Source: freebayes Version: 1.2.0-1 Severity: serious Tags: ftbfs freebayes fails to build from source in sbuild on unstable/amd64 when performing a parallel build. The linker invocation is run before all relevant objects are compiled. A build log ends with:
| g++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -I../ttmath -I/usr/include/bamtools `pkg-config --cflags libvcflib` `pkg-config --cflags libseqlib` `pkg-config --cflags htslib` `pkg-config --cflags jsoncpp` bamleftalign.o BedReader.o CNV.o fastlz.o Fasta.o Parameters.o Allele.o Sample.o Result.o AlleleParser.o Utility.o Genotype.o DataLikelihood.o Multinomial.o Ewens.o ResultData.o Dirichlet.o Marginals.o split.o LeftAlign.o IndelAllele.o Bias.o Contamination.o NonCall.o SegfaultHandler.o -o ../bin/bamleftalign -lbamtools -ltabixpp -lz -lm -lpthread `pkg-config --libs libvcflib` `pkg-config --libs htslib` `pkg-config --libs libseqlib` `pkg-config --libs jsoncpp` | g++: error: AlleleParser.o: No such file or directory | g++: error: Genotype.o: No such file or directory | g++: error: ResultData.o: No such file or directory | make[2]: *** [Makefile:81: ../bin/bamleftalign] Error 1 | make[2]: *** Waiting for unfinished jobs.... | make[2]: Leaving directory '/<<PKGBUILDDIR>>/src' | make[1]: *** [Makefile:2: all] Error 2 | make[1]: Leaving directory '/<<PKGBUILDDIR>>' | dh_auto_build: make -j12 "INSTALL=install --strip-program=true" returned exit code 2 | make: *** [debian/rules:6: build] Error 2 | dpkg-buildpackage: error: debian/rules build subprocess returned exit status 2 The issue is also seen during reproducible builds: https://tests.reproducible-builds.org/debian/rbuild/unstable/amd64/freebayes_1.2.0-1.rbuild.log.gz Helmut
