Update py-scipy to 0.17.0

SciPy 0.17.0 is the culmination of 6 months of hard work. It contains many
new features, numerous bug-fixes, improved test coverage and better
documentation. There have been a number of deprecations and API changes in
this release, which are documented below. All users are encouraged to
upgrade to this release, as there are a large number of bug-fixes and
optimizations. Moreover, our development attention will now shift to
bug-fix releases on the 0.17.x branch, and on adding new features on the
master branch.

This release requires Python 2.6, 2.7 or 3.2-3.5 and NumPy 1.6.2 or greater.

Release highlights:

* New functions for linear and nonlinear least squares optimization with
  constraints: scipy.optimize.lsq_linear and scipy.optimize.least_squares
* Support for fitting with bounds in scipy.optimize.curve_fit.
* Significant improvements to scipy.stats, providing many functions with
  better handing of inputs which have NaNs or are empty, improved
  documentation, and consistent behavior between scipy.stats and
  scipy.stats.mstats.
* Significant performance improvements and new functionality in
  scipy.spatial.cKDTree.

SciPy 0.16.0 is the culmination of 7 months of hard work.

Highlights of this release include:

* A Cython API for BLAS/LAPACK in scipy.linalg
* A new benchmark suite. It’s now straightforward to add new benchmarks,
  and they’re routinely included with performance enhancement PRs.
* Support for the second order sections (SOS) format in scipy.signal.

1 files changed, 165 insertions, 105 deletions

diff --git a/math/py-scipy/PLIST b/math/py-scipy/PLIST
index 250dc36eb0b..f1eb6b54c78 100644
--- a/math/py-scipy/PLIST
+++ b/math/py-scipy/PLIST
@@ -1,4 +1,4 @@
-@comment $NetBSD: PLIST,v 1.8 2015/04/25 13:43:18 wiz Exp $
+@comment $NetBSD: PLIST,v 1.9 2016/04/23 22:51:57 markd Exp $
 ${PYSITELIB}/${EGG_FILE}
 ${PYSITELIB}/scipy/BENTO_BUILD.txt
 ${PYSITELIB}/scipy/HACKING.rst.txt
@@ -17,6 +17,40 @@ ${PYSITELIB}/scipy/_build_utils/__init__.pyo
 ${PYSITELIB}/scipy/_build_utils/_fortran.py
 ${PYSITELIB}/scipy/_build_utils/_fortran.pyc
 ${PYSITELIB}/scipy/_build_utils/_fortran.pyo
+${PYSITELIB}/scipy/_lib/__init__.py
+${PYSITELIB}/scipy/_lib/__init__.pyc
+${PYSITELIB}/scipy/_lib/__init__.pyo
+${PYSITELIB}/scipy/_lib/_gcutils.py
+${PYSITELIB}/scipy/_lib/_gcutils.pyc
+${PYSITELIB}/scipy/_lib/_gcutils.pyo
+${PYSITELIB}/scipy/_lib/_numpy_compat.py
+${PYSITELIB}/scipy/_lib/_numpy_compat.pyc
+${PYSITELIB}/scipy/_lib/_numpy_compat.pyo
+${PYSITELIB}/scipy/_lib/_testutils.py
+${PYSITELIB}/scipy/_lib/_testutils.pyc
+${PYSITELIB}/scipy/_lib/_testutils.pyo
+${PYSITELIB}/scipy/_lib/_tmpdirs.py
+${PYSITELIB}/scipy/_lib/_tmpdirs.pyc
+${PYSITELIB}/scipy/_lib/_tmpdirs.pyo
+${PYSITELIB}/scipy/_lib/_util.py
+${PYSITELIB}/scipy/_lib/_util.pyc
+${PYSITELIB}/scipy/_lib/_util.pyo
+${PYSITELIB}/scipy/_lib/_version.py
+${PYSITELIB}/scipy/_lib/_version.pyc
+${PYSITELIB}/scipy/_lib/_version.pyo
+${PYSITELIB}/scipy/_lib/decorator.py
+${PYSITELIB}/scipy/_lib/decorator.pyc
+${PYSITELIB}/scipy/_lib/decorator.pyo
+${PYSITELIB}/scipy/_lib/setup.py
+${PYSITELIB}/scipy/_lib/setup.pyc
+${PYSITELIB}/scipy/_lib/setup.pyo
+${PYSITELIB}/scipy/_lib/six.py
+${PYSITELIB}/scipy/_lib/six.pyc
+${PYSITELIB}/scipy/_lib/six.pyo
+${PYSITELIB}/scipy/_lib/tests/test__gcutils.py
+${PYSITELIB}/scipy/_lib/tests/test__util.py
+${PYSITELIB}/scipy/_lib/tests/test__version.py
+${PYSITELIB}/scipy/_lib/tests/test_tmpdirs.py
 ${PYSITELIB}/scipy/cluster/__init__.py
 ${PYSITELIB}/scipy/cluster/__init__.pyc
 ${PYSITELIB}/scipy/cluster/__init__.pyo
