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sci-biology/bamtools: drop 2.5.2, 2.5.2-r1

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Closes: https://bugs.gentoo.org/956330
Signed-off-by: Andreas Sturmlechner <asturm@gentoo.org>
This commit is contained in:
Andreas Sturmlechner
2025-05-20 23:54:24 +02:00
parent c2d35715b5
commit fb8d7bdcd1
4 changed files with 0 additions and 95 deletions
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1
sci-biology/bamtools/Manifest
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@@ -1,2 +1 @@
DIST bamtools-2.5.2.tar.gz 245729 BLAKE2B 5034ea1ec16b205488e421461ed74d8a98eae87eb7fc061e5928ad15512497a5338c9dbacbde51009c940acd55c25fccc2f3be2840d2821a8755a2a0b0370944 SHA512 540a4664abfbd1304600c17d47424c312a46e4238b0f0868f4037ddcc54c4487424e3d7820153084b3b512be8a4603e3ec5377a73311a617061460de1bfe49ef
DIST bamtools-2.5.3.tar.gz 245648 BLAKE2B f387dd1dbae87ba22e811f81afd144d1c0fab02cd3c61f0442a3383a4f91d019a3ec8f0765e8d2ab8727bb9f1b3b22f4a2aff424a7c0aaa93396eb7afe0e9ba7 SHA512 bde9d98048d9f30d7f3c4e75db97e610ab58148dedadd09a36ad2421a6357b24510abda2451452d1fb9b40e22e1b8fe6f4e4c6ee1c529c426055a050a24b52d8

35
sci-biology/bamtools/bamtools-2.5.2-r1.ebuild
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@@ -1,35 +0,0 @@
# Copyright 1999-2025 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=8
inherit cmake
DESCRIPTION="A programmer's API and an end-user's toolkit for handling BAM files"
HOMEPAGE="https://github.com/pezmaster31/bamtools"
if [[ ${PV} == *9999 ]]; then
inherit git-r3
EGIT_REPO_URI="https://github.com/pezmaster31/bamtools.git"
else
SRC_URI="https://github.com/pezmaster31/${PN}/archive/v${PV}.tar.gz -> ${P}.tar.gz"
KEYWORDS="~amd64 ~x86"
fi
LICENSE="MIT"
SLOT="0/${PV}" # no stable ABI yet
RDEPEND="
>=dev-libs/jsoncpp-1.8.0:=
sys-libs/zlib:="
DEPEND="${RDEPEND}"
BDEPEND="virtual/pkgconfig"
PATCHES=( "${FILESDIR}"/"${P}-cmake.patch" )
src_prepare() {
# delete bundled libs, just to be safe
rm -rf src/third_party/{gtest-1.6.0,jsoncpp} || die
cmake_src_prepare
}

33
sci-biology/bamtools/bamtools-2.5.2.ebuild
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@@ -1,33 +0,0 @@
# Copyright 1999-2025 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=7
inherit cmake
DESCRIPTION="A programmer's API and an end-user's toolkit for handling BAM files"
HOMEPAGE="https://github.com/pezmaster31/bamtools"
if [[ ${PV} == *9999 ]]; then
inherit git-r3
EGIT_REPO_URI="https://github.com/pezmaster31/bamtools.git"
else
SRC_URI="https://github.com/pezmaster31/${PN}/archive/v${PV}.tar.gz -> ${P}.tar.gz"
KEYWORDS="amd64 ~x86"
fi
LICENSE="MIT"
SLOT="0/${PV}" # no stable ABI yet
RDEPEND="
>=dev-libs/jsoncpp-1.8.0:=
sys-libs/zlib:="
DEPEND="${RDEPEND}"
BDEPEND="virtual/pkgconfig"
src_prepare() {
# delete bundled libs, just to be safe
rm -rf src/third_party/{gtest-1.6.0,jsoncpp} || die
cmake_src_prepare
}

26
sci-biology/bamtools/files/bamtools-2.5.2-cmake.patch
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@@ -1,26 +0,0 @@
Fix for CMake 4
https://bugs.gentoo.org/951630
https://github.com/pezmaster31/bamtools/commit/a610d2c0150d4b821aa4096e57eb77e4b0c14aa7
From a610d2c0150d4b821aa4096e57eb77e4b0c14aa7 Mon Sep 17 00:00:00 2001
From: David Seifert <SoapZA@users.noreply.github.com>
Date: Sat, 31 Jul 2021 15:46:18 +0200
Subject: [PATCH] CMakeLists.txt: CMake >= 3.11
* `INCLUDE_GUARD_NAME` in `GENERATE_EXPORT_HEADER()` was added in 3.11
Fixes: #216
---
CMakeLists.txt | 3 ++-
1 file changed, 2 insertions(+), 1 deletion(-)
diff --git a/CMakeLists.txt b/CMakeLists.txt
index fc3a80c..2382802 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -1,4 +1,5 @@
-cmake_minimum_required(VERSION 3.0)
+cmake_minimum_required(VERSION 3.11)
+# need 3.11 for INCLUDE_GUARD_NAME in GENERATE_EXPORT_HEADER
project(
BamTools