Your message dated Thu, 26 Jul 2018 12:22:46 +0200
with message-id <20180726102246.fgbq245sgdn5p...@an3as.eu>
and subject line New upstream version builds nicely with gcc-8 thus closing
has caused the Debian Bug report #897716,
regarding canu: ftbfs with GCC-8
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.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
897716: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=897716
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: src:canu
Version: 1.7+dfsg-1
Severity: normal
Tags: sid buster
User: debian-...@lists.debian.org
Usertags: ftbfs-gcc-8
Please keep this issue open in the bug tracker for the package it
was filed for. If a fix in another package is required, please
file a bug for the other package (or clone), and add a block in this
package. Please keep the issue open until the package can be built in
a follow-up test rebuild.
The package fails to build in a test rebuild on at least amd64 with
gcc-8/g++-8, but succeeds to build with gcc-7/g++-7. The
severity of this report will be raised before the buster release.
The full build log can be found at:
http://aws-logs.debian.net/2018/05/01/gcc8/canu_1.7+dfsg-1_unstable_gcc8.log.gz
The last lines of the build log are at the end of this report.
To build with GCC 8, either set CC=gcc-8 CXX=g++-8 explicitly,
or install the gcc, g++, gfortran, ... packages from experimental.
apt-get -t=experimental install g++
Common build failures are new warnings resulting in build failures with
-Werror turned on, or new/dropped symbols in Debian symbols files.
For other C/C++ related build failures see the porting guide at
http://gcc.gnu.org/gcc-8/porting_to.html
[...]
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
make[2]: Entering directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
g++ -o
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm.o
-c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/canu-1.7+dfsg=. -fstack-protector-strong
-Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC
-Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts
-Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations
-finline-functions -fomit-frame-pointer -DNOBACKTRACE
-I/<<BUILDDIR>>/canu-1.7+dfsg/src -IAS_UTL -Istores -Istores/libsnappy
-Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns
-Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore
-IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon
utgcns/libNDalign/NDalgorithm.C
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
make[2]: Entering directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
g++ -o
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-allocateMoreSpace.o
-c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/canu-1.7+dfsg=. -fstack-protector-strong
-Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC
-Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts
-Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations
-finline-functions -fomit-frame-pointer -DNOBACKTRACE
-I/<<BUILDDIR>>/canu-1.7+dfsg/src -IAS_UTL -Istores -Istores/libsnappy
-Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns
-Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore
-IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon
utgcns/libNDalign/NDalgorithm-allocateMoreSpace.C
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
make[2]: Entering directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
g++ -o
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-extend.o
-c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/canu-1.7+dfsg=. -fstack-protector-strong
-Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC
-Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts
-Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations
-finline-functions -fomit-frame-pointer -DNOBACKTRACE
-I/<<BUILDDIR>>/canu-1.7+dfsg/src -IAS_UTL -Istores -Istores/libsnappy
-Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns
-Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore
-IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon
utgcns/libNDalign/NDalgorithm-extend.C
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
make[2]: Entering directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
g++ -o
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/utgcns/libNDalign/NDalign.o
-c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/canu-1.7+dfsg=. -fstack-protector-strong
-Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC
-Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts
-Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations
-finline-functions -fomit-frame-pointer -DNOBACKTRACE
-I/<<BUILDDIR>>/canu-1.7+dfsg/src -IAS_UTL -Istores -Istores/libsnappy
-Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns
-Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore
-IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon
utgcns/libNDalign/NDalign.C
In file included from utgcns/libNDalign/NDalign.C:39:
AS_UTL/stddev.H: In member function 'std::vector<long unsigned int>&
genericStatistics<TT>::histogram()':
AS_UTL/stddev.H:341:12: error: invalid initialization of non-const reference of
type 'std::vector<long unsigned int>&' from an rvalue of type 'std::vector<long
unsigned int>*'
return(&_histogram);
~^~~~~~~~~~~~
AS_UTL/stddev.H: In member function 'std::vector<long unsigned int>&
genericStatistics<TT>::Nstatistics()':
AS_UTL/stddev.H:346:12: error: invalid initialization of non-const reference of
type 'std::vector<long unsigned int>&' from an rvalue of type 'std::vector<long
unsigned int>*'
return(&_Nstatistics);
~^~~~~~~~~~~~~~
make[2]: *** [Makefile:658:
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/utgcns/libNDalign/NDalign.o]
Error 1
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
make[2]: *** Waiting for unfinished jobs....
