gentoo-related/TheChymera-overlay
gentoo-related/TheChymera-overlay
1
0
Fork 0
mirror of synced 2024-12-22 21:00:20 +01:00
Code Releases Activity

dev-vcs/dandi-cli: moved to Gentoo Science

Browse Source 
https://gitweb.gentoo.org/proj/sci.git/commit/?id=faa81d913f61a8aa019bb8eaba9c40838251e1a5
This commit is contained in:
Horea Christian 2022-04-06 03:25:43 -04:00
parent 9ba33a754e
commit f67706a1cf
10 changed files with 0 additions and 443 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

4
dev-vcs/dandi-cli/Manifest
View File

@ -1,4 +0,0 @@
DIST dandi-cli-0.34.1.tar.gz 179765 SHA256 7b8ef65b49c6adb42c927018214f11a9c549ba6297373c929b551e1443ca95c0 SHA512 c6e42052a3bbce374589eea43f3cef9525f2d95b555731dc2899f432567c92ab6425a59b131f22f547b9e74a6225462e2dc50a7c3f1b707e17fb49e75d2e0d55 WHIRLPOOL 89b9aa5b6682d4ba2c0b035ea90ad5b77fc025cb7cfd474dc8d41297e3efc567c1ded27751912c0b588f87927a117984889907c60b49dda80eb26bac8be1c93b
DIST dandi-cli-0.35.0.tar.gz 180324 SHA256 c05706225096cc2357552c822d6c8da985b553d2b0406415cc0037acac50222f SHA512 07689e678d064501ec6879eeb40389c87491cbde4321b382c5c1041b9a8228845086978629327a9b271b5ac62f4c66e4d3c32c1edffead93ec66ce4d03b96d9a WHIRLPOOL bd970e1983a49a7af547431fb2717cf706884fcc232698b548d687d4971699da49bff818a64081f8d83628f165996fa40182331f740933e87d69cffcd4d85d06
DIST dandi-cli-0.37.0.tar.gz 212121 SHA256 4bf40a179d68ae4f0b28a5b62db6da8d14e17e9cb3b747162379cceab8055448 SHA512 fe96b760bb8526cf2670be4523121b389ede82699a8b13a9b46e4511012ab15390d9aec35b5403fa4d52dd79738a37980bcc83755df738b4039ae56eb6ca0f14 WHIRLPOOL 62a0fdc4f527bc246dd0452fd481e19bd07b146b9e118b8caa71227be78f5573649b0f55912cf54fe9606dc0de579692f94cc5a92f5c9a59a9d6c091bc3c068f
DIST dandi-cli-0.38.0.tar.gz 322974 SHA256 654f9da46f9f81d8a023c62ecf4aa7cc42c20e677fc2073341df4b1a044523fc SHA512 a77d834dadbd532ce016425fe25324582a5d2c442b52087d5751770d99c84fa9532a08525ee75f40d45ccb5c50ed11b9fbe0c29a24c7d1b24c253d218538e054 WHIRLPOOL 00c3dbbc2673a6591e0b0c79339bb1320cf1471f2b667ee106590581d39b714ecd7ea94f148bb17a4e13a7f22204dba3ccd611b84002db09060b65a82d6fca5f

