Adding metadata

11 files changed, 220 insertions, 22 deletions

diff --git a/dev-python/aesara/aesara-2.0.10.ebuild b/dev-python/aesara/aesara-2.0.10.ebuild
index 1f1f83c71a1e..44b6ef97757b 100644
--- a/dev-python/aesara/aesara-2.0.10.ebuild
+++ b/dev-python/aesara/aesara-2.0.10.ebuild
@@ -14,7 +14,7 @@ S="${WORKDIR}/${MY_P}"
 
 LICENSE="BSD"
 SLOT="0"
-KEYWORDS="~amd64 ~arm ~arm64 ~x86"
+KEYWORDS="amd64 ~arm ~arm64 x86"
 
 RDEPEND="
 	dev-python/filelock[${PYTHON_USEDEP}]
diff --git a/dev-python/packaging/Manifest b/dev-python/packaging/Manifest
index c4102d3c3e0f..04dcb3436b98 100644
--- a/dev-python/packaging/Manifest
+++ b/dev-python/packaging/Manifest
@@ -1 +1,2 @@
 DIST packaging-20.9.gh.tar.gz 78041 BLAKE2B d87c66aa39cfb832a26a350981722ad40a9193b70ca447030405ee474586cc12e4ae5f4dc7fbc5da6944b717545f3d3f7caac376a3da1ab95aa26429723dc6f6 SHA512 fb71f1036cfaacbe94fdee663af31d6ad1960f73ecc95cba87b461c2d7d2ea90085853bb4682b146492d8c48f784b60ef082e3b1259269857166b143cd9a920b
+DIST packaging-21.0.gh.tar.gz 79977 BLAKE2B 4ddfa5069f463abeab09ed92650a174d58622927d24b22eed184506d36d9144520e90cd5ea6570e7c06af3c768eda608decc4befb402942e6d6cd1ba5cb10b42 SHA512 612744ad8d0b834709af5d4e2415679271e4cdc304a2e9297ec741e37e62241a041b678568130cd733828a1bf2e5885d62de706934f4018195566107989a6f6b
diff --git a/dev-python/packaging/packaging-21.0.ebuild b/dev-python/packaging/packaging-21.0.ebuild
new file mode 100644
index 000000000000..7133105024e3
--- /dev/null
+++ b/dev-python/packaging/packaging-21.0.ebuild
@@ -0,0 +1,33 @@
+# Copyright 1999-2021 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+PYTHON_COMPAT=( python3_{6,7,8,9,10} pypy3 )
+inherit distutils-r1
+
+DESCRIPTION="Core utilities for Python packages"
+HOMEPAGE="
+	https://github.com/pypa/packaging/
+	https://pypi.org/project/packaging/"
+SRC_URI="
+	https://github.com/pypa/packaging/archive/${PV}.tar.gz -> ${P}.gh.tar.gz"
+
+SLOT="0"
+LICENSE="|| ( Apache-2.0 BSD-2 )"
+KEYWORDS="~alpha ~amd64 ~arm ~arm64 ~hppa ~ia64 ~m68k ~mips ~ppc ~ppc64 ~riscv ~s390 ~sparc ~x86 ~x64-cygwin ~amd64-linux ~x86-linux ~ppc-macos ~x64-macos ~sparc-solaris ~sparc64-solaris ~x64-solaris ~x86-solaris"
+
+RDEPEND="
+	>=dev-python/pyparsing-2.1.10[${PYTHON_USEDEP}]
+"
+DEPEND="
+	test? (
+		dev-python/pretend[${PYTHON_USEDEP}]
+	)
+"
+
+distutils_enable_tests pytest
+
+python_test() {
+	epytest --capture=no
+}
diff --git a/dev-python/pbr/pbr-5.6.0.ebuild b/dev-python/pbr/pbr-5.6.0.ebuild
index 71384be3114c..045545e089c5 100644
--- a/dev-python/pbr/pbr-5.6.0.ebuild
+++ b/dev-python/pbr/pbr-5.6.0.ebuild
@@ -3,10 +3,8 @@
 
 EAPI=7
 
-DISTUTILS_USE_SETUPTOOLS=rdepend
 PYTHON_COMPAT=( python3_{6,7,8,9,10} pypy3 )
 PYTHON_REQ_USE="threads(+)"
-
 inherit distutils-r1
 
