* Package: sci-biology/mosaik-2.2.30:0 * Repository: gentoo * Maintainer: sci-biology@gentoo.org * USE: abi_x86_64 amd64 elibc_musl kernel_linux userland_GNU * FEATURES: network-sandbox preserve-libs sandbox userpriv usersandbox @@@@@ PLEASE PAY ATTENTION HERE!!! @@@@@ This information may help you to understand if this is a duplicate or if this bug exists after you pushed a fix; This ebuild was merged at the following commit: https://github.com/gentoo-mirror/gentoo/commit/7cfafa107a41c4e2a9933c570465a007ae823593 (Mon Feb 27 02:32:00 UTC 2023) @@@@@ END @@@@@ ################## # emerge --info: # ################## Portage 3.0.45 (python 3.11.2-final-0, default/linux/amd64/17.0/musl/hardened, gcc-12, musl-1.2.3-r7, 5.15.85-gentoo-dist x86_64) ================================================================= System uname: Linux-5.15.85-gentoo-dist-x86_64-AMD_EPYC_7513_32-Core_Processor-with-libc KiB Mem: 263532996 total, 19932076 free KiB Swap: 0 total, 0 free Timestamp of repository gentoo: Mon, 27 Feb 2023 02:32:00 +0000 sh bash 5.2_p15-r2 ld GNU ld (Gentoo 2.40 p2) 2.40.0 app-misc/pax-utils: 1.3.7::gentoo app-shells/bash: 5.2_p15-r2::gentoo dev-lang/perl: 5.36.0-r2::gentoo dev-lang/python: 3.9.16_p2::gentoo, 3.10.10_p2::gentoo, 3.11.2_p1::gentoo dev-util/cmake: 3.25.2::gentoo dev-util/meson: 1.0.0::gentoo sys-apps/baselayout: 2.13-r1::gentoo sys-apps/openrc: 0.46::gentoo sys-apps/sandbox: 2.30-r1::gentoo sys-devel/autoconf: 2.71-r5::gentoo sys-devel/automake: 1.16.5::gentoo sys-devel/binutils: 2.40-r2::gentoo sys-devel/binutils-config: 5.5::gentoo sys-devel/clang: 16.0.0_rc3::gentoo sys-devel/gcc: 12.2.1_p20230121-r1::gentoo sys-devel/gcc-config: 2.10::gentoo sys-devel/libtool: 2.4.7-r1::gentoo sys-devel/llvm: 16.0.0_rc3::gentoo sys-devel/make: 4.4.1::gentoo sys-kernel/linux-headers: 6.2::gentoo (virtual/os-headers) sys-libs/musl: 1.2.3-r7::gentoo Repositories: gentoo location: /usr/portage sync-type: rsync sync-uri: rsync://rsync.gentoo.org/gentoo-portage priority: -1000 volatile: True sync-rsync-extra-opts: sync-rsync-verify-max-age: 24 sync-rsync-verify-metamanifest: yes sync-rsync-verify-jobs: 1 ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="* GPL-2" CBUILD="x86_64-gentoo-linux-musl" CC="clang" CFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" CHOST="x86_64-gentoo-linux-musl" CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo" CXX="clang++" CXXFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" DISTDIR="/var/tmp/portage/sci-biology/mosaik-2.2.30/distdir" EMERGE_DEFAULT_OPTS="--with-bdeps=y -1 -k -b" ENV_UNSET="CARGO_HOME DBUS_SESSION_BUS_ADDRESS DISPLAY GDK_PIXBUF_MODULE_FILE GOBIN GOPATH PERL5LIB PERL5OPT PERLPREFIX PERL_CORE PERL_MB_OPT PERL_MM_OPT XAUTHORITY XDG_CACHE_HOME XDG_CONFIG_HOME XDG_DATA_HOME XDG_RUNTIME_DIR XDG_STATE_HOME" FCFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs binpkg-multi-instance buildpkg buildpkg-live config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync network-sandbox news parallel-fetch pid-sandbox preserve-libs protect-owned qa-unresolved-soname-deps sandbox sfperms sign split-log strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" FFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" GENTOO_MIRRORS="http://mirror.leaseweb.com/gentoo/ http://ftp.snt.utwente.nl/pub/os/linux/gentoo/ http://ftp.belnet.be/pub/rsync.gentoo.org/gentoo/ http://distfiles.gentoo.org" INSTALL_MASK="charset.alias /usr/share/locale/locale.alias" LANG="C.UTF8" LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0" LEX="flex" MAKEOPTS="-j16" PKGDIR="/root/tbci/binpkg" PORTAGE_CONFIGROOT="/" PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages --exclude=/.git" PORTAGE_TMPDIR="/var/tmp" SHELL="/bin/bash" USE="acl amd64 bzip2 cet cli crypt debug dri elogind fortran hardened iconv ipv6 jumbo-build libglvnd libtirpc native-symlinks ncurses nls nptl openmp pam pcre