81
dev-vcs/dandi-cli/dandi-cli-0.34.1.ebuild
View File

@ -1,81 +0,0 @@
# Copyright 1999-2022 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=8
DISTUTILS_USE_PEP517=setuptools
PYTHON_COMPAT=( python3_{8..10} )
inherit distutils-r1
DESCRIPTION="DANDI command line client to facilitate common operations"
HOMEPAGE="https://github.com/dandi/dandi-cli"
SRC_URI="https://github.com/dandi/dandi-cli/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz"
LICENSE="Apache-2.0"
SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE="test etelemetry"
RDEPEND="
dev-python/appdirs[${PYTHON_USEDEP}]
dev-python/click[${PYTHON_USEDEP}]
dev-python/click-didyoumean[${PYTHON_USEDEP}]
=dev-python/dandischema-0.5*[${PYTHON_USEDEP}]
dev-python/fasteners[${PYTHON_USEDEP}]
dev-python/fscacher[${PYTHON_USEDEP}]
dev-python/humanize[${PYTHON_USEDEP}]
dev-python/joblib[${PYTHON_USEDEP}]
dev-python/keyring[${PYTHON_USEDEP}]
dev-python/keyrings_alt[${PYTHON_USEDEP}]
dev-python/packaging[${PYTHON_USEDEP}]
dev-python/pycryptodome[${PYTHON_USEDEP}]
dev-python/pydantic[${PYTHON_USEDEP}]
dev-python/pynwb[${PYTHON_USEDEP}]
dev-python/pyout[${PYTHON_USEDEP}]
dev-python/python-dateutil[${PYTHON_USEDEP}]
dev-python/requests[${PYTHON_USEDEP}]
dev-python/ruamel-yaml[${PYTHON_USEDEP}]
dev-python/semantic_version[${PYTHON_USEDEP}]
dev-python/tenacity[${PYTHON_USEDEP}]
dev-python/tqdm[${PYTHON_USEDEP}]
dev-python/wheel[${PYTHON_USEDEP}]
"
DEPEND="
dev-python/setuptools[${PYTHON_USEDEP}]
test? (
dev-python/anys[${PYTHON_USEDEP}]
dev-python/responses[${PYTHON_USEDEP}]
dev-python/pyfakefs[${PYTHON_USEDEP}]
dev-python/pytest-mock[${PYTHON_USEDEP}]
)
"
EPYTEST_DESELECT=(
"dandi/tests/test_utils.py::test_get_instance_dandi_with_api"
"dandi/tests/test_utils.py::test_get_instance_url"
"dandi/tests/test_utils.py::test_get_instance_cli_version_too_old"
"dandi/tests/test_utils.py::test_get_instance_bad_cli_version"
)
distutils_enable_tests pytest
PATCHES=(
"${FILESDIR}/${P}-pip-versioncheck.patch"
)
src_prepare() {
if use etelemetry; then
default
else
eapply "${FILESDIR}/${PN}-0.28.0-no-etelemetry.patch"
default
sed -i "/etelemetry/d" setup.cfg
fi
}
python_test() {
export DANDI_TESTS_NONETWORK=1
epytest
}

83
dev-vcs/dandi-cli/dandi-cli-0.35.0.ebuild
View File

@ -1,83 +0,0 @@
# Copyright 1999-2022 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=8
DISTUTILS_USE_PEP517=setuptools
PYTHON_COMPAT=( python3_{8..10} )
inherit distutils-r1
DESCRIPTION="DANDI command line client to facilitate common operations"
HOMEPAGE="https://github.com/dandi/dandi-cli"
SRC_URI="https://github.com/dandi/dandi-cli/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz"
LICENSE="Apache-2.0"
SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE="test etelemetry"
RDEPEND="
dev-python/appdirs[${PYTHON_USEDEP}]
dev-python/click[${PYTHON_USEDEP}]
dev-python/click-didyoumean[${PYTHON_USEDEP}]
=dev-python/dandischema-0.5*[${PYTHON_USEDEP}]
dev-python/fasteners[${PYTHON_USEDEP}]
dev-python/fscacher[${PYTHON_USEDEP}]
dev-python/humanize[${PYTHON_USEDEP}]
dev-python/joblib[${PYTHON_USEDEP}]
dev-python/keyring[${PYTHON_USEDEP}]
dev-python/keyrings_alt[${PYTHON_USEDEP}]
dev-python/packaging[${PYTHON_USEDEP}]
dev-python/pycryptodome[${PYTHON_USEDEP}]
dev-python/pydantic[${PYTHON_USEDEP}]
dev-python/pynwb[${PYTHON_USEDEP}]
dev-python/pyout[${PYTHON_USEDEP}]
dev-python/python-dateutil[${PYTHON_USEDEP}]
dev-python/requests[${PYTHON_USEDEP}]
dev-python/ruamel-yaml[${PYTHON_USEDEP}]
dev-python/semantic_version[${PYTHON_USEDEP}]
dev-python/tenacity[${PYTHON_USEDEP}]
dev-python/tqdm[${PYTHON_USEDEP}]
dev-python/wheel[${PYTHON_USEDEP}]
"
DEPEND="
test? (
dev-python/anys[${PYTHON_USEDEP}]
dev-python/responses[${PYTHON_USEDEP}]
dev-python/pyfakefs[${PYTHON_USEDEP}]
dev-python/pytest-mock[${PYTHON_USEDEP}]
)
"
# Some tests require deep copy with git history
# https://github.com/dandi/dandi-cli/issues/878#issuecomment-1021720299
EPYTEST_DESELECT=(
"dandi/tests/test_utils.py::test_get_instance_dandi_with_api"
"dandi/tests/test_utils.py::test_get_instance_url"
"dandi/tests/test_utils.py::test_get_instance_cli_version_too_old"
"dandi/tests/test_utils.py::test_get_instance_bad_cli_version"
)
distutils_enable_tests pytest
PATCHES=(
"${FILESDIR}/${PN}-0.34.1-pip-versioncheck.patch"
"${FILESDIR}/${PN}-0.35.0-test_nonetwork.patch"
)
src_prepare() {
if use etelemetry; then
default
else
eapply "${FILESDIR}/${PN}-0.28.0-no-etelemetry.patch"
default
sed -i "/etelemetry/d" setup.cfg
fi
}
python_test() {
export DANDI_TESTS_NONETWORK=1
epytest
}

