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Bug#1105578: soapdenovo2: FTBFS with make --shuffle=reverse: ld: cannot

From Lucas Nussbaum@21:1/5 to All on Tue May 13 21:30:25 2025

Source: soapdenovo2
Version: 242+dfsg-4
Severity: minor
Tags: trixie sid ftbfs
User: lucas@debian.org
Usertags: ftbfs-shuffle

Hi,

GNU Make now has a --shuffle option that simulates non-deterministic ordering of target prerequisites. See https://trofi.github.io/posts/238-new-make-shuffle-mode.html and also previous work in Debian by Santiago Vila: https://people.debian.org/~sanvila/make-shuffle/

This package fails to build with make --shuffle=reverse.
This is likely to be caused by a missing dependency in
debian/rules or an upstream Makefile.

More information about this mass bug filing is available at https://wiki.debian.org/qa.debian.org/FTBFS/Shuffle

Relevant part (hopefully):

g++ sparsePregraph/*.o standardPregraph/*.o -L./sparsePregraph/inc -L./standardPregraph/inc -L/lib64 -L/usr/lib64 -pthread -lz -lm -lbam -lrt -Wl,--hash-style=both -o SOAPdenovo-127mer `dpkg-buildflags --get LDFLAGS`
/usr/bin/ld: cannot find sparsePregraph/*.o: No such file or directory /usr/bin/ld: cannot find standardPregraph/*.o: No such file or directory collect2: error: ld returned 1 exit status

The full build log is available from: http://qa-logs.debian.net/2025/05/05/shuffle/reverse/soapdenovo2_242+dfsg-4_unstable_reverse.log

If you reassign this bug to another package, please mark it as 'affects'-ing this package. See https://www.debian.org/Bugs/server-control#affects

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Bug#1105578: soapdenovo2: FTBFS with make --shuffle=reverse: ld: cannot

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