make[2]: Entering directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
g++ -o
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-reverse.o
-c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/canu-1.7+dfsg=. -fstack-protector-strong
-Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC
-Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts
-Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations
-finline-functions -fomit-frame-pointer -DNOBACKTRACE
-I/<<BUILDDIR>>/canu-1.7+dfsg/src -IAS_UTL -Istores -Istores/libsnappy
-Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns
-Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore
-IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon
utgcns/libNDalign/NDalgorithm-reverse.C
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
make[2]: Entering directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
g++ -o
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-forward.o
-c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/canu-1.7+dfsg=. -fstack-protector-strong
-Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC
-Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts
-Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations
-finline-functions -fomit-frame-pointer -DNOBACKTRACE
-I/<<BUILDDIR>>/canu-1.7+dfsg/src -IAS_UTL -Istores -Istores/libsnappy
-Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns
-Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore
-IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon
utgcns/libNDalign/NDalgorithm-forward.C
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
make[2]: Entering directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
g++ -o
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/utgcns/libcns/abAbacus-appendBases.o
-c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/canu-1.7+dfsg=. -fstack-protector-strong
-Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC
-Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts
-Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations
-finline-functions -fomit-frame-pointer -DNOBACKTRACE
-I/<<BUILDDIR>>/canu-1.7+dfsg/src -IAS_UTL -Istores -Istores/libsnappy
-Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns
-Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore
-IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon
utgcns/libcns/abAbacus-appendBases.C
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
make[2]: Entering directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
g++ -o
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/utgcns/libcns/abAbacus-addRead.o
-c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/canu-1.7+dfsg=. -fstack-protector-strong
-Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC
-Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts
-Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations
-finline-functions -fomit-frame-pointer -DNOBACKTRACE
-I/<<BUILDDIR>>/canu-1.7+dfsg/src -IAS_UTL -Istores -Istores/libsnappy
-Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns
-Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore
-IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon
utgcns/libcns/abAbacus-addRead.C
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
make[2]: Entering directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
g++ -o
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/overlapInCore/libedlib/edlib.o
-c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/canu-1.7+dfsg=. -fstack-protector-strong
-Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC
-Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts
-Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations
-finline-functions -fomit-frame-pointer -DNOBACKTRACE
-I/<<BUILDDIR>>/canu-1.7+dfsg/src -IAS_UTL -Istores -Istores/libsnappy
-Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns
-Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore
-IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon
overlapInCore/libedlib/edlib.C
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
make[2]: Entering directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
g++ -o
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/stores/tgTigSizeAnalysis.o
-c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/canu-1.7+dfsg=. -fstack-protector-strong
-Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC
-Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts
-Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations
-finline-functions -fomit-frame-pointer -DNOBACKTRACE
-I/<<BUILDDIR>>/canu-1.7+dfsg/src -IAS_UTL -Istores -Istores/libsnappy
-Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns
-Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore
-IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon
stores/tgTigSizeAnalysis.C
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
make[2]: Entering directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
g++ -o
/<<BUILDDIR>>/canu-1.7+dfsg/Linux-amd64/obj/lib/libcanu.a/stores/tgTigMultiAlignDisplay.o
-c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/canu-1.7+dfsg=. -fstack-protector-strong
-Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC
-Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts
-Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations
-finline-functions -fomit-frame-pointer -DNOBACKTRACE
-I/<<BUILDDIR>>/canu-1.7+dfsg/src -IAS_UTL -Istores -Istores/libsnappy
-Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns
-Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore
-IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon
stores/tgTigMultiAlignDisplay.C
make[2]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg/src'
dh_auto_build: cd src && make -j8 -Oline returned exit code 2
make[1]: *** [debian/rules:16: override_dh_auto_build] Error 25
make[1]: Leaving directory '/<<BUILDDIR>>/canu-1.7+dfsg'
make: *** [debian/rules:13: build-arch] Error 2
dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit
status 2
--- End Message ---
--- Begin Message ---
New upstream version builds nicely with gcc-8 thus closing
--- End Message ---
