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Gentoo's Bugzilla – Attachment 196876 Details for
Bug 276719
sci-biology/augustus: fails to build with glibc-2.10
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Build log
augustus-2.1:20090706-025432.log (text/plain), 4.21 KB, created by
Diego Elio Pettenò (RETIRED)
on 2009-07-06 09:51:40 UTC
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Description:
Build log
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Creator:
Diego Elio Pettenò (RETIRED)
Created:
2009-07-06 09:51:40 UTC
Size:
4.21 KB
patch
obsolete
>>>> Unpacking source... >>>> Unpacking augustus.2.1.src.tar.gz to /var/tmp/portage/sci-biology/augustus-2.1/work >>>> Source unpacked in /var/tmp/portage/sci-biology/augustus-2.1/work >>>> Compiling source in /var/tmp/portage/sci-biology/augustus-2.1/work/augustus ... >make -j14 -C src clean >make: Entering directory `/var/tmp/portage/sci-biology/augustus-2.1/work/augustus/src' >rm -f augustus etraining genbank.o properties.o pp_profile.o pp_hitseq.o pp_scoring.o statemodel.o namgene.o types.o gene.o evaluation.o help.o motif.o contentmodel.o geneticcode.o hints.o extrinsicinfo.o projectio.o intronmodel.o exonmodel.o igenicmodel.o utrmodel.o merkmal.o lldouble.o dummy.o ehmmtraining.o igenictrain.o introntrain.o exontrain.o utrtrain.o cflags >make: Leaving directory `/var/tmp/portage/sci-biology/augustus-2.1/work/augustus/src' >make -j14 -C src >make: Entering directory `/var/tmp/portage/sci-biology/augustus-2.1/work/augustus/src' >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o genbank.o genbank.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o properties.o properties.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o pp_profile.o pp_profile.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o pp_hitseq.o pp_hitseq.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o pp_scoring.o pp_scoring.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o statemodel.o statemodel.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o namgene.o namgene.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o types.o types.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o gene.o gene.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o evaluation.o evaluation.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o help.o help.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o motif.o motif.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o contentmodel.o contentmodel.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o geneticcode.o geneticcode.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o hints.o hints.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o extrinsicinfo.o extrinsicinfo.cc -I../include -I. >g++ -c -Wall -Wno-sign-compare -ansi -pedantic -O2 -g -ggdb -O2 -pipe -o projectio.o projectio.cc -I../include -I. >hints.cc: In function 'std::istream& operator>>(std::istream&, Feature&)': >hints.cc:140: error: invalid conversion from 'const char*' to 'char*' >hints.cc:144: error: invalid conversion from 'const char*' to 'char*' >hints.cc:162: error: invalid conversion from 'const char*' to 'char*' >hints.cc:166: error: invalid conversion from 'const char*' to 'char*' >hints.cc:179: error: invalid conversion from 'const char*' to 'char*' >hints.cc:183: error: invalid conversion from 'const char*' to 'char*' >make: *** [hints.o] Error 1 >make: *** Waiting for unfinished jobs.... >make: Leaving directory `/var/tmp/portage/sci-biology/augustus-2.1/work/augustus/src' > [31;01m*[0m > [31;01m*[0m ERROR: sci-biology/augustus-2.1 failed. > [31;01m*[0m Call stack: > [31;01m*[0m ebuild.sh, line 49: Called src_compile > [31;01m*[0m environment, line 292: Called die > [31;01m*[0m The specific snippet of code: > [31;01m*[0m emake -C src || die > [31;01m*[0m The die message: > [31;01m*[0m (no error message) > [31;01m*[0m > [31;01m*[0m If you need support, post the topmost build error, and the call stack if relevant. > [31;01m*[0m A complete build log is located at '/var/log/portage/sci-biology/augustus-2.1:20090706-025432.log'. > [31;01m*[0m The ebuild environment file is located at '/var/tmp/portage/sci-biology/augustus-2.1/temp/environment'. > [31;01m*[0m
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bug 276719
: 196876