 DESCRIPTION="Inject some useful and sensible default behaviors into setuptools"
@@ -16,8 +14,6 @@ SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz"
 LICENSE="Apache-2.0"
 SLOT="0"
 KEYWORDS="~alpha amd64 arm arm64 ~hppa ~ia64 ~mips ppc ppc64 ~riscv ~s390 sparc x86 ~x64-cygwin ~amd64-linux ~x86-linux"
-IUSE="test"
-RESTRICT="!test? ( test )"
 
 # git is needed for tests, see https://bugs.launchpad.net/pbr/+bug/1326682 and https://bugs.gentoo.org/show_bug.cgi?id=561038
 # docutils is needed for sphinx exceptions... https://bugs.gentoo.org/show_bug.cgi?id=603848
@@ -34,11 +30,11 @@ BDEPEND="
 			>=dev-python/testscenarios-0.4[${PYTHON_USEDEP}]
 			>=dev-python/testtools-2.2.0[${PYTHON_USEDEP}]
 			>=dev-python/virtualenv-20.0.3[${PYTHON_USEDEP}]
-			>=dev-python/stestr-2.1.0[${PYTHON_USEDEP}]
 			dev-vcs/git
 		' 'python*')
 	)"
-PDEPEND=""
+
+distutils_enable_tests unittest
 
 # This normally actually belongs here.
 python_prepare_all() {
@@ -56,16 +52,11 @@ python_prepare_all() {
 }
 
 python_test() {
-	if [[ ${EPYTHON} == pypy3 ]]; then
+	if [[ ${EPYTHON} != python* ]]; then
 		einfo "Testing on ${EPYTHON} is not supported at the moment"
 		return
 	fi
 
 	distutils_install_for_testing
-	local -x PATH=${TEST_DIR}/scripts:${PATH}
-
-	rm -rf .testrepository || die "couldn't remove '.testrepository' under ${EPTYHON}"
-
-	stestr init || die "stestr init failed under ${EPYTHON}"
-	stestr run || die "stestr run failed under ${EPYTHON}"
+	eunittest -b
 }
diff --git a/dev-python/sip/Manifest b/dev-python/sip/Manifest
index 0262879d910d..78a844bd3e93 100644
--- a/dev-python/sip/Manifest
+++ b/dev-python/sip/Manifest
@@ -1,3 +1,3 @@
 DIST sip-4.19.25.tar.gz 1056384 BLAKE2B f92e105e6b30e871aea2883dc9cd459e4032fb139a9eaff153a3412a66b39df4d7ac985711a2693aee83195ff3850ae648bee4102f7fc3cc30d09885799f2b98 SHA512 60fb4133c68869bf0993144978b4847d94a0f9c7b477f64a346ea133cfe35bc11820204ab327dcf9a929b6f65a26d16cc7efbce65e49967c3347b39376e57001
 DIST sip-5.5.0.tar.gz 1108126 BLAKE2B 59f0323b3befd7ebb89461e93e1e7e5707d11b2882bd524a45f3a6ba8d8a3c792aff5580027255812f6a3fa0854febeb418690fa6106efb21aab1610d66ef911 SHA512 0122beab575239cdb3b1430dc53a7f74175e3fbb3e113bcafced122ffbc4bd3d339b64a672ac1319ea14cd540b5877c2bcfeb7f8821fe8a3c8ba3ce9744bf803
-DIST sip-6.1.1.tar.gz 1441692 BLAKE2B 89a350be3e8c87cb76ec4222f0ab753213f324bc4573bee82bc4d014e8984d9d47a6f384793f618d090620a9efa2cfb906070a7d99312a29cac715ec98d97f15 SHA512 94e413c3af4dcac9cbd1eef368f4e88c0b3bfe1ad8b97f4a6ec39af1a448fdf1d79f3c845cf8c9b0ed78b04f2a18d176d750a39d13a47f9122e575d034ed88b4
+DIST sip-6.2.0.dev2106291255.tar.gz 1180173 BLAKE2B e5dc12515a692f5cb0e82828cc8a14879a764056b04e15957c3e4eeca3bcaf21bce95397eacf5480a16f3f9c2037596880efc0e6a84599fe232823438b2bdf02 SHA512 35cfa8a9b641bfe2cb7e2454e514ece0cdddc48b7afaf55e65c34b76eff82a9730d05dc6122e4f08cfc2dfbcbca63e99ea11932f778055f532026b3cb2d92873
diff --git a/dev-python/sip/sip-6.1.1.ebuild b/dev-python/sip/sip-6.2.0_pre2106291255.ebuild
index 2890e70f621a..1ff4a314a900 100644
--- a/dev-python/sip/sip-6.1.1.ebuild
+++ b/dev-python/sip/sip-6.2.0_pre2106291255.ebuild
@@ -1,9 +1,10 @@
 # Copyright 1999-2021 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=7
+EAPI=8
 
