commit: eb668702f3bd1a2f3b9ff0e7ad4f19edca41fb76 Author: Alfred Wingate <parona <AT> protonmail <DOT> com> AuthorDate: Tue Feb 11 13:05:38 2025 +0000 Commit: Sam James <sam <AT> gentoo <DOT> org> CommitDate: Thu Feb 13 08:45:32 2025 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=eb668702
sci-biology/augustus: fix gcc15 build Closes: https://bugs.gentoo.org/949617 Signed-off-by: Alfred Wingate <parona <AT> protonmail.com> Closes: https://github.com/gentoo/gentoo/pull/40531 Signed-off-by: Sam James <sam <AT> gentoo.org> sci-biology/augustus/augustus-3.5.0.ebuild | 1 + .../augustus/files/augustus-3.5.0-fix-gcc15.patch | 20 ++++++++++++++++++++ 2 files changed, 21 insertions(+) diff --git a/sci-biology/augustus/augustus-3.5.0.ebuild b/sci-biology/augustus/augustus-3.5.0.ebuild index 01f8dbc42621..86b618fa12ca 100644 --- a/sci-biology/augustus/augustus-3.5.0.ebuild +++ b/sci-biology/augustus/augustus-3.5.0.ebuild @@ -44,6 +44,7 @@ BDEPEND=" PATCHES=( "${FILESDIR}"/augustus-3.4.0-missing-cstdint.patch + "${FILESDIR}"/augustus-3.5.0-fix-gcc15.patch ) pkg_setup() { diff --git a/sci-biology/augustus/files/augustus-3.5.0-fix-gcc15.patch b/sci-biology/augustus/files/augustus-3.5.0-fix-gcc15.patch new file mode 100644 index 000000000000..4c5916ad402f --- /dev/null +++ b/sci-biology/augustus/files/augustus-3.5.0-fix-gcc15.patch @@ -0,0 +1,20 @@ +https://bugs.gentoo.org/949617 +https://github.com/Gaius-Augustus/Augustus/pull/431 + +From b7cbe782e840c82da1eeb2aae7a1a757ecef9fb0 Mon Sep 17 00:00:00 2001 +From: Alfred Wingate <[email protected]> +Date: Tue, 11 Feb 2025 14:57:23 +0200 +Subject: [PATCH] filterBam: include missing header for gcc15 + +Bug: https://bugs.gentoo.org/949617 +Signed-off-by: Alfred Wingate <[email protected]> +--- a/auxprogs/filterBam/src/headers/bamaccess.hh ++++ b/auxprogs/filterBam/src/headers/bamaccess.hh +@@ -7,6 +7,7 @@ + #include <iostream> + #include <vector> + #include <memory> ++#include <cstdint> + + class BamAlignmentRecord; + typedef std::shared_ptr<BamAlignmentRecord> BamAlignmentRecord_;