pie readline seccomp split-usr ssl ssp test-rust unicode xattr xtpax zlib" ABI_X86="64" ELIBC="musl" KERNEL="linux" USERLAND="GNU" Unset: ADDR2LINE, AR, ARFLAGS, AS, ASFLAGS, CCLD, CONFIG_SHELL, CPP, CPPFLAGS, CTARGET, CXXFILT, ELFEDIT, EXTRA_ECONF, F77FLAGS, FC, GCOV, GPROF, LC_ALL, LD, LFLAGS, LIBTOOL, LINGUAS, MAKE, MAKEFLAGS, NM, OBJCOPY, OBJDUMP, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, RANLIB, READELF, RUSTFLAGS, SIZE, STRINGS, STRIP, YACC, YFLAGS ############################## # emerge history (qlop -mv): # ############################## ####################################### # installed packages (qlist -ICvUSS): # ####################################### acct-group/audio-0-r1:0 acct-group/cdrom-0-r1:0 acct-group/dialout-0-r1:0 acct-group/disk-0-r1:0 acct-group/floppy-0:0 acct-group/input-0-r1:0 acct-group/kmem-0-r1:0 acct-group/kvm-0-r1:0 acct-group/lp-0-r1:0 acct-group/man-0-r1:0 acct-group/messagebus-0-r1:0 acct-group/portage-0:0 acct-group/render-0-r1:0 acct-group/root-0:0 acct-group/sgx-0:0 acct-group/sshd-0-r1:0 acct-group/tape-0-r1:0 acct-group/tty-0-r1:0 acct-group/usb-0-r1:0 acct-group/video-0-r1:0 acct-user/man-1-r1:0 acct-user/messagebus-0-r1:0 acct-user/portage-0:0 acct-user/sshd-0-r1:0 app-admin/eselect-1.4.20:0 -doc -emacs -vim-syntax app-admin/perl-cleaner-2.30-r1:0 -pkgcore app-alternatives/awk-4:0 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-abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc -doc -selinux -test xkb x11-libs/libXdmcp-1.1.4-r2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc x11-libs/libXext-1.3.5:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc x11-libs/libXmu-1.1.4:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc x11-libs/libXt-1.2.1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc -test x11-libs/pixman-0.42.2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cpu_flags_arm_iwmmxt -cpu_flags_arm_iwmmxt2 -cpu_flags_arm_neon -cpu_flags_ppc_altivec cpu_flags_x86_mmxext cpu_flags_x86_sse2 cpu_flags_x86_ssse3 -loongson2f -static-libs -test x11-libs/xtrans-1.4.0:0 -doc x11-misc/compose-tables-1.8.4:0 x11-misc/shared-mime-info-2.2:0 -test x11-misc/xdg-utils-1.1.3_p20210805-r1:0 -dbus -doc -gnome ####################### # build.log # ####################### >>> Unpacking source... * Unpacking mosaik-2.2.30.tar.gz >>> Source unpacked in /var/tmp/portage/sci-biology/mosaik-2.2.30/work >>> Preparing source in /var/tmp/portage/sci-biology/mosaik-2.2.30/work/mosaik-2.2.30/src ... * Applying mosaik-2.2.30-remove-platform-code.patch ... [ ok ] * Applying mosaik-2.2.30-fix-build-system.patch ... [ ok ] * Applying mosaik-2.2.30-Wformat-security.patch ... [ ok ] * Applying mosaik-2.2.30-gcc7.patch ... [ ok ] * Applying mosaik-2.2.30-gcc11.patch ... [ ok ] * Applying mosaik-2.2.30-gcc12-time.patch ... [ ok ] >>> Source prepared. >>> Configuring source in /var/tmp/portage/sci-biology/mosaik-2.2.30/work/mosaik-2.2.30/src ... >>> Source configured. >>> Compiling source in /var/tmp/portage/sci-biology/mosaik-2.2.30/work/mosaik-2.2.30/src ... make -j16 CC=clang CXX=clang++ 'CFLAGS=-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts' 'CXXFLAGS=-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts' 'CPPFLAGS= -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE' 'LDFLAGS=-Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0' Building MOSAIK for the following platform: linux ========================================================= - Building in fann-2.1.0 * compiling floatfann.c clang -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -Iinclude/ -c -o .././obj/floatfann.o floatfann.c In file included from floatfann.c:25: ./fann.c:233:36: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] ann->weights[i] = (fann_type) fann_random_weight(); ^~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:143:31: note: expanded from macro 'fann_random_weight' #define