@@ -28,11 +62,9 @@ ${PYSITELIB}/scipy/cluster/hierarchy.pyo
 ${PYSITELIB}/scipy/cluster/setup.py
 ${PYSITELIB}/scipy/cluster/setup.pyc
 ${PYSITELIB}/scipy/cluster/setup.pyo
-${PYSITELIB}/scipy/cluster/tests/data.txt
 ${PYSITELIB}/scipy/cluster/tests/hierarchy_test_data.py
 ${PYSITELIB}/scipy/cluster/tests/test_hierarchy.py
 ${PYSITELIB}/scipy/cluster/tests/test_vq.py
-${PYSITELIB}/scipy/cluster/tests/vq_test.py
 ${PYSITELIB}/scipy/cluster/vq.py
 ${PYSITELIB}/scipy/cluster/vq.pyc
 ${PYSITELIB}/scipy/cluster/vq.pyo
@@ -57,8 +89,6 @@ ${PYSITELIB}/scipy/fftpack/_fftpack.so
 ${PYSITELIB}/scipy/fftpack/basic.py
 ${PYSITELIB}/scipy/fftpack/basic.pyc
 ${PYSITELIB}/scipy/fftpack/basic.pyo
-${PYSITELIB}/scipy/fftpack/benchmarks/bench_basic.py
-${PYSITELIB}/scipy/fftpack/benchmarks/bench_pseudo_diffs.py
 ${PYSITELIB}/scipy/fftpack/convolve.so
 ${PYSITELIB}/scipy/fftpack/fftpack_version.py
 ${PYSITELIB}/scipy/fftpack/fftpack_version.pyc
@@ -85,6 +115,7 @@ ${PYSITELIB}/scipy/fftpack/tests/gendata.py
 ${PYSITELIB}/scipy/fftpack/tests/test.npz
 ${PYSITELIB}/scipy/fftpack/tests/test_basic.py
 ${PYSITELIB}/scipy/fftpack/tests/test_helper.py
+${PYSITELIB}/scipy/fftpack/tests/test_import.py
 ${PYSITELIB}/scipy/fftpack/tests/test_pseudo_diffs.py
 ${PYSITELIB}/scipy/fftpack/tests/test_real_transforms.py
 ${PYSITELIB}/scipy/integrate/__init__.py
@@ -97,6 +128,7 @@ ${PYSITELIB}/scipy/integrate/_ode.pyo
 ${PYSITELIB}/scipy/integrate/_odepack.so
 ${PYSITELIB}/scipy/integrate/_quadpack.so
 ${PYSITELIB}/scipy/integrate/_test_multivariate.so
+${PYSITELIB}/scipy/integrate/_test_odeint_banded.so
 ${PYSITELIB}/scipy/integrate/lsoda.so
 ${PYSITELIB}/scipy/integrate/odepack.py
 ${PYSITELIB}/scipy/integrate/odepack.pyc
@@ -111,8 +143,10 @@ ${PYSITELIB}/scipy/integrate/setup.py
 ${PYSITELIB}/scipy/integrate/setup.pyc
 ${PYSITELIB}/scipy/integrate/setup.pyo
 ${PYSITELIB}/scipy/integrate/tests/_test_multivariate.c
+${PYSITELIB}/scipy/integrate/tests/banded5x5.f
 ${PYSITELIB}/scipy/integrate/tests/test_banded_ode_solvers.py
 ${PYSITELIB}/scipy/integrate/tests/test_integrate.py
+${PYSITELIB}/scipy/integrate/tests/test_odeint_jac.py
 ${PYSITELIB}/scipy/integrate/tests/test_quadpack.py
 ${PYSITELIB}/scipy/integrate/tests/test_quadrature.py
 ${PYSITELIB}/scipy/integrate/vode.so
@@ -158,6 +192,7 @@ ${PYSITELIB}/scipy/interpolate/tests/data/bug-1310.npz
 ${PYSITELIB}/scipy/interpolate/tests/data/estimate_gradients_hang.npy
 ${PYSITELIB}/scipy/interpolate/tests/test_fitpack.py
 ${PYSITELIB}/scipy/interpolate/tests/test_fitpack2.py
+${PYSITELIB}/scipy/interpolate/tests/test_gil.py
 ${PYSITELIB}/scipy/interpolate/tests/test_interpnd.py
 ${PYSITELIB}/scipy/interpolate/tests/test_interpolate.py
 ${PYSITELIB}/scipy/interpolate/tests/test_interpolate_wrapper.py
@@ -182,6 +217,7 @@ ${PYSITELIB}/scipy/io/arff/setup.pyc
 ${PYSITELIB}/scipy/io/arff/setup.pyo
 ${PYSITELIB}/scipy/io/arff/tests/data/iris.arff
 ${PYSITELIB}/scipy/io/arff/tests/data/missing.arff
+${PYSITELIB}/scipy/io/arff/tests/data/nodata.arff
 ${PYSITELIB}/scipy/io/arff/tests/data/test1.arff
 ${PYSITELIB}/scipy/io/arff/tests/data/test2.arff
 ${PYSITELIB}/scipy/io/arff/tests/data/test3.arff
@@ -211,8 +247,6 @@ ${PYSITELIB}/scipy/io/idl.pyo
 ${PYSITELIB}/scipy/io/matlab/__init__.py
 ${PYSITELIB}/scipy/io/matlab/__init__.pyc
 ${PYSITELIB}/scipy/io/matlab/__init__.pyo
-${PYSITELIB}/scipy/io/matlab/benchmarks/bench_memusage.py
-${PYSITELIB}/scipy/io/matlab/benchmarks/bench_structarr.py
 ${PYSITELIB}/scipy/io/matlab/byteordercodes.py
 ${PYSITELIB}/scipy/io/matlab/byteordercodes.pyc
 ${PYSITELIB}/scipy/io/matlab/byteordercodes.pyo
@@ -238,11 +272,17 @@ ${PYSITELIB}/scipy/io/matlab/setup.pyc
