build.log

build.log (text/plain), 81.56 KB, created by Agostino Sarubbo on 2020-07-08 15:16:46 UTC

 * Package:    sci-biology/bowtie-2.2.9
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        abi_x86_64 amd64 cpu_flags_x86_sse2 elibc_glibc kernel_linux tbb 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/e129f4b303fd26126328783c2eeef88740431a58
@@@@@ END @@@@@

>>> Unpacking source...
>>> Unpacking bowtie2-2.2.9-source.zip to /var/tmp/portage/sci-biology/bowtie-2.2.9/work
>>> Source unpacked in /var/tmp/portage/sci-biology/bowtie-2.2.9/work
>>> Preparing source in /var/tmp/portage/sci-biology/bowtie-2.2.9/work/bowtie2-2.2.9 ...
 * Applying bowtie-2.2.9-fix-c++14.patch ...
 [ ok ]
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-biology/bowtie-2.2.9/work/bowtie2-2.2.9 ...
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-biology/bowtie-2.2.9/work/bowtie2-2.2.9 ...
make -j2 V=1 CC=x86_64-pc-linux-gnu-clang CPP=x86_64-pc-linux-gnu-clang++ CXX=x86_64-pc-linux-gnu-clang++ CFLAGS= CXXFLAGS= 'EXTRA_FLAGS=-Wl,-O1 -Wl,--as-needed -fuse-ld=lld -Wl,--defsym=__gentoo_check_ldflags__=0' 'RELEASE_FLAGS=-O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color -msse2' WITH_TBB=1 
x86_64-pc-linux-gnu-clang++ -O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color -msse2 -DCOMPILER_OPTIONS="\"-O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color -msse2 -Wl,-O1 -Wl,--as-needed -fuse-ld=lld -Wl,--defsym=__gentoo_check_ldflags__=0 -DPOPCNT_CAPABILITY -DWITH_TBB\"" -Wl,-O1 -Wl,--as-needed -fuse-ld=lld -Wl,--defsym=__gentoo_check_ldflags__=0 -DPOPCNT_CAPABILITY -DWITH_TBB \
	-fno-strict-aliasing -DBOWTIE2_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"`hostname`\"" -DBUILD_TIME="\"`date`\"" -DCOMPILER_VERSION="\"`x86_64-pc-linux-gnu-clang++ -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE  -DBOWTIE_MM  -DBOWTIE2 -DNDEBUG -Wall \
	-I third_party \
	-o bowtie2-build-s bt2_build.cpp \
	ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_idx.cpp bt2_io.cpp bt2_util.cpp reference.cpp ds.cpp multikey_qsort.cpp limit.cpp random_source.cpp diff_sample.cpp bowtie_build_main.cpp \
	-lpthread -ltbb -ltbbmalloc_proxy 
x86_64-pc-linux-gnu-clang++ -O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color -msse2 -DCOMPILER_OPTIONS="\"-O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color -msse2 -Wl,-O1 -Wl,--as-needed -fuse-ld=lld -Wl,--defsym=__gentoo_check_ldflags__=0 -DPOPCNT_CAPABILITY -DWITH_TBB\"" -Wl,-O1 -Wl,--as-needed -fuse-ld=lld -Wl,--defsym=__gentoo_check_ldflags__=0 -DPOPCNT_CAPABILITY -DWITH_TBB \
	-fno-strict-aliasing -DBOWTIE2_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"`hostname`\"" -DBUILD_TIME="\"`date`\"" -DCOMPILER_VERSION="\"`x86_64-pc-linux-gnu-clang++ -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE  -DBOWTIE_MM  -DBOWTIE2 -DBOWTIE_64BIT_INDEX -DNDEBUG -Wall \
	-I third_party \
	-o bowtie2-build-l bt2_build.cpp \
	ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_idx.cpp bt2_io.cpp bt2_util.cpp reference.cpp ds.cpp multikey_qsort.cpp limit.cpp random_source.cpp diff_sample.cpp bowtie_build_main.cpp \
	-lpthread -ltbb -ltbbmalloc_proxy 
In file included from In file included from bt2_build.cpp:27:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_build.cpp:27:
In file included from ./bt2_idx.hbt2_build.cpp:27:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_build.cpp:27:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
2 warnings generated.