fann_random_weight() (fann_rand(-0.1f,0.1f)) ^~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:25: ./fann.c:241:41: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] ann->weights[tmp_con] = (fann_type) fann_random_bias_weight(); ^~~~~~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:144:36: note: expanded from macro 'fann_random_bias_weight' #define fann_random_bias_weight() (fann_rand(-0.1f,0.1f)) ^~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:25: ./fann.c:281:54: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] ann->weights[neuron_it->first_con] = (fann_type) fann_random_bias_weight(); ^~~~~~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:144:36: note: expanded from macro 'fann_random_bias_weight' #define fann_random_bias_weight() (fann_rand(-0.1f,0.1f)) ^~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:25: ./fann.c:293:35: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] random_number = (int) (0.5 + fann_rand(0, num_neurons_out - 1)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:25: ./fann.c:305:37: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] ann->weights[i] = (fann_type) fann_random_weight(); ^~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:143:31: note: expanded from macro 'fann_random_weight' #define fann_random_weight() (fann_rand(-0.1f,0.1f)) ^~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:25: ./fann.c:325:36: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] random_number = (int) (0.5 + fann_rand(0, num_neurons_in - 1)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:25: ./fann.c:344:36: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] ann->weights[i] = (fann_type) fann_random_weight(); ^~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:143:31: note: expanded from macro 'fann_random_weight' #define fann_random_weight() (fann_rand(-0.1f,0.1f)) ^~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:25: ./fann.c:513:36: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] ann->weights[i] = (fann_type) fann_random_weight(); ^~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:143:31: note: expanded from macro 'fann_random_weight' #define fann_random_weight() (fann_rand(-0.1f,0.1f)) ^~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:25: ./fann.c:823:27: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] *weights = (fann_type) (fann_rand(min_weight, max_weight)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:25: ./fann.c:955:46: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] ann->weights[num_connect] = (fann_type) fann_rand(-scale_factor, scale_factor); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:25: ./fann.c:963:46: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] ann->weights[num_connect] = (fann_type) fann_rand(0, scale_factor); ^~~~~~~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:26: ./fann_io.c:575:76: warning: taking address of packed member 'activation_function' of class or structure 'fann_neuron' may result in an unaligned pointer value [-Waddress-of-packed-member] (conf, "(%u, %u, " FANNSCANF ") ", &num_connections, (unsigned int *)&neuron_it->activation_function, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./fann_io.c:576:5: warning: taking address of packed member 'activation_steepness' of class or structure 'fann_neuron' may result in an unaligned pointer value [-Waddress-of-packed-member] &neuron_it->activation_steepness) != 3) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from floatfann.c:29: ./fann_error.c:116:15: warning: passing an object that undergoes default argument promotion to 'va_start' has undefined behavior [-Wvarargs] va_start(ap, errno_f); ^ ./fann_error.c:93:71: note: parameter of type 'const enum fann_errno_enum' is declared here void fann_error(struct fann_error *errdat, const enum fann_errno_enum errno_f, ...) ^ In file