diff --git a/cad/plugins/NanoDynamics-1/TranslateStruts.py b/cad/plugins/NanoDynamics-1/TranslateStruts.py
index 437574043..9553c829f 100644
--- a/cad/plugins/NanoDynamics-1/TranslateStruts.py
+++ b/cad/plugins/NanoDynamics-1/TranslateStruts.py
@@ -32,7 +32,7 @@
 import sys
 import math
 
-from Numeric import array
+from numpy.oldnumeric import array
 from LinearAlgebra import inverse
 
 # a nice upgrade would be to read values selected from the NE1 history
diff --git a/cad/src/atombase.pyx b/cad/src/atombase.pyx
index 2e4f2b503..28f9c9604 100755
--- a/cad/src/atombase.pyx
+++ b/cad/src/atombase.pyx
@@ -9,7 +9,7 @@ make atombase.so ; valgrind python atombasetests.py >& OUCH; less OUCH
 __author__ = "Will"
 
 import types
-import Numeric
+import numpy.oldnumeric
 from foundation.inval import InvalMixin
 
 cdef extern from "atombasehelp.c":
diff --git a/cad/src/cnt/commands/EditNanotube/EditNanotube_GraphicsMode.py b/cad/src/cnt/commands/EditNanotube/EditNanotube_GraphicsMode.py
index df45ee3b9..d9407cd2b 100644
--- a/cad/src/cnt/commands/EditNanotube/EditNanotube_GraphicsMode.py
+++ b/cad/src/cnt/commands/EditNanotube/EditNanotube_GraphicsMode.py
@@ -18,7 +18,7 @@
 Created 2008-03-10 from copy of DnaSegment_GraphicsMode.py
 Recreated 2008-04-02 from copy of DnaSegment_GraphicsMode.py
 """
-from Numeric import dot
+from numpy.oldnumeric import dot
 from PyQt4.Qt import QMouseEvent
 
 from cnt.commands.BuildNanotube.BuildNanotube_GraphicsMode import BuildNanotube_GraphicsMode
diff --git a/cad/src/cnt/model/NanotubeParameters.py b/cad/src/cnt/model/NanotubeParameters.py
index fdd02785a..d898e42e7 100644
--- a/cad/src/cnt/model/NanotubeParameters.py
+++ b/cad/src/cnt/model/NanotubeParameters.py
@@ -16,7 +16,7 @@
 
 from math import sin, cos, pi
 from math import atan2
-from Numeric import dot, argmax, argmin, sqrt
+from numpy.oldnumeric import dot, argmax, argmin, sqrt
 
 from model.chem import Atom
 from model.bonds import bond_atoms
diff --git a/cad/src/command_support/GraphicsMode.py b/cad/src/command_support/GraphicsMode.py
index ca02cfd5f..9cb56678b 100755
--- a/cad/src/command_support/GraphicsMode.py
+++ b/cad/src/command_support/GraphicsMode.py
@@ -23,7 +23,7 @@
 """
 
 import math # just for pi
-from Numeric import exp
+from numpy.oldnumeric import exp
 
 from PyQt4.Qt import Qt
 from PyQt4.Qt import QMenu
diff --git a/cad/src/commands/BuildAtoms/BuildAtoms_GraphicsMode.py b/cad/src/commands/BuildAtoms/BuildAtoms_GraphicsMode.py
index 007a57682..ecb4db776 100755
--- a/cad/src/commands/BuildAtoms/BuildAtoms_GraphicsMode.py
+++ b/cad/src/commands/BuildAtoms/BuildAtoms_GraphicsMode.py
@@ -29,7 +29,7 @@
 
 
 import math
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from OpenGL.GL import GL_FALSE
 from OpenGL.GL import glDepthMask
diff --git a/cad/src/commands/BuildCrystal/BuildCrystal_Command.py b/cad/src/commands/BuildCrystal/BuildCrystal_Command.py
index 274108614..ffc9b6b35 100755
--- a/cad/src/commands/BuildCrystal/BuildCrystal_Command.py
+++ b/cad/src/commands/BuildCrystal/BuildCrystal_Command.py
@@ -17,7 +17,7 @@
 """
 
 import math # only for pi
-from Numeric import size, dot, sqrt, floor
+from numpy.oldnumeric import size, dot, sqrt, floor
 
 from OpenGL.GL import GL_COLOR_LOGIC_OP
 from OpenGL.GL import GL_DEPTH_TEST
diff --git a/cad/src/commands/BuildCrystal/CrystalShape.py b/cad/src/commands/BuildCrystal/CrystalShape.py
index cbd2d0b11..ec8806ece 100755
--- a/cad/src/commands/BuildCrystal/CrystalShape.py
+++ b/cad/src/commands/BuildCrystal/CrystalShape.py
@@ -39,7 +39,7 @@
 keep that member around in CSDL.
 """
 
-from Numeric import dot, floor
+from numpy.oldnumeric import dot, floor
 
 from geometry.VQT import vlen, V
 from OpenGL.GL import glNewList, glEndList, glCallList
diff --git a/cad/src/commands/Extrude/extrudeMode.py b/cad/src/commands/Extrude/extrudeMode.py
index 4f9d41604..9fe074542 100755
--- a/cad/src/commands/Extrude/extrudeMode.py
+++ b/cad/src/commands/Extrude/extrudeMode.py
@@ -38,7 +38,7 @@
 import foundation.env as env
 import foundation.changes as changes
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from OpenGL.GL import GL_CW
 from OpenGL.GL import glFrontFace
diff --git a/cad/src/commands/Move/Move_GraphicsMode.py b/cad/src/commands/Move/Move_GraphicsMode.py
index 9aa15a5be..f541cbab9 100755
--- a/cad/src/commands/Move/Move_GraphicsMode.py
+++ b/cad/src/commands/Move/Move_GraphicsMode.py
@@ -12,7 +12,7 @@
 """
 
 import math
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from PyQt4.Qt import QMouseEvent
 from PyQt4.Qt import Qt
diff --git a/cad/src/commands/Rotate/RotateChunks_GraphicsMode.py b/cad/src/commands/Rotate/RotateChunks_GraphicsMode.py
index 18cda4e47..e2d6a99b3 100755
--- a/cad/src/commands/Rotate/RotateChunks_GraphicsMode.py
+++ b/cad/src/commands/Rotate/RotateChunks_GraphicsMode.py
@@ -19,7 +19,7 @@
 """
 from utilities import debug_flags
 import math
-from Numeric import dot, sign
+from numpy.oldnumeric import dot, sign
 import foundation.env as env
 from utilities.Log import redmsg
 from utilities.debug import print_compact_stack
diff --git a/cad/src/commands/Select/Select_GraphicsMode.py b/cad/src/commands/Select/Select_GraphicsMode.py
index 74d1b4dea..404376b58 100755
--- a/cad/src/commands/Select/Select_GraphicsMode.py
+++ b/cad/src/commands/Select/Select_GraphicsMode.py
@@ -50,7 +50,7 @@
                           related methods into this class from selectMode.py
 
 """
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from OpenGL.GL import GL_CLIP_PLANE0
 from OpenGL.GL import GL_DEPTH_COMPONENT
diff --git a/cad/src/commands/Translate/TranslateChunks_GraphicsMode.py b/cad/src/commands/Translate/TranslateChunks_GraphicsMode.py
index 24309b4e0..6f7648a6a 100755
--- a/cad/src/commands/Translate/TranslateChunks_GraphicsMode.py
+++ b/cad/src/commands/Translate/TranslateChunks_GraphicsMode.py
@@ -16,7 +16,7 @@
 """
 from utilities import debug_flags
 import math
-from Numeric import dot
+from numpy.oldnumeric import dot
 import foundation.env as env
 from utilities.debug import print_compact_traceback
 from geometry.VQT import V, A, vlen, norm
diff --git a/cad/src/dna/commands/BuildDna/BuildDna_GraphicsMode.py b/cad/src/dna/commands/BuildDna/BuildDna_GraphicsMode.py
index 386dce6e3..c8611122d 100644
--- a/cad/src/dna/commands/BuildDna/BuildDna_GraphicsMode.py
+++ b/cad/src/dna/commands/BuildDna/BuildDna_GraphicsMode.py
@@ -13,7 +13,7 @@
 from commands.SelectChunks.SelectChunks_GraphicsMode import SelectChunks_GraphicsMode
 from model.chem import Atom
 from model.bonds import Bond
-from Numeric import dot
+from numpy.oldnumeric import dot
 from PyQt4.Qt import QMouseEvent
 from geometry.VQT import V, Q, A, norm, vlen
 from commands.Select.Select_GraphicsMode import DRAG_STICKINESS_LIMIT
diff --git a/cad/src/dna/commands/DnaSegment/DnaSegment_EditCommand.py b/cad/src/dna/commands/DnaSegment/DnaSegment_EditCommand.py
index d515f9fc2..2fb1b2725 100644
--- a/cad/src/dna/commands/DnaSegment/DnaSegment_EditCommand.py
+++ b/cad/src/dna/commands/DnaSegment/DnaSegment_EditCommand.py
@@ -41,7 +41,7 @@
 
