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[pkgsrc/trunk]: pkgsrc/math/py-arviz py-arviz: updated to 0.9.0
details: https://anonhg.NetBSD.org/pkgsrc/rev/42b7849c6352
branches: trunk
changeset: 435182:42b7849c6352
user: adam <adam%pkgsrc.org@localhost>
date: Wed Jul 01 16:03:59 2020 +0000
description:
py-arviz: updated to 0.9.0
v0.9.0:
Highlights
loo-pit KDE and HDI were improved
html_repr of InferenceData objects for jupyter notebooks
Support for PyJAGS
from_pymc3 automatically retrieves coords and dims from model context
plot_trace now supports multiple aesthetics to identify chain and variable shape and supports matplotlib aliases
plot_hdi can now take already computed HDI values
Deprecations
from_pymc3 without a model context available raises aFutureWarning and will be deprecated in a future version
In plot_trace, chain_prop and compact_prop as tuples will now raise a FutureWarning
hdi with 2d data raises a FutureWarning
diffstat:
math/py-arviz/Makefile | 10 +-
math/py-arviz/PLIST | 177 ++++++++++++++++++++++++++++++------------------
math/py-arviz/distinfo | 10 +-
3 files changed, 120 insertions(+), 77 deletions(-)
diffs (truncated from 308 to 300 lines):
diff -r 396751d7ce31 -r 42b7849c6352 math/py-arviz/Makefile
--- a/math/py-arviz/Makefile Wed Jul 01 15:59:58 2020 +0000
+++ b/math/py-arviz/Makefile Wed Jul 01 16:03:59 2020 +0000
@@ -1,8 +1,8 @@
-# $NetBSD: Makefile,v 1.3 2020/02/16 03:02:15 minskim Exp $
+# $NetBSD: Makefile,v 1.4 2020/07/01 16:03:59 adam Exp $
-DISTNAME= arviz-0.6.1
+DISTNAME= arviz-0.9.0
PKGNAME= ${PYPKGPREFIX}-${DISTNAME}
-CATEGORIES= math
+CATEGORIES= math python
MASTER_SITES= ${MASTER_SITE_PYPI:=a/arviz/}
MAINTAINER= minskim%NetBSD.org@localhost
@@ -18,9 +18,9 @@
DEPENDS+= ${PYPKGPREFIX}-scipy>=0.19:../../math/py-scipy
DEPENDS+= ${PYPKGPREFIX}-xarray>=0.11:../../math/py-xarray
-PYTHON_VERSIONS_INCOMPATIBLE= 27
+USE_LANGUAGES= # none
-USE_LANGUAGES= # none
+PYTHON_VERSIONS_INCOMPATIBLE= 27
.include "../../lang/python/egg.mk"
.include "../../mk/bsd.pkg.mk"
diff -r 396751d7ce31 -r 42b7849c6352 math/py-arviz/PLIST
--- a/math/py-arviz/PLIST Wed Jul 01 15:59:58 2020 +0000
+++ b/math/py-arviz/PLIST Wed Jul 01 16:03:59 2020 +0000
@@ -1,4 +1,4 @@
-@comment $NetBSD: PLIST,v 1.2 2020/02/16 03:02:15 minskim Exp $
+@comment $NetBSD: PLIST,v 1.3 2020/07/01 16:03:59 adam Exp $
${PYSITELIB}/${EGG_INFODIR}/PKG-INFO
${PYSITELIB}/${EGG_INFODIR}/SOURCES.txt
${PYSITELIB}/${EGG_INFODIR}/dependency_links.txt
@@ -42,6 +42,9 @@
${PYSITELIB}/arviz/data/io_numpyro.py
${PYSITELIB}/arviz/data/io_numpyro.pyc
${PYSITELIB}/arviz/data/io_numpyro.pyo
+${PYSITELIB}/arviz/data/io_pyjags.py
+${PYSITELIB}/arviz/data/io_pyjags.pyc
+${PYSITELIB}/arviz/data/io_pyjags.pyo
${PYSITELIB}/arviz/data/io_pymc3.py
${PYSITELIB}/arviz/data/io_pymc3.pyc
${PYSITELIB}/arviz/data/io_pymc3.pyo
@@ -54,6 +57,9 @@
${PYSITELIB}/arviz/data/io_tfp.py
${PYSITELIB}/arviz/data/io_tfp.pyc
${PYSITELIB}/arviz/data/io_tfp.pyo
+${PYSITELIB}/arviz/numeric_utils.py