2 warnings generated.
In file included from In file included from bt2_idx.cpp:25:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_idx.cpp:25:
./bt2_idx.hIn file included from bt2_idx.cpp:25:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_idx.cpp:25:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
2 warnings generated.
2 warnings generated.
In file included from bt2_io.cpp:25:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_io.cpp:25:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_io.cpp:25:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_io.cpp:25:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
2 warnings generated.
2 warnings generated.
In file included from bt2_util.cpp:26:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_util.cpp:26:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_util.cpp:26:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_util.cpp:26:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
2 warnings generated.
2 warnings generated.
x86_64-pc-linux-gnu-clang++ -O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color -msse2 -DCOMPILER_OPTIONS="\"-O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color -msse2 -Wl,-O1 -Wl,--as-needed -fuse-ld=lld -Wl,--defsym=__gentoo_check_ldflags__=0 -DPOPCNT_CAPABILITY -DWITH_TBB\"" -Wl,-O1 -Wl,--as-needed -fuse-ld=lld -Wl,--defsym=__gentoo_check_ldflags__=0 -DPOPCNT_CAPABILITY -DWITH_TBB \
	-fno-strict-aliasing -DBOWTIE2_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"`hostname`\"" -DBUILD_TIME="\"`date`\"" -DCOMPILER_VERSION="\"`x86_64-pc-linux-gnu-clang++ -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE  -DBOWTIE_MM  -DBOWTIE2 -DNDEBUG -Wall \
	-I third_party \
	-o bowtie2-align-s bt2_search.cpp \
	ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_idx.cpp bt2_io.cpp bt2_util.cpp reference.cpp ds.cpp multikey_qsort.cpp limit.cpp random_source.cpp qual.cpp pat.cpp sam.cpp read_qseq.cpp aligner_seed_policy.cpp aligner_seed.cpp aligner_seed2.cpp aligner_sw.cpp aligner_sw_driver.cpp aligner_cache.cpp aligner_result.cpp ref_coord.cpp mask.cpp pe.cpp aln_sink.cpp dp_framer.cpp scoring.cpp presets.cpp unique.cpp simple_func.cpp random_util.cpp aligner_bt.cpp sse_util.cpp aligner_swsse.cpp outq.cpp aligner_swsse_loc_i16.cpp aligner_swsse_ee_i16.cpp aligner_swsse_loc_u8.cpp aligner_swsse_ee_u8.cpp aligner_driver.cpp bowtie_main.cpp \
	-lpthread -ltbb -ltbbmalloc_proxy 
x86_64-pc-linux-gnu-clang++ -O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color -msse2 -DCOMPILER_OPTIONS="\"-O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color -msse2 -Wl,-O1 -Wl,--as-needed -fuse-ld=lld -Wl,--defsym=__gentoo_check_ldflags__=0 -DPOPCNT_CAPABILITY -DWITH_TBB\"" -Wl,-O1 -Wl,--as-needed -fuse-ld=lld -Wl,--defsym=__gentoo_check_ldflags__=0 -DPOPCNT_CAPABILITY -DWITH_TBB \
	-fno-strict-aliasing -DBOWTIE2_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"`hostname`\"" -DBUILD_TIME="\"`date`\"" -DCOMPILER_VERSION="\"`x86_64-pc-linux-gnu-clang++ -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE  -DBOWTIE_MM  -DBOWTIE2 -DBOWTIE_64BIT_INDEX -DNDEBUG -Wall \
	-I third_party \
	-o bowtie2-align-l bt2_search.cpp \
	ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_idx.cpp bt2_io.cpp bt2_util.cpp reference.cpp ds.cpp multikey_qsort.cpp limit.cpp random_source.cpp qual.cpp pat.cpp sam.cpp read_qseq.cpp aligner_seed_policy.cpp aligner_seed.cpp aligner_seed2.cpp aligner_sw.cpp aligner_sw_driver.cpp aligner_cache.cpp aligner_result.cpp ref_coord.cpp mask.cpp pe.cpp aln_sink.cpp dp_framer.cpp scoring.cpp presets.cpp unique.cpp simple_func.cpp random_util.cpp aligner_bt.cpp sse_util.cpp aligner_swsse.cpp outq.cpp aligner_swsse_loc_i16.cpp aligner_swsse_ee_i16.cpp aligner_swsse_loc_u8.cpp aligner_swsse_ee_u8.cpp aligner_driver.cpp bowtie_main.cpp \
	-lpthread -ltbb -ltbbmalloc_proxy 
In file included from bt2_search.cpp:33:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_search.cpp:33:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_search.cpp:33:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_search.cpp:33:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:1461:2: warning: 'auto_ptr<Presets>' is bt2_search.cpp:1461:2: warning: 'auto_ptr<Presets>' is deprecated
      [-Wdeprecated-declarations]
        auto_ptr<Presets> presets(new PresetsV0());
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<Presets>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
deprecated
      [-Wdeprecated-declarations]
        auto_ptr<Presets> presets(new PresetsV0());
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<Presets>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:2830:2: warning: 'auto_ptr<PatternSourcePerThreadFactory>' is
      deprecated [-Wdeprecated-declarations]
        auto_ptr<PatternSourcePerThreadFactory> patsrcFact(createPatsrcF...
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<PatternSourcePerThreadFactory>' has been explicitly marked
      deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:2831:2: warning: 'auto_ptr<PatternSourcePerThread>' is deprecated
      [-Wdeprecated-declarations]
        auto_ptr<PatternSourcePerThread> ps(patsrcFact->create());
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<PatternSourcePerThread>' has been explicitly marked deprecated
      here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:2857:2: warning: 'auto_ptr<Mapq>' is deprecated
      [-Wdeprecated-declarations]
        auto_ptr<Mapq> bmapq(new_mapq(mapqv, scoreMin, sc));
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<Mapq>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:2830:2: warning: 'auto_ptr<PatternSourcePerThreadFactory>' is
      deprecated [-Wdeprecated-declarations]
        auto_ptr<PatternSourcePerThreadFactory> patsrcFact(createPatsrcF...
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<PatternSourcePerThreadFactory>' has been explicitly marked
      deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:2831:2: warning: 'auto_ptr<PatternSourcePerThread>' is deprecated
      [-Wdeprecated-declarations]
        auto_ptr<PatternSourcePerThread> ps(patsrcFact->create());
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<PatternSourcePerThread>' has been explicitly marked deprecated
      here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:2857:2: warning: 'auto_ptr<Mapq>' is deprecated
      [-Wdeprecated-declarations]
        auto_ptr<Mapq> bmapq(new_mapq(mapqv, scoreMin, sc));
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<Mapq>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:3918:2: warning: 'auto_ptr<PatternSourcePerThreadFactory>' is
      deprecated [-Wdeprecated-declarations]
        auto_ptr<PatternSourcePerThreadFactory> patsrcFact(createPatsrcF...
