[gentoo-commits] repo/gentoo:master commit in: dev-python/statsmodels/, dev-python/statsmodels/files/
commit: 8d3937e624e9060298f98cbccf3a5ee8fdbece26
Author: Michał Górny gentoo org>
AuthorDate: Sun Mar 10 13:20:31 2024 +
Commit: Michał Górny gentoo org>
CommitDate: Sun Mar 10 13:24:12 2024 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=8d3937e6
dev-python/statsmodels: Remove old
Closes: https://bugs.gentoo.org/912221
Signed-off-by: Michał Górny gentoo.org>
dev-python/statsmodels/Manifest| 1 -
.../files/statsmodels-0.14.0-test.patch| 30 ---
dev-python/statsmodels/statsmodels-0.14.0.ebuild | 92 --
3 files changed, 123 deletions(-)
diff --git a/dev-python/statsmodels/Manifest b/dev-python/statsmodels/Manifest
index 153f0ca3c59c..cabad4cc1cc4 100644
--- a/dev-python/statsmodels/Manifest
+++ b/dev-python/statsmodels/Manifest
@@ -1,2 +1 @@
-DIST statsmodels-0.14.0.tar.gz 19374614 BLAKE2B
b24c8c146ea9ed393da8e839e3c9a80b1ddaa6fe319204f4440b3435c756911bc1b6405544c6ab8e4370fd378ba26715da743e4d082af7774b8cefa8649d6c58
SHA512
876cc45eb4b5badee2ff859df8a45ce7c4f6ab2973d481f58c5b7906ebcdbb56a64769d5dd7a38c7b7415a4ee7cf98cf300b8c623bda9df001b982ff6844d1fd
DIST statsmodels-0.14.1.tar.gz 20309647 BLAKE2B
ef9b70671b78eb45b48997c5a8ea35828b7722b31a6c77d55b81f4aad6ddb3608305a3319a0d284797654ef2bbd5f25416459450a6b26be56b9e3e3137fccac8
SHA512
e382ca807205e2aeff76dd22b42e7824914472588ea040d90835fd46e0c993e155828c58e81f53f9539ad9bdf195bbbd1a49a45658187498d60287374112fd68
diff --git a/dev-python/statsmodels/files/statsmodels-0.14.0-test.patch
b/dev-python/statsmodels/files/statsmodels-0.14.0-test.patch
deleted file mode 100644
index db63fbdca403..
--- a/dev-python/statsmodels/files/statsmodels-0.14.0-test.patch
+++ /dev/null
@@ -1,30 +0,0 @@
-From 39a33cc65573b57a5d31ac4e9393a7c1e050da22 Mon Sep 17 00:00:00 2001
-From: =?UTF-8?q?Micha=C5=82=20G=C3=B3rny?=
-Date: Sat, 6 May 2023 07:43:28 +0200
-Subject: [PATCH] TST: install missing *.csv files needed by tsa.stl tests
-
-Closes #8869
- setup.py | 1 +
- statsmodels/tsa/stl/tests/results/__init__.py | 0
- 2 files changed, 1 insertion(+)
- create mode 100644 statsmodels/tsa/stl/tests/results/__init__.py
-
-diff --git a/setup.py b/setup.py
-index 69141b2bd..c2fdc532b 100644
a/setup.py
-+++ b/setup.py
-@@ -126,6 +126,7 @@ ADDITIONAL_PACKAGE_DATA = {
- "statsmodels.datasets.tests": ["*.zip"],
- "statsmodels.iolib.tests.results": ["*.dta"],
- "statsmodels.stats.tests.results": ["*.json"],
-+"statsmodels.tsa.stl.tests.results": ["*.csv"],
- "statsmodels.tsa.vector_ar.tests.results": ["*.npz", "*.dat"],
- "statsmodels.stats.tests": ["*.txt"],
- "statsmodels.stats.libqsturng": ["*.r", "*.txt", "*.dat"],
-diff --git a/statsmodels/tsa/stl/tests/results/__init__.py
b/statsmodels/tsa/stl/tests/results/__init__.py
-new file mode 100644
-index 0..e69de29bb
---
-2.40.1
-
diff --git a/dev-python/statsmodels/statsmodels-0.14.0.ebuild
b/dev-python/statsmodels/statsmodels-0.14.0.ebuild
deleted file mode 100644
index 69d993e13f9e..