 from geometry.VQT import V, Veq, vlen
 from geometry.VQT import cross, norm
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from utilities.constants  import gensym
 from utilities.Log        import redmsg
diff --git a/cad/src/dna/commands/DnaStrand/DnaStrand_EditCommand.py b/cad/src/dna/commands/DnaStrand/DnaStrand_EditCommand.py
index 682bd4d00..8b4e650a3 100644
--- a/cad/src/dna/commands/DnaStrand/DnaStrand_EditCommand.py
+++ b/cad/src/dna/commands/DnaStrand/DnaStrand_EditCommand.py
@@ -26,7 +26,7 @@
 from geometry.VQT import  V
 from geometry.VQT import  vlen
 from geometry.VQT import  norm
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from exprs.State_preMixin import State_preMixin
 from exprs.attr_decl_macros import Instance, State
diff --git a/cad/src/dna/commands/MakeCrossovers/CrossoverSite_Marker.py b/cad/src/dna/commands/MakeCrossovers/CrossoverSite_Marker.py
index a48019ee5..ddb8d906c 100644
--- a/cad/src/dna/commands/MakeCrossovers/CrossoverSite_Marker.py
+++ b/cad/src/dna/commands/MakeCrossovers/CrossoverSite_Marker.py
@@ -38,7 +38,7 @@
 from dna.commands.MakeCrossovers.MakeCrossovers_Handle import MakeCrossovers_Handle
 
 from geometry.VQT import orthodist, norm, vlen, angleBetween
-from Numeric import dot
+from numpy.oldnumeric import dot
 from model.bonds import bond_direction
 
 
@@ -552,4 +552,4 @@ def get_final_crossover_atoms_dict(self):
         return self._final_crossover_atoms_dict
     
     def get_final_crossover_pairs(self):
-        return self.final_crossover_pairs_dict.values()
\ No newline at end of file
+        return self.final_crossover_pairs_dict.values()
diff --git a/cad/src/dna/commands/MultipleDnaSegmentResize/MultipleDnaSegmentResize_EditCommand.py b/cad/src/dna/commands/MultipleDnaSegmentResize/MultipleDnaSegmentResize_EditCommand.py
index 5f8e2539c..06d0ea8d7 100644
--- a/cad/src/dna/commands/MultipleDnaSegmentResize/MultipleDnaSegmentResize_EditCommand.py
+++ b/cad/src/dna/commands/MultipleDnaSegmentResize/MultipleDnaSegmentResize_EditCommand.py
@@ -15,7 +15,7 @@
 2008-05-09 - 2008-05-14 Created / modified.
 
 """
-from Numeric import dot
+from numpy.oldnumeric import dot
 from geometry.VQT import V, norm, vlen
 from utilities.constants import applegreen
 
@@ -656,4 +656,4 @@ def _determine_numberOfBasePairs_to_change(self):
 
         return numberOfBasesToAddOrRemove
 
-    
\ No newline at end of file
+    
diff --git a/cad/src/dna/generators/B_Dna_PAM3_Generator.py b/cad/src/dna/generators/B_Dna_PAM3_Generator.py
index 12c3e9644..2d7fbb71e 100644
--- a/cad/src/dna/generators/B_Dna_PAM3_Generator.py
+++ b/cad/src/dna/generators/B_Dna_PAM3_Generator.py
@@ -30,7 +30,7 @@
 LEFT_HANDED  =  1
 
 from geometry.VQT import norm
-from Numeric import dot
+from numpy.oldnumeric import dot
 from dna.generators.B_Dna_Generator import B_Dna_Generator
 
 class B_Dna_PAM3_Generator(B_Dna_Generator):
@@ -375,4 +375,4 @@ def _create_atomLists_for_regrouping(self, dnaGroup):
                 elif atom.element.symbol in ('Ax3', 'Ae3'):
                     _axis_list.append(atom)
 
-        return (_strandA_list, _strandB_list, _axis_list)
\ No newline at end of file
+        return (_strandA_list, _strandB_list, _axis_list)
diff --git a/cad/src/dna/generators/B_Dna_PAM3_SingleStrand_Generator.py b/cad/src/dna/generators/B_Dna_PAM3_SingleStrand_Generator.py
index a537b810e..333a48ae6 100644
--- a/cad/src/dna/generators/B_Dna_PAM3_SingleStrand_Generator.py
+++ b/cad/src/dna/generators/B_Dna_PAM3_SingleStrand_Generator.py
@@ -29,7 +29,7 @@
 """
 
 from geometry.VQT import Q, norm, vlen, cross
-from Numeric import dot
+from numpy.oldnumeric import dot
 from utilities.debug import print_compact_stack
 from model.bonds import bond_at_singlets
 
diff --git a/cad/src/dna/generators/B_Dna_PAM5_Generator.py b/cad/src/dna/generators/B_Dna_PAM5_Generator.py
index 5c7855c59..f5b908293 100644
--- a/cad/src/dna/generators/B_Dna_PAM5_Generator.py
+++ b/cad/src/dna/generators/B_Dna_PAM5_Generator.py
@@ -51,7 +51,7 @@
 
 from geometry.VQT import V, Q, norm, cross  
 from geometry.VQT import  vlen
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from utilities.debug import print_compact_stack
 from model.bonds import bond_at_singlets
diff --git a/cad/src/dna/generators/Dna_Generator.py b/cad/src/dna/generators/Dna_Generator.py
index 3b262f0bb..329737950 100644
--- a/cad/src/dna/generators/Dna_Generator.py
+++ b/cad/src/dna/generators/Dna_Generator.py
@@ -52,7 +52,7 @@
 
 from geometry.VQT import V, Q, norm, cross  
 from geometry.VQT import  vlen
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from utilities.debug import print_compact_stack
 from model.bonds import bond_at_singlets
diff --git a/cad/src/dna/generators/Z_Dna_Atomistic_Generator.py b/cad/src/dna/generators/Z_Dna_Atomistic_Generator.py
index 9590a2059..e620dab11 100644
--- a/cad/src/dna/generators/Z_Dna_Atomistic_Generator.py
+++ b/cad/src/dna/generators/Z_Dna_Atomistic_Generator.py
@@ -51,7 +51,7 @@
 
 from geometry.VQT import V, Q, norm, cross  
 from geometry.VQT import  vlen
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from utilities.debug import print_compact_stack
 from model.bonds import bond_at_singlets
diff --git a/cad/src/dna/generators/Z_Dna_Generator.py b/cad/src/dna/generators/Z_Dna_Generator.py
index 243a7b63a..a5b5ae15f 100644
--- a/cad/src/dna/generators/Z_Dna_Generator.py
+++ b/cad/src/dna/generators/Z_Dna_Generator.py
@@ -51,7 +51,7 @@
 
 from geometry.VQT import V, Q, norm, cross  
 from geometry.VQT import  vlen
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from utilities.debug import print_compact_stack
 from model.bonds import bond_at_singlets
diff --git a/cad/src/dna/generators/Z_Dna_PAM5_Generator.py b/cad/src/dna/generators/Z_Dna_PAM5_Generator.py
index f06d69224..b00580e7d 100644
--- a/cad/src/dna/generators/Z_Dna_PAM5_Generator.py
+++ b/cad/src/dna/generators/Z_Dna_PAM5_Generator.py
@@ -51,7 +51,7 @@
 
 from geometry.VQT import V, Q, norm, cross  
 from geometry.VQT import  vlen
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from utilities.debug import print_compact_stack
 from model.bonds import bond_at_singlets
diff --git a/cad/src/dna/model/DnaLadder.py b/cad/src/dna/model/DnaLadder.py
index 9e7ee8a71..017cb2fe7 100644
--- a/cad/src/dna/model/DnaLadder.py
+++ b/cad/src/dna/model/DnaLadder.py
@@ -46,7 +46,7 @@
 undoable state), and is not stored in the mmp file.
 """
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 from geometry.VQT import cross
 
 from model.elements import Pl5
diff --git a/cad/src/dna/model/outtakes/PositionInWholeChain-outtakes.py b/cad/src/dna/model/outtakes/PositionInWholeChain-outtakes.py
index 09258d342..300b8c92b 100644
--- a/cad/src/dna/model/outtakes/PositionInWholeChain-outtakes.py
+++ b/cad/src/dna/model/outtakes/PositionInWholeChain-outtakes.py
@@ -1,4 +1,4 @@
-from Numeric import sign
+from numpy.oldnumeric import sign
 
 class PositionInWholeChain(object):
     """
diff --git a/cad/src/experimental/LearningOpenGL/Craft.py b/cad/src/experimental/LearningOpenGL/Craft.py
index 6e6be93b6..962697bb8 100755
--- a/cad/src/experimental/LearningOpenGL/Craft.py
+++ b/cad/src/experimental/LearningOpenGL/Craft.py
@@ -10,7 +10,7 @@
 from qtcanvas import *
 from qtgl import *
 from OpenGL.GL import *
-import Numeric
+import numpy.oldnumeric
 import sys
 import random
 import time
diff --git a/cad/src/experimental/LearningOpenGL/Cruft.py b/cad/src/experimental/LearningOpenGL/Cruft.py
index 922d698c5..88d7dae3c 100755
--- a/cad/src/experimental/LearningOpenGL/Cruft.py
+++ b/cad/src/experimental/LearningOpenGL/Cruft.py
@@ -34,7 +34,7 @@ def mypaintGL(): bla
 from qtcanvas import *
 from qtgl import *
 from OpenGL.GL import *
-import Numeric
+import numpy.oldnumeric
 import sys
 import random
 import time
diff --git a/cad/src/experimental/pyrex-atoms-bonds/prototype.py b/cad/src/experimental/pyrex-atoms-bonds/prototype.py
index df90237de..8d0bc53a2 100755
--- a/cad/src/experimental/pyrex-atoms-bonds/prototype.py
+++ b/cad/src/experimental/pyrex-atoms-bonds/prototype.py
@@ -6,7 +6,7 @@
 import unittest
 import time
 import types
-import Numeric
+import numpy.oldnumeric
 