86
dev-vcs/dandi-cli/dandi-cli-0.37.0.ebuild
View File

@ -1,86 +0,0 @@
# Copyright 1999-2022 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=8
DISTUTILS_USE_PEP517=setuptools
PYTHON_COMPAT=( python3_{8..10} )
inherit distutils-r1
DESCRIPTION="DANDI command line client to facilitate common operations"
HOMEPAGE="https://github.com/dandi/dandi-cli"
SRC_URI="https://github.com/dandi/dandi-cli/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz"
LICENSE="Apache-2.0"
SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE="test etelemetry"
RDEPEND="
dev-python/appdirs[${PYTHON_USEDEP}]
dev-python/click[${PYTHON_USEDEP}]
dev-python/click-didyoumean[${PYTHON_USEDEP}]
~dev-python/dandischema-0.6.0[${PYTHON_USEDEP}]
dev-python/fasteners[${PYTHON_USEDEP}]
dev-python/fscacher[${PYTHON_USEDEP}]
dev-python/humanize[${PYTHON_USEDEP}]
dev-python/interleave[${PYTHON_USEDEP}]
dev-python/joblib[${PYTHON_USEDEP}]
dev-python/keyring[${PYTHON_USEDEP}]
dev-python/keyrings_alt[${PYTHON_USEDEP}]
dev-python/packaging[${PYTHON_USEDEP}]
dev-python/pycryptodome[${PYTHON_USEDEP}]
>=dev-python/pydantic-1.9.0[${PYTHON_USEDEP}]
dev-python/pynwb[${PYTHON_USEDEP}]
dev-python/pyout[${PYTHON_USEDEP}]
dev-python/python-dateutil[${PYTHON_USEDEP}]
dev-python/requests[${PYTHON_USEDEP}]
dev-python/ruamel-yaml[${PYTHON_USEDEP}]
dev-python/semantic_version[${PYTHON_USEDEP}]
dev-python/tenacity[${PYTHON_USEDEP}]
dev-python/wheel[${PYTHON_USEDEP}]
dev-python/zarr[${PYTHON_USEDEP}]
"
DEPEND="
test? (
dev-python/anys[${PYTHON_USEDEP}]
dev-python/responses[${PYTHON_USEDEP}]
dev-python/pyfakefs[${PYTHON_USEDEP}]
dev-python/pytest-mock[${PYTHON_USEDEP}]
media-libs/opencv[ffmpeg,${PYTHON_USEDEP}]
)
"
# Upstream might be amenable to dropping opencv:
# https://github.com/dandi/dandi-cli/issues/944
# Some tests require deep copy with git history
# https://github.com/dandi/dandi-cli/issues/878#issuecomment-1021720299
EPYTEST_DESELECT=(
"dandi/tests/test_utils.py::test_get_instance_dandi_with_api"
"dandi/tests/test_utils.py::test_get_instance_url"
"dandi/tests/test_utils.py::test_get_instance_cli_version_too_old"
"dandi/tests/test_utils.py::test_get_instance_bad_cli_version"
)
distutils_enable_tests pytest
PATCHES=(
"${FILESDIR}/${PN}-0.37.0-pip-versioncheck.patch"
)
src_prepare() {
if use etelemetry; then
default
else
eapply "${FILESDIR}/${PN}-0.28.0-no-etelemetry.patch"
default
sed -i "/etelemetry/d" setup.cfg
fi
}
python_test() {
export DANDI_TESTS_NONETWORK=1
epytest
}