included from floatfann.c:30: ./fann_cascade.c:345:22: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] ann->weights[i] = fann_rand(-scale_factor, scale_factor); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ In file included from floatfann.c:30: ./fann_cascade.c:347:22: warning: implicit conversion from 'int' to 'float' changes value from 2147483647 to 2147483648 [-Wimplicit-const-int-float-conversion] ann->weights[i] = fann_rand(0,scale_factor); ^~~~~~~~~~~~~~~~~~~~~~~~~ include/fann_internal.h:128:114: note: expanded from macro 'fann_rand' #define fann_rand(min_value, max_value) (((float)(min_value))+(((float)(max_value)-((float)(min_value)))*rand()/(RAND_MAX+1.0f))) ^~~~~~~~~ /usr/include/stdlib.h:84:19: note: expanded from macro 'RAND_MAX' #define RAND_MAX (0x7fffffff) ^~~~~~~~~~ 16 warnings generated. - Building in CommonSource - Building in DataStructures * compiling AbstractDnaHash.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/AbstractDnaHash.o AbstractDnaHash.cpp * compiling AlignedReadCache.cpp * compiling DnaHash.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/AlignedReadCache.o AlignedReadCache.cpp * compiling HashRegionTree.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/DnaHash.o DnaHash.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/HashRegionTree.o HashRegionTree.cpp * compiling JumpDnaHash.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/JumpDnaHash.o JumpDnaHash.cpp * compiling MosaikString.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/MosaikString.o MosaikString.cpp * compiling MultiDnaHash.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/MultiDnaHash.o MultiDnaHash.cpp * compiling NaiveAlignmentSet.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/NaiveAlignmentSet.o NaiveAlignmentSet.cpp * compiling UbiqDnaHash.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/UbiqDnaHash.o UbiqDnaHash.cpp MultiDnaHash.cpp:313:3: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation] cout << endl; ^ MultiDnaHash.cpp:293:2: note: previous statement is here for(unsigned int i = 0; i < mCapacity; i++) ^ DnaHash.cpp:319:3: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation] cout << endl; ^ DnaHash.cpp:305:2: note: previous statement is here for(unsigned int i = 0; i < mCapacity; i++) ^ DnaHash.cpp:349:3: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation] mean = (double)numUsedHashesCount / (double)numUsedHashes; ^ DnaHash.cpp:334:2: note: previous statement is here for(unsigned int i = 0; i < mCapacity; i++) ^ DnaHash.cpp:360:4: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation] double variance = diffSumSquare / (numUsedHashes - 1.0); ^ DnaHash.cpp:354:3: note: previous statement is here for(unsigned int i = 0; i < mCapacity; i++) ^ UbiqDnaHash.cpp:340:5: warning: 'random_shuffle<__gnu_cxx::__normal_iterator>>' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] random_shuffle(pHashPositions->begin(), pHashPositions->end()); ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/bits/stl_algo.h:4539:5: note: 'random_shuffle<__gnu_cxx::__normal_iterator>>' has been explicitly marked deprecated here _GLIBCXX14_DEPRECATED_SUGGEST("std::shuffle") ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/x86_64-gentoo-linux-musl/bits/c++config.h:112:45: note: expanded from macro '_GLIBCXX14_DEPRECATED_SUGGEST' # define _GLIBCXX14_DEPRECATED_SUGGEST(ALT) _GLIBCXX_DEPRECATED_SUGGEST(ALT) ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/x86_64-gentoo-linux-musl/bits/c++config.h:96:19: note: expanded from macro '_GLIBCXX_DEPRECATED_SUGGEST' __attribute__ ((__deprecated__ ("use '" ALT "' instead"))) ^ 1 warning generated. JumpDnaHash.cpp:493:5: warning: 'random_shuffle<__gnu_cxx::__normal_iterator>>' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] random_shuffle( positions.begin(), positions.end() ); ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/bits/stl_algo.h:4539:5: note: 'random_shuffle<__gnu_cxx::__normal_iterator>>' has been explicitly marked deprecated here _GLIBCXX14_DEPRECATED_SUGGEST("std::shuffle") ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/x86_64-gentoo-linux-musl/bits/c++config.h:112:45: note: expanded from macro '_GLIBCXX14_DEPRECATED_SUGGEST' # define _GLIBCXX14_DEPRECATED_SUGGEST(ALT) _GLIBCXX_DEPRECATED_SUGGEST(ALT) ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/x86_64-gentoo-linux-musl/bits/c++config.h:96:19: note: expanded from macro '_GLIBCXX_DEPRECATED_SUGGEST' __attribute__ ((__deprecated__ ("use '" ALT "' instead"))) ^ JumpDnaHash.cpp:769:6: warning: 'random_shuffle<__gnu_cxx::__normal_iterator>>' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] random_shuffle(positions.begin() + specialBegin, positions.end()); ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/bits/stl_algo.h:4539:5: note: 'random_shuffle<__gnu_cxx::__normal_iterator>>' has been explicitly marked deprecated here _GLIBCXX14_DEPRECATED_SUGGEST("std::shuffle") ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/x86_64-gentoo-linux-musl/bits/c++config.h:112:45: note: expanded from macro '_GLIBCXX14_DEPRECATED_SUGGEST' # define _GLIBCXX14_DEPRECATED_SUGGEST(ALT) _GLIBCXX_DEPRECATED_SUGGEST(ALT) ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/x86_64-gentoo-linux-musl/bits/c++config.h:96:19: note: expanded from macro '_GLIBCXX_DEPRECATED_SUGGEST' __attribute__ ((__deprecated__ ("use '" ALT "' instead"))) ^ JumpDnaHash.cpp:786:6: warning: 'random_shuffle<__gnu_cxx::__normal_iterator>>' is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] random_shuffle(positions.begin(), positions.end()); ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/bits/stl_algo.h:4539:5: note: 'random_shuffle<__gnu_cxx::__normal_iterator>>' has been explicitly marked deprecated here _GLIBCXX14_DEPRECATED_SUGGEST("std::shuffle") ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/x86_64-gentoo-linux-musl/bits/c++config.h:112:45: note: expanded from macro '_GLIBCXX14_DEPRECATED_SUGGEST' # define _GLIBCXX14_DEPRECATED_SUGGEST(ALT) _GLIBCXX_DEPRECATED_SUGGEST(ALT) ^ /usr/lib/gcc/x86_64-gentoo-linux-musl/12/include/g++-v12/x86_64-gentoo-linux-musl/bits/c++config.h:96:19: note: expanded from macro '_GLIBCXX_DEPRECATED_SUGGEST' __attribute__ ((__deprecated__ ("use '" ALT "' instead"))) ^ 3 warnings generated. 1 warning generated. 3 warnings generated. - Building in ExternalReadFormats * compiling Fasta.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/Fasta.o Fasta.cpp * compiling Fastq.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/Fastq.o Fastq.cpp * compiling SRF.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/SRF.o SRF.cpp * compiling BamWriter.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I../../CommonSource/MosaikReadFormat -I. -c -o ../.././obj/BamWriter.o BamWriter.cpp - Building in MosaikReadFormat * compiling AlignmentReader.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I. -c -o ../.././obj/AlignmentReader.o AlignmentReader.cpp * compiling AlignmentWriter.cpp * compiling ReadReader.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I. -c -o ../.././obj/AlignmentWriter.o AlignmentWriter.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I. -c -o ../.././obj/ReadReader.o ReadReader.cpp * compiling ReadWriter.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I. -c -o ../.././obj/ReadWriter.o ReadWriter.cpp * compiling ReferenceSequenceReader.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I. -c -o ../.././obj/ReferenceSequenceReader.o ReferenceSequenceReader.cpp - Building in PairwiseAlignment * compiling SmithWatermanGotoh.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I. -c -o ../.././obj/SmithWatermanGotoh.o SmithWatermanGotoh.cpp * compiling BandedSmithWaterman.cpp * compiling ssw_cpp.