 # This is a prototype of the desired API for Pyrex atoms, bonds, and
 # atom sets. See "Pyrex atoms and bonds" page on the wiki.
diff --git a/cad/src/experimental/pyrex-atoms-bonds/smallerFootprint.py b/cad/src/experimental/pyrex-atoms-bonds/smallerFootprint.py
index bd038e7bc..40fd28fd4 100755
--- a/cad/src/experimental/pyrex-atoms-bonds/smallerFootprint.py
+++ b/cad/src/experimental/pyrex-atoms-bonds/smallerFootprint.py
@@ -4,7 +4,7 @@
 
 import time
 import unittest
-import Numeric
+import numpy.oldnumeric
 
 stuff = None
 #stuff = [ ]
diff --git a/cad/src/experimental/pyrex-atoms-bonds/tryit.py b/cad/src/experimental/pyrex-atoms-bonds/tryit.py
index f8437c9a4..a597704a3 100755
--- a/cad/src/experimental/pyrex-atoms-bonds/tryit.py
+++ b/cad/src/experimental/pyrex-atoms-bonds/tryit.py
@@ -2,7 +2,7 @@
 import time
 import unittest
 import random
-import Numeric
+import numpy.oldnumeric
 from bases import *
 
 N = int(10**6)
diff --git a/cad/src/experimental/pyrex-opengl/bearing_data.py b/cad/src/experimental/pyrex-opengl/bearing_data.py
index 608a33307..3adeb7a57 100755
--- a/cad/src/experimental/pyrex-opengl/bearing_data.py
+++ b/cad/src/experimental/pyrex-opengl/bearing_data.py
@@ -4,7 +4,7 @@
 suitable for passing to the quux test renderer
 """
 
-import Numeric
+import numpy.oldnumeric
 sphereColors = Numeric.array(( Numeric.array((0.840, 0.370, 1.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.840, 0.370, 1.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.840, 0.370, 1.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.840, 0.370, 1.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.840, 0.370, 1.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.840, 0.370, 1.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.840, 0.370, 1.000, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.840, 0.370, 1.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.840, 0.370, 1.000, 1.000), 'f'), Numeric.array((0.600, 0.200, 0.200, 1.000), 'f'), Numeric.array((0.250, 0.400, 0.000, 1.000), 'f'), 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-149.920), 'f'), Numeric.array((-3.785, 13.542, -152.460), 'f'), Numeric.array((-2.788, 15.296, -150.961), 'f'), Numeric.array((-6.156, 10.044, -148.971), 'f'), Numeric.array((-6.080, 12.353, -149.921), 'f'), Numeric.array((-4.340, 11.359, -151.377), 'f'), Numeric.array((-5.547, 14.524, -150.963), 'f'), Numeric.array((-1.114, 12.665, -148.810), 'f'), Numeric.array((-1.999, 10.980, -150.305), 'f'), Numeric.array((-3.517, 12.583, -151.285), 'f'), Numeric.array((-2.616, 14.361, -149.810), 'f'), Numeric.array((-4.491, 16.058, -150.764), 'f'), Numeric.array((-5.615, 11.408, -148.811), 'f'), Numeric.array((-5.209, 13.637, -149.811), 'f'), Numeric.array((-3.984, 10.426, -150.306), 'f'), Numeric.array((-2.111, 11.590, -148.971), 'f'), Numeric.array((-3.706, 13.261, -149.921), 'f'), Numeric.array((-4.205, 11.005, -148.971), 'f'), Numeric.array((-3.423, 12.246, -148.811), 'f'), Numeric.array((3.541, -12.684, -147.842), 'f'), Numeric.array((3.913, -10.253, -148.267), 'f'), Numeric.array((1.963, -10.799, -148.267), 'f'), Numeric.array((5.810, -11.817, -147.841), 'f'), Numeric.array((1.152, -13.120, -147.842), 'f'), Numeric.array((5.732, -9.360, -148.266), 'f'), Numeric.array((-0.054, -10.978, -148.266), 'f'), Numeric.array((7.884, -10.549, -147.841), 'f'), Numeric.array((-1.278, -13.111, -147.842), 'f'), Numeric.array((7.354, -8.149, -148.265), 'f'), Numeric.array((-2.069, -10.783, -148.266), 'f'), Numeric.array((9.687, -8.923, -147.840), 'f'), Numeric.array((-3.663, -12.656, -147.842), 'f'), Numeric.array((8.725, -6.660, -148.264), 'f'), Numeric.array((-4.014, -10.222, -148.265), 'f'), Numeric.array((11.161, -6.991, -147.838), 'f'), Numeric.array((-5.925, -11.768, -147.840), 'f'), Numeric.array((9.800, -4.944, -148.262), 'f'), Numeric.array((-5.823, -9.311, -148.264), 'f'), Numeric.array((12.256, -4.820, -147.837), 'f'), Numeric.array((-7.987, -10.479, -147.839), 'f'), Numeric.array((10.540, -3.059, -148.261), 'f'), Numeric.array((-7.433, -8.084, -148.263), 'f'), Numeric.array((12.932, -2.488, -147.835), 'f'), Numeric.array((-9.774, -8.835, -147.838), 'f'), Numeric.array((10.922, -1.071, -148.259), 'f'), Numeric.array((-8.789, -6.582, -148.262), 'f'), Numeric.array((13.167, -0.069, -147.832), 'f'), Numeric.array((-11.229, -6.888, -147.836), 'f'), Numeric.array((10.932, 0.954, -148.258), 'f'), Numeric.array((-9.848, -4.854, -148.260), 'f'), Numeric.array((12.955, 2.351, -147.831), 'f'), Numeric.array((-12.302, -4.707, -147.834), 'f'), Numeric.array((10.569, 2.946, -148.256), 'f'), Numeric.array((-10.569, -2.963, -148.258), 'f'), Numeric.array((12.301, 4.690, -147.829), 'f'), Numeric.array((-12.955, -2.368, -147.832), 'f'), Numeric.array((9.847, 4.837, -148.254), 'f'), Numeric.array((-10.932, -0.971, -148.257), 'f'), Numeric.array((11.228, 6.871, -147.826), 'f'), Numeric.array((-13.166, 0.053, -147.829), 'f'), Numeric.array((8.789, 6.565, -148.253), 'f'), Numeric.array((-10.921, 1.055, -148.255), 'f'), Numeric.array((9.773, 8.818, -147.825), 'f'), Numeric.array((-12.931, 2.471, -147.828), 'f'), Numeric.array((7.432, 8.067, -148.251), 'f'), Numeric.array((-10.539, 3.043, -148.253), 'f'), Numeric.array((7.986, 10.462, -147.823), 'f'), Numeric.array((-12.254, 4.804, -147.826), 'f'), Numeric.array((5.822, 9.296, -148.250), 'f'), Numeric.array((-9.799, 4.928, -148.252), 'f'), Numeric.array((5.924, 11.752, -147.821), 'f'), Numeric.array((-11.160, 6.975, -147.824), 'f'), Numeric.array((4.012, 10.208, -148.249), 'f'), Numeric.array((-8.724, 6.646, -148.251), 'f'), Numeric.array((3.663, 12.641, -147.821), 'f'), Numeric.array((-9.688, 8.908, -147.823), 'f'), Numeric.array((2.068, 10.771, -148.248), 'f'), Numeric.array((-7.353, 8.137, -148.249), 'f'), Numeric.array((1.278, 13.099, -147.820), 'f'), Numeric.array((-7.885, 10.537, -147.821), 'f'), Numeric.array((0.051, 10.968, -148.248), 'f'), Numeric.array((-5.732, 9.352, -148.248), 'f'), Numeric.array((-1.153, 13.111, -147.820), 'f'), Numeric.array((-5.813, 11.809, -147.820), 'f'), Numeric.array((-1.966, 10.792, -148.247), 'f'), Numeric.array((-3.915, 10.247, -148.248), 'f'), Numeric.array((-3.544, 12.677, -147.820), 'f'), Numeric.array((-12.251, 4.813, -159.751), 'f'), Numeric.array((7.981, 10.470, -159.748), 'f'), Numeric.array((-9.796, 4.936, -159.323), 'f'), Numeric.array((5.818, 9.302, -159.321), 'f'), Numeric.array((-11.158, 6.983, -159.749), 'f'), Numeric.array((5.920, 11.758, -159.747), 'f'), Numeric.array((-8.722, 6.653, -159.322), 'f'), Numeric.array((4.009, 10.212, -159.320), 'f'), Numeric.array((-9.686, 8.915, -159.747), 'f'), Numeric.array((3.659, 12.646, -159.745), 'f'), Numeric.array((-7.352, 8.142, -159.321), 'f'), Numeric.array((2.065, 10.774, -159.319), 'f'), Numeric.array((-7.884, 10.542, -159.747), 'f'), Numeric.array((1.275, 13.102, -159.746), 'f'), Numeric.array((-5.731, 9.355, -159.320), 'f'), Numeric.array((0.050, 10.971, -159.319), 'f'), Numeric.array((-5.812, 11.812, -159.746), 'f'), Numeric.array((-1.154, 13.114, -159.746), 'f'), Numeric.array((-3.915, 10.249, -159.319), 'f'), Numeric.array((-1.967, 10.794, -159.319), 'f'), Numeric.array((-3.544, 12.680, -159.745), 'f'), Numeric.array((3.540, -12.673, -159.766), 'f'), Numeric.array((3.912, -10.243, -159.337), 'f'), Numeric.array((1.963, -10.788, -159.337), 'f'), Numeric.array((1.151, -13.108, -159.767), 'f'), Numeric.array((5.809, -11.806, -159.767), 'f'), Numeric.array((-0.054, -10.966, -159.337), 'f'), Numeric.array((5.729, -9.350, -159.337), 'f'), Numeric.array((-1.278, -13.098, -159.767), 'f'), Numeric.array((7.882, -10.536, -159.766), 'f'), Numeric.array((-2.068, -10.771, -159.337), 'f'), Numeric.array((7.351, -8.137, -159.336), 'f'), Numeric.array((-3.663, -12.642, -159.766), 'f'), Numeric.array((9.684, -8.910, -159.764), 'f'), Numeric.array((-4.012, -10.209, -159.336), 'f'), Numeric.array((8.721, -6.648, -159.335), 'f'), Numeric.array((-5.923, -11.753, -159.766), 'f'), Numeric.array((11.157, -6.978, -159.764), 'f'), Numeric.array((-5.820, -9.298, -159.336), 'f'), Numeric.array((9.796, -4.932, -159.334), 'f'), Numeric.array((-7.984, -10.465, -159.764), 'f'), Numeric.array((12.251, -4.807, -159.761), 'f'), Numeric.array((-7.429, -8.070, -159.334), 'f'), Numeric.array((10.535, -3.047, -159.332), 'f'), Numeric.array((-9.770, -8.821, -159.762), 'f'), Numeric.array((12.926, -2.476, -159.759), 'f'), Numeric.array((-8.786, -6.569, -159.333), 'f'), Numeric.array((10.917, -1.060, -159.330), 'f'), Numeric.array((-11.224, -6.875, -159.761), 'f'), Numeric.array((13.161, -0.057, -159.758), 'f'), Numeric.array((-9.843, -4.842, -159.331), 'f'), Numeric.array((10.927, 0.964, -159.329), 'f'), Numeric.array((-12.297, -4.695, -159.759), 'f'), Numeric.array((12.949, 2.362, -159.755), 'f'), Numeric.array((-10.565, -2.951, -159.330), 'f'), Numeric.array((10.564, 2.955, -159.327), 'f'), Numeric.array((-12.950, -2.357, -159.757), 'f'), Numeric.array((12.296, 4.700, -159.753), 'f'), Numeric.array((-10.927, -0.960, -159.328), 'f'), Numeric.array((9.842, 4.846, -159.325), 'f'), Numeric.array((-13.162, 0.063, -159.755), 'f'), Numeric.array((11.222, 6.880, -159.752), 'f'), Numeric.array((-10.918, 1.064, -159.326), 'f'), Numeric.array((8.784, 6.573, -159.324), 'f'), Numeric.array((-12.927, 2.481, -159.752), 'f'), Numeric.array((9.768, 8.826, -159.749), 'f'), Numeric.array((-10.536, 3.051, -159.325), 'f'), Numeric.array((7.427, 8.074, -159.322), 'f') ), 'f')
 sphereRadii = Numeric.array(
diff --git a/cad/src/experimental/pyrex-opengl/quux.pyx b/cad/src/experimental/pyrex-opengl/quux.pyx
index 52a65ef14..b00a45770 100755
--- a/cad/src/experimental/pyrex-opengl/quux.pyx
+++ b/cad/src/experimental/pyrex-opengl/quux.pyx
@@ -1,5 +1,5 @@
 # Copyright 2006-2007 Nanorex, Inc.  See LICENSE file for details. 
-import Numeric
+import numpy.oldnumeric
 import types
 import unittest
 import random
diff --git a/cad/src/exprs/Exprs.py b/cad/src/exprs/Exprs.py
index 23cfed63e..a4b891d66 100755
--- a/cad/src/exprs/Exprs.py
+++ b/cad/src/exprs/Exprs.py
@@ -806,7 +806,7 @@ def _e_make_argval(self, argval, env, i, ipath):
     pass
 
