Your message dated Mon, 17 Mar 2025 09:51:54 +0000
with message-id <[email protected]>
and subject line Bug#1099488: fixed in coot 1.1.11+dfsg-1
has caused the Debian Bug report #1099488,
regarding coot: undefined reference to `__atomic_*' on loong64
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
1099488: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1099488
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: coot
Version: 1.1.09+dfsg-4
Severity: normal
Tags: patch
User: [email protected]
Usertags: loong64
Dear maintainers,
Compiling the coot failed for loong64 in the Debian Package
Auto-Building environment.
The error log is as follows,
```
......
/usr/bin/ld: mini-rsr.o: in function `bool
std::__atomic_impl::__compare_exchange<false,
boost::lockfree::detail::tagged_ptr<boost::lockfree::queue<std::function<void
(int)>*>::node>
>(boost::lockfree::detail::tagged_ptr<boost::lockfree::queue<std::function<void (int)>*>::node>&, std::remove_volatile<boost::lockfree::detail::tagged_ptr<boost::lockfree::queue<std::function<void (int)>*>::node> >::type&, std::remove_volatile<boost::lockfree::detail::tagged_ptr<boost::lockfree::queue<std::function<void (int)>*>::node> >::type&, bool, std::memory_order, std::memory_order)':
/usr/include/c++/14/bits/atomic_base.h:1002:(.text._ZN5boost8lockfree5queueIPSt8functionIFviEEJEE3popIS5_EEbRT_[_ZN5boost8lockfree5queueIPSt8functionIFviEEJEE3popIS5_EEbRT_]+0x180):
undefined reference to `__atomic_compare_exchange_16'
collect2: error: ld returned 1 exit status
make[2]: *** [Makefile:910: mini-rsr-bin] Error 1
.......
```
The full build log can be found at
https://buildd.debian.org/status/logs.php?pkg=coot&arch=loong64.
Please consider the patch I attached.
Add -latomic to LDFLAGS on loong64.
Your opinions are welcome.
Best regards,
Dandan Zhang
diff -Nru coot-1.1.09+dfsg/debian/rules coot-1.1.09+dfsg/debian/rules
--- coot-1.1.09+dfsg/debian/rules 2025-01-22 08:11:25.000000000 +0000
+++ coot-1.1.09+dfsg/debian/rules 2025-01-22 08:13:31.000000000 +0000
@@ -15,7 +15,7 @@
endif
# Link with libatomic on riscv64 and mips64el
-ifneq (,$(filter $(DEB_HOST_ARCH),riscv64 mips64el))
+ifneq (,$(filter $(DEB_HOST_ARCH),riscv64 mips64el loong64))
export DEB_LDFLAGS_MAINT_APPEND += -Wl,--no-as-needed -latomic
-Wl,--as-needed
endif
--- End Message ---
--- Begin Message ---
Source: coot
Source-Version: 1.1.11+dfsg-1
Done: Andrius Merkys <[email protected]>
We believe that the bug you reported is fixed in the latest version of
coot, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andrius Merkys <[email protected]> (supplier of updated coot package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 1.8
Date: Mon, 17 Mar 2025 11:00:29 +0200
Source: coot
Architecture: source
Version: 1.1.11+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers
<[email protected]>
Changed-By: Andrius Merkys <[email protected]>
Closes: 1099488
Changes:
coot (1.1.11+dfsg-1) unstable; urgency=medium
.
* New upstream version 1.1.11+dfsg
* Link with -latomic on loong64 (Closes: #1099488). Thanks Dandan Zhang.
* Refresh patches.
* Drop 26c08247673834ba561feeb9260c4f1f339ef4b5.patch (integrated upstream)
* Explicitly indicate buildsystem for dh_auto_configure.
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