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I. -c -o ../.././obj/BandedSmithWaterman.o BandedSmithWaterman.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I. -c -o ../.././obj/ssw_cpp.o ssw_cpp.cpp * compiling ConvertSswToAlignment.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I. -c -o ../.././obj/ConvertSswToAlignment.o ConvertSswToAlignment.cpp * compiling ssw.c clang -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/DataStructures -I../../CommonSource/Config -I../../CommonSource/Utilities -I. -c -o ../.././obj/ssw.o ssw.c - Building in Utilities * compiling ArchiveMerge.cpp * compiling ArchiveSort.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/ArchiveMerge.o ArchiveMerge.cpp * compiling Benchmark.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/ArchiveSort.o ArchiveSort.cpp * compiling BestNSecondBestSelection.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/Benchmark.o Benchmark.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/BestNSecondBestSelection.o BestNSecondBestSelection.cpp * compiling CigarTager.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/CigarTager.o CigarTager.cpp * compiling ColorspaceUtilities.cpp * compiling ConsoleUtilities.cpp * compiling Entropy.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/ColorspaceUtilities.o ColorspaceUtilities.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/ConsoleUtilities.o ConsoleUtilities.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/Entropy.o Entropy.cpp * compiling FastLZIO.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/FastLZIO.o FastLZIO.cpp * compiling FileUtilities.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/FileUtilities.o FileUtilities.cpp * compiling MdTager.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/MdTager.o MdTager.cpp * compiling MemoryUtilities.cpp * compiling Options.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/MemoryUtilities.o MemoryUtilities.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/Options.o Options.cpp * compiling PairwiseUtilities.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/PairwiseUtilities.o PairwiseUtilities.cpp * compiling QualityNeuralNetwork.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/QualityNeuralNetwork.o QualityNeuralNetwork.cpp * compiling RegexUtilities.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/RegexUtilities.o RegexUtilities.cpp * compiling SequenceUtilities.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/SequenceUtilities.o SequenceUtilities.cpp * compiling SHA1.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/SHA1.o SHA1.cpp * compiling SortNMergeUtilities.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/SortNMergeUtilities.o SortNMergeUtilities.cpp SHA1.cpp:76:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int A = block[0]; ^~~~~~~~~ SHA1.cpp:77:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int B = block[1]; ^~~~~~~~~ SHA1.cpp:78:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int C = block[2]; ^~~~~~~~~ SHA1.cpp:79:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int D = block[3]; ^~~~~~~~~ SHA1.cpp:80:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int E = block[4]; ^~~~~~~~~ SHA1.cpp:81:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int t; ^~~~~~~~~ * compiling SortThread.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/SortThread.o SortThread.cpp 6 errors generated. MdTager.cpp:107:19: warning: variable 'nTemp' set but not used [-Wunused-but-set-variable] unsigned short nTemp = 0; ^ make[2]: *** [Makefile:51: ../.././obj/SHA1.o] Error 1 make[2]: *** Waiting for unfinished jobs.... 1 warning generated. ArchiveMerge.cpp:1033:59: warning: unused variable 'ite' [-Wunused-variable] vector< SortNMergeUtilities::AlignedReadPair >::iterator ite; ^ 1 warning generated. - Building in MosaikBuild * compiling BuildMain.