 # same as in basic.py:
-from Numeric import dot
+from numpy.oldnumeric import dot
 from geometry.VQT import V, norm, vlen
 
 class V_expr(OpExpr):
@@ -1259,7 +1259,7 @@ def _e_make_in(self, env, ipath):
 ##from VQT import V ###e replace with a type constant -- probably there's one already in state_utils
 ##V_expr = tuple_Expr ### kluge; even once this is defined, in formulas you may have to use V_expr instead of V,
     # unless we redefine V to not try to use float() on exprs inside it -- right now it's def V(*v): return array(v, Float)
-    # (note: that Float is from Numeric and equals 'd')
+    # (note: that Float is from numpy.oldnumeric and equals 'd')
     ##e (maybe we could make a new V def try to use old def, make __float__ asfail so that would fail, then use V_expr if any expr arg)
 
 def canon_expr(subexpr):###CALL ME FROM MORE PLACES -- a comment in Column.py says that env.understand_expr should call this...
diff --git a/cad/src/exprs/dna_ribbon_view.py b/cad/src/exprs/dna_ribbon_view.py
index 661481749..615f93bce 100755
--- a/cad/src/exprs/dna_ribbon_view.py
+++ b/cad/src/exprs/dna_ribbon_view.py
@@ -81,7 +81,7 @@
 """
 
 from math import pi
-from Numeric import dot, cos, sin
+from numpy.oldnumeric import dot, cos, sin
 
 from OpenGL.GL import GL_LIGHTING
 from OpenGL.GL import glDisable
diff --git a/cad/src/exprs/draw_utils.py b/cad/src/exprs/draw_utils.py
index 86cb8e40c..4f5bfde70 100755
--- a/cad/src/exprs/draw_utils.py
+++ b/cad/src/exprs/draw_utils.py
@@ -25,7 +25,7 @@
 from OpenGL.GLU import gluUnProject
 
 from geometry.VQT import norm, A
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from array import array
 # ==
diff --git a/cad/src/exprs/geometry_exprs.py b/cad/src/exprs/geometry_exprs.py
index 5e48084bf..f04b7920d 100755
--- a/cad/src/exprs/geometry_exprs.py
+++ b/cad/src/exprs/geometry_exprs.py
@@ -104,7 +104,7 @@
 
 """
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from geometry.VQT import planeXline
 from geometry.VQT import norm
diff --git a/cad/src/exprs/outtakes/basic.py b/cad/src/exprs/outtakes/basic.py
index b47cfce8e..3de5ddd95 100755
--- a/cad/src/exprs/outtakes/basic.py
+++ b/cad/src/exprs/outtakes/basic.py
@@ -35,7 +35,7 @@
 # == imports from python itself
 
 import sys, os
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 sys.setrecursionlimit(650) # 5000 is set in startup_funcs.py; this will ease debugging, but REMOVE WHEN DEVEL IS DONE [061121]
 
diff --git a/cad/src/files/dpb_trajectory/moviefile.py b/cad/src/files/dpb_trajectory/moviefile.py
index 39e9e8fdc..aa0a02f7c 100755
--- a/cad/src/files/dpb_trajectory/moviefile.py
+++ b/cad/src/files/dpb_trajectory/moviefile.py
@@ -17,7 +17,7 @@
 import os, sys
 from struct import unpack # fyi: used for old-format header, no longer for delta frames
 ## from VQT import A
-from Numeric import array, Int8
+from numpy.oldnumeric import array, Int8
 from utilities import debug_flags
 from utilities.debug import print_compact_stack, print_compact_traceback
 import foundation.env as env
diff --git a/cad/src/foundation/state_utils.py b/cad/src/foundation/state_utils.py
index f65504992..e1dfe5c22 100755
--- a/cad/src/foundation/state_utils.py
+++ b/cad/src/foundation/state_utils.py
@@ -1136,7 +1136,7 @@ def scan_Numeric_array(obj, func):
     return
 
 try:
-    from Numeric import array, PyObject
+    from nompy.oldnumeric import array, PyObject
 except:
     if env.debug() or DEBUG_PYREX_ATOMS:
         print "fyi: can't import array, PyObject from Numeric, so not registering its copy & scan functions"
@@ -2321,7 +2321,7 @@ def __ne__(self, other):
 
 def _test():
     print "testing some simple cases of copy_val"
-    from Numeric import array
+    from numpy.oldnumeric import array
     map( _test1, [2,
                   3,
                   "string",
diff --git a/cad/src/geometry/BoundingBox.py b/cad/src/geometry/BoundingBox.py
index 33bb07930..b4796001f 100644
--- a/cad/src/geometry/BoundingBox.py
+++ b/cad/src/geometry/BoundingBox.py
@@ -20,8 +20,8 @@
 """
 
 from graphics.drawing.drawers import drawwirebox
-from Numeric import add, subtract, sqrt 
-from Numeric import maximum, minimum, dot
+from numpy.oldnumeric import add, subtract, sqrt 
+from numpy.oldnumeric import maximum, minimum, dot
 
 from geometry.VQT import V, A, cat
 from utilities.constants import black
diff --git a/cad/src/geometry/InternalCoordinatesToCartesian.py b/cad/src/geometry/InternalCoordinatesToCartesian.py
index 3fd5dd62d..646f13fe9 100644
--- a/cad/src/geometry/InternalCoordinatesToCartesian.py
+++ b/cad/src/geometry/InternalCoordinatesToCartesian.py
@@ -11,7 +11,7 @@
 
 from geometry.VQT import V
 
-from Numeric import zeros, Float, cos, sin, sqrt, pi
+from numpy.oldnumeric import zeros, Float, cos, sin, sqrt, pi
 