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<PatternSourcePerThreadFactory>' has been explicitly marked
      deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:3919:2: warning: 'auto_ptr<PatternSourcePerThread>' is deprecated
      [-Wdeprecated-declarations]
        auto_ptr<PatternSourcePerThread> ps(patsrcFact->create());
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<PatternSourcePerThread>' has been explicitly marked deprecated
      here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:3931:2: warning: 'auto_ptr<Mapq>' is deprecated
      [-Wdeprecated-declarations]
        auto_ptr<Mapq> bmapq(new_mapq(mapqv, scoreMin, sc));
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<Mapq>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:3918:2:bt2_search.cpp:4252:2: warning: 'auto_ptr<BitPairReference>' is deprecated
      [-Wdeprecated-declarations]
        auto_ptr<BitPairReference> refs(
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<BitPairReference>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
 warning: 'auto_ptr<PatternSourcePerThreadFactory>' is
      deprecated [-Wdeprecated-declarations]
        auto_ptr<PatternSourcePerThreadFactory> patsrcFact(createPatsrcF...
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<PatternSourcePerThreadFactory>' has been explicitly marked
      deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:3919:2: warning: 'auto_ptr<PatternSourcePerThread>' is deprecated
      [-Wdeprecated-declarations]
        auto_ptr<PatternSourcePerThread> ps(patsrcFact->create());
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<PatternSourcePerThread>' has been explicitly marked deprecated
      here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:3931:2: warning: 'auto_ptr<Mapq>' is deprecated
      [-Wdeprecated-declarations]
        auto_ptr<Mapq> bmapq(new_mapq(mapqv, scoreMin, sc));
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<Mapq>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
bt2_search.cpp:4252:2: warning: 'auto_ptr<BitPairReference>' is deprecated
      [-Wdeprecated-declarations]
        auto_ptr<BitPairReference> refs(
        ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<BitPairReference>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_search.cpp:37:
In file included from ./aln_sink.h:24:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
In file included from bt2_search.cpp:37:
In file included from ./aln_sink.h:24:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
11 warnings generated.
11 warnings generated.
In file included from bt2_idx.cpp:25:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_idx.cpp:25:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_idx.cpp:25:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_idx.cpp:25:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
2 warnings generated.
2 warnings generated.
In file included from bt2_io.cpp:In file included from bt2_io.cpp:25:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
25:
./bt2_idx.h:827In file included from bt2_io.cpp:25:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_io.cpp:25:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
2 warnings generated.
2 warnings generated.
In file included from bt2_util.cpp:26:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_util.cpp:26:
./bt2_idx.h:831:In file included from bt2_util.cpp:26:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from bt2_util.cpp:26:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
22 warnings generated.
 warnings generated.
In file included from In file included from pat.cpp:26:
In file included from ./pat.h:41:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
pat.cpp:26:
In file included from ./pat.h:41:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
11 warning generated.
 warning generated.
In file included from sam.cpp:22:
In file included from ./sam.h:25:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
In file included from sam.cpp:22:
In file included from ./sam.h:25:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
In file included from sam.cpp:22:
In file included from ./sam.h:25:
In file included from In file included from sam.cpp:22:
In file included from ./sam.h:25:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
sam.cpp:317:3: note: in instantiation of function template specialization
      'itoa10<unsigned int>' requested here
                itoa10<uint32_t>(rd.seed, buf);
                ^
./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
sam.cpp:317:3: note: in instantiation of function template specialization
      'itoa10<unsigned int>' requested here
                itoa10<uint32_t>(rd.seed, buf);
                ^
22 warnings generated.
 warnings generated.
In file included from read_qseq.cpp:20:
In file included from ./pat.h:41:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
In file included from read_qseq.cpp:20:
In file included from ./pat.h:41:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
1 warning generated.
1 warning generated.
In file included from aligner_seed.cpp:23:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_seed.cpp:23:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_seed.cpp:23:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_seed.cpp:23:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_seed.cpp:20:
In file included from ./aligner_cache.h:60:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
In file included from aligner_seed.cpp:20:
In file included from ./aligner_cache.h:60:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
3 warnings generated.
3 warnings generated.
