Merge pull request #7 from dengwirda/dev

Update bindings for jigsaw-0.9.14.xx

.gitignore

@@ -0,0 +1,37 @@
+# jigsaw things
+*
+!/**/
+!*.*
+*.exe
+*.dll
+*.so
+*.dylib
+cache/*.log
+cache/*.jig
+cache/*.msh
+
+# python things
+__pycache__/
+*.py[cod]
+
+jigsawpy/_bin/
+jigsawpy/_lib/
+
+build/
+develop-eggs/
+dist/
+eggs/
+parts/
+sdist/
+var/
+*.egg-info/
+.installed.cfg
+*.egg
+
+# data files, etc
+*.nc
+*.grd
+*.vtk
+*.off
+*.obj
+*.stl

.travis.yml

@@ -0,0 +1,29 @@
+language: python
+python:
+  - 3.6
+  - 3.7
+  - 3.8
+
+os: linux
+addons:
+  apt:
+    sources:
+      - ubuntu-toolchain-r-test
+    packages:
+      - gcc-8
+      - g++-8
+
+script:
+  - export CC=gcc-8
+  - export CXX=g++-8
+  - python3 setup.py build_external
+  - python3 setup.py install
+  - python3 example.py --IDnumber=0
+  - python3 example.py --IDnumber=1
+  - python3 example.py --IDnumber=2
+  - python3 example.py --IDnumber=3
+  - python3 example.py --IDnumber=4
+  - python3 example.py --IDnumber=5
+  - python3 example.py --IDnumber=6
+  - python3 example.py --IDnumber=7
+  - python3 example.py --IDnumber=8

external/jigsaw/.gitignore

@@ -0,0 +1,9 @@
+# cpp binaries
+*
+!/**/
+!*.*
+*.exe
+*.dll
+*.so
+*.dylib
+

external/jigsaw/README.md

@@ -32,7 +32,7 @@ The first step is to compile and configure the code! `JIGSAW` can either be buil
 
 ### `Building from src`
 
-The full `JIGSAW` src can be found in <a href="../master/src/">`../jigsaw/src/`</a>. It has been built using various `c++11` conforming versions of the `g++`, `clang++` and `msvc` compilers.
+The full `JIGSAW` src can be found in <a href="../master/src/">`../jigsaw/src/`</a>. It has been built using various `c++17` conforming versions of the `g++`, `clang++` and `msvc` compilers.
 
 `JIGSAW` is a `header-only` package - the single main `jigsaw.cpp` file simply `#include`'s the rest of the library directly. `JIGSAW` does not currently dependent on any external packages or libraries.
 

external/jigsaw/src/hfn_load.hpp

@@ -31,7 +31,7 @@
      *
     --------------------------------------------------------
      *
-     * Last updated: 26 April, 2020
+     * Last updated: 30 Sept., 2020
      *
      * Copyright 2013-2020
      * Darren Engwirda
@@ -2295,7 +2295,7 @@
             _jlog.push("  \n") ;
 
             if (_hfun._ellipsoid_grid_3d._wrap)
-            _jlog.push("  PERIODIC = TRUE") ;
+            _jlog.push("  PERIODIC = TRUE\n"  ) ;
 
         }
 

external/jigsaw/src/jigsaw.cpp

@@ -40,8 +40,8 @@
      * JIGSAW: an unstructured mesh generation library.
     --------------------------------------------------------
      *
-     * JIGSAW release 0.9.13.x
-     * Last updated: 27 July, 2020
+     * JIGSAW release 0.9.14.x
+     * Last updated: 30 Sept., 2020
      *
      * Copyright 2013 -- 2020
      * Darren Engwirda
@@ -187,7 +187,7 @@
     --------------------------------------------------------
      */
 
-#   define __JGSWVSTR "JIGSAW VERSION 0.9.13"
+#   define __JGSWVSTR "JIGSAW VERSION 0.9.14"
 
 #   if  defined(  USE_NETCDF)
 #       define  __use_netcdf

external/jigsaw/src/libcpp/aabb_tree/aabb_tree_k.hpp

@@ -31,7 +31,7 @@
  *
 ------------------------------------------------------------
  *
- * Last updated: 02 April, 2020
+ * Last updated: 28 Sept., 2020
  *
  * Copyright 2013-2020
  * Darren Engwirda
@@ -589,23 +589,29 @@
                     _rnod->_pmin[_idim] ;
                 }
 
-                if (_voll + _volr <= this->_vtol * _volp)
+                if (_voll + _volr <= _volp * this->_vtol)
                 {
         /*--------------- push children due to vol. ratio */
+                if (_lnum < _cnum && _rnum < _cnum)
+                {
                     this->_work
                        .push_tail(_rnod);
                     this->_work
                        .push_tail(_lnod);
                 }
+                }
 
             }
             else
             {
         /*--------------- push children due to items cap. */
+                if (_lnum < _cnum && _rnum < _cnum)
+                {
                     this->_work
                        .push_tail(_rnod);
                     this->_work
                        .push_tail(_lnod);
+                }
             }
         }
 

external/jigsaw/src/libcpp/iter_mesh/iter_divs_2.inc

@@ -31,7 +31,7 @@
      *
     --------------------------------------------------------
      *
-     * Last updated: 14 Sept., 2020
+     * Last updated: 30 Sept., 2020
      *
      * Copyright 2013-2020
      * Darren Engwirda
@@ -97,10 +97,14 @@
          auto _jptr = _mesh.
          node().head() + _eptr->node(1);
 