 PYTHON_COMPAT=( python3_{6,7,8,9,10} )
+DISTUTILS_USE_SETUPTOOLS=rdepend
 inherit distutils-r1
 
 DESCRIPTION="Python bindings generator for C/C++ libraries"
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 3015147fc2c5..d11cd08ecf6f 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 <kevin.k.sheppard@gmail.com>
+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
index 61e6b2b1c22f..209f46d0f517 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
 }
diff --git a/dev-python/virtualenv/virtualenv-20.4.7.ebuild b/dev-python/virtualenv/virtualenv-20.4.7.ebuild
index b0669ab7590e..d28d1002421f 100644
--- a/dev-python/virtualenv/virtualenv-20.4.7.ebuild
+++ b/dev-python/virtualenv/virtualenv-20.4.7.ebuild
@@ -46,9 +46,11 @@ BDEPEND="
 		' 'python3*')
 	)"
 
-distutils_enable_sphinx docs \
-	dev-python/sphinx_rtd_theme \
-	dev-python/towncrier
+# (unpackaged deps)
+#distutils_enable_sphinx docs \
+#	dev-python/sphinx-argparse \
+#	dev-python/sphinx_rtd_theme \
+#	dev-python/towncrier
 distutils_enable_tests pytest
 
 src_configure() {
diff --git a/dev-python/xarray/files/xarray-0.18.2-backports.patch b/dev-python/xarray/files/xarray-0.18.2-backports.patch
new file mode 100644
index 000000000000..be30702e67f4
--- /dev/null
+++ b/dev-python/xarray/files/xarray-0.18.2-backports.patch
@@ -0,0 +1,116 @@
+From ca72d56c213a1c47e54b12ee559f412e60fbf9b1 Mon Sep 17 00:00:00 2001
+From: Spencer Clark <spencerkclark@gmail.com>
+Date: Sat, 22 May 2021 20:13:19 -0400
+Subject: [PATCH] Make `kind` argument in `CFTimeIndex._maybe_cast_slice_bound`
+ optional (#5359)
+
+* [test-upstream] Make kind argument in CFTimeIndex._maybe_cast_slice_bound optional
+
+* Update doc/whats-new.rst
+
+Co-authored-by: keewis <keewis@users.noreply.github.com>
+
+Co-authored-by: keewis <keewis@users.noreply.github.com>
+---
+ doc/whats-new.rst            | 4 ++++
+ xarray/coding/cftimeindex.py | 9 +++++++--
+ 2 files changed, 11 insertions(+), 2 deletions(-)
+
+diff --git a/xarray/coding/cftimeindex.py b/xarray/coding/cftimeindex.py
+index f0de5565..783fe8d0 100644
+--- a/xarray/coding/cftimeindex.py
++++ b/xarray/coding/cftimeindex.py
+@@ -465,9 +465,14 @@ class CFTimeIndex(pd.Index):
+         else:
+             return pd.Index.get_loc(self, key, method=method, tolerance=tolerance)
+ 
+-    def _maybe_cast_slice_bound(self, label, side, kind):
++    def _maybe_cast_slice_bound(self, label, side, kind=None):
+         """Adapted from
+-        pandas.tseries.index.DatetimeIndex._maybe_cast_slice_bound"""
++        pandas.tseries.index.DatetimeIndex._maybe_cast_slice_bound
++
++        Note that we have never used the kind argument in CFTimeIndex and it is
++        deprecated as of pandas version 1.3.0.  It exists only for compatibility
++        reasons.  We can remove it when our minimum version of pandas is 1.3.0.
++        """
+         if not isinstance(label, str):
+             return label
+ 
+-- 
+2.32.0
+
+From 34dc57717c82a86455a9e5abb0a47df782266c7e Mon Sep 17 00:00:00 2001
+From: Mathias Hauser <mathause@users.noreply.github.com>
+Date: Mon, 7 Jun 2021 23:05:24 +0200