In file included from In file included from aligner_seed2.cpp:22:
In file included from ./aligner_seed2.h:103:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
aligner_seed2.cpp:22:
In file included from In file included from aligner_seed2.cpp:22:
In file included from ./aligner_seed2.h:103:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
./aligner_seed2.h:103:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_seed2.cpp:22:
In file included from ./aligner_seed2.h:103:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_seed2.cpp:22:
In file included from ./aligner_seed2.h:102:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
In file included from aligner_seed2.cpp:22:
In file included from ./aligner_seed2.h:102:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
3 warnings generated.
3 warnings generated.
In file included from In file included from aligner_sw.cpp:25:
In file included from ./aligner_sw.h:74:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
aligner_sw.cpp:25:
In file included from ./aligner_sw.h:74:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
11 warning generated.
 warning generated.
In file included from aligner_sw_driver.cpp:47:
In file included from ./aligner_sw_driver.h:84:
In file included from ./group_walk.h:86:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_sw_driver.cpp:47:
In file included from ./aligner_sw_driver.h:84:
In file included from ./group_walk.h:86:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_sw_driver.cpp:47:
In file included from ./aligner_sw_driver.h:84:
In file included from ./group_walk.h:86:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_sw_driver.cpp:47:
In file included from ./aligner_sw_driver.h:84:
In file included from ./group_walk.h:86:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_sw_driver.cpp:46:
In file included from ./aligner_cache.h:60:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
In file included from aligner_sw_driver.cpp:46:
In file included from ./aligner_cache.h:60:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
3 warnings generated.
3 warnings generated.
In file included from In file included from aligner_cache.cpp:20:
In file included from ./aligner_cache.h:60:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
aligner_cache.cpp:20:
In file included from ./aligner_cache.h:60:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
1 warning generated.
1 warning generated.
aligner_result.cpp:1133:10: error: ordered comparison between pointer and zero
      ('const char *' and 'int')
        if(flag > 0) {
           ~~~~ ^ ~
aligner_result.cpp:1133:10: error: ordered comparison between pointer and zero
      ('const char *' and 'int')
        if(flag > 0) {
           ~~~~ ^ ~
1 error generated.
1 error generated.
In file included from In file included from aln_sink.cpp:22:
In file included from ./aln_sink.h:24:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
aln_sink.cpp:22:
In file included from ./aln_sink.h:24:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
1 warning generated.
1 warning generated.
In file included from In file included from unique.cpp:20:
In file included from ./unique.h:38:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
unique.cpp:20:
In file included from ./unique.h:38:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
1 warning generated.
1 warning generated.
In file included from In file included from aligner_bt.cpp:20:
In file included from ./aligner_bt.h:25:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
aligner_bt.cpp:20:
In file included from ./aligner_bt.h:25:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
11 warning generated.
 warning generated.
In file included from aligner_swsse.cpp:In file included from 21aligner_swsse.cpp:21:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
1 warning generated.
1 warning generated.
In file included from outq.cpp:20:
In file included from ./outq.h:26:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
In file included from outq.cpp:20:
In file included from ./outq.h:26:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
1 warning generated.
1 warning generated.
In file included from aligner_swsse_loc_i16.cpp:56:
In file included from ./aligner_sw.h:74:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
In file included from aligner_swsse_loc_i16.cpp:56:
In file included from ./aligner_sw.h:74:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
1 warning generated.
1 warning generated.
In file included from aligner_swsse_ee_i16.cpp:56:
In file included from ./aligner_sw.h:74:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
In file included from aligner_swsse_ee_i16.cpp:56:
In file included from ./aligner_sw.h:74:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
1 warning generated.
1 warning generated.
In file included from In file included from aligner_swsse_loc_u8.cpp:56:
In file included from ./aligner_sw.h:74:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
aligner_swsse_loc_u8.cpp:56:
In file included from ./aligner_sw.h:74:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
1 warning generated.
1 warning generated.
In file included from In file included from aligner_swsse_ee_u8.cpp:56:
In file included from ./aligner_sw.h:74:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
aligner_swsse_ee_u8.cpp:56:
In file included from ./aligner_sw.h:74:
In file included from ./aligner_sw_common.h:23:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
1 warning generated.