86
dev-vcs/dandi-cli/dandi-cli-0.38.0.ebuild
View File

@ -1,86 +0,0 @@
# Copyright 1999-2022 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=8
DISTUTILS_USE_PEP517=setuptools
PYTHON_COMPAT=( python3_{8..10} )
inherit distutils-r1
DESCRIPTION="DANDI command line client to facilitate common operations"
HOMEPAGE="https://github.com/dandi/dandi-cli"
SRC_URI="https://github.com/dandi/dandi-cli/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz"
LICENSE="Apache-2.0"
SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE="test etelemetry"
RDEPEND="
dev-python/appdirs[${PYTHON_USEDEP}]
dev-python/click[${PYTHON_USEDEP}]
dev-python/click-didyoumean[${PYTHON_USEDEP}]
~dev-python/dandischema-0.6.0[${PYTHON_USEDEP}]
dev-python/fasteners[${PYTHON_USEDEP}]
dev-python/fscacher[${PYTHON_USEDEP}]
dev-python/humanize[${PYTHON_USEDEP}]
dev-python/interleave[${PYTHON_USEDEP}]
dev-python/joblib[${PYTHON_USEDEP}]
dev-python/keyring[${PYTHON_USEDEP}]
dev-python/keyrings_alt[${PYTHON_USEDEP}]
dev-python/packaging[${PYTHON_USEDEP}]
dev-python/pycryptodome[${PYTHON_USEDEP}]
>=dev-python/pydantic-1.9.0[${PYTHON_USEDEP}]
dev-python/pynwb[${PYTHON_USEDEP}]
dev-python/pyout[${PYTHON_USEDEP}]
dev-python/python-dateutil[${PYTHON_USEDEP}]
dev-python/requests[${PYTHON_USEDEP}]
dev-python/ruamel-yaml[${PYTHON_USEDEP}]
dev-python/semantic_version[${PYTHON_USEDEP}]
dev-python/tenacity[${PYTHON_USEDEP}]
dev-python/wheel[${PYTHON_USEDEP}]
dev-python/zarr[${PYTHON_USEDEP}]
"
DEPEND="
test? (
dev-python/anys[${PYTHON_USEDEP}]
dev-python/responses[${PYTHON_USEDEP}]
dev-python/pyfakefs[${PYTHON_USEDEP}]
dev-python/pytest-mock[${PYTHON_USEDEP}]
media-libs/opencv[ffmpeg,${PYTHON_USEDEP}]
)
"
# Upstream might be amenable to dropping opencv:
# https://github.com/dandi/dandi-cli/issues/944
# Some tests require deep copy with git history
# https://github.com/dandi/dandi-cli/issues/878#issuecomment-1021720299
EPYTEST_DESELECT=(
"dandi/tests/test_utils.py::test_get_instance_dandi_with_api"
"dandi/tests/test_utils.py::test_get_instance_url"
"dandi/tests/test_utils.py::test_get_instance_cli_version_too_old"
"dandi/tests/test_utils.py::test_get_instance_bad_cli_version"
)
distutils_enable_tests pytest
PATCHES=(
"${FILESDIR}/${PN}-0.37.0-pip-versioncheck.patch"
)
src_prepare() {
if use etelemetry; then
default
else
eapply "${FILESDIR}/${PN}-0.28.0-no-etelemetry.patch"
default
sed -i "/etelemetry/d" setup.cfg
fi
}
python_test() {
export DANDI_TESTS_NONETWORK=1
epytest
}