+Subject: [PATCH] fix dask meta and output_dtypes error (#5449)
+
+---
+ xarray/tests/test_computation.py | 5 ++++-
+ 1 file changed, 4 insertions(+), 1 deletion(-)
+
+diff --git a/xarray/tests/test_computation.py b/xarray/tests/test_computation.py
+index b7ae1ca9..09bed724 100644
+--- a/xarray/tests/test_computation.py
++++ b/xarray/tests/test_computation.py
+@@ -1306,7 +1306,10 @@ def test_vectorize_dask_dtype_without_output_dtypes(data_array):
+     assert expected.dtype == actual.dtype
+ 
+ 
+-@pytest.mark.xfail(LooseVersion(dask.__version__) < "2.3", reason="dask GH5274")
++@pytest.mark.skipif(
++    LooseVersion(dask.__version__) > "2021.06",
++    reason="dask/dask#7669: can no longer pass output_dtypes and meta",
++)
+ @requires_dask
+ def test_vectorize_dask_dtype_meta():
+     # meta dtype takes precedence
+-- 
+2.32.0
+
+From 5a14d7d398be7e0efc6d5c8920dc8886212c3b2a Mon Sep 17 00:00:00 2001
+From: Spencer Clark <spencerkclark@gmail.com>
+Date: Sat, 12 Jun 2021 08:58:42 -0400
+Subject: [PATCH] Explicitly state datetime units in array constructors in
+ `test_datetime_mean` (#5463)
+
+---
+ xarray/tests/test_duck_array_ops.py | 10 ++++------
+ 1 file changed, 4 insertions(+), 6 deletions(-)
+
+diff --git a/xarray/tests/test_duck_array_ops.py b/xarray/tests/test_duck_array_ops.py
+index 0eb00725..6d49e209 100644
+--- a/xarray/tests/test_duck_array_ops.py
++++ b/xarray/tests/test_duck_array_ops.py
+@@ -285,15 +285,15 @@ def assert_dask_array(da, dask):
+ def test_datetime_mean(dask):
+     # Note: only testing numpy, as dask is broken upstream
+     da = DataArray(
+-        np.array(["2010-01-01", "NaT", "2010-01-03", "NaT", "NaT"], dtype="M8"),
++        np.array(["2010-01-01", "NaT", "2010-01-03", "NaT", "NaT"], dtype="M8[ns]"),
+         dims=["time"],
+     )
+     if dask:
+         # Trigger use case where a chunk is full of NaT
+         da = da.chunk({"time": 3})
+ 
+-    expect = DataArray(np.array("2010-01-02", dtype="M8"))
+-    expect_nat = DataArray(np.array("NaT", dtype="M8"))
++    expect = DataArray(np.array("2010-01-02", dtype="M8[ns]"))
++    expect_nat = DataArray(np.array("NaT", dtype="M8[ns]"))
+ 
+     actual = da.mean()
+     if dask:
+@@ -889,8 +889,6 @@ def test_push_dask():
+     # some chunks of size-1 with NaN
+     with raise_if_dask_computes():
+         actual = push(
+-            dask.array.from_array(array, chunks=(1, 2, 3, 2, 2, 1, 1)),
+-            axis=0,
+-            n=None,
++            dask.array.from_array(array, chunks=(1, 2, 3, 2, 2, 1, 1)), axis=0, n=None
+         )
+     np.testing.assert_equal(actual, expected)
+-- 
+2.32.0
+
diff --git a/dev-python/xarray/xarray-0.18.2.ebuild b/dev-python/xarray/xarray-0.18.2-r1.ebuild
index 184406e7ca1d..24ad471bc9b2 100644
--- a/dev-python/xarray/xarray-0.18.2.ebuild
+++ b/dev-python/xarray/xarray-0.18.2-r1.ebuild
@@ -32,6 +32,10 @@ BDEPEND="
 
 distutils_enable_tests pytest
 
+PATCHES=(
+	"${FILESDIR}"/${P}-backports.patch
+)
+
 python_test() {
 	local deselect=(
 		# warning-targeted tests are fragile and not important to end users