Building igl statically and moving to the dep scripts

Fixing dep build script on Windows and removing some warnings.

Use bundled igl by default.

Not building with the dependency scripts if not explicitly stated. This way, it will stay in
Fix the libigl patch to include C source files in header only mode.

src/libigl/igl/point_mesh_squared_distance.h

@@ -0,0 +1,52 @@
+// This file is part of libigl, a simple c++ geometry processing library.
+// 
+// Copyright (C) 2014 Alec Jacobson <alecjacobson@gmail.com>
+// 
+// This Source Code Form is subject to the terms of the Mozilla Public License 
+// v. 2.0. If a copy of the MPL was not distributed with this file, You can 
+// obtain one at http://mozilla.org/MPL/2.0/.
+#ifndef IGL_POINT_MESH_SQUARED_DISTANCE_H
+#define IGL_POINT_MESH_SQUARED_DISTANCE_H
+#include "igl_inline.h"
+#include <Eigen/Core>
+#include <vector>
+
+namespace igl
+{
+  // Compute distances from a set of points P to a triangle mesh (V,F)
+  //
+  // Inputs:
+  //   P  #P by 3 list of query point positions
+  //   V  #V by 3 list of vertex positions
+  //   Ele  #Ele by (3|2|1) list of (triangle|edge|point) indices
+  // Outputs:
+  //   sqrD  #P list of smallest squared distances
+  //   I  #P list of primitive indices corresponding to smallest distances
+  //   C  #P by 3 list of closest points
+  //
+  // Known bugs: This only computes distances to given primitivess. So
+  // unreferenced vertices are ignored. However, degenerate primitives are
+  // handled correctly: triangle [1 2 2] is treated as a segment [1 2], and
+  // triangle [1 1 1] is treated as a point. So one _could_ add extra
+  // combinatorially degenerate rows to Ele for all unreferenced vertices to
+  // also get distances to points.
+  template <
+    typename DerivedP,
+    typename DerivedV,
+    typename DerivedsqrD,
+    typename DerivedI,
+    typename DerivedC>
+  IGL_INLINE void point_mesh_squared_distance(
+    const Eigen::PlainObjectBase<DerivedP> & P,
+    const Eigen::PlainObjectBase<DerivedV> & V,
+    const Eigen::MatrixXi & Ele, 
+    Eigen::PlainObjectBase<DerivedsqrD> & sqrD,
+    Eigen::PlainObjectBase<DerivedI> & I,
+    Eigen::PlainObjectBase<DerivedC> & C);
+}
+
+#ifndef IGL_STATIC_LIBRARY
+#  include "point_mesh_squared_distance.cpp"
+#endif
+
+#endif