+${PYSITELIB}/arviz/numeric_utils.pyc
+${PYSITELIB}/arviz/numeric_utils.pyo
${PYSITELIB}/arviz/plots/__init__.py
${PYSITELIB}/arviz/plots/__init__.pyc
${PYSITELIB}/arviz/plots/__init__.pyo
@@ -75,6 +81,9 @@
${PYSITELIB}/arviz/plots/backends/bokeh/densityplot.py
${PYSITELIB}/arviz/plots/backends/bokeh/densityplot.pyc
${PYSITELIB}/arviz/plots/backends/bokeh/densityplot.pyo
+${PYSITELIB}/arviz/plots/backends/bokeh/distcomparisonplot.py
+${PYSITELIB}/arviz/plots/backends/bokeh/distcomparisonplot.pyc
+${PYSITELIB}/arviz/plots/backends/bokeh/distcomparisonplot.pyo
${PYSITELIB}/arviz/plots/backends/bokeh/distplot.py
${PYSITELIB}/arviz/plots/backends/bokeh/distplot.pyc
${PYSITELIB}/arviz/plots/backends/bokeh/distplot.pyo
@@ -90,9 +99,9 @@
${PYSITELIB}/arviz/plots/backends/bokeh/forestplot.py
${PYSITELIB}/arviz/plots/backends/bokeh/forestplot.pyc
${PYSITELIB}/arviz/plots/backends/bokeh/forestplot.pyo
-${PYSITELIB}/arviz/plots/backends/bokeh/hpdplot.py
-${PYSITELIB}/arviz/plots/backends/bokeh/hpdplot.pyc
-${PYSITELIB}/arviz/plots/backends/bokeh/hpdplot.pyo
+${PYSITELIB}/arviz/plots/backends/bokeh/hdiplot.py
+${PYSITELIB}/arviz/plots/backends/bokeh/hdiplot.pyc
+${PYSITELIB}/arviz/plots/backends/bokeh/hdiplot.pyo
${PYSITELIB}/arviz/plots/backends/bokeh/jointplot.py
${PYSITELIB}/arviz/plots/backends/bokeh/jointplot.pyc
${PYSITELIB}/arviz/plots/backends/bokeh/jointplot.pyo
@@ -141,6 +150,9 @@
${PYSITELIB}/arviz/plots/backends/matplotlib/densityplot.py
${PYSITELIB}/arviz/plots/backends/matplotlib/densityplot.pyc
${PYSITELIB}/arviz/plots/backends/matplotlib/densityplot.pyo
+${PYSITELIB}/arviz/plots/backends/matplotlib/distcomparisonplot.py
+${PYSITELIB}/arviz/plots/backends/matplotlib/distcomparisonplot.pyc
+${PYSITELIB}/arviz/plots/backends/matplotlib/distcomparisonplot.pyo
${PYSITELIB}/arviz/plots/backends/matplotlib/distplot.py
${PYSITELIB}/arviz/plots/backends/matplotlib/distplot.pyc
${PYSITELIB}/arviz/plots/backends/matplotlib/distplot.pyo
@@ -156,9 +168,9 @@
${PYSITELIB}/arviz/plots/backends/matplotlib/forestplot.py
${PYSITELIB}/arviz/plots/backends/matplotlib/forestplot.pyc
${PYSITELIB}/arviz/plots/backends/matplotlib/forestplot.pyo
-${PYSITELIB}/arviz/plots/backends/matplotlib/hpdplot.py
-${PYSITELIB}/arviz/plots/backends/matplotlib/hpdplot.pyc
-${PYSITELIB}/arviz/plots/backends/matplotlib/hpdplot.pyo
+${PYSITELIB}/arviz/plots/backends/matplotlib/hdiplot.py
+${PYSITELIB}/arviz/plots/backends/matplotlib/hdiplot.pyc
+${PYSITELIB}/arviz/plots/backends/matplotlib/hdiplot.pyo
${PYSITELIB}/arviz/plots/backends/matplotlib/jointplot.py
${PYSITELIB}/arviz/plots/backends/matplotlib/jointplot.pyc
${PYSITELIB}/arviz/plots/backends/matplotlib/jointplot.pyo
@@ -201,6 +213,9 @@
${PYSITELIB}/arviz/plots/densityplot.py
${PYSITELIB}/arviz/plots/densityplot.pyc
${PYSITELIB}/arviz/plots/densityplot.pyo
+${PYSITELIB}/arviz/plots/distcomparisonplot.py
+${PYSITELIB}/arviz/plots/distcomparisonplot.pyc
+${PYSITELIB}/arviz/plots/distcomparisonplot.pyo
${PYSITELIB}/arviz/plots/distplot.py