30
dev-vcs/dandi-cli/files/dandi-cli-0.28.0-no-etelemetry.patch
View File

@ -1,30 +0,0 @@
--- a/dandi/utils.py 2021-09-21 11:51:39.799524534 -0400
+++ b/dandi/utils.py 2021-10-06 04:58:00.506440719 -0400
@@ -734,27 +734,4 @@
def check_dandi_version():
if os.environ.get("DANDI_NO_ET"):
return
- try:
- import etelemetry
-
- try:
- etelemetry.check_available_version(
- "dandi/dandi-cli", __version__, lgr=lgr, raise_exception=True
- )
- except etelemetry.client.BadVersionError:
- # note: SystemExit is based of BaseException, so is not Exception
- raise SystemExit(
- "DANDI CLI has detected that you are using a version that is known to "
- "contain bugs, is incompatible with our current data archive, or has "
- "other significant performance limitations. "
- "To continue using DANDI CLI, please upgrade your dandi client to a newer "
- "version (e.g., using pip install --upgrade dandi if you installed using pip). "
- "If you have any issues, please contact the DANDI "
- "helpdesk at https://github.com/dandi/helpdesk/issues/new/choose ."
- )
- except Exception as exc:
- lgr.warning(
- "Failed to check for a more recent version available with etelemetry: %s",
- exc,
- )
os.environ["DANDI_NO_ET"] = "1"

13
dev-vcs/dandi-cli/files/dandi-cli-0.34.1-pip-versioncheck.patch
View File

@ -1,13 +0,0 @@
--- a/setup.cfg 2021-10-06 11:44:40.549337707 -0400
+++ b/dsetup.cfg 2021-10-06 11:45:10.236935245 -0400
@@ -30,8 +30,8 @@
appdirs
click
click-didyoumean
- dandischema ~= 0.5.1
- etelemetry >= 0.2.2
+ dandischema
+ etelemetry
fasteners
fscacher
# Specifying != might be what causes pip 19.3.1 first to install hdmf 1.5.1

21
dev-vcs/dandi-cli/files/dandi-cli-0.35.0-test_nonetwork.patch
View File

@ -1,21 +0,0 @@
From e5a6dd4bdc4db828ea1de2a48e96cbdb80465e86 Mon Sep 17 00:00:00 2001
From: "John T. Wodder II" <git@varonathe.org>
Date: Tue, 25 Jan 2022 18:53:53 -0500
Subject: [PATCH] Mark a test with missing `skipif_no_network` marker
---
dandi/tests/test_metadata.py | 1 +
1 file changed, 1 insertion(+)
diff --git a/dandi/tests/test_metadata.py b/dandi/tests/test_metadata.py
index 5896e6ef..a0a6bce1 100644
--- a/dandi/tests/test_metadata.py
+++ b/dandi/tests/test_metadata.py
@@ -351,6 +351,7 @@ def test_parseobourl(url, value):
assert parse_purlobourl(url) == value
+@mark.skipif_no_network
def test_species():
m = {"species": "http://purl.obolibrary.org/obo/NCBITaxon_28584"}
assert extract_species(m).json_dict() == {

13
dev-vcs/dandi-cli/files/dandi-cli-0.37.0-pip-versioncheck.patch
View File

@ -1,13 +0,0 @@
--- a/setup.cfg 2021-10-06 11:44:40.549337707 -0400
+++ b/dsetup.cfg 2021-10-06 11:45:10.236935245 -0400
@@ -30,8 +30,8 @@
appdirs
click
click-didyoumean
- dandischema ~= 0.6.0
- etelemetry >= 0.2.2
+ dandischema
+ etelemetry
fasteners
fscacher
# Specifying != might be what causes pip 19.3.1 first to install hdmf 1.5.1

26
dev-vcs/dandi-cli/metadata.xml
View File

@ -1,26 +0,0 @@
<?xml version='1.0' encoding='UTF-8'?>
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
<pkgmetadata>
<maintainer type="person">
<email>gentoo@chymera.eu</email>
<name>Horea Christian</name>
</maintainer>
<maintainer type="project">
<email>sci@gentoo.org</email>
<name>Gentoo Science Project</name>
</maintainer>
<longdescription lang="en">
This package provides a dandi command line utility with a basic interface
which should assist you in preparing and uploading your data to and/or
obtaining data from the http://dandiarchive.org . Each of the commands
has a set of options to alter their behavior. Please run
`dandi COMMAND --help` to get more information
</longdescription>
<use>
<flag name="etelemetry">version checking to respect server schema version</flag>
</use>
<upstream>
<remote-id type="github">dandi/dandi-cli</remote-id>
<remote-id type="pypi">dandi</remote-id>
</upstream>
</pkgmetadata>