[gentoo-commits] proj/sci:master commit in: sci-biology/pyfaidx/

[gentoo-commits] proj/sci:master commit in: sci-biology/pyfaidx/

[Justin Lecher]

commit:     31adb1fc1c4e09d54aafbe836ef356112c17c16c
Author:     layman <layman <AT> localhost>
AuthorDate: Sun Apr 12 16:02:14 2015 +0000
Commit:     Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sun Apr 12 16:02:14 2015 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=31adb1fc

sci-biology/pyfaidx: add pyfaidx

Package-Manager: portage-2.2.14-prefix

 sci-biology/pyfaidx/ChangeLog            |  9 +++++++++
 sci-biology/pyfaidx/metadata.xml         |  9 +++++++++
 sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild | 17 +++++++++++++++++
 3 files changed, 35 insertions(+)

diff --git a/sci-biology/pyfaidx/ChangeLog b/sci-biology/pyfaidx/ChangeLog
new file mode 100644
index 0000000..7a0357f
--- /dev/null
+++ b/sci-biology/pyfaidx/ChangeLog
@@ -0,0 +1,9 @@
+# ChangeLog for sci-biology/pyfaidx
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*pyfaidx-0.3.8 (12 Apr 2015)
+
+  12 Apr 2015; Michael Schubert <mschu.dev@gmail.com> +metadata.xml,
+  +pyfaidx-0.3.8.ebuild:
+  sci-biology/pyfaidx: add pyfaidx

diff --git a/sci-biology/pyfaidx/metadata.xml b/sci-biology/pyfaidx/metadata.xml
new file mode 100644
index 0000000..b7551a6
--- /dev/null
+++ b/sci-biology/pyfaidx/metadata.xml
@@ -0,0 +1,9 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+  <herd>sci-biology</herd>
+  <maintainer>
+    <email>mschu.dev@gmail.com</email>
+    <name>Michael Schubert</name>
+  </maintainer>
+</pkgmetadata>

diff --git a/sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild b/sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild
new file mode 100644
index 0000000..a4fc8b2
--- /dev/null
+++ b/sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild
@@ -0,0 +1,17 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit distutils-r1
+
+DESCRIPTION="Efficient pythonic random access to fasta subsequences"
+HOMEPAGE="https://pypi.python.org/pypi/pyfaidx"
+SRC_URI="mirror://pypi/p/pyfaidx/pyfaidx-${PV}.tar.gz"
+
+LICENSE="MIT"
+SLOT="0"
+IUSE=""

[gentoo-commits] proj/sci:master commit in: sci-biology/pyfaidx/

[Justin Lecher]

commit:     11c9e067dd0b3bbdc7196a02d0fe6b949c799e25
Author:     Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Mon Apr 13 06:15:10 2015 +0000
Commit:     Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Mon Apr 13 06:15:10 2015 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=11c9e067

sci-biology/pyfaidx: Streamline ebuild

Package-Manager: portage-2.2.18

 sci-biology/pyfaidx/ChangeLog            | 3 +++
 sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild | 3 ++-
 2 files changed, 5 insertions(+), 1 deletion(-)

diff --git a/sci-biology/pyfaidx/ChangeLog b/sci-biology/pyfaidx/ChangeLog
index 7a0357f..98ad3f4 100644
--- a/sci-biology/pyfaidx/ChangeLog
+++ b/sci-biology/pyfaidx/ChangeLog
@@ -2,6 +2,9 @@
 # Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
 # $Header: $
 
+  13 Apr 2015; Justin Lecher <jlec@gentoo.org> pyfaidx-0.3.8.ebuild:
+  sci-biology/pyfaidx: Streamline ebuild
+
 *pyfaidx-0.3.8 (12 Apr 2015)
 
   12 Apr 2015; Michael Schubert <mschu.dev@gmail.com> +metadata.xml,

diff --git a/sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild b/sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild
index a4fc8b2..5a1e846 100644
--- a/sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild
+++ b/sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild
@@ -10,8 +10,9 @@ inherit distutils-r1
 
 DESCRIPTION="Efficient pythonic random access to fasta subsequences"
 HOMEPAGE="https://pypi.python.org/pypi/pyfaidx"
-SRC_URI="mirror://pypi/p/pyfaidx/pyfaidx-${PV}.tar.gz"
+SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz"
 
 LICENSE="MIT"
 SLOT="0"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
 IUSE=""