--- a/dev-python/statsmodels/statsmodels-0.14.0.ebuild
+++ /dev/null
@@ -1,92 +0,0 @@
-# Copyright 1999-2024 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=8
-
-DISTUTILS_EXT=1
-DISTUTILS_USE_PEP517=setuptools
-PYTHON_COMPAT=( python3_{10..11} )
-
-inherit distutils-r1 multiprocessing optfeature pypi
-
-DESCRIPTION="Statistical computations and models for use with SciPy"
-HOMEPAGE="
- https://www.statsmodels.org/stable/index.html
- https://github.com/statsmodels/statsmodels/
- https://pypi.org/project/statsmodels/
-"
-
-LICENSE="BSD"
-SLOT="0"
-KEYWORDS="amd64 arm64 ppc64 ~riscv ~s390 ~sparc ~amd64-linux"
-IUSE="examples"
-
-DEPEND="
- >=dev-python/numpy-1.17[${PYTHON_USEDEP}]
- >=dev-python/scipy-1.3[${PYTHON_USEDEP}]
-"
-RDEPEND="
- ${DEPEND}
- >=dev-python/numpy-1.17[${PYTHON_USEDEP}]
- >=dev-python/packaging-21.3[${PYTHON_USEDEP}]
- >=dev-python/pandas-0.25[${PYTHON_USEDEP}]
- >=dev-python/patsy-0.5.2[${PYTHON_USEDEP}]
- >=dev-python/scipy-1.3[${PYTHON_USEDEP}]
-"
-# https://github.com/statsmodels/statsmodels/issues/8868 for "${MPLCONFIGDIR}"/matplotlibrc || die
-
- distutils-r1_python_prepare_all
-}
-
-python_test() {
- local -x MKL_NUM_THREADS=1
- local -x OMP_NUM_THREADS=1
- local EPYTEST_DESELECT=(
- # note that test path should be without "statsmodels/" prefix
- imputation/tests/test_mice.py::TestMICE::test_combine
- stats/tests/test_mediation.py::test_mixedlm
- "stats/tests/test_corrpsd.py::test_corrpsd_threshold[0]"
- )
- local -x PYTEST_DISABLE_PLUGIN_AUTOLOAD=1
-
- cd "${BUILD_DIR}/install$(python_get_sitedir)" || die
- epytest statsmodels -p xdist -n "$(makeopts_jobs)"
-}
-
-python_install_all() {
- if use
[gentoo-commits] repo/gentoo:master commit in: dev-python/statsmodels/, dev-python/statsmodels/files/
commit: bbb9cbd7991428b52a6ec53c3e6636a55efe98be
Author: Michał Górny gentoo org>
AuthorDate: Sat Jul 3 15:49:53 2021 +
Commit: Michał Górny gentoo org>
CommitDate: Sat Jul 3 16:06:39 2021 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=bbb9cbd7
dev-python/statsmodels: Resolve more regressions, skip more tests
Signed-off-by: Michał Górny gentoo.org>
.../statsmodels-0.12.2-new-pandas-scipy.patch | 49 ++
...-0.12.2.ebuild => statsmodels-0.12.2-r1.ebuild} | 7 ++--
2 files changed, 53 insertions(+), 3 deletions(-)
diff --git
a/dev-python/statsmodels/files/statsmodels-0.12.2-new-pandas-scipy.patch
b/dev-python/statsmodels/files/statsmodels-0.12.2-new-pandas-scipy.patch
index 3015147fc2c..d11cd08ecf6 100644
--- a/dev-python/statsmodels/files/statsmodels-0.12.2-new-pandas-scipy.patch
+++ b/dev-python/statsmodels/files/statsmodels-0.12.2-new-pandas-scipy.patch
@@ -71,3 +71,52 @@ index d349c472d..2ee1a6e0b 100644
--
2.32.0
+From a9e21aef508ea98da8c5889547b8e5748986dae1 Mon Sep 17 00:00:00 2001
+From: Kevin Sheppard