${PYSITELIB}/arviz/plots/distplot.pyc
${PYSITELIB}/arviz/plots/distplot.pyo
@@ -216,9 +231,9 @@
${PYSITELIB}/arviz/plots/forestplot.py
${PYSITELIB}/arviz/plots/forestplot.pyc
${PYSITELIB}/arviz/plots/forestplot.pyo
-${PYSITELIB}/arviz/plots/hpdplot.py
-${PYSITELIB}/arviz/plots/hpdplot.pyc
-${PYSITELIB}/arviz/plots/hpdplot.pyo
+${PYSITELIB}/arviz/plots/hdiplot.py
+${PYSITELIB}/arviz/plots/hdiplot.pyc
+${PYSITELIB}/arviz/plots/hdiplot.pyo
${PYSITELIB}/arviz/plots/jointplot.py
${PYSITELIB}/arviz/plots/jointplot.pyc
${PYSITELIB}/arviz/plots/jointplot.pyo
@@ -254,6 +269,7 @@
${PYSITELIB}/arviz/plots/rankplot.pyo
${PYSITELIB}/arviz/plots/styles/arviz-colors.mplstyle
${PYSITELIB}/arviz/plots/styles/arviz-darkgrid.mplstyle
+${PYSITELIB}/arviz/plots/styles/arviz-grayscale.mplstyle
${PYSITELIB}/arviz/plots/styles/arviz-white.mplstyle
${PYSITELIB}/arviz/plots/styles/arviz-whitegrid.mplstyle
${PYSITELIB}/arviz/plots/traceplot.py
@@ -274,75 +290,102 @@
${PYSITELIB}/arviz/stats/stats.py
${PYSITELIB}/arviz/stats/stats.pyc
${PYSITELIB}/arviz/stats/stats.pyo
+${PYSITELIB}/arviz/stats/stats_refitting.py
+${PYSITELIB}/arviz/stats/stats_refitting.pyc
+${PYSITELIB}/arviz/stats/stats_refitting.pyo
${PYSITELIB}/arviz/stats/stats_utils.py
${PYSITELIB}/arviz/stats/stats_utils.pyc
${PYSITELIB}/arviz/stats/stats_utils.pyo
${PYSITELIB}/arviz/tests/__init__.py
${PYSITELIB}/arviz/tests/__init__.pyc
${PYSITELIB}/arviz/tests/__init__.pyo
+${PYSITELIB}/arviz/tests/base_tests/__init__.py
+${PYSITELIB}/arviz/tests/base_tests/__init__.pyc
+${PYSITELIB}/arviz/tests/base_tests/__init__.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_data.py
+${PYSITELIB}/arviz/tests/base_tests/test_data.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_data.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_diagnostics.py
+${PYSITELIB}/arviz/tests/base_tests/test_diagnostics.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_diagnostics.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_diagnostics_numba.py
+${PYSITELIB}/arviz/tests/base_tests/test_diagnostics_numba.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_diagnostics_numba.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_helpers.py
+${PYSITELIB}/arviz/tests/base_tests/test_helpers.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_helpers.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_plot_utils.py
+${PYSITELIB}/arviz/tests/base_tests/test_plot_utils.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_plot_utils.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_plots_bokeh.py
+${PYSITELIB}/arviz/tests/base_tests/test_plots_bokeh.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_plots_bokeh.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_plots_matplotlib.py
+${PYSITELIB}/arviz/tests/base_tests/test_plots_matplotlib.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_plots_matplotlib.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_rcparams.py