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../CommonSource/Config -I../CommonSource/DataStructures -I../CommonSource/ExternalReadFormats -I../CommonSource/MosaikReadFormat -I../CommonSource/Utilities -c -o .././obj/BuildMain.o BuildMain.cpp * compiling MosaikBuild.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../CommonSource/Config -I../CommonSource/DataStructures -I../CommonSource/ExternalReadFormats -I../CommonSource/MosaikReadFormat -I../CommonSource/Utilities -c -o .././obj/MosaikBuild.o MosaikBuild.cpp make[2]: Nothing to be done for 'all'. make[2]: Nothing to be done for 'all'. make[2]: Nothing to be done for 'all'. make[2]: Nothing to be done for 'all'. make[2]: Nothing to be done for 'all'. make[2]: Nothing to be done for 'all'. make[2]: Nothing to be done for 'all'. make[2]: Nothing to be done for 'all'. make[2]: Nothing to be done for 'all'. * compiling SHA1.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/SHA1.o SHA1.cpp * compiling StatisticsMaps.cpp * compiling TimeSupport.cpp * compiling SHA1.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/StatisticsMaps.o StatisticsMaps.cpp * compiling StatisticsMaps.cpp * compiling SHA1.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/SHA1.o SHA1.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/TimeSupport.o TimeSupport.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/SHA1.o SHA1.cpp * compiling ZaTager.cpp * compiling StatisticsMaps.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/StatisticsMaps.o StatisticsMaps.cpp * compiling fastlz.c clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/ZaTager.o ZaTager.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/StatisticsMaps.o StatisticsMaps.cpp * compiling TimeSupport.cpp clang -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DSQLITE_OMIT_LOAD_EXTENSION -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/fastlz.o fastlz.c clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/TimeSupport.o TimeSupport.cpp * compiling md5.c * compiling TimeSupport.cpp clang -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DSQLITE_OMIT_LOAD_EXTENSION -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/md5.o md5.c * compiling ZaTager.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/TimeSupport.o TimeSupport.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/ZaTager.o ZaTager.cpp * compiling ZaTager.cpp clang++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/ZaTager.o ZaTager.cpp md5.c:31:6: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] void byteReverse(buf, longs) ^ md5.c:48:6: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] void MD5Init(ctx) ^ md5.c:64:6: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] void MD5Update(ctx, buf, len) ^ md5.c:113:6: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] void MD5Final(digest, ctx) ^ md5.c:173:6: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] void MD5Transform(buf, in) ^ 5 warnings generated. * compiling fastlz.c clang -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DSQLITE_OMIT_LOAD_EXTENSION -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/fastlz.o fastlz.c SHA1.cpp:76:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int A = block[0]; ^~~~~~~~~ SHA1.cpp:77:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int B = block[1]; ^~~~~~~~~ SHA1.cpp:78:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int C = block[2]; ^~~~~~~~~ SHA1.cpp:79:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int D = block[3]; ^~~~~~~~~ SHA1.cpp:80:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int E = block[4]; ^~~~~~~~~ SHA1.cpp:81:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int t; ^~~~~~~~~ SHA1.cpp:76:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int A = block[0]; ^~~~~~~~~ SHA1.cpp:77:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int B = block[1]; ^~~~~~~~~ SHA1.cpp:78:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int