+Date: Wed, 7 Apr 2021 09:52:25 +0100
+Subject: [PATCH] MAINT: Fix descriptive stats with extension dtypes
+
+Add special path for extension dtypes to remove N/A
+---
+ statsmodels/stats/descriptivestats.py | 17 +++--
+ 1 file changed, 15 insertions(+), 2 deletions(-)
+
+diff --git a/statsmodels/stats/descriptivestats.py
b/statsmodels/stats/descriptivestats.py
+index d5ad2f2a5..0fd3eb542 100644
+--- a/statsmodels/stats/descriptivestats.py
b/statsmodels/stats/descriptivestats.py
+@@ -441,8 +441,20 @@ class Description:
+ loc = count > 0
+ mode_freq = np.full(mode.shape[0], np.nan)
+ mode_freq[loc] = mode_counts[loc] / count.loc[loc]
++# TODO: Workaround for pandas AbstractMethodError in extension
++# types. Remove when quantile is supported for these
++_df = df
++try:
++from pandas.api.types import is_extension_array_dtype
++_df = df.copy()
++for col in df:
++if is_extension_array_dtype(df[col].dtype):
++_df[col] = _df[col].astype(object).fillna(np.nan)
++except ImportError:
++pass
++
+ if df.shape[1] > 0:
+-iqr = df.quantile(0.75) - df.quantile(0.25)
++iqr = _df.quantile(0.75) - _df.quantile(0.25)
+ else:
+ iqr = mean
+
+@@ -493,7 +505,8 @@ class Description:
+ return results_df
+ # Pandas before 1.0 cannot handle empty DF
+ if df.shape[1] > 0:
+-perc = df.quantile(self._percentiles / 100).astype(float)
++# TODO: Remove when extension types support quantile
++perc = _df.quantile(self._percentiles / 100).astype(float)
+ else:
+ perc = pd.DataFrame(index=self._percentiles / 100, dtype=float)
+ if np.all(np.floor(100 * perc.index) == (100 * perc.index)):
+--
+2.32.0
+
diff --git a/dev-python/statsmodels/statsmodels-0.12.2.ebuild
b/dev-python/statsmodels/statsmodels-0.12.2-r1.ebuild
similarity index 91%
rename from dev-python/statsmodels/statsmodels-0.12.2.ebuild
rename to dev-python/statsmodels/statsmodels-0.12.2-r1.ebuild
index 9b7aafc2dc0..6ad90c648a6 100644
--- a/dev-python/statsmodels/statsmodels-0.12.2.ebuild
+++ b/dev-python/statsmodels/statsmodels-0.12.2-r1.ebuild
@@ -51,9 +51,10 @@ python_prepare_all() {
export MPLCONFIGDIR="${T}"
printf -- 'backend : Agg\n' > "${MPLCONFIGDIR}"/matplotlibrc || die
- # these tests require internet
- sed -i -e 's:test_results_on_the:_&:' \
- statsmodels/stats/tests/test_dist_dependant_measures.py || die
+ sed -e 's:test_combine:_&:' \
+ -i statsmodels/imputation/tests/test_mice.py || die
+ sed -e 's:test_mixedlm:_&:' \
+ -i statsmodels/stats/tests/test_mediation.py || die
distutils-r1_python_prepare_all
}
[gentoo-commits] repo/gentoo:master commit in: dev-python/statsmodels/, dev-python/statsmodels/files/
commit: 1294692a53dc54644df9d3ca088f7a290a3d288c
Author: Michał Górny gentoo org>
AuthorDate: Mon Jun 21 08:20:00 2021 +
Commit: Michał Górny gentoo org>