1 warning generated.
In file included from In file included from aligner_driver.cpp:20:
In file included from ./aligner_driver.h:78:
In file included from ./aligner_seed2.h:103:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
aligner_driver.cpp:20:
In file included from In file included from aligner_driver.cpp:20:
In file included from ./aligner_driver.h:78:
In file included from ./aligner_seed2.h:103:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
./aligner_driver.h:78:
In file included from ./aligner_seed2.h:103:
./bt2_idx.h:827:3: warning: 'auto_ptr<std::__cxx11::basic_stringstream<char> >'
      is deprecated [-Wdeprecated-declarations]
                auto_ptr<stringstream> ss(new stringstream());
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<std::__cxx11::basic_stringstream<char> >' has been explicitly
      marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_driver.cpp:20:
In file included from ./aligner_driver.h:78:
In file included from ./aligner_seed2.h:103:
./bt2_idx.h:831:3: warning: 'auto_ptr<FileBuf>' is deprecated
      [-Wdeprecated-declarations]
                auto_ptr<FileBuf> fb(new FileBuf(ss.get()));
                ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/backward/auto_ptr.h:287:7: note: 
      'auto_ptr<FileBuf>' has been explicitly marked deprecated here
    } _GLIBCXX_DEPRECATED;
      ^
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/x86_64-pc-linux-gnu/bits/c++config.h:87:46: note: 
      expanded from macro '_GLIBCXX_DEPRECATED'
# define _GLIBCXX_DEPRECATED __attribute__ ((__deprecated__))
                                             ^
In file included from aligner_driver.cpp:20:
In file included from ./aligner_driver.h:78:
In file included from ./aligner_seed2.h:102:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
In file included from aligner_driver.cpp:20:
In file included from ./aligner_driver.h:78:
In file included from ./aligner_seed2.h:102:
In file included from ./aligner_result.h:27:
In file included from ./read.h:28:
./util.h:46:18: warning: overlapping comparisons always evaluate to false
      [-Wtautological-overlap-compare]
                if (value <= 0 && value != 0) *out++ = '-';
                    ~~~~~~~~~~~^~~~~~~~~~~~~
./read.h:410:5: note: in instantiation of function template specialization
      'itoa10<unsigned long>' requested here
                                itoa10(ops[i].n, buf); o.append(buf);
                                ^
3 warnings generated.
3 warnings generated.
make: *** [Makefile:308: bowtie2-align-l] Error 1
make: *** Waiting for unfinished jobs....
make: *** [Makefile:300: bowtie2-align-s] Error 1
 * ERROR: sci-biology/bowtie-2.2.9::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-biology/bowtie-2.2.9::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-biology/bowtie-2.2.9::gentoo'`.