+${PYSITELIB}/arviz/tests/base_tests/test_rcparams.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_rcparams.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_stats.py
+${PYSITELIB}/arviz/tests/base_tests/test_stats.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_stats.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_stats_numba.py
+${PYSITELIB}/arviz/tests/base_tests/test_stats_numba.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_stats_numba.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_stats_utils.py
+${PYSITELIB}/arviz/tests/base_tests/test_stats_utils.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_stats_utils.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_utils.py
+${PYSITELIB}/arviz/tests/base_tests/test_utils.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_utils.pyo
+${PYSITELIB}/arviz/tests/base_tests/test_utils_numba.py
+${PYSITELIB}/arviz/tests/base_tests/test_utils_numba.pyc
+${PYSITELIB}/arviz/tests/base_tests/test_utils_numba.pyo
${PYSITELIB}/arviz/tests/conftest.py
${PYSITELIB}/arviz/tests/conftest.pyc
${PYSITELIB}/arviz/tests/conftest.pyo
+${PYSITELIB}/arviz/tests/external_tests/__init__.py
+${PYSITELIB}/arviz/tests/external_tests/__init__.pyc
+${PYSITELIB}/arviz/tests/external_tests/__init__.pyo
+${PYSITELIB}/arviz/tests/external_tests/test_data_cmdstan.py
+${PYSITELIB}/arviz/tests/external_tests/test_data_cmdstan.pyc
+${PYSITELIB}/arviz/tests/external_tests/test_data_cmdstan.pyo
+${PYSITELIB}/arviz/tests/external_tests/test_data_cmdstanpy.py
+${PYSITELIB}/arviz/tests/external_tests/test_data_cmdstanpy.pyc
+${PYSITELIB}/arviz/tests/external_tests/test_data_cmdstanpy.pyo
+${PYSITELIB}/arviz/tests/external_tests/test_data_emcee.py
+${PYSITELIB}/arviz/tests/external_tests/test_data_emcee.pyc
+${PYSITELIB}/arviz/tests/external_tests/test_data_emcee.pyo
+${PYSITELIB}/arviz/tests/external_tests/test_data_numpyro.py
+${PYSITELIB}/arviz/tests/external_tests/test_data_numpyro.pyc
+${PYSITELIB}/arviz/tests/external_tests/test_data_numpyro.pyo
+${PYSITELIB}/arviz/tests/external_tests/test_data_pyjags.py
+${PYSITELIB}/arviz/tests/external_tests/test_data_pyjags.pyc
+${PYSITELIB}/arviz/tests/external_tests/test_data_pyjags.pyo
+${PYSITELIB}/arviz/tests/external_tests/test_data_pymc.py
+${PYSITELIB}/arviz/tests/external_tests/test_data_pymc.pyc
+${PYSITELIB}/arviz/tests/external_tests/test_data_pymc.pyo
+${PYSITELIB}/arviz/tests/external_tests/test_data_pyro.py
+${PYSITELIB}/arviz/tests/external_tests/test_data_pyro.pyc
+${PYSITELIB}/arviz/tests/external_tests/test_data_pyro.pyo
+${PYSITELIB}/arviz/tests/external_tests/test_data_pystan.py
+${PYSITELIB}/arviz/tests/external_tests/test_data_pystan.pyc
+${PYSITELIB}/arviz/tests/external_tests/test_data_pystan.pyo
+${PYSITELIB}/arviz/tests/external_tests/test_data_tfp.py
+${PYSITELIB}/arviz/tests/external_tests/test_data_tfp.pyc
+${PYSITELIB}/arviz/tests/external_tests/test_data_tfp.pyo
${PYSITELIB}/arviz/tests/helpers.py
${PYSITELIB}/arviz/tests/helpers.pyc
${PYSITELIB}/arviz/tests/helpers.pyo