[gentoo-commits] proj/sci:master commit in: sci-biology/pyfaidx/

[Martin Mokrejs]

commit:     1e79f54b2107139fd7f33989e9e5b7cb9f857862
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sat Feb 18 15:56:01 2017 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sat Feb 18 15:56:01 2017 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=1e79f54b

sci-biology/pyfaidx: version bump

Package-Manager: Portage-2.3.3, Repoman-2.3.1

 sci-biology/pyfaidx/{pyfaidx-0.3.8.ebuild => pyfaidx-0.4.8.1.ebuild} | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild b/sci-biology/pyfaidx/pyfaidx-0.4.8.1.ebuild
similarity index 90%
rename from sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild
rename to sci-biology/pyfaidx/pyfaidx-0.4.8.1.ebuild
index 90518452d..4fe385c98 100644
--- a/sci-biology/pyfaidx/pyfaidx-0.3.8.ebuild
+++ b/sci-biology/pyfaidx/pyfaidx-0.4.8.1.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2015 Gentoo Foundation
+# Copyright 1999-2017 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
 # $Id$
 

[gentoo-commits] proj/sci:master commit in: sci-biology/pyfaidx/

[Horea Christian]

commit:     9866b0e789c6a7d9df37152fb0a028bc0b00b575
Author:     Horea Christian <chr <AT> chymera <DOT> eu>
AuthorDate: Sun Sep 27 05:33:09 2020 +0000
Commit:     Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Sun Sep 27 05:33:09 2020 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=9866b0e7

sci-biology/pyfaidx: version bump 0.5.9.1

Package-Manager: Portage-3.0.8, Repoman-3.0.1
Signed-off-by: Horea Christian <chr <AT> chymera.eu>

 .../{pyfaidx-0.4.8.1.ebuild => pyfaidx-0.5.9.1.ebuild}       | 12 ++++++++----
 1 file changed, 8 insertions(+), 4 deletions(-)

diff --git a/sci-biology/pyfaidx/pyfaidx-0.4.8.1.ebuild b/sci-biology/pyfaidx/pyfaidx-0.5.9.1.ebuild
similarity index 55%
rename from sci-biology/pyfaidx/pyfaidx-0.4.8.1.ebuild
rename to sci-biology/pyfaidx/pyfaidx-0.5.9.1.ebuild
index abea85b56..5c3bdaf6f 100644
--- a/sci-biology/pyfaidx/pyfaidx-0.4.8.1.ebuild
+++ b/sci-biology/pyfaidx/pyfaidx-0.5.9.1.ebuild
@@ -1,17 +1,21 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2020 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=5
+EAPI=7
 
-PYTHON_COMPAT=( python2_7 )
+PYTHON_COMPAT=( python3_{6..9} )
 
 inherit distutils-r1
 
 DESCRIPTION="Efficient pythonic random access to fasta subsequences"
 HOMEPAGE="https://pypi.python.org/pypi/pyfaidx"
-SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz"
+SRC_URI="https://github.com/mdshw5/pyfaidx/archive/v${PV}.tar.gz -> ${P}.tar.gz"
 
 LICENSE="MIT"
 SLOT="0"
 KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
 IUSE=""
+
+REPEND="dev-python/six[${PYTHON_USEDEP}]"
+
+distutils_enable_tests nose

[gentoo-commits] proj/sci:master commit in: sci-biology/pyfaidx/

[Aisha Tammy]

commit:     e21b85a7db80813d98ab91c393f9387ed4480731
Author:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Thu Dec 31 10:33:47 2020 +0000
Commit:     Aisha Tammy <gentoo <AT> aisha <DOT> cc>
CommitDate: Thu Dec 31 12:04:10 2020 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=e21b85a7

sci-biology/pyfaidx: version bump, bump py_targets

Package-Manager: Portage-3.0.12, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>
Signed-off-by: Aisha Tammy <gentoo <AT> aisha.cc>

 .../pyfaidx/{pyfaidx-0.5.9.1.ebuild => pyfaidx-0.5.9.2.ebuild}     | 7 ++++---
 1 file changed, 4 insertions(+), 3 deletions(-)

diff --git a/sci-biology/pyfaidx/pyfaidx-0.5.9.1.ebuild b/sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild
similarity index 69%
rename from sci-biology/pyfaidx/pyfaidx-0.5.9.1.ebuild
rename to sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild
index 5c3bdaf6f..be1990514 100644
--- a/sci-biology/pyfaidx/pyfaidx-0.5.9.1.ebuild
+++ b/sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild
@@ -3,17 +3,18 @@
 
 EAPI=7
 
-PYTHON_COMPAT=( python3_{6..9} )
+PYTHON_COMPAT=( python3_{7..9} )
+DISTUTILS_USE_SETUPTOOLS=rdepend
 
 inherit distutils-r1
 
 DESCRIPTION="Efficient pythonic random access to fasta subsequences"
-HOMEPAGE="https://pypi.python.org/pypi/pyfaidx"
+HOMEPAGE="https://pypi.python.org/pypi/pyfaidx https://github.com/mdshw5/pyfaidx"
 SRC_URI="https://github.com/mdshw5/pyfaidx/archive/v${PV}.tar.gz -> ${P}.tar.gz"
 
 LICENSE="MIT"
 SLOT="0"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="~amd64 ~x86"
 IUSE=""
 