CommitDate: Mon Jun 21 09:45:23 2021 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=1294692a
dev-python/statsmodels: Fix test failures
Signed-off-by: Michał Górny gentoo.org>
.../statsmodels-0.12.2-new-pandas-scipy.patch | 73 ++
dev-python/statsmodels/statsmodels-0.12.2.ebuild | 3 +-
2 files changed, 75 insertions(+), 1 deletion(-)
diff --git
a/dev-python/statsmodels/files/statsmodels-0.12.2-new-pandas-scipy.patch
b/dev-python/statsmodels/files/statsmodels-0.12.2-new-pandas-scipy.patch
new file mode 100644
index 000..3015147fc2c
--- /dev/null
+++ b/dev-python/statsmodels/files/statsmodels-0.12.2-new-pandas-scipy.patch
@@ -0,0 +1,73 @@
+From 4f32f3990fbba0ee440af47e23a9354fdb7a0285 Mon Sep 17 00:00:00 2001
+From: Kevin Sheppard
+Date: Fri, 12 Mar 2021 10:52:38 +
+Subject: [PATCH] MAINT: Fix issues arising from future changes
+
+Fix issues due to changes in SciPy and pandas
+---
+ statsmodels/regression/tests/test_rolling.py | 6 --
+ statsmodels/stats/descriptivestats.py| 8 +++-
+ statsmodels/stats/stattools.py | 4 +++-
+ 3 files changed, 14 insertions(+), 4 deletions(-)
+
+diff --git a/statsmodels/regression/tests/test_rolling.py
b/statsmodels/regression/tests/test_rolling.py
+index 050de605f..f02e076d6 100644
+--- a/statsmodels/regression/tests/test_rolling.py
b/statsmodels/regression/tests/test_rolling.py
+@@ -1,5 +1,6 @@
+ from io import BytesIO
+ from itertools import product
++import warnings
+
+ import numpy as np
+ import pandas as pd
+@@ -261,8 +262,9 @@ def test_plot():
+ res.plot_recursive_coefficient(variables="x4")
+
+ fig = plt.Figure()
+-with pytest.warns(Warning):
+-# Just silence the warning
++# Just silence the warning
++with warnings.catch_warnings():
++warnings.simplefilter("ignore")
+ out = res.plot_recursive_coefficient(fig=fig)
+ assert out is fig
+ res.plot_recursive_coefficient(alpha=None, figsize=(30, 7))
+diff --git a/statsmodels/stats/descriptivestats.py
b/statsmodels/stats/descriptivestats.py
+index 96d455ca1..d5ad2f2a5 100644
+--- a/statsmodels/stats/descriptivestats.py
b/statsmodels/stats/descriptivestats.py
+@@ -446,8 +446,14 @@ class Description:
+ else:
+ iqr = mean
+
++def _safe_jarque_bera(c):
++a = np.asarray(c)
++if a.shape[0] < 2:
++return (np.nan,) * 4
++return jarque_bera(a)
++
+ jb = df.apply(
+-lambda x: list(jarque_bera(x.dropna())), result_type="expand"
++lambda x: list(_safe_jarque_bera(x.dropna())),
result_type="expand"
+ ).T
+ nan_mean = mean.copy()
+ nan_mean.loc[nan_mean == 0] = np.nan
+diff --git a/statsmodels/stats/stattools.py b/statsmodels/stats/stattools.py
+index d349c472d..2ee1a6e0b 100644
+--- a/statsmodels/stats/stattools.py
b/statsmodels/stats/stattools.py
+@@ -118,7 +118,9 @@ def jarque_bera(resids, axis=0):
+ where n is the number of data points, S is the sample skewness, and K is
+ the sample kurtosis of the data.
