[pysal] branch master updated (17304ff -> 4caa08a)
Bas Couwenberg
sebastic at debian.org
Fri Sep 30 10:55:46 UTC 2016
This is an automated email from the git hooks/post-receive script.
sebastic pushed a change to branch master
in repository pysal.
from 17304ff Mark taberror.patch as Applied-Upstream.
new 9f42f73 Imported Upstream version 1.12.0
new 6e531dd Merge tag 'upstream/1.12.0'
new 92cbea0 New upstream release.
new 33ee1dc Add recommended dependencies.
new 4e65d0a Drop patches applied upstream.
new 4caa08a Set distribution to unstable.
The 6 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.
Summary of changes:
.travis.yml | 29 +-
.travis_testing.sh | 2 +-
CHANGELOG.txt | 112 +
debian/changelog | 9 +
debian/control | 32 +-
debian/patches/reproducible-build-and-output.patch | 27 -
debian/patches/series | 2 -
debian/patches/taberror.patch | 132 -
doc/source/conf.py | 4 +-
doc/source/index.rst | 2 +-
doc/source/library/contrib/index.rst | 10 +-
doc/source/library/spreg/index.rst | 2 +
doc/source/library/spreg/sur.rst | 12 +
doc/source/library/spreg/sur_error.rst | 12 +
doc/source/library/spreg/sur_lag.rst | 12 +
pysal/.gitignore | 10 +
pysal/__init__.py | 23 +-
pysal/cg/comparators.py | 153 +
pysal/cg/shapes.py | 40 +-
pysal/cg/sphere.py | 152 +-
pysal/cg/tests/test_sphere.py | 109 +
pysal/common.py | 96 +-
pysal/contrib/README.rst | 10 +-
pysal/contrib/geotable/__init__.py | 1 +
pysal/contrib/geotable/config.py | 64 +
pysal/contrib/geotable/io.py | 38 +
pysal/contrib/geotable/ops/__init__.py | 2 +
pysal/contrib/geotable/ops/_accessors.py | 45 +
pysal/contrib/geotable/ops/_shapely.py | 174 +
pysal/contrib/geotable/ops/atomic.py | 10 +
pysal/contrib/geotable/ops/tabular.py | 118 +
.../geotable/ops}/tests/__init__.py | 0
pysal/contrib/geotable/ops/tests/test_accessors.py | 356 +
pysal/contrib/geotable/ops/tests/test_shapely.py | 215 +
pysal/contrib/geotable/ops/tests/test_tabular.py | 72 +
pysal/{cg => contrib/geotable}/tests/__init__.py | 0
pysal/contrib/geotable/tests/test_utils.py | 13 +
pysal/contrib/geotable/utils.py | 70 +
pysal/contrib/glm/README.md | 30 +
pysal/contrib/glm/__init__.py | 4 +
pysal/contrib/glm/base.py | 408 +
pysal/contrib/glm/family.py | 1845 +++
pysal/contrib/glm/glm.py | 365 +
pysal/contrib/glm/iwls.py | 79 +
pysal/contrib/glm/links.py | 953 ++
pysal/contrib/glm/tests/test_glm.py | 993 ++
pysal/contrib/glm/utils.py | 350 +
pysal/contrib/glm/varfuncs.py | 284 +
pysal/contrib/network/klincs.py | 18 +-
pysal/contrib/network/lincs.py | 52 +-
pysal/contrib/pdio/__init__.py | 4 +
.../{pdutilities/dbf_utilities.py => pdio/dbf.py} | 0
.../file_utilities.py => pdio/file.py} | 4 +-
.../{pdutilities/shp_utilities.py => pdio/shp.py} | 0
pysal/contrib/pdutilities/__init__.py | 4 -
pysal/contrib/shapely_ext.py | 4 +-
pysal/contrib/spint/README.md | 48 +-
pysal/contrib/spint/__init__.py | 6 +
pysal/contrib/spint/count_model.py | 191 +
pysal/contrib/spint/dispersion.py | 102 +
pysal/contrib/spint/gravity.py | 1670 ++-
pysal/contrib/spint/gravity_stats.py | 144 -
pysal/contrib/spint/notebooks/4d_distance.ipynb | 531 +
pysal/contrib/spint/notebooks/Gaussian_SAR.ipynb | 791 ++
pysal/contrib/spint/notebooks/IV_FLOWS.ipynb | 195 +
.../contrib/spint/notebooks/NYC_Bike_Example.ipynb | 661 +
.../contrib/spint/notebooks/New_DistanceBand.ipynb | 326 +
pysal/contrib/spint/notebooks/ODW_example.ipynb | 288 +
pysal/contrib/spint/notebooks/OD_weights.ipynb | 254 +
pysal/contrib/spint/notebooks/Vec_SA_Test.ipynb | 389 +
