reinit the tree, so we can have metadata

6 files changed, 62 insertions, 0 deletions

diff --git a/sci-physics/lammps/files/fm_exp.patch b/sci-physics/lammps/files/fm_exp.patch
new file mode 100644
index 000000000000..3b6bd24028d6
--- /dev/null
+++ b/sci-physics/lammps/files/fm_exp.patch
@@ -0,0 +1,11 @@
+--- lammps-30Jul16-original/lib/meam/fm_exp.c	2016-04-18 14:00:58.000000000 +0000
++++ lammps-30Jul16/lib/meam/fm_exp.c	2016-10-06 03:15:55.631053526 +0000
+@@ -112,7 +112,7 @@
+     return epart.f*x;
+ }
+ 
+-double fm_exp_(double *x)
++extern "C" double fm_exp_(double *x)
+ {
+ #if defined(__BYTE_ORDER__)
+ #if __BYTE_ORDER__ == __ORDER_LITTLE_ENDIAN__
diff --git a/sci-physics/lammps/files/gcc-6.patch b/sci-physics/lammps/files/gcc-6.patch
new file mode 100644
index 000000000000..ca2bcceeedfa
--- /dev/null
+++ b/sci-physics/lammps/files/gcc-6.patch
@@ -0,0 +1,11 @@
+--- lammps-7Apr16-orig/lib/atc/Vector.h	2014-11-20 11:59:03.000000000 -0700
++++ lammps-7Apr16/lib/atc/Vector.h	2016-10-13 06:04:44.328977960 -0600
+@@ -119,7 +119,7 @@
+ {
+   DenseVector<T> r(v);
+   r*=(1.0/s); // for integer types this may be worthless
+-  return ;
++  return r;
+ }
+ ///////////////////////////////////////////////////////////////////////////////
+ //* Operator for Vector-Vector sum
diff --git a/sci-physics/lammps/files/lammps-python3-r1.patch b/sci-physics/lammps/files/lammps-python3-r1.patch
new file mode 100644
index 000000000000..2dc2bd744fa9
--- /dev/null
+++ b/sci-physics/lammps/files/lammps-python3-r1.patch
@@ -0,0 +1,11 @@
+--- lammps-4Sep15-orig/python/lammps.py	2015-09-02 14:41:38.000000000 -0600
++++ lammps-4Sep15/python/lammps.py	2015-09-08 05:59:16.000000000 -0600
+@@ -33,7 +33,7 @@
+     except:
+       type,value,tb = sys.exc_info()
+       traceback.print_exception(type,value,tb)
+-      raise OSError,"Could not load LAMMPS dynamic library from %s" % modpath
++      raise OSError("Could not load LAMMPS dynamic library from %s" % modpath)
+ 
+     # if no ptr provided, create an instance of LAMMPS
+     #   don't know how to pass an MPI communicator from PyPar
diff --git a/sci-physics/lammps/files/lammps-python3-r2.patch b/sci-physics/lammps/files/lammps-python3-r2.patch
new file mode 100644
index 000000000000..a447c4b3a303
--- /dev/null
+++ b/sci-physics/lammps/files/lammps-python3-r2.patch
@@ -0,0 +1,11 @@
+--- lammps-23Mar16/python/lammps.py	(original)
++++ lammps-23Mar16/python/lammps.py	(refactored)
+@@ -208,7 +208,7 @@
+       result = (c_double*nlocal)()
+       self.lib.lammps_extract_variable.restype = POINTER(c_double)
+       ptr = self.lib.lammps_extract_variable(self.lmp,name,group)
+-      for i in xrange(nlocal): result[i] = ptr[i]
++      for i in range(nlocal): result[i] = ptr[i]
+       self.lib.lammps_free(ptr)
+       return result
+     return None
diff --git a/sci-physics/lammps/files/lammps-python3.patch b/sci-physics/lammps/files/lammps-python3.patch
new file mode 100644
index 000000000000..1937881c9339
--- /dev/null
+++ b/sci-physics/lammps/files/lammps-python3.patch
@@ -0,0 +1,11 @@
+--- lammps-11Apr15/python/lammps.py	2015-03-13 16:06:20.000000000 -0600
++++ lammps-11Apr15-new/python/lammps.py	2015-04-13 09:40:43.000000000 -0600
+@@ -28,7 +28,7 @@
+     except:
+       type,value,tb = sys.exc_info()
+       traceback.print_exception(type,value,tb)
+-      raise OSError,"Could not load LAMMPS dynamic library"
++      raise OSError("Could not load LAMMPS dynamic library")
+ 
+     # if no ptr provided, create an instance of LAMMPS
+     #   don't know how to pass an MPI communicator from PyPar
diff --git a/sci-physics/lammps/files/python-shebang.patch b/sci-physics/lammps/files/python-shebang.patch
new file mode 100644
index 000000000000..7dd45797d4ad
--- /dev/null
+++ b/sci-physics/lammps/files/python-shebang.patch
@@ -0,0 +1,7 @@
+--- lammps-25Mar15/python/lammps.py	2015-03-13 16:06:20.000000000 -0600
++++ lammps-25Mar15-new/python/lammps.py	2015-04-10 15:31:14.000000000 -0600
+@@ -1,3 +1,4 @@
++#!/usr/bin/env python
+ # ----------------------------------------------------------------------
+ #   LAMMPS - Large-scale Atomic/Molecular Massively Parallel Simulator
+ #   http://lammps.sandia.gov, Sandia National Laboratories