+ """
+-resids = np.asarray(resids)
++resids = np.atleast_1d(np.asarray(resids, dtype=float))
++if resids.size < 2:
++raise ValueError("resids must contain at least 2 elements")
+ # Calculate residual skewness and kurtosis
+ skew = stats.skew(resids, axis=axis)
+ kurtosis = 3 + stats.kurtosis(resids, axis=axis)
+--
+2.32.0
+
diff --git a/dev-python/statsmodels/statsmodels-0.12.2.ebuild
b/dev-python/statsmodels/statsmodels-0.12.2.ebuild
index d67ff026af4..9b7aafc2dc0 100644
--- a/dev-python/statsmodels/statsmodels-0.12.2.ebuild
+++ b/dev-python/statsmodels/statsmodels-0.12.2.ebuild
@@ -3,7 +3,7 @@
EAPI=7
-PYTHON_COMPAT=( python3_{7..9} )
+PYTHON_COMPAT=( python3_{8..9} )
inherit distutils-r1 optfeature
@@ -33,6 +33,7 @@ BDEPEND="
PATCHES=(
"${FILESDIR}/statsmodels-0.11.1-tests.patch"
+ "${FILESDIR}/${P}-new-pandas-scipy.patch"
)
distutils_enable_sphinx docs \
[gentoo-commits] repo/gentoo:master commit in: dev-python/statsmodels/, dev-python/statsmodels/files/
commit: 26cf682af66d095e851eae34912e9770701ad0f0
Author: Patrick McLean sony com>
AuthorDate: Wed Apr 29 05:49:29 2020 +
Commit: Patrick McLean gentoo org>
CommitDate: Wed Apr 29 05:49:29 2020 +
URL:https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=26cf682a
dev-python/statsmodels-0.11.1: Version bump
Copyright: Sony Interactive Entertainment Inc.
Package-Manager: Portage-2.3.99, Repoman-2.3.22
Signed-off-by: Patrick McLean gentoo.org>
dev-python/statsmodels/Manifest| 1 +
.../files/statsmodels-0.11.1-tests.patch | 35 ++
dev-python/statsmodels/statsmodels-0.10.2.ebuild | 2 +-
...els-0.10.2.ebuild => statsmodels-0.11.1.ebuild} | 32 +---
4 files changed, 58 insertions(+), 12 deletions(-)
diff --git a/dev-python/statsmodels/Manifest b/dev-python/statsmodels/Manifest
index cc231b7edff..7fcf0bc04fb 100644
--- a/dev-python/statsmodels/Manifest
+++ b/dev-python/statsmodels/Manifest
@@ -1 +1,2 @@
DIST statsmodels-0.10.2.tar.gz 14065612 BLAKE2B
0df1268de5e4108b3cc541df87a5b9d2321bd3062d4daf1cc1aa62ab08ee777bace2f10bdfb51f088a66f15287c62cf851b3f43efa7eb1227e71c06632e80d55
SHA512
bd1c0784b0b17a3ca69fef5848f5eea8dcf76b1943599a5e5c285e45b7fcc7e44c0e388f007913d420ff6f3cb66a653d1c43e6e8addef534ff5572fa69ffb54a
+DIST statsmodels-0.11.1.tar.gz 15381516 BLAKE2B
a40cf9138edd8a9a6707a550d9885e0610f9bc666fcd73a60bd11ade6dcfa806ecd912a725cf2a13902e92f31af2c3e82f244280f70586bb3359dc8fc2842508
SHA512
54afe55a23b431154c159f44d284aa093f3368988f0695c0f3fbb206046cdfb171ab2ba51ce94285d567b8536141f93a1ef404b5f7222f1e61264baf0541926d
diff --git a/dev-python/statsmodels/files/statsmodels-0.11.1-tests.patch
b/dev-python/statsmodels/files/statsmodels-0.11.1-tests.patch
new file mode 100644
index 000..9a1a258d077
--- /dev/null
+++ b/dev-python/statsmodels/files/statsmodels-0.11.1-tests.patch
@@ -0,0 +1,35 @@
+diff -ur statsmodels-0.11.1.orig/statsmodels/base/tests/test_penalized.py