pysal/contrib/spint/notebooks/autograd_test.ipynb | 128 +
.../contrib/spint/notebooks/dispersion_test.ipynb | 455 +
.../examples/Example_NYCBikes_AllFeatures.ipynb | 919 ++
pysal/contrib/spint/notebooks/glm_speed.ipynb | 360 +
pysal/contrib/spint/notebooks/local_SI.ipynb | 232 +
pysal/contrib/spint/notebooks/netW.ipynb | 305 +
.../spint/notebooks/sparse_categorical.ipynb | 184 +
.../notebooks/sparse_categorical_bottleneck.ipynb | 79 +
.../spint/notebooks/sparse_categorical_speed.ipynb | 596 +
pysal/contrib/spint/notebooks/sparse_grav.ipynb | 457 +
.../spint/notebooks/sparse_scipy_optim.ipynb | 165 +
.../spint/notebooks/sparse_vs_dense_grav.ipynb | 499 +
pysal/contrib/spint/notebooks/test_grav.ipynb | 293 +
.../contrib/spint/notebooks/validate_gravity.ipynb | 966 ++
pysal/contrib/spint/tests/test_count_model.py | 87 +
pysal/contrib/spint/tests/test_dispersion.py | 47 +
pysal/contrib/spint/tests/test_gravity.py | 803 +-
pysal/contrib/spint/tests/test_gravity_stats.py | 193 -
pysal/contrib/spint/tests/test_vec_SA.py | 54 +
pysal/contrib/spint/utils.py | 120 +
pysal/contrib/spint/vec_SA.py | 342 +
pysal/contrib/viz/plot.py | 52 +
pysal/core/IOHandlers/__init__.py | 5 +
pysal/core/IOHandlers/db.py | 88 +
pysal/core/IOHandlers/geoda_txt.py | 2 +-
pysal/core/IOHandlers/pyDbfIO.py | 6 +-
pysal/core/IOHandlers/tests/test_db.py | 55 +
pysal/core/Tables.py | 23 +-
pysal/core/tests/test_Tables.py | 29 +
pysal/esda/gamma.py | 25 +-
pysal/esda/geary.py | 53 +-
pysal/esda/getisord.py | 111 +-
pysal/esda/join_counts.py | 60 +-
pysal/esda/mapclassify.py | 308 +-
pysal/esda/mixture_smoothing.py | 12 +-
pysal/esda/moran.py | 394 +-
pysal/esda/smoothing.py | 481 +-
pysal/esda/tabular.py | 306 +
pysal/esda/tests/test_gamma.py | 31 +-
pysal/esda/tests/test_geary.py | 25 +-
pysal/esda/tests/test_getisord.py | 30 +-
pysal/esda/tests/test_join_counts.py | 27 +-
pysal/esda/tests/test_mapclassify.py | 35 +-
pysal/esda/tests/test_moran.py | 70 +-
pysal/esda/tests/test_smoothing.py | 399 +-
pysal/examples/Polygon_Holes/Polygon_Holes.cpg | 1 +
.../Polygon_Holes.dbf} | Bin 498 -> 498 bytes
.../Line.prj => Polygon_Holes/Polygon_Holes.prj} | 0
.../Polygon_Holes.qpj} | 0
pysal/examples/Polygon_Holes/Polygon_Holes.shp | Bin 0 -> 1528 bytes
.../Polygon_Holes.shx} | Bin 124 -> 124 bytes
pysal/examples/nyc_bikes/nyc_bikes_ct.csv | 14043 +++++++++++++++++++
pysal/examples/nyc_bikes/nyct2010.dbf | Bin 0 -> 381602 bytes
pysal/examples/nyc_bikes/nyct2010.prj | 1 +
pysal/examples/nyc_bikes/nyct2010.shp | Bin 0 -> 2648092 bytes
pysal/examples/nyc_bikes/nyct2010.shp.xml | 1 +
pysal/examples/nyc_bikes/nyct2010.shx | Bin 0 -> 17428 bytes
pysal/inequality/gini.py | 89 +-
pysal/inequality/tests/test_gini.py | 33 +
pysal/network/Network_Usage.ipynb | 689 +
pysal/network/analysis.py | 50 +-
pysal/network/network.py | 541 +-
pysal/network/tests/test_network.py | 15 +-
pysal/network/util.py | 130 +-
pysal/spatial_dynamics/markov.py | 648 +-
pysal/spatial_dynamics/tests/test_markov.py | 107 +-
pysal/spreg/diagnostics_sur.py | 60 +-
pysal/spreg/ml_error.py | 23 +-
pysal/spreg/ml_lag.py | 24 +-
pysal/spreg/sputils.py | 275 +
pysal/spreg/sur.py | 155 +-
pysal/spreg/tests/skip.py | 6 +
pysal/spreg/tests/test_diagnostics.py | 1 -
pysal/spreg/tests/test_ml_error.py | 73 +-
pysal/spreg/tests/test_ml_error_regimes.py | 6 +-
pysal/spreg/tests/test_ml_lag.py | 65 +-
pysal/spreg/tests/test_ml_lag_regimes.py | 7 +-
pysal/spreg/tests/test_sputils.py | 134 +