 DEG2RAD = (pi/180.0)
 
diff --git a/cad/src/geometry/NeighborhoodGenerator.py b/cad/src/geometry/NeighborhoodGenerator.py
index 6af7526c4..0345b1deb 100644
--- a/cad/src/geometry/NeighborhoodGenerator.py
+++ b/cad/src/geometry/NeighborhoodGenerator.py
@@ -20,7 +20,7 @@
 
 import struct
 
-from Numeric import floor
+from numpy.oldnumeric import floor
 
 from geometry.VQT import vlen
 
diff --git a/cad/src/geometry/Slab.py b/cad/src/geometry/Slab.py
index b73af15fc..b04e65def 100755
--- a/cad/src/geometry/Slab.py
+++ b/cad/src/geometry/Slab.py
@@ -2,7 +2,7 @@
 """
 Slab.py - a slab in space, with a 3d-point-in-slab test
 
-@author: not sure; could be found from svn/cvs annotate
+@author: not sure; could be found  svn/cvs annotate
 @version: $Id$
 @copyright: 2004-2007 Nanorex, Inc.  See LICENSE file for details.
 
@@ -11,7 +11,7 @@
 Note: bruce 071215 split class Slab our of shape.py into its own module.
 """
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from geometry.VQT import norm
 
diff --git a/cad/src/geometry/VQT.py b/cad/src/geometry/VQT.py
index 33ea76f9a..0f5fbec52 100755
--- a/cad/src/geometry/VQT.py
+++ b/cad/src/geometry/VQT.py
@@ -20,7 +20,10 @@
 from utilities import debug_flags
 from foundation.state_utils import DataMixin
 
-import Numeric 
+#update by kirka
+#import Numeric 
+import numpy.oldnumeric as Numeric
+
 
 _DEBUG_QUATS = False
     #bruce 050518; I'll leave this turned on in the main sources for awhile
@@ -377,7 +380,7 @@ def __eq__(self, other): #bruce 070227 revised this
         except AttributeError:
             # some objects have no __class__ (e.g. Numeric arrays)
             return False
-        return not (self.vec != other.vec) # assumes all quats have .vec; true except for bugs
+        return not (self.vec.any() != other.vec.any()) # assumes all quats have .vec; true except for bugs
             #bruce 070227 fixed "Numeric array == bug" encountered by this line (when it said "self.vec == other.vec"),
             # which made Q(1, 0, 0, 0) == Q(0.877583, 0.287655, 0.38354, 0) (since they're equal in at least one component)!!
             # Apparently it was my own bug, since it says above that I wrote this method on 060209.
@@ -613,11 +616,11 @@ def cat(a, b):
     #bruce comment 050518: these boolean tests look like bugs!
     # I bet they should be testing the number of entries being 0, or so.
     # So I added some debug code to warn us if this happens.
-    if not a:
+    if not a.any():
         if (_DEBUG_QUATS or debug_flags.atom_debug):
             print "_DEBUG_QUATS: cat(a, b) with false a -- is it right?", a
         return b
-    if not b:
+    if not b.any():
         if (_DEBUG_QUATS or debug_flags.atom_debug):
             print "_DEBUG_QUATS: cat(a, b) with false b -- is it right?", b
         return a
diff --git a/cad/src/geometry/geometryUtilities.py b/cad/src/geometry/geometryUtilities.py
index 7eabbedac..2497bd3ab 100755
--- a/cad/src/geometry/geometryUtilities.py
+++ b/cad/src/geometry/geometryUtilities.py
@@ -21,9 +21,14 @@
 # this file should remain purely geometric.
 
 import math
-from Numeric import transpose, minimum, maximum, remainder, size, add
-from Numeric import Float, zeros, multiply, sign, dot
-from LinearAlgebra import solve_linear_equations, eigenvectors
+from numpy.oldnumeric import transpose, minimum, maximum, remainder, size, add
+from numpy.oldnumeric import Float, zeros, multiply, sign, dot
+
+#from LinearAlgebra import solve_linear_equations, eigenvectors
+from numpy.linalg import solve as solve_linear_equations
+from numpy.linalg import eig as eigenvectors
+
+
 
 from utilities import debug_flags # for atom_debug
 from geometry.VQT import V, A, cat, norm, cross, X_AXIS, Y_AXIS
diff --git a/cad/src/graphics/behaviors/shape.py b/cad/src/graphics/behaviors/shape.py
index a36178aa5..864a0906c 100755
--- a/cad/src/graphics/behaviors/shape.py
+++ b/cad/src/graphics/behaviors/shape.py
@@ -28,7 +28,7 @@
 I'd be more confident that a package import cycle was unlikely.)
 """
 
-from Numeric import array, zeros, maximum, minimum, ceil, dot, floor
+from numpy.oldnumeric import array, zeros, maximum, minimum, ceil, dot, floor
 
 from geometry.VQT import A, vlen, V
 
diff --git a/cad/src/graphics/display_styles/CylinderChunks.py b/cad/src/graphics/display_styles/CylinderChunks.py
index acabe9519..a2613e3da 100755
--- a/cad/src/graphics/display_styles/CylinderChunks.py
+++ b/cad/src/graphics/display_styles/CylinderChunks.py
@@ -11,7 +11,7 @@
 though it might be useful as a fast-rendering display mode too.
 """
 
-from Numeric import dot, argmax, argmin, sqrt
+from numpy.oldnumeric import dot, argmax, argmin, sqrt
 
 import foundation.env as env
 from graphics.drawing.CS_draw_primitives import drawcylinder
diff --git a/cad/src/graphics/display_styles/DnaCylinderChunks.py b/cad/src/graphics/display_styles/DnaCylinderChunks.py
index 42bea277a..1ef0a4d6a 100644
--- a/cad/src/graphics/display_styles/DnaCylinderChunks.py
+++ b/cad/src/graphics/display_styles/DnaCylinderChunks.py
@@ -51,7 +51,7 @@
 from graphics.drawing.drawers import drawtext
 
 from math import sin, cos, pi
-from Numeric import dot, argmax, argmin, sqrt
+from numpy.oldnumeric import dot, argmax, argmin, sqrt
 
 from graphics.display_styles.displaymodes import ChunkDisplayMode
 
diff --git a/cad/src/graphics/display_styles/ProteinChunks.py b/cad/src/graphics/display_styles/ProteinChunks.py
index b23a5f566..6a583fe27 100644
--- a/cad/src/graphics/display_styles/ProteinChunks.py
+++ b/cad/src/graphics/display_styles/ProteinChunks.py
@@ -38,7 +38,7 @@
 from graphics.drawing.CS_draw_primitives import drawline
 from graphics.drawing.CS_draw_primitives import drawtriangle_strip
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from OpenGL.GL import glMaterialfv
 from OpenGL.GL import GL_FRONT_AND_BACK
diff --git a/cad/src/graphics/display_styles/SurfaceChunks.py b/cad/src/graphics/display_styles/SurfaceChunks.py
index 2f75f8d8d..b655d23ec 100755
--- a/cad/src/graphics/display_styles/SurfaceChunks.py
+++ b/cad/src/graphics/display_styles/SurfaceChunks.py
@@ -16,7 +16,7 @@
 see cad/src/experimental/oleksandr/README.txt.
 """
 
-from Numeric import sqrt, pi, sin, cos
+from numpy.oldnumeric import sqrt, pi, sin, cos
 import types
 
 from PyQt4.Qt import QApplication, Qt, QCursor
diff --git a/cad/src/graphics/drawables/handles.py b/cad/src/graphics/drawables/handles.py
index 615efe684..7afd64dea 100755
--- a/cad/src/graphics/drawables/handles.py
+++ b/cad/src/graphics/drawables/handles.py
@@ -14,7 +14,7 @@
 Needs cleanup.
 """
 
