vimerbf pushed to branch master at Debian Med / spades
Commits: a5d75e13 by Bo YU at 2023-07-20T22:03:52+08:00 fix gcc-13 build issues Signed-off-by: Bo YU <[email protected]> - - - - - 3 changed files: - debian/changelog - + debian/patches/fix-gcc13.patch - debian/patches/series Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,12 @@ +spades (3.15.5+dfsg-3) UNRELEASED; urgency=medium + + * Team upload. + + [Bo YU] + * Add fix-gcc13.patch to fix gcc-13 build issues. (Closes: #1037863) + + -- Bo YU <[email protected]> Thu, 20 Jul 2023 21:38:50 +0800 + spades (3.15.5+dfsg-2) unstable; urgency=medium * d/control: add missing build-deps following llvm reorganization. ===================================== debian/patches/fix-gcc13.patch ===================================== @@ -0,0 +1,38 @@ +Description: fix gcc-13 build issue +Author: Bo YU <[email protected]> +Bug: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1037863 +Forwarded: https://github.com/ablab/spades/pull/1157 +Last-Update: 2023-07-19 +--- +This patch header follows DEP-3: http://dep.debian.net/deps/dep3/ +--- a/assembler/ext/include/llvm/Support/Signals.h ++++ b/assembler/ext/include/llvm/Support/Signals.h +@@ -15,6 +15,7 @@ + #define LLVM_SUPPORT_SIGNALS_H + + #include <string> ++#include <cstdint> + + namespace llvm { + class StringRef; +--- a/assembler/src/common/pipeline/library_data.hpp ++++ b/assembler/src/common/pipeline/library_data.hpp +@@ -8,6 +8,7 @@ + + #include <map> + #include <string> ++#include <cstdint> + + // Forward decls for LLVM YAML API + namespace llvm { namespace yaml { class IO; template<typename T> struct MappingTraits; } } +--- a/assembler/src/common/sequence/nucl.hpp ++++ b/assembler/src/common/sequence/nucl.hpp +@@ -8,6 +8,8 @@ + #ifndef NUCL_HPP_ + #define NUCL_HPP_ + ++#include <cstdint> ++ + #include "utils/verify.hpp" + + /** ===================================== debian/patches/series ===================================== @@ -1,3 +1,4 @@ +fix-gcc13.patch 0002_use_debian_packaged_python-joblib.patch 0003_accept-system-bwa.patch 0101_cmake_ignore_removed_python-yaml.patch View it on GitLab: https://salsa.debian.org/med-team/spades/-/commit/a5d75e136861d2a43f46e56f0bbdf4a95c774530 -- View it on GitLab: https://salsa.debian.org/med-team/spades/-/commit/a5d75e136861d2a43f46e56f0bbdf4a95c774530 You're receiving this email because of your account on salsa.debian.org.
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