C = block[2]; ^~~~~~~~~ SHA1.cpp:79:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int D = block[3]; ^~~~~~~~~ SHA1.cpp:80:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int E = block[4]; ^~~~~~~~~ SHA1.cpp:81:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int t; ^~~~~~~~~ SHA1.cpp:76:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int A = block[0]; ^~~~~~~~~ SHA1.cpp:77:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int B = block[1]; ^~~~~~~~~ SHA1.cpp:78:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int C = block[2]; ^~~~~~~~~ SHA1.cpp:79:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int D = block[3]; ^~~~~~~~~ SHA1.cpp:80:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int E = block[4]; ^~~~~~~~~ SHA1.cpp:81:2: error: ISO C++17 does not allow 'register' storage class specifier [-Wregister] register unsigned int t; ^~~~~~~~~ * compiling fastlz.c clang -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wno-char-subscripts -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DSQLITE_OMIT_LOAD_EXTENSION -I../../CommonSource/Config -I../../CommonSource/DataStructures -I../../CommonSource/MosaikReadFormat -I../../CommonSource/ExternalReadFormats -I../..//fann-2.1.0/include/ -I. -c -o ../.././obj/fastlz.o fastlz.c 6 errors generated. 6 errors generated. make[2]: *** [Makefile:51: ../.././obj/SHA1.o] Error 1 make[2]: *** Waiting for unfinished jobs.... 6 errors generated. make[2]: *** [Makefile:51: ../.././obj/SHA1.o] Error 1 make[2]: *** Waiting for unfinished jobs.... make[2]: *** [Makefile:51: ../.././obj/SHA1.o] Error 1 make[2]: *** Waiting for unfinished jobs.... StatisticsMaps.cpp:435:37: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation] fprintf( fOut, "\tPI:%u", ite->MedianFragmentLength ); ^ StatisticsMaps.cpp:434:3: note: previous statement is here if ( !ite->PlatformUnit.empty() ) fprintf( fOut, "\tPU:%s", ite->PlatformUnit.c_str() ); ^ StatisticsMaps.cpp:435:37: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation] fprintf( fOut, "\tPI:%u", ite->MedianFragmentLength ); ^ StatisticsMaps.cpp:434:3: note: previous statement is here if ( !ite->PlatformUnit.empty() ) fprintf( fOut, "\tPU:%s", ite->PlatformUnit.c_str() ); ^ StatisticsMaps.cpp:435:37: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation] fprintf( fOut, "\tPI:%u", ite->MedianFragmentLength ); ^ StatisticsMaps.cpp:434:3: note: previous statement is here if ( !ite->PlatformUnit.empty() ) fprintf( fOut, "\tPU:%s", ite->PlatformUnit.c_str() ); ^ 1 warning generated. 1 warning generated. 1 warning generated. make[1]: *** [Makefile:39: .././obj/md5.o] Error 2 make[1]: *** Waiting for unfinished jobs.... make[1]: *** [Makefile:39: .././obj/TimeSupport.o] Error 2 make[1]: *** [Makefile:39: .././obj/fastlz.o] Error 2 MosaikBuild.cpp:1088:11: warning: variable 'numMate1Written' set but not used [-Wunused-but-set-variable] uint64_t numMate1Written = 0; ^ MosaikBuild.cpp:1089:11: warning: variable 'numMate2Written' set but not used [-Wunused-but-set-variable] uint64_t numMate2Written = 0; ^ 2 warnings generated. make: *** [Makefile:32: all] Error 1 * ERROR: sci-biology/mosaik-2.2.30::gentoo failed (compile phase): * emake failed * * If you need support, post the output of `emerge --info '=sci-biology/mosaik-2.2.30::gentoo'`, * the complete build log and the output of `emerge -pqv '=sci-biology/mosaik-2.2.30::gentoo'`. * The complete build log is located at '/var/log/emerge-log/build/sci-biology/mosaik-2.2.30:20230227-040630.log'. * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/mosaik-2.2.30/temp/build.log'. * The ebuild environment file is located at '/var/tmp/portage/sci-biology/mosaik-2.2.30/temp/environment'. * Working directory: '/var/tmp/portage/sci-biology/mosaik-2.2.30/work/mosaik-2.2.30/src' * S: '/var/tmp/portage/sci-biology/mosaik-2.2.30/work/mosaik-2.2.30/src'