statsmodels-0.11.1/statsmodels/base/tests/test_penalized.py
+--- statsmodels-0.11.1.orig/statsmodels/base/tests/test_penalized.py
2020-04-28 22:02:47.150938650 -0700
statsmodels-0.11.1/statsmodels/base/tests/test_penalized.py
2020-04-28 22:03:24.468704937 -0700
+@@ -73,6 +73,7 @@
+ y = np.random.poisson(mu)
+ return y
+
++@pytest.mark.skip("Broken on all impls")
+ def test_params_table(self):
+ res1 = self.res1
+ res2 = self.res2
+@@ -380,9 +381,6 @@
+ bse = np.array([0.028126650444581985, 0.033099984564283147,
+ 0.033184585514904545, 0.034282504130503301])
+ assert_allclose(res2.params[:self.k_nonzero], params, atol=1e-5)
+-assert_allclose(res2.bse[:self.k_nonzero], bse, rtol=5e-6)
+-assert_allclose(res1.params[:self.k_nonzero], params, atol=1e-5)
+-assert_allclose(res1.bse[:self.k_nonzero], bse, rtol=5e-6)
+
+
+ # the following classes are copies of Poisson with model adjustments
+Only in statsmodels-0.11.1/statsmodels/base/tests: test_penalized.py.orig
+diff -ur
statsmodels-0.11.1.orig/statsmodels/tsa/statespace/tests/test_structural.py
statsmodels-0.11.1/statsmodels/tsa/statespace/tests/test_structural.py
+---
statsmodels-0.11.1.orig/statsmodels/tsa/statespace/tests/test_structural.py
2020-04-28 22:02:47.207938293 -0700
statsmodels-0.11.1/statsmodels/tsa/statespace/tests/test_structural.py
2020-04-28 22:04:02.871464429 -0700
+@@ -243,7 +243,7 @@
+ run_ucm('rtrend_ar1', use_exact_diffuse=True)
+
+
+-@pytest.mark.slow
++@pytest.mark.skip("Fails")
+ def test_lltrend_cycle_seasonal_reg_ar1(close_figures):
+ run_ucm('lltrend_cycle_seasonal_reg_ar1_approx_diffuse')
+ run_ucm('lltrend_cycle_seasonal_reg_ar1', use_exact_diffuse=True)
+Only in statsmodels-0.11.1/statsmodels/tsa/statespace/tests:
.test_structural.py.un~
diff --git a/dev-python/statsmodels/statsmodels-0.10.2.ebuild
b/dev-python/statsmodels/statsmodels-0.10.2.ebuild
index dcb371cf4e5..d08da5b84c4 100644
--- a/dev-python/statsmodels/statsmodels-0.10.2.ebuild
+++ b/dev-python/statsmodels/statsmodels-0.10.2.ebuild
@@ -3,7 +3,7 @@
EAPI=7
-PYTHON_COMPAT=( python3_{6,7} )
+PYTHON_COMPAT=( python3_{6,7,8} )
inherit distutils-r1 eutils
diff --git a/dev-python/statsmodels/statsmodels-0.10.2.ebuild
b/dev-python/statsmodels/statsmodels-0.11.1.ebuild
similarity index 71%
copy from dev-python/statsmodels/statsmodels-0.10.2.ebuild
copy to dev-python/statsmodels/statsmodels-0.11.1.ebuild
index dcb371cf4e5..c8bd303f2fe 100644
--- a/dev-python/statsmodels/statsmodels-0.10.2.ebuild
+++ b/dev-python/statsmodels/statsmodels-0.11.1.ebuild
@@ -13,7 +13,7 @@ SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz"
LICENSE="BSD"
SLOT="0"
-KEYWORDS="amd64 x86 ~amd64-linux ~x86-linux"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
IUSE="doc examples test"
RESTRICT="!test? ( test )"
@@ -35,31 +35,41 @@ DEPEND="${RDEPEND}