 * The complete build log is located at '/var/log/emerge-log/build/sci-biology/bowtie-2.2.9:20200708-140742.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/bowtie-2.2.9/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-biology/bowtie-2.2.9/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-biology/bowtie-2.2.9/work/bowtie2-2.2.9'
 * S: '/var/tmp/portage/sci-biology/bowtie-2.2.9/work/bowtie2-2.2.9'



emerge --info:
Portage 2.3.103 (python 3.7.8-final-0, default/linux/amd64/17.1, gcc-10.1.0, glibc-2.31-r5, 5.4.0-1015-aws x86_64)
=================================================================
System uname: Linux-5.4.0-1015-aws-x86_64-AMD_EPYC_7571-with-gentoo-2.7
KiB Mem:     7895548 total,   2229412 free
KiB Swap:          0 total,         0 free
Timestamp of repository gentoo: Wed, 08 Jul 2020 14:35:33 +0000
sh bash 5.0_p17
ld GNU ld (Gentoo 2.34 p4) 2.34.0
app-shells/bash:          5.0_p17::gentoo
dev-lang/perl:            5.30.3-r2::gentoo
dev-lang/python:          2.7.18::gentoo, 3.7.8-r1::gentoo, 3.8.3-r1::gentoo, 3.9.0_beta4::gentoo
dev-util/cmake:           3.18.0_rc3::gentoo
sys-apps/baselayout:      2.7::gentoo
sys-apps/openrc:          0.42.1::gentoo
sys-apps/sandbox:         2.20::gentoo
sys-devel/autoconf:       2.69-r5::gentoo
sys-devel/automake:       1.16.2::gentoo
sys-devel/binutils:       2.34-r1::gentoo
sys-devel/gcc:            10.1.0-r2::gentoo
sys-devel/gcc-config:     2.3.1::gentoo
sys-devel/libtool:        2.4.6-r6::gentoo
sys-devel/make:           4.3::gentoo
sys-kernel/linux-headers: 5.7::gentoo (virtual/os-headers)
sys-libs/glibc:           2.31-r5::gentoo
Repositories:

gentoo
    location: /usr/portage
    sync-type: rsync
    sync-uri: rsync://rsync.gentoo.org/gentoo-portage
    priority: -1000
    sync-rsync-extra-opts: 
    sync-rsync-verify-jobs: 1
    sync-rsync-verify-max-age: 24
    sync-rsync-verify-metamanifest: yes

ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="*"
CBUILD="x86_64-pc-linux-gnu"
CC="x86_64-pc-linux-gnu-clang"
CFLAGS="-O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo"
CXX="x86_64-pc-linux-gnu-clang++"
CXXFLAGS="-O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color"
DISTDIR="/usr/portage/distfiles"
EMERGE_DEFAULT_OPTS="--with-bdeps=y --binpkg-respect-use=y -1 -b -k"
ENV_UNSET="DBUS_SESSION_BUS_ADDRESS DISPLAY 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"
FCFLAGS="-O2 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs buildpkg collision-protect config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync multilib-strict 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 -pipe -march=native -frecord-gcc-switches -fno-diagnostics-color"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LANG="C.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed -fuse-ld=lld -Wl,--defsym=__gentoo_check_ldflags__=0"
MAKEOPTS="-j2 V=1"
PKGDIR="/root/.packages"
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"
USE="acl amd64 berkdb bzip2 cli crypt dri fortran gdbm iconv ipv6 libtirpc multilib ncurses nls nptl openmp pam pcre readline seccomp split-usr ssl tcpd unicode xattr zlib" ABI_X86="64" ADA_TARGET="gnat_2018" ALSA_CARDS="ali5451 als4000 atiixp atiixp-modem bt87x ca0106 cmipci emu10k1x ens1370 ens1371 es1938 es1968 fm801 hda-intel intel8x0 intel8x0m maestro3 trident usb-audio via82xx via82xx-modem ymfpci" APACHE2_MODULES="authn_core authz_core socache_shmcb unixd actions alias auth_basic authn_alias authn_anon authn_dbm authn_default authn_file authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgi cgid dav dav_fs dav_lock deflate dir disk_cache env expires ext_filter file_cache filter headers include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif speling status unique_id userdir usertrack vhost_alias" CALLIGRA_FEATURES="karbon sheets words" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="mmx mmxext sse sse2" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock greis isync itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf skytraq superstar2 timing tsip tripmate tnt ublox ubx" INPUT_DEVICES="libinput" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php7-2" POSTGRES_TARGETS="postgres10 postgres11" PYTHON_SINGLE_TARGET="python3_7" PYTHON_TARGETS="python2_7 python3_7" RUBY_TARGETS="ruby25" USERLAND="GNU" VIDEO_CARDS="amdgpu fbdev intel nouveau radeon radeonsi vesa dummy v4l" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account"
Unset:  CPPFLAGS, CTARGET, INSTALL_MASK, LC_ALL, LINGUAS, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS