+ exec
+ rm -rf /rpmbuild
+ mkdir -p /rpmbuild
+ su -c 'rpmbuild -ba /builddir/build/SPECS/elph.spec --define "debug_package %{nil}" --undefine _annotated_build --define "_missing_doc_files_terminate_build %{nil}" --define "_emacs_sitestartdir /usr/share/emacs/site-lisp/site-start.d" --define "_emacs_sitelispdir /usr/share/emacs/site-lisp" --nocheck ' mockbuild
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.SgySOc
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf ELPH
+ /usr/bin/tar -xof -
+ /usr/bin/gzip -dc /builddir/build/SOURCES/ELPH-1.0.1.tar.gz
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd ELPH
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ echo 'Patch #0 (elph-chris.patch):'
Patch #0 (elph-chris.patch):
+ /usr/bin/patch --no-backup-if-mismatch -p1 -b --suffix .chris --fuzz=0
patching file sources/elph.cc
patching file sources/GBase.h
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.nafg85
+ umask 022
+ cd /builddir/build/BUILD
+ cd ELPH
+ make -C sources -j4 'CFLAGS=-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fno-exceptions -fno-rtti -D_REENTRANT'
make: Entering directory '/builddir/build/BUILD/ELPH/sources'
g++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fno-exceptions -fno-rtti -D_REENTRANT -c elph.cc -o elph.o
g++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fno-exceptions -fno-rtti -D_REENTRANT -c motif.cc -o motif.o
g++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fno-exceptions -fno-rtti -D_REENTRANT -c GBase.cpp -o GBase.o
g++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fno-exceptions -fno-rtti -D_REENTRANT -c GString.cpp -o GString.o
In file included from GString.h:8:0,
from elph.cc:5:
GBase.h: In function 'void swap(bool&, bool&)':
GBase.h:122:8: warning: operation on 'arg1' may be undefined [-Wsequence-point]
{ arg1 ^= arg2 ^= arg1 ^= arg2; }
~~~~~^~~~~~~~~~~~~~~~~~~~~~~
In file included from GFastaFile.h:3:0,
from motif.h:8,
from motif.cc:4:
GBase.h: In function 'void swap(bool&, bool&)':
GBase.h:122:8: warning: operation on 'arg1' may be undefined [-Wsequence-point]
{ arg1 ^= arg2 ^= arg1 ^= arg2; }
~~~~~^~~~~~~~~~~~~~~~~~~~~~~
In file included from GString.h:8:0,
from GString.cpp:2:
GBase.h: In function 'void swap(bool&, bool&)':
GBase.h:122:8: warning: operation on 'arg1' may be undefined [-Wsequence-point]
{ arg1 ^= arg2 ^= arg1 ^= arg2; }
~~~~~^~~~~~~~~~~~~~~~~~~~~~~
In file included from elph.cc:5:0:
GString.h: At global scope:
GString.h:128:31: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
GString& trim(char* c=" \t\n\r");
^~~~~~~~~
GString.h:129:32: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
GString& trimR(char* c=" \t\n\r"); //trim only right end
^~~~~~~~~
GString.h:131:32: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
GString& trimL(char* c=" \t\n\r"); //trim only left end
^~~~~~~~~
GString.h:136:51: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
size_t read(FILE* stream, char* delimiter="\n", size_t bufsize=4096);
^~~~
In file included from GString.cpp:2:0:
GString.h: At global scope:
GString.h:128:31: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
GString& trim(char* c=" \t\n\r");
^~~~~~~~~
GString.h:129:32: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
GString& trimR(char* c=" \t\n\r"); //trim only right end
^~~~~~~~~
GString.h:131:32: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
GString& trimL(char* c=" \t\n\r"); //trim only left end
^~~~~~~~~
GString.h:136:51: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
size_t read(FILE* stream, char* delimiter="\n", size_t bufsize=4096);
^~~~
In file included from GBase.cpp:5:0:
GBase.h: In function 'void swap(bool&, bool&)':
GBase.h:122:8: warning: operation on 'arg1' may be undefined [-Wsequence-point]
{ arg1 ^= arg2 ^= arg1 ^= arg2; }
~~~~~^~~~~~~~~~~~~~~~~~~~~~~
elph.cc: In function 'int main(int, char**)':
elph.cc:81:76: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
GArgs args(argc, argv, "ho:abreglvdzxt:p:s:m:n:LEN=ITERNO=MAXLOOP=SGFNO=");
^
elph.cc: In function 'seqType Process_Options(GArgs*)':
elph.cc:178:12: warning: ignoring return value of 'int scanf(const char*, ...)', declared with attribute warn_unused_result [-Wunused-result]
scanf("%d",&motiflen);
~~~~~^~~~~~~~~~~~~~~~
motif.cc: In member function 'double Motif::findMotif(int, int, int, int, int)':