 ${PYSITELIB}/scipy/io/matlab/setup.pyo
 ${PYSITELIB}/scipy/io/matlab/streams.so
 ${PYSITELIB}/scipy/io/matlab/tests/afunc.m
+${PYSITELIB}/scipy/io/matlab/tests/data/bad_miuint32.mat
+${PYSITELIB}/scipy/io/matlab/tests/data/bad_miutf8_array_name.mat
 ${PYSITELIB}/scipy/io/matlab/tests/data/big_endian.mat
+${PYSITELIB}/scipy/io/matlab/tests/data/broken_utf8.mat
 ${PYSITELIB}/scipy/io/matlab/tests/data/corrupted_zlib_checksum.mat
 ${PYSITELIB}/scipy/io/matlab/tests/data/corrupted_zlib_data.mat
 ${PYSITELIB}/scipy/io/matlab/tests/data/japanese_utf8.txt
 ${PYSITELIB}/scipy/io/matlab/tests/data/little_endian.mat
+${PYSITELIB}/scipy/io/matlab/tests/data/logical_sparse.mat
+${PYSITELIB}/scipy/io/matlab/tests/data/miuint32_for_miint32.mat
+${PYSITELIB}/scipy/io/matlab/tests/data/miutf8_array_name.mat
 ${PYSITELIB}/scipy/io/matlab/tests/data/nasty_duplicate_fieldnames.mat
 ${PYSITELIB}/scipy/io/matlab/tests/data/one_by_zero_char.mat
 ${PYSITELIB}/scipy/io/matlab/tests/data/parabola.mat
@@ -377,6 +417,7 @@ ${PYSITELIB}/scipy/io/tests/data/array_float32_pointer_6d.sav
 ${PYSITELIB}/scipy/io/tests/data/array_float32_pointer_7d.sav
 ${PYSITELIB}/scipy/io/tests/data/array_float32_pointer_8d.sav
 ${PYSITELIB}/scipy/io/tests/data/example_1.nc
+${PYSITELIB}/scipy/io/tests/data/example_2.nc
 ${PYSITELIB}/scipy/io/tests/data/fortran-mixed.dat
 ${PYSITELIB}/scipy/io/tests/data/fortran-sf8-10x1x11.dat
 ${PYSITELIB}/scipy/io/tests/data/fortran-sf8-1x1x1.dat
@@ -390,6 +431,7 @@ ${PYSITELIB}/scipy/io/tests/data/fortran-si4-22x10x15.dat
 ${PYSITELIB}/scipy/io/tests/data/fortran-si4-5x1x1.dat
 ${PYSITELIB}/scipy/io/tests/data/fortran-si4-5x3x1.dat
 ${PYSITELIB}/scipy/io/tests/data/fortran-si4-7x1x1.dat
+${PYSITELIB}/scipy/io/tests/data/invalid_pointer.sav
 ${PYSITELIB}/scipy/io/tests/data/null_pointer.sav
 ${PYSITELIB}/scipy/io/tests/data/scalar_byte.sav
 ${PYSITELIB}/scipy/io/tests/data/scalar_byte_descr.sav
@@ -418,8 +460,11 @@ ${PYSITELIB}/scipy/io/tests/data/struct_pointers_replicated_3d.sav
 ${PYSITELIB}/scipy/io/tests/data/struct_scalars.sav
 ${PYSITELIB}/scipy/io/tests/data/struct_scalars_replicated.sav
 ${PYSITELIB}/scipy/io/tests/data/struct_scalars_replicated_3d.sav
-${PYSITELIB}/scipy/io/tests/data/test-44100-le-1ch-4bytes.wav
-${PYSITELIB}/scipy/io/tests/data/test-8000-le-2ch-1byteu.wav
+${PYSITELIB}/scipy/io/tests/data/test-44100Hz-2ch-32bit-float-be.wav
+${PYSITELIB}/scipy/io/tests/data/test-44100Hz-2ch-32bit-float-le.wav
+${PYSITELIB}/scipy/io/tests/data/test-44100Hz-le-1ch-4bytes.wav
+${PYSITELIB}/scipy/io/tests/data/test-48000Hz-2ch-64bit-float-le-wavex.wav
+${PYSITELIB}/scipy/io/tests/data/test-8000Hz-le-2ch-1byteu.wav
 ${PYSITELIB}/scipy/io/tests/data/various_compressed.sav
 ${PYSITELIB}/scipy/io/tests/test_fortran.py
 ${PYSITELIB}/scipy/io/tests/test_idl.py
@@ -429,76 +474,24 @@ ${PYSITELIB}/scipy/io/tests/test_wavfile.py
 ${PYSITELIB}/scipy/io/wavfile.py
 ${PYSITELIB}/scipy/io/wavfile.pyc
 ${PYSITELIB}/scipy/io/wavfile.pyo
-${PYSITELIB}/scipy/lib/__init__.py
-${PYSITELIB}/scipy/lib/__init__.pyc
-${PYSITELIB}/scipy/lib/__init__.pyo
-${PYSITELIB}/scipy/lib/_gcutils.py
-${PYSITELIB}/scipy/lib/_gcutils.pyc
-${PYSITELIB}/scipy/lib/_gcutils.pyo
-${PYSITELIB}/scipy/lib/_numpy_compat.py
-${PYSITELIB}/scipy/lib/_numpy_compat.pyc
-${PYSITELIB}/scipy/lib/_numpy_compat.pyo
-${PYSITELIB}/scipy/lib/_tmpdirs.py
-${PYSITELIB}/scipy/lib/_tmpdirs.pyc
-${PYSITELIB}/scipy/lib/_tmpdirs.pyo
-${PYSITELIB}/scipy/lib/_util.py
-${PYSITELIB}/scipy/lib/_util.pyc
-${PYSITELIB}/scipy/lib/_util.pyo
-${PYSITELIB}/scipy/lib/_version.py
-${PYSITELIB}/scipy/lib/_version.pyc
-${PYSITELIB}/scipy/lib/_version.pyo
-${PYSITELIB}/scipy/lib/blas/__init__.py
-${PYSITELIB}/scipy/lib/blas/__init__.pyc
-${PYSITELIB}/scipy/lib/blas/__init__.pyo
-${PYSITELIB}/scipy/lib/blas/cblas.so
-${PYSITELIB}/scipy/lib/blas/fblas.so
-${PYSITELIB}/scipy/lib/blas/scons_support.py
-${PYSITELIB}/scipy/lib/blas/scons_support.pyc
-${PYSITELIB}/scipy/lib/blas/scons_support.pyo
-${PYSITELIB}/scipy/lib/blas/setup.py
-${PYSITELIB}/scipy/lib/blas/setup.pyc
-${PYSITELIB}/scipy/lib/blas/setup.pyo
-${PYSITELIB}/scipy/lib/blas/tests/test_blas.py
-${PYSITELIB}/scipy/lib/blas/tests/test_fblas.py
-${PYSITELIB}/scipy/lib/decorator.py
-${PYSITELIB}/scipy/lib/decorator.pyc
-${PYSITELIB}/scipy/lib/decorator.pyo
-${PYSITELIB}/scipy/lib/lapack/__init__.py
-${PYSITELIB}/scipy/lib/lapack/__init__.pyc
-${PYSITELIB}/scipy/lib/lapack/__init__.pyo
-${PYSITELIB}/scipy/lib/lapack/calc_lwork.so
-${PYSITELIB}/scipy/lib/lapack/clapack.so
-${PYSITELIB}/scipy/lib/lapack/flapack.so
-${PYSITELIB}/scipy/lib/lapack/scons_support.py
-${PYSITELIB}/scipy/lib/lapack/scons_support.pyc
-${PYSITELIB}/scipy/lib/lapack/scons_support.pyo
-${PYSITELIB}/scipy/lib/lapack/setup.py
-${PYSITELIB}/scipy/lib/lapack/setup.pyc
-${PYSITELIB}/scipy/lib/lapack/setup.pyo
-${PYSITELIB}/scipy/lib/lapack/tests/common.py
-${PYSITELIB}/scipy/lib/lapack/tests/test_esv.py
-${PYSITELIB}/scipy/lib/lapack/tests/test_gesv.py
-${PYSITELIB}/scipy/lib/lapack/tests/test_lapack.py
-${PYSITELIB}/scipy/lib/setup.py
-${PYSITELIB}/scipy/lib/setup.pyc
-${PYSITELIB}/scipy/lib/setup.pyo
-${PYSITELIB}/scipy/lib/six.py
-${PYSITELIB}/scipy/lib/six.pyc
-${PYSITELIB}/scipy/lib/six.pyo
-${PYSITELIB}/scipy/lib/tests/test__gcutils.py
-${PYSITELIB}/scipy/lib/tests/test__util.py
-${PYSITELIB}/scipy/lib/tests/test__version.py
-${PYSITELIB}/scipy/lib/tests/test_tmpdirs.py
+${PYSITELIB}/scipy/linalg.pxd
 ${PYSITELIB}/scipy/linalg/__init__.py
 ${PYSITELIB}/scipy/linalg/__init__.pyc
 ${PYSITELIB}/scipy/linalg/__init__.pyo
 ${PYSITELIB}/scipy/linalg/_calc_lwork.so
+${PYSITELIB}/scipy/linalg/_cython_signature_generator.py
+${PYSITELIB}/scipy/linalg/_cython_signature_generator.pyc
+${PYSITELIB}/scipy/linalg/_cython_signature_generator.pyo
+${PYSITELIB}/scipy/linalg/_cython_wrapper_generators.py
+${PYSITELIB}/scipy/linalg/_cython_wrapper_generators.pyc
+${PYSITELIB}/scipy/linalg/_cython_wrapper_generators.pyo
 ${PYSITELIB}/scipy/linalg/_decomp_polar.py
 ${PYSITELIB}/scipy/linalg/_decomp_polar.pyc
 ${PYSITELIB}/scipy/linalg/_decomp_polar.pyo
 ${PYSITELIB}/scipy/linalg/_decomp_qz.py
 ${PYSITELIB}/scipy/linalg/_decomp_qz.pyc
 ${PYSITELIB}/scipy/linalg/_decomp_qz.pyo
+${PYSITELIB}/scipy/linalg/_decomp_update.so
 ${PYSITELIB}/scipy/linalg/_expm_frechet.py
 ${PYSITELIB}/scipy/linalg/_expm_frechet.pyc
 ${PYSITELIB}/scipy/linalg/_expm_frechet.pyo
@@ -518,6 +511,7 @@ ${PYSITELIB}/scipy/linalg/_matfuncs_sqrtm.pyo
 ${PYSITELIB}/scipy/linalg/_procrustes.py
 ${PYSITELIB}/scipy/linalg/_procrustes.pyc
 ${PYSITELIB}/scipy/linalg/_procrustes.pyo
+${PYSITELIB}/scipy/linalg/_solve_toeplitz.so
 ${PYSITELIB}/scipy/linalg/_solvers.py
 ${PYSITELIB}/scipy/linalg/_solvers.pyc
 ${PYSITELIB}/scipy/linalg/_solvers.pyo
@@ -527,21 +521,16 @@ ${PYSITELIB}/scipy/linalg/_testutils.pyo
 ${PYSITELIB}/scipy/linalg/basic.py
 ${PYSITELIB}/scipy/linalg/basic.pyc
 ${PYSITELIB}/scipy/linalg/basic.pyo
-${PYSITELIB}/scipy/linalg/benchmarks/bench_basic.py
-${PYSITELIB}/scipy/linalg/benchmarks/bench_decom.py
-${PYSITELIB}/scipy/linalg/benchmarks/bench_sqrtm.py
 ${PYSITELIB}/scipy/linalg/blas.py
 ${PYSITELIB}/scipy/linalg/blas.pyc
 ${PYSITELIB}/scipy/linalg/blas.pyo