-from Numeric import sqrt
+from numpy.oldnumeric import sqrt
 
 from geometry.VQT import V
 from geometry.VQT import vlen
@@ -27,7 +27,7 @@
 
 class handleWithHandleSet:
     """
-    used to wrap handles returned from a handleset, so they can use its methods
+    used to wrap handles returned  a handleset, so they can use its methods
     """
     def __init__(self, handle, handleset, copy_id = None): 
         self.handle = handle
@@ -53,7 +53,7 @@ class HandleSet:
     radius_multiplier = 1.0 # this might be patched to some other value by our owner;
      # should affect all internal computations using radii, but not returned radii inside handle tuples ####NIM
     def __init__(self):
-        self.origin = V(0,0,0) # changed from this only by certain subclasses, in practice
+        self.origin = V(0,0,0) # changed  this only by certain subclasses, in practice
         self.handles = [] # list of (pos,radius,info) tuples
         # handlpos and maxradius are not used now, but might be used later to optimize this.
         self.handlpos = [] # list of their pos's (compare to singlpos in class Chunk (_recompute_singlpos))
@@ -112,7 +112,7 @@ def findHandles_containing(self, point):
     def findHandles_exact(self, p1, p2, cutoff = 0.0, backs_ok = 1, offset = V(0,0,0)):
         """
         @return: a list of (dist, handle) pairs, in arbitrary order, which
-        includes, for each handle (spherical surface) hit by the ray from p1
+        includes, for each handle (spherical surface) hit by the ray  p1
         thru p2, its front-surface intersection with the ray, unless that has
         dist < cutoff and backs_ok, in which case include its back-surface
         intersection (unless *that* has dist < cutoff).
@@ -137,7 +137,7 @@ def findHandles_exact(self, p1, p2, cutoff = 0.0, backs_ok = 1, offset = V(0,0,0
             dist, wid = orthodist(p1, v, pos)
             if radius >= wid: # the ray hits the sphere
                 delta = sqrt(radius*radius - wid*wid)
-                front = dist - delta # depth from p1 of front surface of sphere, where it's hit
+                front = dist - delta # depth  p1 of front surface of sphere, where it's hit
                 if front >= cutoff:
                     res.append((front,(pos,radius,info)))
                 elif backs_ok:
diff --git a/cad/src/graphics/drawing/CS_workers.py b/cad/src/graphics/drawing/CS_workers.py
index 5686d0eed..9b79929e0 100755
--- a/cad/src/graphics/drawing/CS_workers.py
+++ b/cad/src/graphics/drawing/CS_workers.py
@@ -30,8 +30,8 @@
 # the imports from math vs. Numeric are as discovered in existing code
 # as of 2007/06/25.  It's not clear why acos is coming from math...
 from math import acos
-import Numeric
-from Numeric import pi
+import numpy.oldnumeric
+from numpy.oldnumeric import pi
 
 # russ 080519 No doubt many of the following imports are unused.
 # When the dust settles, the unnecessary ones will be removed.
diff --git a/cad/src/graphics/drawing/Font3D.py b/cad/src/graphics/drawing/Font3D.py
index 81a59c11a..4f7e9cddf 100755
--- a/cad/src/graphics/drawing/Font3D.py
+++ b/cad/src/graphics/drawing/Font3D.py
@@ -17,8 +17,8 @@
 __author__ = "Will"
 
 import types
-import Numeric
-from Numeric import dot
+import numpy.oldnumeric
+from numpy.oldnumeric import dot
 
 from OpenGL.GL import glVertex
 
diff --git a/cad/src/graphics/drawing/TransformControl.py b/cad/src/graphics/drawing/TransformControl.py
index e2f2e6456..8b8668707 100644
--- a/cad/src/graphics/drawing/TransformControl.py
+++ b/cad/src/graphics/drawing/TransformControl.py
@@ -73,7 +73,7 @@
 import graphics.drawing.drawing_constants as drawing_constants
 
 from geometry.VQT import Q
-import Numeric
+import numpy.oldnumeric
 import math
 
 from OpenGL.GL import glTranslatef, glRotatef
diff --git a/cad/src/graphics/drawing/c_renderer.py b/cad/src/graphics/drawing/c_renderer.py
index 51e467346..309a171f4 100755
--- a/cad/src/graphics/drawing/c_renderer.py
+++ b/cad/src/graphics/drawing/c_renderer.py
@@ -34,7 +34,7 @@
 import utilities.EndUser as EndUser
 import sys
 import os
-import Numeric
+import numpy.oldnumeric
 
 # these are used only by the test code at the bottom;
 # if these ever cause an import cycle, move that code to a separate module.
diff --git a/cad/src/graphics/drawing/dimensions.py b/cad/src/graphics/drawing/dimensions.py
index 015c369e0..d4a06291c 100755
--- a/cad/src/graphics/drawing/dimensions.py
+++ b/cad/src/graphics/drawing/dimensions.py
@@ -14,8 +14,8 @@
 __author__ = "Will"
 
 import math
-import Numeric
-from Numeric import dot
+import numpy.oldnumeric
+from numpy.oldnumeric import dot
 
 from utilities import debug_flags
 from geometry.VQT import cross
diff --git a/cad/src/graphics/drawing/drawDnaLadder.py b/cad/src/graphics/drawing/drawDnaLadder.py
index 601986c06..aa2965250 100755
--- a/cad/src/graphics/drawing/drawDnaLadder.py
+++ b/cad/src/graphics/drawing/drawDnaLadder.py
@@ -9,7 +9,7 @@
 @license:   GPL
 """
 import foundation.env as env
-from Numeric import  pi
+from numpy.oldnumeric import  pi
 ONE_RADIAN = 180.0 / pi
 HALF_PI  = pi/2.0
 TWICE_PI = 2*pi
diff --git a/cad/src/graphics/drawing/drawDnaRibbons.py b/cad/src/graphics/drawing/drawDnaRibbons.py
index b53628d58..1e9f240f6 100755
--- a/cad/src/graphics/drawing/drawDnaRibbons.py
+++ b/cad/src/graphics/drawing/drawDnaRibbons.py
@@ -15,7 +15,7 @@
 import foundation.env as env
 
 from math import asin, acos
-from Numeric import sin, cos, pi
+from numpy.oldnumeric import sin, cos, pi
 ONE_RADIAN = 180.0 / pi
 HALF_PI  = pi/2.0
 TWICE_PI = 2*pi
@@ -38,7 +38,7 @@
 from utilities.constants import white, blue
 from utilities.constants import diTrueCPK, diTUBES, diLINES
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 
 from utilities.prefs_constants import DarkBackgroundContrastColor_prefs_key
diff --git a/cad/src/graphics/drawing/draw_bond_vanes.py b/cad/src/graphics/drawing/draw_bond_vanes.py
index a0f3084e0..ec135379a 100755
--- a/cad/src/graphics/drawing/draw_bond_vanes.py
+++ b/cad/src/graphics/drawing/draw_bond_vanes.py
@@ -9,7 +9,7 @@
 """
 
 import math
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from OpenGL.GL import GL_CULL_FACE
 from OpenGL.GL import glDisable
diff --git a/cad/src/graphics/drawing/draw_grid_lines.py b/cad/src/graphics/drawing/draw_grid_lines.py
index 0278b329a..59195e76b 100644
--- a/cad/src/graphics/drawing/draw_grid_lines.py
+++ b/cad/src/graphics/drawing/draw_grid_lines.py
@@ -19,7 +19,7 @@
 # the imports from math vs. Numeric are as discovered in existing code
 # as of 2007/06/25 [when this was part of drawer.py].
 from math import floor, ceil
-from Numeric import sqrt
+from numpy.oldnumeric import sqrt
 
 from OpenGL.GL import glBegin
 ##from OpenGL.GL import GL_BLEND
diff --git a/cad/src/graphics/drawing/drawcompass.py b/cad/src/graphics/drawing/drawcompass.py
index 666d50907..d6d47682e 100644
--- a/cad/src/graphics/drawing/drawcompass.py
+++ b/cad/src/graphics/drawing/drawcompass.py
@@ -74,9 +74,9 @@ def __init__(self, glpane):
         """
         self.glpane = glpane
         self._compass_dl = glGenLists(1)
-        glNewList(self._compass_dl, GL_COMPILE)
-        _draw_compass_geometry()
-        glEndList()
+        #glNewList(self._compass_dl, GL_COMPILE)
+        #_draw_compass_geometry()
+        #glEndList()
 
         self._font = QFont( QString("Helvetica"), 12)
 
diff --git a/cad/src/graphics/drawing/drawers.py b/cad/src/graphics/drawing/drawers.py
index 43e8197d9..eee2cad82 100755
--- a/cad/src/graphics/drawing/drawers.py
+++ b/cad/src/graphics/drawing/drawers.py
@@ -25,8 +25,8 @@
 # the imports from math vs. Numeric are as discovered in existing code
 # as of 2007/06/25.  It's not clear why acos is coming from math...
 from math import floor, ceil, acos
-import Numeric
-from Numeric import pi
+import numpy.oldnumeric
+from numpy.oldnumeric import pi
 
 import foundation.env as env
 
diff --git a/cad/src/graphics/drawing/setup_draw.py b/cad/src/graphics/drawing/setup_draw.py
index 7b62fc5d1..808345fd4 100755
--- a/cad/src/graphics/drawing/setup_draw.py
+++ b/cad/src/graphics/drawing/setup_draw.py
@@ -30,7 +30,7 @@
 
 # the imports from math vs. Numeric are as discovered in existing code
 # as of 2007/06/25.  It's not clear why acos is coming from math...
-from Numeric import sin, cos, pi
+from numpy.oldnumeric import sin, cos, pi
 
 from OpenGL.GL import GL_ARRAY_BUFFER_ARB
 from OpenGL.GL import glBegin
diff --git a/cad/src/graphics/drawing/shape_vertices.py b/cad/src/graphics/drawing/shape_vertices.py
index fc25e7d83..d80a9a6e8 100755
--- a/cad/src/graphics/drawing/shape_vertices.py
+++ b/cad/src/graphics/drawing/shape_vertices.py
@@ -44,7 +44,7 @@
 # the imports from math vs. Numeric are as discovered in existing code
 # as of 2007/06/25.  It's not clear why acos is coming from math...
 from math import atan2
-from Numeric import sin, cos, sqrt, pi
+from numpy.oldnumeric import sin, cos, sqrt, pi
 degreesPerRadian = 180.0 / pi
 
 from geometry.VQT import norm, vlen, V, Q, A
diff --git a/cad/src/graphics/widgets/GLPane_event_methods.py b/cad/src/graphics/widgets/GLPane_event_methods.py
index 777740d18..4d2e8f26d 100644
--- a/cad/src/graphics/widgets/GLPane_event_methods.py
+++ b/cad/src/graphics/widgets/GLPane_event_methods.py
@@ -27,7 +27,7 @@
 from geometry.VQT import V, A, norm
 from geometry.VQT import planeXline, ptonline
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 import foundation.env as env
 
diff --git a/cad/src/graphics/widgets/GLPane_minimal.py b/cad/src/graphics/widgets/GLPane_minimal.py
index ebb258f45..dbf5666a0 100644
--- a/cad/src/graphics/widgets/GLPane_minimal.py
+++ b/cad/src/graphics/widgets/GLPane_minimal.py
@@ -37,7 +37,7 @@
 from PyQt4.QtOpenGL import QGLFormat
 from PyQt4.QtOpenGL import QGLWidget
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from geometry.VQT import norm, angleBetween
 from geometry.VQT import V, Q
diff --git a/cad/src/graphics/widgets/GLPane_view_change_methods.py b/cad/src/graphics/widgets/GLPane_view_change_methods.py
index 395801943..0e7062cc1 100644
--- a/cad/src/graphics/widgets/GLPane_view_change_methods.py
+++ b/cad/src/graphics/widgets/GLPane_view_change_methods.py
@@ -14,7 +14,7 @@
 import time
 import math
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 from geometry.VQT import V, Q, norm, vlen
 
 import foundation.env as env
diff --git a/cad/src/graphics/widgets/ThumbView.py b/cad/src/graphics/widgets/ThumbView.py
index 05e3e44e6..842737662 100755
--- a/cad/src/graphics/widgets/ThumbView.py
+++ b/cad/src/graphics/widgets/ThumbView.py
@@ -9,7 +9,7 @@
 @copyright: 2004-2009 Nanorex, Inc.  See LICENSE file for details. 
 """
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from OpenGL.GL import GL_NORMALIZE
 from OpenGL.GL import glEnable
diff --git a/cad/src/model/Line.py b/cad/src/model/Line.py
index 6b4305fe0..cf5fb8dfd 100755
--- a/cad/src/model/Line.py
+++ b/cad/src/model/Line.py
@@ -16,7 +16,7 @@
 from OpenGL.GLU import gluProject, gluUnProject
 from graphics.drawing.drawers import drawPolyLine
 
-from Numeric    import dot
+from numpy.oldnumeric    import dot
 from math       import pi, cos
 from geometry.VQT import V, Q, cross, A, planeXline, vlen, norm, angleBetween
 
diff --git a/cad/src/model/PAM_Atom_methods.py b/cad/src/model/PAM_Atom_methods.py
index aa6742658..e29763222 100755
--- a/cad/src/model/PAM_Atom_methods.py
+++ b/cad/src/model/PAM_Atom_methods.py
@@ -35,7 +35,7 @@
 # Atom, as opposed to on a PAM-specific subclass of class Atom; and having
 # that class Atom known directly to class Chunk.) [bruce 090119]
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from geometry.VQT import norm, V
 
diff --git a/cad/src/model/Plane.py b/cad/src/model/Plane.py
index ab8132492..c187f853d 100755
--- a/cad/src/model/Plane.py
+++ b/cad/src/model/Plane.py
@@ -15,7 +15,7 @@
 """
 import foundation.env as env
 from math import pi, atan, cos, sin
-from Numeric import add, dot
+from numpy.oldnumeric import add, dot
 
 from OpenGL.GL import glPushMatrix
 from OpenGL.GL import glPopMatrix
diff --git a/cad/src/model/atomtypes.py b/cad/src/model/atomtypes.py
index fd2d2c90c..e710b4238 100755
--- a/cad/src/model/atomtypes.py
+++ b/cad/src/model/atomtypes.py
@@ -94,7 +94,7 @@ def __init__(self,
 
         self.base = None
         self.quats = [] # ends up one shorter than self.numbonds [bruce 041217]
-        if (bondvectors):
+        if (bondvectors != None):
             # number of distinct bonds to different other atoms (a
             # double bond is counted as 1)
             self.numbonds = len(bondvectors)
@@ -105,7 +105,11 @@ def __init__(self,
                 self.quats += [Q(s,v)]
         else:
             self.numbonds = 0
-        self.bondvectors = bondvectors or [] # not sure if [] (in place of None) matters
+ 
+        if (bondvectors != None):
+           self.bondvectors = bondvectors
+        else:
+           self.bondvectors = []
         
         self.charge = formalCharge
         #self._init_electronic_structure() # this uses self.numbonds, so don't call it too early
diff --git a/cad/src/model/chem.py b/cad/src/model/chem.py
index dc8c3af62..4afd86368 100755
--- a/cad/src/model/chem.py
+++ b/cad/src/model/chem.py
@@ -79,7 +79,7 @@
 
 from geometry.VQT import V, Q, A, norm, cross, twistor, vlen, orthodist
 from geometry.VQT import atom_angle_radians
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from graphics.rendering.mdl.mdldata import marks, links, filler
 from graphics.rendering.povray.povheader import povpoint
diff --git a/cad/src/model/chunk.py b/cad/src/model/chunk.py
index e82e1637a..d45b40009 100755
--- a/cad/src/model/chunk.py
+++ b/cad/src/model/chunk.py
@@ -71,19 +71,21 @@
 
 """
 
-import Numeric # for sqrt
-
-import math # only used for pi, everything else is from Numeric [as of before 071113]
-
-from Numeric import array
-from Numeric import add
-from Numeric import dot
-from Numeric import PyObject
-from Numeric import argsort
-from Numeric import compress
-from Numeric import nonzero
-from Numeric import take
-from Numeric import argmax
+#update by kirka
+#import Numeric # for sqrt
+import numpy.oldnumeric as Numeric
+
+import math # only used for pi, everything else is from numpy.oldnumeric [as of before 071113]
+
+from numpy.oldnumeric import array
+from numpy.oldnumeric import add
+from numpy.oldnumeric import dot
+from numpy.oldnumeric import PyObject
+from numpy.oldnumeric import argsort
+from numpy.oldnumeric import compress
+from numpy.oldnumeric import nonzero
+from numpy.oldnumeric import take
+from numpy.oldnumeric import argmax
 
 from OpenGL.GL import glPushMatrix
 from OpenGL.GL import glTranslatef
diff --git a/cad/src/model/jigs_measurements.py b/cad/src/model/jigs_measurements.py
index e23a75697..76a541ffb 100755
--- a/cad/src/model/jigs_measurements.py
+++ b/cad/src/model/jigs_measurements.py
@@ -23,8 +23,8 @@
 """
 
 import sys
-import Numeric
-from Numeric import dot
+import numpy.oldnumeric as Numeric
+from numpy.oldnumeric import dot
 
 import foundation.env as env
 
@@ -200,7 +200,7 @@ def writemmp_info_leaf(self, mapping):
         mapping.write("info leaf handle = %g %g %g\n" % (x, y, z))
 
     def readmmp_info_leaf_setitem(self, key, val, interp):
-        import string, Numeric
+        import string, numpy.oldnumeric
         if key == ['handle']:
             self.handle_offset = Numeric.array(map(string.atof, val.split())) - self.center()
         else:
diff --git a/cad/src/model/jigs_motors.py b/cad/src/model/jigs_motors.py
index 4a84fac3b..c99da1e80 100755
--- a/cad/src/model/jigs_motors.py
+++ b/cad/src/model/jigs_motors.py
@@ -14,11 +14,11 @@
 # imports from math vs. Numeric as discovered from running code on 2007/06/25.
 from math import asin, atan2
 