pysal/spreg/tests/test_sur_error.py | 32 +-
pysal/spreg/user_output.py | 39 +-
pysal/spreg/utils.py | 228 +-
pysal/version.py | 4 +-
pysal/weights/Contiguity.py | 429 +-
pysal/weights/Distance.py | 541 +-
pysal/weights/Wsets.py | 4 +-
pysal/weights/__init__.py | 5 -
pysal/weights/_contW_binning.py | 205 +-
pysal/weights/_contW_lists.py | 90 +
pysal/weights/_contW_rtree.py | 10 -
pysal/weights/spintW.py | 254 +
pysal/weights/tests/test_Contiguity.py | 145 +-
pysal/weights/tests/test_Distance.py | 421 +-
pysal/weights/tests/test__contW_binning.py | 10 +-
...test__contW_binning.py => test__contW_lists.py} | 10 +-
pysal/weights/tests/test_spintW.py | 173 +
pysal/weights/tests/test_weights.py | 4 +-
pysal/weights/user.py | 171 +-
pysal/weights/util.py | 49 +-
pysal/weights/weights.py | 76 +-
pysal/weights/weights_from_geojson.ipynb | 311 -
requirements_plus.txt | 12 +
setup.py | 4 +-
tools/github_stats.py | 7 +-
travis.txt | 4 +-
174 files changed, 39583 insertions(+), 3906 deletions(-)
delete mode 100644 debian/patches/reproducible-build-and-output.patch
delete mode 100644 debian/patches/taberror.patch
create mode 100644 doc/source/library/spreg/sur.rst
create mode 100644 doc/source/library/spreg/sur_error.rst
create mode 100644 doc/source/library/spreg/sur_lag.rst
create mode 100644 pysal/.gitignore
create mode 100644 pysal/cg/comparators.py
create mode 100644 pysal/cg/tests/test_sphere.py
create mode 100644 pysal/contrib/geotable/__init__.py
create mode 100644 pysal/contrib/geotable/config.py
create mode 100644 pysal/contrib/geotable/io.py
create mode 100644 pysal/contrib/geotable/ops/__init__.py
create mode 100644 pysal/contrib/geotable/ops/_accessors.py
create mode 100644 pysal/contrib/geotable/ops/_shapely.py
create mode 100644 pysal/contrib/geotable/ops/atomic.py
create mode 100644 pysal/contrib/geotable/ops/tabular.py
rename pysal/{weights => contrib/geotable/ops}/tests/__init__.py (100%)
create mode 100644 pysal/contrib/geotable/ops/tests/test_accessors.py
create mode 100644 pysal/contrib/geotable/ops/tests/test_shapely.py
create mode 100644 pysal/contrib/geotable/ops/tests/test_tabular.py
copy pysal/{cg => contrib/geotable}/tests/__init__.py (100%)
create mode 100644 pysal/contrib/geotable/tests/test_utils.py
create mode 100644 pysal/contrib/geotable/utils.py
create mode 100644 pysal/contrib/glm/README.md
create mode 100644 pysal/contrib/glm/__init__.py
create mode 100644 pysal/contrib/glm/base.py
create mode 100644 pysal/contrib/glm/family.py
create mode 100644 pysal/contrib/glm/glm.py
create mode 100644 pysal/contrib/glm/iwls.py
create mode 100644 pysal/contrib/glm/links.py
create mode 100644 pysal/contrib/glm/tests/test_glm.py
create mode 100644 pysal/contrib/glm/utils.py
create mode 100644 pysal/contrib/glm/varfuncs.py
create mode 100644 pysal/contrib/pdio/__init__.py
rename pysal/contrib/{pdutilities/dbf_utilities.py => pdio/dbf.py} (100%)
rename pysal/contrib/{pdutilities/file_utilities.py => pdio/file.py} (95%)
rename pysal/contrib/{pdutilities/shp_utilities.py => pdio/shp.py} (100%)
delete mode 100644 pysal/contrib/pdutilities/__init__.py
create mode 100644 pysal/contrib/spint/__init__.py
create mode 100644 pysal/contrib/spint/count_model.py
create mode 100644 pysal/contrib/spint/dispersion.py
delete mode 100644 pysal/contrib/spint/gravity_stats.py
create mode 100644 pysal/contrib/spint/notebooks/4d_distance.ipynb
create mode 100644 pysal/contrib/spint/notebooks/Gaussian_SAR.ipynb