 ${PYSITELIB}/scipy/linalg/calc_lwork.py
 ${PYSITELIB}/scipy/linalg/calc_lwork.pyc
 ${PYSITELIB}/scipy/linalg/calc_lwork.pyo
-${PYSITELIB}/scipy/linalg/cblas.py
-${PYSITELIB}/scipy/linalg/cblas.pyc
-${PYSITELIB}/scipy/linalg/cblas.pyo
-${PYSITELIB}/scipy/linalg/clapack.py
-${PYSITELIB}/scipy/linalg/clapack.pyc
-${PYSITELIB}/scipy/linalg/clapack.pyo
+${PYSITELIB}/scipy/linalg/cython_blas.pxd
+${PYSITELIB}/scipy/linalg/cython_blas.so
+${PYSITELIB}/scipy/linalg/cython_lapack.pxd
+${PYSITELIB}/scipy/linalg/cython_lapack.so
 ${PYSITELIB}/scipy/linalg/decomp.py
 ${PYSITELIB}/scipy/linalg/decomp.pyc
 ${PYSITELIB}/scipy/linalg/decomp.pyo
@@ -560,12 +549,6 @@ ${PYSITELIB}/scipy/linalg/decomp_schur.pyo
 ${PYSITELIB}/scipy/linalg/decomp_svd.py
 ${PYSITELIB}/scipy/linalg/decomp_svd.pyc
 ${PYSITELIB}/scipy/linalg/decomp_svd.pyo
-${PYSITELIB}/scipy/linalg/fblas.py
-${PYSITELIB}/scipy/linalg/fblas.pyc
-${PYSITELIB}/scipy/linalg/fblas.pyo
-${PYSITELIB}/scipy/linalg/flapack.py
-${PYSITELIB}/scipy/linalg/flapack.pyc
-${PYSITELIB}/scipy/linalg/flapack.pyo
 ${PYSITELIB}/scipy/linalg/flinalg.py
 ${PYSITELIB}/scipy/linalg/flinalg.pyc
 ${PYSITELIB}/scipy/linalg/flinalg.pyo
@@ -593,14 +576,18 @@ ${PYSITELIB}/scipy/linalg/special_matrices.pyo
 ${PYSITELIB}/scipy/linalg/tests/test_basic.py
 ${PYSITELIB}/scipy/linalg/tests/test_blas.py
 ${PYSITELIB}/scipy/linalg/tests/test_build.py
+${PYSITELIB}/scipy/linalg/tests/test_cython_blas.py
+${PYSITELIB}/scipy/linalg/tests/test_cython_lapack.py
 ${PYSITELIB}/scipy/linalg/tests/test_decomp.py
 ${PYSITELIB}/scipy/linalg/tests/test_decomp_cholesky.py
 ${PYSITELIB}/scipy/linalg/tests/test_decomp_polar.py
+${PYSITELIB}/scipy/linalg/tests/test_decomp_update.py
 ${PYSITELIB}/scipy/linalg/tests/test_fblas.py
 ${PYSITELIB}/scipy/linalg/tests/test_interpolative.py
 ${PYSITELIB}/scipy/linalg/tests/test_lapack.py
 ${PYSITELIB}/scipy/linalg/tests/test_matfuncs.py
 ${PYSITELIB}/scipy/linalg/tests/test_procrustes.py
+${PYSITELIB}/scipy/linalg/tests/test_solve_toeplitz.py
 ${PYSITELIB}/scipy/linalg/tests/test_solvers.py
 ${PYSITELIB}/scipy/linalg/tests/test_special_matrices.py
 ${PYSITELIB}/scipy/misc/__init__.py
@@ -614,16 +601,37 @@ ${PYSITELIB}/scipy/misc/doccer.py
 ${PYSITELIB}/scipy/misc/doccer.pyc
 ${PYSITELIB}/scipy/misc/doccer.pyo
 ${PYSITELIB}/scipy/misc/face.dat
-${PYSITELIB}/scipy/misc/lena.dat
 ${PYSITELIB}/scipy/misc/pilutil.py
 ${PYSITELIB}/scipy/misc/pilutil.pyc
 ${PYSITELIB}/scipy/misc/pilutil.pyo
 ${PYSITELIB}/scipy/misc/setup.py
 ${PYSITELIB}/scipy/misc/setup.pyc
 ${PYSITELIB}/scipy/misc/setup.pyo
+${PYSITELIB}/scipy/misc/tests/data/3x3x3.png
+${PYSITELIB}/scipy/misc/tests/data/3x3x4.png
+${PYSITELIB}/scipy/misc/tests/data/3x4x3.png
+${PYSITELIB}/scipy/misc/tests/data/3x4x4.png
+${PYSITELIB}/scipy/misc/tests/data/3x5x3.png
+${PYSITELIB}/scipy/misc/tests/data/3x5x4.png
+${PYSITELIB}/scipy/misc/tests/data/4x3x3.png
+${PYSITELIB}/scipy/misc/tests/data/4x3x4.png
+${PYSITELIB}/scipy/misc/tests/data/4x4x3.png
+${PYSITELIB}/scipy/misc/tests/data/4x4x4.png
+${PYSITELIB}/scipy/misc/tests/data/4x5x3.png
+${PYSITELIB}/scipy/misc/tests/data/4x5x4.png
+${PYSITELIB}/scipy/misc/tests/data/5x3x3.png
+${PYSITELIB}/scipy/misc/tests/data/5x3x4.png
+${PYSITELIB}/scipy/misc/tests/data/5x4x3.png
+${PYSITELIB}/scipy/misc/tests/data/5x4x4.png
+${PYSITELIB}/scipy/misc/tests/data/5x5x3.png
+${PYSITELIB}/scipy/misc/tests/data/5x5x4.png
+${PYSITELIB}/scipy/misc/tests/data/blocks2bit.png
+${PYSITELIB}/scipy/misc/tests/data/box1.png
+${PYSITELIB}/scipy/misc/tests/data/foo3x5x4indexed.png
 ${PYSITELIB}/scipy/misc/tests/data/icon.png
 ${PYSITELIB}/scipy/misc/tests/data/icon_mono.png
