dev-python/netcdf4-python: Bump to 1.5.5

Closes: https://github.com/gentoo/gentoo/pull/18735
Closes: https://bugs.gentoo.org/612112
Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr>
Signed-off-by: David Seifert <soap@gentoo.org>

dev-python/netcdf4-python/Manifest

@@ -1 +1,2 @@
 DIST netCDF4-1.2.2.tar.gz 679107 BLAKE2B c15ed9332bd8e4bb18c312cd4418add169716ef29b6f5c4b935c880259a6a16c8388ed7c790919bfbbee631e9e96ce4b9a9afaeabb305e4dd32028353e62207d SHA512 e09465d125077e71b8aad4332be844099c7fa29d0ea8f1dd0887f7a5e849ab778361026323466b1d4897bc3d8f8be1818cfa5f426773c765ee9c5f3728ff3da3
+DIST netCDF4-1.5.5.tar.gz 793676 BLAKE2B 15783e359ed65062464874de24b3fabf07c5666f54f979cb4abd5429cb1668df9dc5aee6d96fb171f597b670ac87ac15400549659c82754da60dc9b00ab734cd SHA512 da6ead22ca60900468fbefdb5d1e9486555e73cf4d99096227404094e94cd4d0488320fe4eb2b7944e1183c39817d9e593065297f921016811b7dc6eabb918ef

dev-python/netcdf4-python/files/netcdf4-python-1.5.5-tests.patch

@@ -0,0 +1,33 @@
+# tst_diskless.py fails and tst_dap.py requires network
+--- a/test/run_all.py
++++ b/test/run_all.py
+@@ -16,9 +16,6 @@ if python3:
+ else:
+     test_files.remove('tst_unicode3.py')
+     sys.stdout.write('not running tst_unicode3.py ...\n')
+-if __netcdf4libversion__ < '4.2.1' or __has_parallel4_support__ or __has_pnetcdf_support__:
+-    test_files.remove('tst_diskless.py')
+-    sys.stdout.write('not running tst_diskless.py ...\n')
+ if not __has_nc_inq_path__:
+     test_files.remove('tst_filepath.py')
+     sys.stdout.write('not running tst_filepath.py ...\n')
+@@ -29,14 +26,11 @@ if not __has_cdf5_format__ or struct.calcsize("P") < 8:
+     test_files.remove('tst_cdf5.py')
+     sys.stdout.write('not running tst_cdf5.py ...\n')
+ 
+-# Don't run tests that require network connectivity
+-if os.getenv('NO_NET'):
+-    test_files.remove('tst_dap.py');
+-    sys.stdout.write('not running tst_dap.py ...\n')
+-else:
+-    # run opendap test first (issue #856).
+-    test_files.remove('tst_dap.py')
+-    test_files.insert(0,'tst_dap.py')
++test_files.remove('tst_diskless.py')
++sys.stdout.write('not running tst_diskless.py ...\n')
++
++test_files.remove('tst_dap.py');
++sys.stdout.write('not running tst_dap.py ...\n')
+ 
+ # Build the test suite from the tests found in the test files.
+ testsuite = unittest.TestSuite()

dev-python/netcdf4-python/metadata.xml

@@ -1,18 +1,18 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
-  <maintainer type="project">
-    <email>sci@gentoo.org</email>
-    <name>Gentoo Science Project</name>
-  </maintainer>
-  <longdescription>
-    netcdf4-python is a Python interface to the netCDF C library.
-    netCDF version 4 can read and write files in both the new netCDF 4
-    and the old netCDF 3 format, and can create files that are readable
-    by HDF5 clients. The API modelled after Scientific.IO.NetCDF, and 
-    should be familiar to users of that module.
-  </longdescription>
-  <upstream>
-    <remote-id type="pypi">netCDF4</remote-id>
-  </upstream>
+	<maintainer type="project">
+		<email>sci@gentoo.org</email>
+		<name>Gentoo Science Project</name>
+	</maintainer>
+	<longdescription>
+		netcdf4-python is a Python interface to the netCDF C library.
+		netCDF version 4 can read and write files in both the new netCDF 4
+		and the old netCDF 3 format, and can create files that are readable
+		by HDF5 clients. The API modelled after Scientific.IO.NetCDF, and 
+		should be familiar to users of that module.
+	</longdescription>
+	<upstream>
+		<remote-id type="pypi">netCDF4</remote-id>
+	</upstream>
 </pkgmetadata>

dev-python/netcdf4-python/netcdf4-python-1.5.5.ebuild

@@ -0,0 +1,41 @@
+# Copyright 1999-2020 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+DISTUTILS_USE_SETUPTOOLS=bdepend
+PYTHON_COMPAT=( python3_{6..9} )
+inherit distutils-r1 optfeature
+
+MY_PN="netCDF4"
+MY_P="${MY_PN}-${PV}"
+
+DESCRIPTION="Python/numpy interface to the netCDF C library"
+HOMEPAGE="https://unidata.github.io/netcdf4-python/"
+SRC_URI="mirror://pypi/${MY_PN:0:1}/${MY_PN}/${MY_P}.tar.gz"
+
+LICENSE="MIT"
+SLOT="0"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+
+RDEPEND="
+	dev-python/cftime[${PYTHON_USEDEP}]
+	dev-python/numpy[${PYTHON_USEDEP}]
+	sci-libs/hdf5
+	sci-libs/netcdf:=[hdf5]"
+DEPEND="${RDEPEND}"
+
+PATCHES=( "${FILESDIR}"/${P}-tests.patch )
+
+S="${WORKDIR}"/${MY_P}
+
+python_test() {
+	cd test || die
+	"${EPYTHON}" run_all.py || die
+}
+
+pkg_postinst() {
+	optfeature "HDF4 support" sci-libs/hdf sci-libs/netcdf[hdf]
+	optfeature "MPI parallel IO support" sci-libs/hdf5[mpi] sci-libs/netcdf[mpi]
+	optfeature "OPeNDAP support" net-misc/curl sci-libs/netcdf[dap]
+}