create mode 100644 pysal/contrib/spint/notebooks/IV_FLOWS.ipynb
create mode 100644 pysal/contrib/spint/notebooks/NYC_Bike_Example.ipynb
create mode 100644 pysal/contrib/spint/notebooks/New_DistanceBand.ipynb
create mode 100644 pysal/contrib/spint/notebooks/ODW_example.ipynb
create mode 100644 pysal/contrib/spint/notebooks/OD_weights.ipynb
create mode 100644 pysal/contrib/spint/notebooks/Vec_SA_Test.ipynb
create mode 100644 pysal/contrib/spint/notebooks/autograd_test.ipynb
create mode 100644 pysal/contrib/spint/notebooks/dispersion_test.ipynb
create mode 100644 pysal/contrib/spint/notebooks/examples/Example_NYCBikes_AllFeatures.ipynb
create mode 100644 pysal/contrib/spint/notebooks/glm_speed.ipynb
create mode 100644 pysal/contrib/spint/notebooks/local_SI.ipynb
create mode 100644 pysal/contrib/spint/notebooks/netW.ipynb
create mode 100644 pysal/contrib/spint/notebooks/sparse_categorical.ipynb
create mode 100644 pysal/contrib/spint/notebooks/sparse_categorical_bottleneck.ipynb
create mode 100644 pysal/contrib/spint/notebooks/sparse_categorical_speed.ipynb
create mode 100644 pysal/contrib/spint/notebooks/sparse_grav.ipynb
create mode 100644 pysal/contrib/spint/notebooks/sparse_scipy_optim.ipynb
create mode 100644 pysal/contrib/spint/notebooks/sparse_vs_dense_grav.ipynb
create mode 100644 pysal/contrib/spint/notebooks/test_grav.ipynb
create mode 100644 pysal/contrib/spint/notebooks/validate_gravity.ipynb
create mode 100644 pysal/contrib/spint/tests/test_count_model.py
create mode 100644 pysal/contrib/spint/tests/test_dispersion.py
delete mode 100644 pysal/contrib/spint/tests/test_gravity_stats.py
create mode 100644 pysal/contrib/spint/tests/test_vec_SA.py
create mode 100644 pysal/contrib/spint/utils.py
create mode 100644 pysal/contrib/spint/vec_SA.py
create mode 100644 pysal/contrib/viz/plot.py
create mode 100644 pysal/core/IOHandlers/db.py
create mode 100644 pysal/core/IOHandlers/tests/test_db.py
create mode 100644 pysal/core/tests/test_Tables.py
create mode 100644 pysal/esda/tabular.py
create mode 100644 pysal/examples/Polygon_Holes/Polygon_Holes.cpg
copy pysal/examples/{Polygon/Polygon.dbf => Polygon_Holes/Polygon_Holes.dbf} (80%)
copy pysal/examples/{Line/Line.prj => Polygon_Holes/Polygon_Holes.prj} (100%)
copy pysal/examples/{networks/nonplanarsegments.qpj => Polygon_Holes/Polygon_Holes.qpj} (100%)
create mode 100644 pysal/examples/Polygon_Holes/Polygon_Holes.shp
copy pysal/examples/{Polygon/Polygon.shx => Polygon_Holes/Polygon_Holes.shx} (54%)
create mode 100644 pysal/examples/nyc_bikes/nyc_bikes_ct.csv
create mode 100644 pysal/examples/nyc_bikes/nyct2010.dbf
create mode 100644 pysal/examples/nyc_bikes/nyct2010.prj
create mode 100644 pysal/examples/nyc_bikes/nyct2010.shp
create mode 100644 pysal/examples/nyc_bikes/nyct2010.shp.xml
create mode 100644 pysal/examples/nyc_bikes/nyct2010.shx
create mode 100644 pysal/inequality/tests/test_gini.py
create mode 100644 pysal/network/Network_Usage.ipynb
create mode 100644 pysal/spreg/sputils.py
create mode 100644 pysal/spreg/tests/skip.py
create mode 100644 pysal/spreg/tests/test_sputils.py
create mode 100644 pysal/weights/_contW_lists.py
create mode 100644 pysal/weights/spintW.py
copy pysal/weights/tests/{test__contW_binning.py => test__contW_lists.py} (94%)
create mode 100644 pysal/weights/tests/test_spintW.py
delete mode 100644 pysal/weights/weights_from_geojson.ipynb
create mode 100644 requirements_plus.txt
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