 ${PYSITELIB}/scipy/misc/tests/data/icon_mono_flat.png
+${PYSITELIB}/scipy/misc/tests/data/pattern4bit.png
 ${PYSITELIB}/scipy/misc/tests/test_common.py
 ${PYSITELIB}/scipy/misc/tests/test_doccer.py
 ${PYSITELIB}/scipy/misc/tests/test_pilutil.py
@@ -694,19 +702,57 @@ ${PYSITELIB}/scipy/optimize/_cobyla.so
 ${PYSITELIB}/scipy/optimize/_differentialevolution.py
 ${PYSITELIB}/scipy/optimize/_differentialevolution.pyc
 ${PYSITELIB}/scipy/optimize/_differentialevolution.pyo
+${PYSITELIB}/scipy/optimize/_group_columns.so
+${PYSITELIB}/scipy/optimize/_hungarian.py
+${PYSITELIB}/scipy/optimize/_hungarian.pyc
+${PYSITELIB}/scipy/optimize/_hungarian.pyo
 ${PYSITELIB}/scipy/optimize/_lbfgsb.so
 ${PYSITELIB}/scipy/optimize/_linprog.py
 ${PYSITELIB}/scipy/optimize/_linprog.pyc
 ${PYSITELIB}/scipy/optimize/_linprog.pyo
+${PYSITELIB}/scipy/optimize/_lsq/__init__.py
+${PYSITELIB}/scipy/optimize/_lsq/__init__.pyc
+${PYSITELIB}/scipy/optimize/_lsq/__init__.pyo
+${PYSITELIB}/scipy/optimize/_lsq/bvls.py
+${PYSITELIB}/scipy/optimize/_lsq/bvls.pyc
+${PYSITELIB}/scipy/optimize/_lsq/bvls.pyo
+${PYSITELIB}/scipy/optimize/_lsq/common.py
+${PYSITELIB}/scipy/optimize/_lsq/common.pyc
+${PYSITELIB}/scipy/optimize/_lsq/common.pyo
+${PYSITELIB}/scipy/optimize/_lsq/dogbox.py
+${PYSITELIB}/scipy/optimize/_lsq/dogbox.pyc
+${PYSITELIB}/scipy/optimize/_lsq/dogbox.pyo
+${PYSITELIB}/scipy/optimize/_lsq/givens_elimination.so
+${PYSITELIB}/scipy/optimize/_lsq/least_squares.py
+${PYSITELIB}/scipy/optimize/_lsq/least_squares.pyc
+${PYSITELIB}/scipy/optimize/_lsq/least_squares.pyo
+${PYSITELIB}/scipy/optimize/_lsq/lsq_linear.py
+${PYSITELIB}/scipy/optimize/_lsq/lsq_linear.pyc
+${PYSITELIB}/scipy/optimize/_lsq/lsq_linear.pyo
+${PYSITELIB}/scipy/optimize/_lsq/setup.py
+${PYSITELIB}/scipy/optimize/_lsq/setup.pyc
+${PYSITELIB}/scipy/optimize/_lsq/setup.pyo
+${PYSITELIB}/scipy/optimize/_lsq/trf.py
+${PYSITELIB}/scipy/optimize/_lsq/trf.pyc
+${PYSITELIB}/scipy/optimize/_lsq/trf.pyo
+${PYSITELIB}/scipy/optimize/_lsq/trf_linear.py
+${PYSITELIB}/scipy/optimize/_lsq/trf_linear.pyc
+${PYSITELIB}/scipy/optimize/_lsq/trf_linear.pyo
 ${PYSITELIB}/scipy/optimize/_minimize.py
 ${PYSITELIB}/scipy/optimize/_minimize.pyc
 ${PYSITELIB}/scipy/optimize/_minimize.pyo
 ${PYSITELIB}/scipy/optimize/_minpack.so
 ${PYSITELIB}/scipy/optimize/_nnls.so
+${PYSITELIB}/scipy/optimize/_numdiff.py
+${PYSITELIB}/scipy/optimize/_numdiff.pyc
+${PYSITELIB}/scipy/optimize/_numdiff.pyo
 ${PYSITELIB}/scipy/optimize/_root.py
 ${PYSITELIB}/scipy/optimize/_root.pyc
 ${PYSITELIB}/scipy/optimize/_root.pyo
 ${PYSITELIB}/scipy/optimize/_slsqp.so
+${PYSITELIB}/scipy/optimize/_spectral.py
+${PYSITELIB}/scipy/optimize/_spectral.pyc
+${PYSITELIB}/scipy/optimize/_spectral.pyo
 ${PYSITELIB}/scipy/optimize/_trustregion.py
 ${PYSITELIB}/scipy/optimize/_trustregion.pyc
 ${PYSITELIB}/scipy/optimize/_trustregion.pyo
@@ -720,13 +766,6 @@ ${PYSITELIB}/scipy/optimize/_tstutils.py
 ${PYSITELIB}/scipy/optimize/_tstutils.pyc
 ${PYSITELIB}/scipy/optimize/_tstutils.pyo
 ${PYSITELIB}/scipy/optimize/_zeros.so
-${PYSITELIB}/scipy/optimize/anneal.py
-${PYSITELIB}/scipy/optimize/anneal.pyc
-${PYSITELIB}/scipy/optimize/anneal.pyo
-${PYSITELIB}/scipy/optimize/benchmarks/bench_optimizers.py
-${PYSITELIB}/scipy/optimize/benchmarks/bench_zeros.py
-${PYSITELIB}/scipy/optimize/benchmarks/benchmark_global_optimizers.py
-${PYSITELIB}/scipy/optimize/benchmarks/test_functions.py
 ${PYSITELIB}/scipy/optimize/cobyla.py
 ${PYSITELIB}/scipy/optimize/cobyla.pyc
 ${PYSITELIB}/scipy/optimize/cobyla.pyo
@@ -758,11 +797,17 @@ ${PYSITELIB}/scipy/optimize/slsqp.pyc