-        _cset.set_count(+0);
-        _cnew.set_count(+0);
-        _iset.set_count(+0);
-        _jset.set_count(+0);
+        _cset.set_count(
+            0, containers::loose_alloc);
+        _cnew.set_count(
+            0, containers::loose_alloc);
+        _iset.set_count(
+            0, containers::loose_alloc);
+        _jset.set_count(
+            0, containers::loose_alloc);
 
         _mesh.connect_2(
             _enum, EDGE2_tag, _cset) ;
@@ -140,7 +144,7 @@
 
         _qinc -= (real_type)+1./2. ;
 
-        _qinc /= std::cbrt (_iout) ; // no oscl. wrt. zip
+        _qinc /= std::sqrt (_iout) ; // no oscl. wrt. zip
 
         }
         else
@@ -332,7 +336,8 @@
         for (auto _iloc = +0; _iloc != _INUM;
                 ++_iloc )
         {
-            _qtmp.set_count(0) ;
+            _qtmp.set_count(
+                +0, containers::loose_alloc);
 
             real_type  _minC =
                 loop_cost( _mesh,
@@ -350,58 +355,59 @@
         }
 
     /*--------------------------------- is cost improved? */
-        _qdst.set_count(0);
+        _qdst.set_count(
+            0, containers::loose_alloc) ;
 
         real_type  _QMIN =
         loop_cost( _mesh,
-            _cnew, _qdst,  cell_kind ()
-            ) ;
+            _cnew, _qdst,  cell_kind()) ;
 
         move_okay( _qdst, _qsrc, _move,
-            +1.0 , _qinc) ;
+        std::sqrt( _QLIM) ,
+                   _qinc) ;
 
         if((_okay = _move > 0 &&
                     _QMIN >= _qmin+_qinc))
         {
     /*--------------------------------- delete old cavity */
-        for (auto _cell  = _cset.head();
-                  _cell != _cset.tend();
+        for (auto _cell  = _cset.head() ;
+                  _cell != _cset.tend() ;
                 ++_cell  )
         {
             if (_cell->_kind == TRIA3_tag)
             {
                 _mesh.
-                _pop_tri3(_cell->_cell);
+                _pop_tri3(_cell->_cell) ;
             }
             else
             if (_cell->_kind == QUAD4_tag)
             {
                 _mesh.
-                _pop_quad(_cell->_cell);
+                _pop_quad(_cell->_cell) ;
             }
         }
         }
         else
         {
     /*--------------------------------- delete new cavity */
-        for (auto _cell  = _cnew.head();
-                  _cell != _cnew.tend();
+        for (auto _cell  = _cnew.head() ;
+                  _cell != _cnew.tend() ;
                 ++_cell  )
         {
             if (_cell->_kind == TRIA3_tag)
             {
                 _mesh.
-                _pop_tri3(_cell->_cell);
+                _pop_tri3(_cell->_cell) ;
             }
             else
             if (_cell->_kind == QUAD4_tag)
             {
                 _mesh.
-                _pop_quad(_cell->_cell);
+                _pop_quad(_cell->_cell) ;
             }
         }
 
-            _mesh._pop_node ( &_inew ) ;
+            _mesh._pop_node ( &_inew );
         }
 
     #   undef   NULLHINT

external/jigsaw/src/libcpp/iter_mesh/iter_mesh_2.hpp

@@ -31,7 +31,7 @@
      *
     --------------------------------------------------------
      *
-     * Last updated: 12 Sept., 2020
+     * Last updated: 30 Sept., 2020
      *
      * Copyright 2013-2020
      * Darren Engwirda
@@ -399,7 +399,7 @@
             std::min(_0src, *_iter) ;
 
             _msrc += std::pow(
-            (real_type)1. / *_iter, +7);
+            (real_type)1. / *_iter, +9);
         }
         for (auto _iter  = _cdst.head(),
                   _tend  = _cdst.tend();
@@ -410,20 +410,20 @@
             std::min(_0dst, *_iter) ;
 
             _mdst += std::pow (
-            (real_type)1. / *_iter, +7);
+            (real_type)1. / *_iter, +9);
         }
 
         _qtol *= std::max(_0src, _zero);
 
         _msrc  = std::pow(
-        _csrc.count() / _msrc, +1./7.) ;
+        _csrc.count() / _msrc, +1./9.0);
         _mdst  = std::pow(
-        _cdst.count() / _mdst, +1./7.) ;
+        _cdst.count() / _mdst, +1./9.0);
 
         _qtol /=
-        std::pow(_csrc.count(), 1./7.) ;
+        std::pow(_csrc.count(), 1./9.0);
         _qtol /=
-        std::pow(_cdst.count(), 1./7.) ;
+        std::pow(_cdst.count(), 1./9.0);
 
     /*---------------------------- test move = "okay" */
         if (_0dst >= _GOOD)
@@ -1653,7 +1653,7 @@
             if (MARKNODE(_enod[0])>_imrk) continue ;
             if (MARKNODE(_enod[1])>_imrk) continue ;
 
-            if (MARKNODE(_enod[0]) < +0 ||
+            if (MARKNODE(_enod[0]) < +0 &&
                 MARKNODE(_enod[1]) < +0 ) continue ;
 
             if(!_mesh.find_edge(