2016-09-12 19:55:43.000000000 +0000
++++ src/align/PairwiseAlignment.cpp
+@@ -39,6 +39,9 @@
+ #include <string>
+ #include <vector>
+ 
++// Bug workaround: https://stackoverflow.com/questions/44534516/error-make-array-is-not-a-member-of-boostserialization
++#include <boost/serialization/array_wrapper.hpp>
++
+ #include <boost/numeric/ublas/matrix.hpp>
+ 
+ #include <pacbio/align/PairwiseAlignment.h>