 ${PYSITELIB}/scipy/optimize/slsqp.pyo
 ${PYSITELIB}/scipy/optimize/tests/test__basinhopping.py
 ${PYSITELIB}/scipy/optimize/tests/test__differential_evolution.py
+${PYSITELIB}/scipy/optimize/tests/test__numdiff.py
 ${PYSITELIB}/scipy/optimize/tests/test__root.py
-${PYSITELIB}/scipy/optimize/tests/test_anneal.py
+${PYSITELIB}/scipy/optimize/tests/test__spectral.py
 ${PYSITELIB}/scipy/optimize/tests/test_cobyla.py
+${PYSITELIB}/scipy/optimize/tests/test_hungarian.py
+${PYSITELIB}/scipy/optimize/tests/test_lbfgsb_hessinv.py
+${PYSITELIB}/scipy/optimize/tests/test_least_squares.py
 ${PYSITELIB}/scipy/optimize/tests/test_linesearch.py
 ${PYSITELIB}/scipy/optimize/tests/test_linprog.py
+${PYSITELIB}/scipy/optimize/tests/test_lsq_common.py
+${PYSITELIB}/scipy/optimize/tests/test_lsq_linear.py
 ${PYSITELIB}/scipy/optimize/tests/test_minpack.py
 ${PYSITELIB}/scipy/optimize/tests/test_nnls.py
 ${PYSITELIB}/scipy/optimize/tests/test_nonlin.py
@@ -787,7 +832,10 @@ ${PYSITELIB}/scipy/signal/__init__.pyo
 ${PYSITELIB}/scipy/signal/_arraytools.py
 ${PYSITELIB}/scipy/signal/_arraytools.pyc
 ${PYSITELIB}/scipy/signal/_arraytools.pyo
-${PYSITELIB}/scipy/signal/_max_len_seq.so
+${PYSITELIB}/scipy/signal/_max_len_seq.py
+${PYSITELIB}/scipy/signal/_max_len_seq.pyc
+${PYSITELIB}/scipy/signal/_max_len_seq.pyo
+${PYSITELIB}/scipy/signal/_max_len_seq_inner.so
 ${PYSITELIB}/scipy/signal/_peak_finding.py
 ${PYSITELIB}/scipy/signal/_peak_finding.pyc
 ${PYSITELIB}/scipy/signal/_peak_finding.pyo
@@ -795,7 +843,6 @@ ${PYSITELIB}/scipy/signal/_savitzky_golay.py
 ${PYSITELIB}/scipy/signal/_savitzky_golay.pyc
 ${PYSITELIB}/scipy/signal/_savitzky_golay.pyo
 ${PYSITELIB}/scipy/signal/_spectral.so
-${PYSITELIB}/scipy/signal/benchmarks/bench_convolve2d.py
 ${PYSITELIB}/scipy/signal/bsplines.py
 ${PYSITELIB}/scipy/signal/bsplines.pyc
 ${PYSITELIB}/scipy/signal/bsplines.pyo
@@ -856,7 +903,6 @@ ${PYSITELIB}/scipy/sparse/_sparsetools.so
 ${PYSITELIB}/scipy/sparse/base.py
 ${PYSITELIB}/scipy/sparse/base.pyc
 ${PYSITELIB}/scipy/sparse/base.pyo
-${PYSITELIB}/scipy/sparse/benchmarks/bench_sparse.py
 ${PYSITELIB}/scipy/sparse/bsr.py
 ${PYSITELIB}/scipy/sparse/bsr.pyc
 ${PYSITELIB}/scipy/sparse/bsr.pyo
@@ -927,12 +973,12 @@ ${PYSITELIB}/scipy/sparse/linalg/__init__.pyo
 ${PYSITELIB}/scipy/sparse/linalg/_expm_multiply.py
 ${PYSITELIB}/scipy/sparse/linalg/_expm_multiply.pyc
 ${PYSITELIB}/scipy/sparse/linalg/_expm_multiply.pyo
+${PYSITELIB}/scipy/sparse/linalg/_norm.py
+${PYSITELIB}/scipy/sparse/linalg/_norm.pyc
+${PYSITELIB}/scipy/sparse/linalg/_norm.pyo
 ${PYSITELIB}/scipy/sparse/linalg/_onenormest.py
 ${PYSITELIB}/scipy/sparse/linalg/_onenormest.pyc
 ${PYSITELIB}/scipy/sparse/linalg/_onenormest.pyo
-${PYSITELIB}/scipy/sparse/linalg/benchmarks/bench_expm.py
-${PYSITELIB}/scipy/sparse/linalg/benchmarks/bench_expm_multiply.py
-${PYSITELIB}/scipy/sparse/linalg/benchmarks/bench_onenormest.py
 ${PYSITELIB}/scipy/sparse/linalg/dsolve/__init__.py
 ${PYSITELIB}/scipy/sparse/linalg/dsolve/__init__.pyc
 ${PYSITELIB}/scipy/sparse/linalg/dsolve/__init__.pyo
@@ -964,7 +1010,6 @@ ${PYSITELIB}/scipy/sparse/linalg/eigen/arpack/tests/test_arpack.py
 ${PYSITELIB}/scipy/sparse/linalg/eigen/lobpcg/__init__.py
 ${PYSITELIB}/scipy/sparse/linalg/eigen/lobpcg/__init__.pyc
 ${PYSITELIB}/scipy/sparse/linalg/eigen/lobpcg/__init__.pyo
-${PYSITELIB}/scipy/sparse/linalg/eigen/lobpcg/benchmarks/bench_lobpcg.py
 ${PYSITELIB}/scipy/sparse/linalg/eigen/lobpcg/lobpcg.py
 ${PYSITELIB}/scipy/sparse/linalg/eigen/lobpcg/lobpcg.pyc
 ${PYSITELIB}/scipy/sparse/linalg/eigen/lobpcg/lobpcg.pyo
@@ -1018,6 +1063,7 @@ ${PYSITELIB}/scipy/sparse/linalg/setup.pyo