-from Numeric import pi
-from Numeric import sqrt
-from Numeric import dot
-from Numeric import argmax
-from Numeric import reshape
+from numpy.oldnumeric import pi
+from numpy.oldnumeric import sqrt
+from numpy.oldnumeric import dot
+from numpy.oldnumeric import argmax
+from numpy.oldnumeric import reshape
 
 from OpenGL.GL import glPushMatrix
 from OpenGL.GL import glTranslatef
diff --git a/cad/src/model/jigs_planes.py b/cad/src/model/jigs_planes.py
index cc74e8ee6..49031fb39 100755
--- a/cad/src/model/jigs_planes.py
+++ b/cad/src/model/jigs_planes.py
@@ -19,7 +19,7 @@
 """
 
 import math
-from Numeric import size, add
+from numpy.oldnumeric import size, add
 
 from OpenGL.GL import glPushMatrix
 from OpenGL.GL import glTranslatef
diff --git a/cad/src/model/pi_bond_sp_chain.py b/cad/src/model/pi_bond_sp_chain.py
index 8508f0b10..6aed0b058 100755
--- a/cad/src/model/pi_bond_sp_chain.py
+++ b/cad/src/model/pi_bond_sp_chain.py
@@ -24,7 +24,7 @@
 """
 
 import math
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from utilities import debug_flags
 from model.jigs import Jig
diff --git a/cad/src/operations/ops_select.py b/cad/src/operations/ops_select.py
index c2bbfa272..435761421 100755
--- a/cad/src/operations/ops_select.py
+++ b/cad/src/operations/ops_select.py
@@ -22,7 +22,7 @@
 from model.chunk import Chunk
 from model.elements import Singlet
 from geometry.VQT import V, A, norm, cross
-from Numeric import dot, transpose
+from numpy.oldnumeric import dot, transpose
 import foundation.env as env
 from utilities.Log import redmsg, greenmsg, orangemsg
 from utilities.debug import print_compact_traceback
diff --git a/cad/src/operations/ops_view.py b/cad/src/operations/ops_view.py
index 174504194..301baa1b6 100755
--- a/cad/src/operations/ops_view.py
+++ b/cad/src/operations/ops_view.py
@@ -15,7 +15,7 @@
 """
 
 import math
-from Numeric import dot
+from numpy.oldnumeric import dot
 from geometry.geometryUtilities import compute_heuristic_axis
 import foundation.env as env
 from geometry.VQT import V, Q, A, norm, vlen
diff --git a/cad/src/outtakes/InsertNanotube/NanotubeGenerator.py b/cad/src/outtakes/InsertNanotube/NanotubeGenerator.py
index bcc84e1f4..b8f4c1b67 100755
--- a/cad/src/outtakes/InsertNanotube/NanotubeGenerator.py
+++ b/cad/src/outtakes/InsertNanotube/NanotubeGenerator.py
@@ -11,7 +11,7 @@
 """
 
 from math import atan2, sin, cos, pi, asin
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from geometry.VQT import vlen, cross, norm, V
 import foundation.env as env
diff --git a/cad/src/outtakes/Peptide.py b/cad/src/outtakes/Peptide.py
index cb7d9db13..4036e2eb3 100644
--- a/cad/src/outtakes/Peptide.py
+++ b/cad/src/outtakes/Peptide.py
@@ -16,7 +16,7 @@
 
 from math import sin, cos, pi
 from math import atan2
-from Numeric import dot, argmax, argmin, sqrt
+from numpy.oldnumeric import dot, argmax, argmin, sqrt
 
 from model.chem import Atom
 from model.bonds import bond_atoms
diff --git a/cad/src/outtakes/undo_related_timing_tests.py b/cad/src/outtakes/undo_related_timing_tests.py
index 8688d196b..fe95d1f0c 100644
--- a/cad/src/outtakes/undo_related_timing_tests.py
+++ b/cad/src/outtakes/undo_related_timing_tests.py
@@ -77,7 +77,7 @@ def loadposns_cmd( target):
 
 # ==
 
-from Numeric import concatenate, array, UnsignedInt8
+from numpy.oldnumeric import concatenate, array, UnsignedInt8
 
 def atom_array_of_part(part):
     "Return an Array of all atoms in the Part. Try to be linear time."
diff --git a/cad/src/protein/commands/InsertPeptide/PeptideGenerator.py b/cad/src/protein/commands/InsertPeptide/PeptideGenerator.py
index 916357ea8..bff7b53bd 100755
--- a/cad/src/protein/commands/InsertPeptide/PeptideGenerator.py
+++ b/cad/src/protein/commands/InsertPeptide/PeptideGenerator.py
@@ -31,7 +31,7 @@
 from protein.model.Residue import Residue
 from protein.model.Residue import SS_HELIX, SS_STRAND, SS_COIL, AA_3_TO_1
 
-from Numeric import zeros, sqrt, pi, sin, cos, Float
+from numpy.oldnumeric import zeros, sqrt, pi, sin, cos, Float
 from geometry.VQT import Q, V, norm, vlen, cross, angleBetween
 
 from utilities.debug import print_compact_stack
diff --git a/cad/src/protein/model/Residue.py b/cad/src/protein/model/Residue.py
index f754701df..70f63919f 100644
--- a/cad/src/protein/model/Residue.py
+++ b/cad/src/protein/model/Residue.py
@@ -372,7 +372,7 @@ def calc_torsion_angle(atom_list):
     # Note: this appears to be very general and perhaps ought to be moved to a more
     # general place (someday), perhaps VQT.py or nearby. [bruce 080828 comment]
     
-    from Numeric import dot
+    from numpy.oldnumeric import dot
     from math import atan2, pi, sqrt
     from geometry.VQT import cross
     
diff --git a/cad/src/samevals.pyx b/cad/src/samevals.pyx
index 632d7bfc6..4cda814f5 100644
--- a/cad/src/samevals.pyx
+++ b/cad/src/samevals.pyx
@@ -6,7 +6,7 @@
 """
 
 import types
-import Numeric
+import numpy.oldnumeric
 
 cdef extern from "Python.h":
     int PyType_Check(obj)
diff --git a/cad/src/temporary_commands/RotateAboutPoint_Command.py b/cad/src/temporary_commands/RotateAboutPoint_Command.py
index 82caa91b7..f0441d54b 100644
--- a/cad/src/temporary_commands/RotateAboutPoint_Command.py
+++ b/cad/src/temporary_commands/RotateAboutPoint_Command.py
@@ -13,7 +13,7 @@
 -- Need documentation
 """
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 import math # for pi
 
 from utilities.prefs_constants import atomHighlightColor_prefs_key
diff --git a/cad/src/temporary_commands/ZoomInOutMode.py b/cad/src/temporary_commands/ZoomInOutMode.py
index 0eedf5890..c7e540990 100644
--- a/cad/src/temporary_commands/ZoomInOutMode.py
+++ b/cad/src/temporary_commands/ZoomInOutMode.py
@@ -8,7 +8,7 @@
 @license:   GPL
 """
 
-from Numeric import exp
+from numpy.oldnumeric import exp
 from temporary_commands.TemporaryCommand import TemporaryCommand_Overdrawing
 
 # == GraphicsMode part
diff --git a/cad/src/temporary_commands/ZoomToAreaMode.py b/cad/src/temporary_commands/ZoomToAreaMode.py
index 8156cf247..2a47ab1ac 100755
--- a/cad/src/temporary_commands/ZoomToAreaMode.py
+++ b/cad/src/temporary_commands/ZoomToAreaMode.py
@@ -11,7 +11,7 @@
 Mark 2008-01-31: Renamed from ZoomMode to ZoomToAreaMode.py
 """
 
-from Numeric import dot
+from numpy.oldnumeric import dot
 
 from OpenGL.GL import GL_DEPTH_TEST
 from OpenGL.GL import glDisable
diff --git a/cad/src/tests/samevalstests.py b/cad/src/tests/samevalstests.py
index 53240f49f..548b20f66 100644
--- a/cad/src/tests/samevalstests.py
+++ b/cad/src/tests/samevalstests.py
@@ -8,7 +8,7 @@
 
 import unittest
 from samevals import same_vals, setArrayType
-import Numeric
+import numpy.oldnumeric
 
 class SameValsTests(unittest.TestCase):
 
diff --git a/cad/src/utilities/Comparison.py b/cad/src/utilities/Comparison.py
index da6d8e864..40c4e9c09 100644
--- a/cad/src/utilities/Comparison.py
+++ b/cad/src/utilities/Comparison.py
@@ -24,7 +24,7 @@
 _haveNumeric = True # might be modified below
 
 try:
-    from Numeric import array, PyObject
+    from numpy.oldnumeric import array, PyObject
 except:
     # this gets warned about in state_utils
     _haveNumeric = False
@@ -63,7 +63,7 @@
         # the extension. [wware]
 
         from samevals import setArrayType
-        import Numeric
+        import numpy.oldnumeric
         setArrayType(type(Numeric.array((1,2,3))))
         print "SAMEVALS_SPEEDUP is True, and import samevals succeeded"
     except ImportError:
diff --git a/cad/tests/VQT_Test.py b/cad/tests/VQT_Test.py
index e53e1e9ae..a0d64e451 100755
--- a/cad/tests/VQT_Test.py
+++ b/cad/tests/VQT_Test.py
@@ -1,7 +1,7 @@
 
 import unittest
 from VQT import angleBetween
-from Numeric import array, alltrue
+from numpy.oldnumeric import array, alltrue
 
 
 class GeometryFunctionsTestCase(unittest.TestCase):