 REPEND="dev-python/six[${PYTHON_USEDEP}]"

[gentoo-commits] proj/sci:master commit in: sci-biology/pyfaidx/

[Horea Christian]

commit:     b2a969579ee4e5cb208c7ca32211228065f11917
Author:     Horea Christian <chr <AT> chymera <DOT> eu>
AuthorDate: Sat Mar 25 04:28:53 2023 +0000
Commit:     Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Sat Mar 25 04:28:56 2023 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=b2a96957

sci-biology/pyfaidx: update EAPI 7 -> 8, tests no longer supported

Signed-off-by: Horea Christian <chr <AT> chymera.eu>

 sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

diff --git a/sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild b/sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild
index be1990514..f017998c0 100644
--- a/sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild
+++ b/sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild
@@ -1,9 +1,9 @@
-# Copyright 1999-2020 Gentoo Authors
+# Copyright 1999-2023 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=7
+EAPI=8
 
-PYTHON_COMPAT=( python3_{7..9} )
+PYTHON_COMPAT=( python3_{9..11} )
 DISTUTILS_USE_SETUPTOOLS=rdepend
 
 inherit distutils-r1
@@ -19,4 +19,4 @@ IUSE=""
 
 REPEND="dev-python/six[${PYTHON_USEDEP}]"
 
-distutils_enable_tests nose
+#distutils_enable_tests nose

[gentoo-commits] proj/sci:master commit in: sci-biology/pyfaidx/

[Horea Christian]

commit:     18b0edc37e3cb752898e1abb17cd78af0ff94fd4
Author:     Horea Christian <chr <AT> chymera <DOT> eu>
AuthorDate: Sat Mar 25 04:45:09 2023 +0000
Commit:     Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Sat Mar 25 04:45:09 2023 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=18b0edc3

sci-biology/pyfaidx: add 0.7.2.1

Signed-off-by: Horea Christian <chr <AT> chymera.eu>

 sci-biology/pyfaidx/pyfaidx-0.7.2.1.ebuild | 24 ++++++++++++++++++++++++
 1 file changed, 24 insertions(+)

diff --git a/sci-biology/pyfaidx/pyfaidx-0.7.2.1.ebuild b/sci-biology/pyfaidx/pyfaidx-0.7.2.1.ebuild
new file mode 100644
index 000000000..6f59187a6
--- /dev/null
+++ b/sci-biology/pyfaidx/pyfaidx-0.7.2.1.ebuild
@@ -0,0 +1,24 @@
+# Copyright 1999-2023 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+PYTHON_COMPAT=( python3_{9..11} )
+DISTUTILS_USE_PEP517=setuptools
+
+inherit distutils-r1 pypi
+
+DESCRIPTION="Efficient pythonic random access to fasta subsequences"
+HOMEPAGE="https://pypi.python.org/pypi/pyfaidx https://github.com/mdshw5/pyfaidx"
+
+LICENSE="MIT"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE=""
+# Test issues reported upstream:
+# https://github.com/mdshw5/pyfaidx/issues/208
+RESTRICT="test"
+
+REPEND="dev-python/six[${PYTHON_USEDEP}]"
+
+distutils_enable_tests pytest

[gentoo-commits] proj/sci:master commit in: sci-biology/pyfaidx/

[Andrew Ammerlaan]

commit:     63e2fa863298f1d0bc5c75d2d0b1586ccf7ab5f8
Author:     Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
AuthorDate: Tue May  2 12:24:18 2023 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
CommitDate: Tue May  2 12:24:18 2023 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=63e2fa86

sci-biology/pyfaidx: disable py3.9

Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> gentoo.org>

 sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild | 2 +-
 sci-biology/pyfaidx/pyfaidx-0.7.2.1.ebuild | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild b/sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild
index f017998c0..bec223f6c 100644
--- a/sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild
+++ b/sci-biology/pyfaidx/pyfaidx-0.5.9.2.ebuild
@@ -3,7 +3,7 @@
 
 EAPI=8
 
-PYTHON_COMPAT=( python3_{9..11} )
+PYTHON_COMPAT=( python3_{10..11} )
 DISTUTILS_USE_SETUPTOOLS=rdepend
 
 inherit distutils-r1

diff --git a/sci-biology/pyfaidx/pyfaidx-0.7.2.1.ebuild b/sci-biology/pyfaidx/pyfaidx-0.7.2.1.ebuild
index 6f59187a6..14f557869 100644
--- a/sci-biology/pyfaidx/pyfaidx-0.7.2.1.ebuild
+++ b/sci-biology/pyfaidx/pyfaidx-0.7.2.1.ebuild
@@ -3,7 +3,7 @@
 
 EAPI=8
 
-PYTHON_COMPAT=( python3_{9..11} )
+PYTHON_COMPAT=( python3_{10..11} )
 DISTUTILS_USE_PEP517=setuptools
 
 inherit distutils-r1 pypi