 ${PYSITELIB}/scipy/sparse/linalg/tests/test_expm_multiply.py
 ${PYSITELIB}/scipy/sparse/linalg/tests/test_interface.py
 ${PYSITELIB}/scipy/sparse/linalg/tests/test_matfuncs.py
+${PYSITELIB}/scipy/sparse/linalg/tests/test_norm.py
 ${PYSITELIB}/scipy/sparse/linalg/tests/test_onenormest.py
 ${PYSITELIB}/scipy/sparse/setup.py
 ${PYSITELIB}/scipy/sparse/setup.pyc
@@ -1046,7 +1092,9 @@ ${PYSITELIB}/scipy/spatial/_distance_wrap.so
 ${PYSITELIB}/scipy/spatial/_plotutils.py
 ${PYSITELIB}/scipy/spatial/_plotutils.pyc
 ${PYSITELIB}/scipy/spatial/_plotutils.pyo
-${PYSITELIB}/scipy/spatial/benchmarks/bench_ckdtree.py
+${PYSITELIB}/scipy/spatial/_procrustes.py
+${PYSITELIB}/scipy/spatial/_procrustes.pyc
+${PYSITELIB}/scipy/spatial/_procrustes.pyo
 ${PYSITELIB}/scipy/spatial/ckdtree.so
 ${PYSITELIB}/scipy/spatial/distance.py
 ${PYSITELIB}/scipy/spatial/distance.pyc
@@ -1084,6 +1132,7 @@ ${PYSITELIB}/scipy/spatial/tests/data/pdist-seuclidean-ml.txt
 ${PYSITELIB}/scipy/spatial/tests/data/pdist-spearman-ml.txt
 ${PYSITELIB}/scipy/spatial/tests/data/random-bool-data.txt
 ${PYSITELIB}/scipy/spatial/tests/test__plotutils.py
+${PYSITELIB}/scipy/spatial/tests/test__procrustes.py
 ${PYSITELIB}/scipy/spatial/tests/test_distance.py
 ${PYSITELIB}/scipy/spatial/tests/test_kdtree.py
 ${PYSITELIB}/scipy/spatial/tests/test_qhull.py
@@ -1160,6 +1209,9 @@ ${PYSITELIB}/scipy/stats/_multivariate.py
 ${PYSITELIB}/scipy/stats/_multivariate.pyc
 ${PYSITELIB}/scipy/stats/_multivariate.pyo
 ${PYSITELIB}/scipy/stats/_rank.so
+${PYSITELIB}/scipy/stats/_stats_mstats_common.py
+${PYSITELIB}/scipy/stats/_stats_mstats_common.pyc
+${PYSITELIB}/scipy/stats/_stats_mstats_common.pyo
 ${PYSITELIB}/scipy/stats/_tukeylambda_stats.py
 ${PYSITELIB}/scipy/stats/_tukeylambda_stats.pyc
 ${PYSITELIB}/scipy/stats/_tukeylambda_stats.pyo
@@ -1169,7 +1221,6 @@ ${PYSITELIB}/scipy/stats/contingency.pyo
 ${PYSITELIB}/scipy/stats/distributions.py
 ${PYSITELIB}/scipy/stats/distributions.pyc
 ${PYSITELIB}/scipy/stats/distributions.pyo
-${PYSITELIB}/scipy/stats/futil.so
 ${PYSITELIB}/scipy/stats/kde.py
 ${PYSITELIB}/scipy/stats/kde.pyc
 ${PYSITELIB}/scipy/stats/kde.pyo
@@ -1186,9 +1237,6 @@ ${PYSITELIB}/scipy/stats/mstats_extras.py
 ${PYSITELIB}/scipy/stats/mstats_extras.pyc
 ${PYSITELIB}/scipy/stats/mstats_extras.pyo
 ${PYSITELIB}/scipy/stats/mvn.so
-${PYSITELIB}/scipy/stats/rv.py
-${PYSITELIB}/scipy/stats/rv.pyc
-${PYSITELIB}/scipy/stats/rv.pyo
 ${PYSITELIB}/scipy/stats/setup.py
 ${PYSITELIB}/scipy/stats/setup.pyc
 ${PYSITELIB}/scipy/stats/setup.pyo
@@ -1197,6 +1245,18 @@ ${PYSITELIB}/scipy/stats/stats.py
 ${PYSITELIB}/scipy/stats/stats.pyc
 ${PYSITELIB}/scipy/stats/stats.pyo
 ${PYSITELIB}/scipy/stats/tests/common_tests.py
+${PYSITELIB}/scipy/stats/tests/data/nist_anova/AtmWtAg.dat
+${PYSITELIB}/scipy/stats/tests/data/nist_anova/SiRstv.dat
+${PYSITELIB}/scipy/stats/tests/data/nist_anova/SmLs01.dat
+${PYSITELIB}/scipy/stats/tests/data/nist_anova/SmLs02.dat
+${PYSITELIB}/scipy/stats/tests/data/nist_anova/SmLs03.dat
+${PYSITELIB}/scipy/stats/tests/data/nist_anova/SmLs04.dat
+${PYSITELIB}/scipy/stats/tests/data/nist_anova/SmLs05.dat
+${PYSITELIB}/scipy/stats/tests/data/nist_anova/SmLs06.dat
+${PYSITELIB}/scipy/stats/tests/data/nist_anova/SmLs07.dat
+${PYSITELIB}/scipy/stats/tests/data/nist_anova/SmLs08.dat
+${PYSITELIB}/scipy/stats/tests/data/nist_anova/SmLs09.dat
+${PYSITELIB}/scipy/stats/tests/data/nist_linregress/Norris.dat
 ${PYSITELIB}/scipy/stats/tests/test_binned_statistic.py
 ${PYSITELIB}/scipy/stats/tests/test_contingency.py
 ${PYSITELIB}/scipy/stats/tests/test_continuous_basic.py