-${PYSITELIB}/arviz/tests/test_data.py
-${PYSITELIB}/arviz/tests/test_data.pyc
-${PYSITELIB}/arviz/tests/test_data.pyo
-${PYSITELIB}/arviz/tests/test_data_cmdstan.py
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-${PYSITELIB}/arviz/tests/test_data_emcee.pyc
-${PYSITELIB}/arviz/tests/test_data_emcee.pyo
-${PYSITELIB}/arviz/tests/test_data_numpyro.py
-${PYSITELIB}/arviz/tests/test_data_numpyro.pyc
-${PYSITELIB}/arviz/tests/test_data_numpyro.pyo
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-${PYSITELIB}/arviz/tests/test_data_pyro.pyc
-${PYSITELIB}/arviz/tests/test_data_pyro.pyo
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-${PYSITELIB}/arviz/tests/test_data_pystan.pyc
-${PYSITELIB}/arviz/tests/test_data_pystan.pyo
-${PYSITELIB}/arviz/tests/test_data_tfp.py
-${PYSITELIB}/arviz/tests/test_data_tfp.pyc
-${PYSITELIB}/arviz/tests/test_data_tfp.pyo
-${PYSITELIB}/arviz/tests/test_diagnostics.py
-${PYSITELIB}/arviz/tests/test_diagnostics.pyc
-${PYSITELIB}/arviz/tests/test_diagnostics.pyo
-${PYSITELIB}/arviz/tests/test_plot_utils.py
-${PYSITELIB}/arviz/tests/test_plot_utils.pyc
-${PYSITELIB}/arviz/tests/test_plot_utils.pyo
-${PYSITELIB}/arviz/tests/test_plots_bokeh.py
-${PYSITELIB}/arviz/tests/test_plots_bokeh.pyc
-${PYSITELIB}/arviz/tests/test_plots_bokeh.pyo
-${PYSITELIB}/arviz/tests/test_plots_matplotlib.py
-${PYSITELIB}/arviz/tests/test_plots_matplotlib.pyc
-${PYSITELIB}/arviz/tests/test_plots_matplotlib.pyo
-${PYSITELIB}/arviz/tests/test_rcparams.py
-${PYSITELIB}/arviz/tests/test_rcparams.pyc
-${PYSITELIB}/arviz/tests/test_rcparams.pyo
-${PYSITELIB}/arviz/tests/test_stats.py
-${PYSITELIB}/arviz/tests/test_stats.pyc
-${PYSITELIB}/arviz/tests/test_stats.pyo
-${PYSITELIB}/arviz/tests/test_stats_utils.py
-${PYSITELIB}/arviz/tests/test_stats_utils.pyc
-${PYSITELIB}/arviz/tests/test_stats_utils.pyo
-${PYSITELIB}/arviz/tests/test_utils.py
-${PYSITELIB}/arviz/tests/test_utils.pyc
-${PYSITELIB}/arviz/tests/test_utils.pyo
${PYSITELIB}/arviz/utils.py
${PYSITELIB}/arviz/utils.pyc
${PYSITELIB}/arviz/utils.pyo
-${PYSITELIB}/benchmarks/__init__.py
-${PYSITELIB}/benchmarks/__init__.pyc
-${PYSITELIB}/benchmarks/__init__.pyo
-${PYSITELIB}/benchmarks/benchmarks.py
-${PYSITELIB}/benchmarks/benchmarks.pyc
-${PYSITELIB}/benchmarks/benchmarks.pyo
+${PYSITELIB}/arviz/wrappers/__init__.py
+${PYSITELIB}/arviz/wrappers/__init__.pyc
+${PYSITELIB}/arviz/wrappers/__init__.pyo
+${PYSITELIB}/arviz/wrappers/base.py
+${PYSITELIB}/arviz/wrappers/base.pyc
+${PYSITELIB}/arviz/wrappers/base.pyo
+${PYSITELIB}/arviz/wrappers/wrap_pystan.py
+${PYSITELIB}/arviz/wrappers/wrap_pystan.pyc
+${PYSITELIB}/arviz/wrappers/wrap_pystan.pyo
diff -r 396751d7ce31 -r 42b7849c6352 math/py-arviz/distinfo
--- a/math/py-arviz/distinfo Wed Jul 01 15:59:58 2020 +0000
+++ b/math/py-arviz/distinfo Wed Jul 01 16:03:59 2020 +0000
@@ -1,6 +1,6 @@
-$NetBSD: distinfo,v 1.2 2020/02/16 03:02:15 minskim Exp $
+$NetBSD: distinfo,v 1.3 2020/07/01 16:03:59 adam Exp $
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