motif.cc:2876:14: warning: variable 'prevProb' set but not used [-Wunused-but-set-variable]
double prevProb=0;
^~~~~~~~
motif.cc:2878:14: warning: variable 'locMaxInfo' set but not used [-Wunused-but-set-variable]
double locMaxInfo=0;
^~~~~~~~~~
elph.cc: In function 'int main(int, char**)':
elph.cc:134:18: warning: 'info' may be used uninitialized in this function [-Wmaybe-uninitialized]
globAlignProb=M->optimize(globAlignProb,info,closest);
~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
motif.cc: In constructor 'Motif::Motif(const char*, FILE*, seqType, const char*, const char*, int, int, int, int, int)':
motif.cc:908:9: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
fgets(line,5000,M);
~~~~~^~~~~~~~~~~~~
g++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fno-exceptions -fno-rtti -D_REENTRANT -c GArgs.cpp -o GArgs.o
In file included from GArgs.cpp:7:0:
GBase.h: In function 'void swap(bool&, bool&)':
GBase.h:122:8: warning: operation on 'arg1' may be undefined [-Wsequence-point]
{ arg1 ^= arg2 ^= arg1 ^= arg2; }
~~~~~^~~~~~~~~~~~~~~~~~~~~~~
motif.cc: In member function 'double Motif::findMDet(int)':
motif.cc:1222:9: warning: 'maxinfo' may be used uninitialized in this function [-Wmaybe-uninitialized]
diff=maxinfo-optinfo;
~~~~^~~~~~~~~~~~~~~~
motif.cc: In constructor 'Motif::Motif(const char*, FILE*, seqType, const char*, const char*, int, int, int, int, int)':
motif.cc:1045:20: warning: 'info' may be used uninitialized in this function [-Wmaybe-uninitialized]
globAlignProb=optimize(globAlignProb,info,0);
~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -o elph elph.o motif.o GBase.o GString.o GArgs.o
make: Leaving directory '/builddir/build/BUILD/ELPH/sources'
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.h5RfpF
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64
++ dirname /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64
+ cd ELPH
+ rm -rf /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64
+ mkdir -p /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64/usr/bin
+ install -m 755 sources/elph /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64//usr/bin
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
/sbin/ldconfig: Warning: ignoring configuration file that cannot be opened: /etc/ld.so.conf: No such file or directory
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/brp-strip /usr/bin/strip
+ /usr/lib/rpm/brp-strip-comment-note /usr/bin/strip /usr/bin/objdump
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1
+ /usr/lib/rpm/brp-python-hardlink
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
Processing files: elph-1.0.1-19.fc28.riscv64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.LOAYuM
+ umask 022
+ cd /builddir/build/BUILD
+ cd ELPH
+ DOCDIR=/builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64/usr/share/doc/elph
+ export LC_ALL=C
+ LC_ALL=C
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64/usr/share/doc/elph
+ cp -pr COPYRIGHT /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64/usr/share/doc/elph
+ cp -pr LICENSE /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64/usr/share/doc/elph
+ cp -pr README /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64/usr/share/doc/elph
+ cp -pr Readme.ELPH /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64/usr/share/doc/elph
+ cp -pr VERSION /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64/usr/share/doc/elph
+ exit 0
Provides: elph = 1.0.1-19.fc28 elph(riscv-64) = 1.0.1-19.fc28
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: ld-linux-riscv64-lp64d.so.1()(64bit) ld-linux-riscv64-lp64d.so.1(GLIBC_2.27)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.27)(64bit) libgcc_s.so.1()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.27)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) rtld(GNU_HASH)
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64
Wrote: /builddir/build/SRPMS/elph-1.0.1-19.fc28.src.rpm
Wrote: /builddir/build/RPMS/riscv64/elph-1.0.1-19.fc28.riscv64.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.nkXiTp
+ umask 022
+ cd /builddir/build/BUILD
+ cd ELPH
+ rm -rf /builddir/build/BUILDROOT/elph-1.0.1-19.fc28.riscv64
+ exit 0
+ touch /buildok
+ cleanup
+ set +e
+ sync
+ sleep 5
+ sync
+ poweroff
Terminated
++ cleanup
++ set +e
++ sync
Terminated
+++ cleanup
+++ set +e
+++ sync
+++ sleep 5
+++ sync
+++ poweroff