Wed 18 Jul 09:57:49 BST 2018: starting build of gemma version 0.97+dfsg-3 on maul W: Download is performed unsandboxed as root as file 'gemma_0.97+dfsg-3.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) W: /root/.pbuilderrc does not exist I: using fakeroot in build. I: pbuilder: network access will be disabled during build I: Current time: Wed Jul 18 09:57:51 BST 2018 I: pbuilder-time-stamp: 1531904271 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-armhf.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: Mounting /dev I: Mounting /proc I: Mounting /sys I: policy-rc.d already exists I: Obtaining the cached apt archive contents I: Copying source file I: copying [gemma_0.97+dfsg-3.dsc] I: copying [./gemma_0.97+dfsg.orig.tar.gz] I: copying [./gemma_0.97+dfsg-3.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Fri Jun 15 20:15:39 2018 UTC gpgv: using RSA key 9A3C07BD06DE2F416E813A5D612EF1613E050F54 gpgv: issuer "bob.dybian@gmail.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./gemma_0.97+dfsg-3.dsc dpkg-source: info: extracting gemma in gemma-0.97+dfsg dpkg-source: info: unpacking gemma_0.97+dfsg.orig.tar.gz dpkg-source: info: unpacking gemma_0.97+dfsg-3.debian.tar.xz dpkg-source: info: applying Makefile.patch dpkg-source: info: applying Reproducible_builds.patch I: Installing the build-deps -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: armhf Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 10), gfortran, libopenblas-dev, libeigen3-dev, libgsl-dev, zlib1g-dev, catch, shunit2 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 11759 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper (>= 10); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on gfortran; however: Package gfortran is not installed. pbuilder-satisfydepends-dummy depends on libopenblas-dev; however: Package libopenblas-dev is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-dev is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on catch; however: Package catch is not installed. pbuilder-satisfydepends-dummy depends on shunit2; however: Package shunit2 is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{a} catch{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} gfortran{a} gfortran-7{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbsd0{a} libcroco3{a} libeigen3-dev{a} libelf1{a} libfile-stripnondeterminism-perl{a} libfreetype6{a} libgfortran-7-dev{a} libgfortran4{a} libglib2.0-0{a} libgraphite2-3{a} libgsl-dev{a} libgsl23{a} libgslcblas0{a} libharfbuzz0b{a} libicu-le-hb0{a} libicu60{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libopenblas-base{a} libopenblas-dev{a} libpipeline1{a} libpng16-16{a} libsigsegv2{a} libtimedate-perl{a} libtool{a} libxml2{a} m4{a} man-db{a} pkg-config{a} po-debconf{a} shunit2{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl lynx shared-mime-info wget xdg-user-dirs 0 packages upgraded, 51 newly installed, 0 to remove and 0 not upgraded. Need to get 39.3 kB/34.5 MB of archives. After unpacking 119 MB will be used. Writing extended state information... Get: 1 http://mirror.einval.org/debian unstable/main armhf shunit2 all 2.1.6-1.1 [39.3 kB] Fetched 39.3 kB in 0s (1329 kB/s) debconf: delaying package configuration, since apt-utils is not installed E: Can not write log (Is /dev/pts mounted?) - posix_openpt (19: No such device) Selecting previously unselected package libbsd0:armhf. (Reading database ... 11759 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-1_armhf.deb ... Unpacking libbsd0:armhf (0.9.1-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_armhf.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.3-10_armhf.deb ... Unpacking groff-base (1.22.3-10) ... Selecting previously unselected package libpipeline1:armhf. 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Setting up libtimedate-perl (2.3000-2) ... Setting up libsigsegv2:armhf (2.12-2) ... Setting up libelf1:armhf (0.170-0.5) ... Setting up groff-base (1.22.3-10) ... Setting up libglib2.0-0:armhf (2.56.1-2) ... No schema files found: doing nothing. Setting up gettext-base (0.19.8.1-6+b1) ... Setting up libpipeline1:armhf (1.5.0-1) ... Setting up m4 (1.4.18-1) ... Setting up libbsd0:armhf (0.9.1-1) ... Setting up libfreetype6:armhf (2.8.1-2) ... Setting up libmagic-mgc (1:5.33-3) ... Setting up libmagic1:armhf (1:5.33-3) ... Setting up libgraphite2-3:armhf (1.3.11-2) ... Setting up pkg-config (0.29-4+b1) ... Processing triggers for libc-bin (2.27-4) ... Setting up dwz (0.12-2) ... Setting up autotools-dev (20180224.1) ... Setting up shunit2 (2.1.6-1.1) ... Setting up libgfortran-7-dev:armhf (7.3.0-24) ... Setting up gfortran-7 (7.3.0-24) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgslcblas0:armhf (2.5+dfsg-4) ... Setting up libncurses6:armhf (6.1+20180210-4) ... Setting up catch (1.12.1-1) ... Setting up autopoint (0.19.8.1-6) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1) ... Setting up libfile-stripnondeterminism-perl (0.042-1) ... Setting up libopenblas-base:armhf (0.3.1+ds-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/openblas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode update-alternatives: using /usr/lib/arm-linux-gnueabihf/openblas/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up gfortran (4:7.3.0-3) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libgsl23:armhf (2.5+dfsg-4) ... Setting up libgsl-dev (2.5+dfsg-4) ... Setting up libeigen3-dev (3.3.4-4) ... Setting up libharfbuzz0b:armhf (1.8.2-2) ... Setting up autoconf (2.69-11) ... Setting up file (1:5.33-3) ... Setting up automake (1:1.15.1-3.1) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.8.3-2) ... Building database of manual pages ... Setting up libopenblas-dev:armhf (0.3.1+ds-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/openblas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode update-alternatives: using /usr/lib/arm-linux-gnueabihf/openblas/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode Setting up libtool (2.4.6-2.1) ... Setting up libicu-le-hb0:armhf (1.0.3+git161113-5) ... Setting up libicu60:armhf (60.2-6) ... Setting up libxml2:armhf (2.9.4+dfsg1-7+b1) ... Setting up libcroco3:armhf (0.6.12-2) ... Setting up gettext (0.19.8.1-6+b1) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up po-debconf (1.0.20) ... Setting up debhelper (11.3.5) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (0.042-1) ... Processing triggers for libc-bin (2.27-4) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libfakeroot The following NEW packages will be installed: fakeroot libfakeroot debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/126 kB of archives. After this operation, 307 kB of additional disk space will be used. E: Can not write log (Is /dev/pts mounted?) - posix_openpt (19: No such device) Selecting previously unselected package libfakeroot:armhf. (Reading database ... 14859 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.23-1_armhf.deb ... Unpacking libfakeroot:armhf (1.23-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.23-1_armhf.deb ... Unpacking fakeroot (1.23-1) ... Processing triggers for libc-bin (2.27-4) ... Setting up libfakeroot:armhf (1.23-1) ... Processing triggers for man-db (2.8.3-2) ... Setting up fakeroot (1.23-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.27-4) ... I: Copying back the cached apt archive contents I: new cache content 'shunit2_2.1.6-1.1_all.deb' added I: Building the package I: Running cd /build/gemma-0.97+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin" HOME="/nonexistent" dpkg-buildpackage -us -uc -rfakeroot dpkg-buildpackage: info: source package gemma dpkg-buildpackage: info: source version 0.97+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Dylan Aïssi dpkg-source --before-build gemma-0.97+dfsg dpkg-buildpackage: info: host architecture armhf fakeroot debian/rules clean dh clean dh_auto_clean make -j4 clean make[1]: Entering directory '/build/gemma-0.97+dfsg' rm -vf ./src/version.h rm -vf ./src/*.o rm -vf ./src/*~ rm -vf ./test/src/*.o rm -vf ./bin/gemma rm -vf ./bin/unittests-gemma make[1]: Leaving directory '/build/gemma-0.97+dfsg' debian/rules override_dh_clean make[1]: Entering directory '/build/gemma-0.97+dfsg' dh_clean rm -f *.log rm -rf test/output/ rm -f bin/gemma make[1]: Leaving directory '/build/gemma-0.97+dfsg' dpkg-source -b gemma-0.97+dfsg dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building gemma using existing ./gemma_0.97+dfsg.orig.tar.gz dpkg-source: info: building gemma in gemma_0.97+dfsg-3.debian.tar.xz dpkg-source: info: building gemma in gemma_0.97+dfsg-3.dsc debian/rules build dh build dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j4 make[1]: Entering directory '/build/gemma-0.97+dfsg' ./scripts/gen_version_info.sh > src/version.h g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/bslmm.o src/bslmm.cpp g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/bslmmdap.o src/bslmmdap.cpp g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/debug.o src/debug.cpp g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/eigenlib.o src/eigenlib.cpp g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/fastblas.o src/fastblas.cpp In file included from /usr/include/c++/7/map:60:0, from src/param.h:27, from src/bslmmdap.h:22, from src/bslmmdap.cpp:41: /usr/include/c++/7/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]': /usr/include/c++/7/bits/stl_tree.h:2395:7: note: parameter passing for argument of type 'std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator {aka std::_Rb_tree_const_iterator >}' changed in GCC 7.1 _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/gemma.o src/gemma.cpp src/gemma.cpp:29:17: note: #pragma message: Compiling with OPENBLAS #pragma message "Compiling with OPENBLAS" ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/param.h:29, from src/bslmmdap.h:22, from src/bslmmdap.cpp:41: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/param.h:29, from src/bslmmdap.h:22, from src/bslmmdap.cpp:41: /usr/include/c++/7/bits/stl_vector.h: In member function 'void BSLMMDAP::DAP_CalcBF(const gsl_matrix*, const gsl_matrix*, const gsl_vector*, const gsl_vector*, const gsl_vector*)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/map:61:0, from src/param.h:27, from src/bslmmdap.h:22, from src/bslmmdap.cpp:41: /usr/include/c++/7/bits/stl_map.h: In function 'void single_ct_regression(const gsl_matrix_int*, const gsl_vector_int*, const gsl_vector*, gsl_vector*, gsl_vector*)': /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator {aka std::_Rb_tree_const_iterator >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator {aka std::_Rb_tree_const_iterator >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator {aka std::_Rb_tree_const_iterator >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator {aka std::_Rb_tree_const_iterator >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator {aka std::_Rb_tree_const_iterator >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator {aka std::_Rb_tree_const_iterator >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator {aka std::_Rb_tree_const_iterator >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator {aka std::_Rb_tree_const_iterator >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ In file included from /usr/include/c++/7/vector:69:0, from src/bslmm.h:25, from src/bslmm.cpp:41: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector >::iterator {aka __gnu_cxx::__normal_iterator*, std::vector > >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/param.h:29, from src/bslmmdap.h:22, from src/bslmmdap.cpp:41: /usr/include/c++/7/bits/stl_vector.h: In member function 'void BSLMMDAP::DAP_EstimateHyper(size_t, size_t, const std::vector >&, const std::vector&, const std::vector&, const std::vector&, const std::vector > >&, gsl_matrix*, gsl_matrix_int*, gsl_vector_int*)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/bits/stl_algo.h:62:0, from /usr/include/c++/7/algorithm:62, from src/bslmm.cpp:23: /usr/include/c++/7/bits/stl_tempbuf.h: In constructor 'std::_Temporary_buffer<_ForwardIterator, _Tp>::_Temporary_buffer(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Tp = std::pair]': /usr/include/c++/7/bits/stl_tempbuf.h:243:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _Temporary_buffer<_ForwardIterator, _Tp>:: ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_tempbuf.h:243:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 In file included from /usr/include/c++/7/vector:69:0, from src/bslmm.h:25, from src/bslmm.cpp:41: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/algorithm:62:0, from src/bslmm.cpp:23: /usr/include/c++/7/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, std::pair)>]': /usr/include/c++/7/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __insertion_sort(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h: In function 'void std::__move_merge_adaptive_backward(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator2, _BidirectionalIterator2, _BidirectionalIterator3, _Compare) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator*, std::vector > >; _BidirectionalIterator2 = std::pair*; _BidirectionalIterator3 = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, std::pair)>]': /usr/include/c++/7/bits/stl_algo.h:2330:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __move_merge_adaptive_backward(_BidirectionalIterator1 __first1, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2330:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2330:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2330:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h: In function '_RandomAccessIterator std::_V2::__rotate(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >]': /usr/include/c++/7/bits/stl_algo.h:1328:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __rotate(_RandomAccessIterator __first, ^~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:1328:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:1328:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:1328:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h: In function 'void std::__merge_without_buffer(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, std::pair)>]': /usr/include/c++/7/bits/stl_algo.h:2476:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __merge_without_buffer(_BidirectionalIterator __first, ^~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2476:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2476:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:1444:40: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__iterator_category(__first)); ^ /usr/include/c++/7/bits/stl_algo.h:2518:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__merge_without_buffer(__first, __first_cut, __new_middle, ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __len11, __len22, __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2520:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__merge_without_buffer(__new_middle, __second_cut, __last, ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __len1 - __len11, __len2 - __len22, __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h: In function 'void std::__inplace_stable_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, std::pair)>]': /usr/include/c++/7/bits/stl_algo.h:2761:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __inplace_stable_sort(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2761:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2766:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__insertion_sort(__first, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2770:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__inplace_stable_sort(__first, __middle, __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2771:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__inplace_stable_sort(__middle, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2772:34: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__merge_without_buffer(__first, __middle, __last, ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ __middle - __first, ~~~~~~~~~~~~~~~~~~~ __last - __middle, ~~~~~~~~~~~~~~~~~~ __comp); ~~~~~~~ /usr/include/c++/7/bits/stl_algo.h: In function '_BidirectionalIterator1 std::__rotate_adaptive(_BidirectionalIterator1, _BidirectionalIterator1, _BidirectionalIterator1, _Distance, _Distance, _BidirectionalIterator2, _Distance) [with _BidirectionalIterator1 = __gnu_cxx::__normal_iterator*, std::vector > >; _BidirectionalIterator2 = std::pair*; _Distance = int]': /usr/include/c++/7/bits/stl_algo.h:2373:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __rotate_adaptive(_BidirectionalIterator1 __first, ^~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2373:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2373:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:1444:40: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__iterator_category(__first)); ^ /usr/include/c++/7/bits/stl_algo.h: In function 'void std::__merge_adaptive(_BidirectionalIterator, _BidirectionalIterator, _BidirectionalIterator, _Distance, _Distance, _Pointer, _Distance, _Compare) [with _BidirectionalIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Distance = int; _Pointer = std::pair*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, std::pair)>]': /usr/include/c++/7/bits/stl_algo.h:2415:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __merge_adaptive(_BidirectionalIterator __first, ^~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2415:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2415:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2431:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__move_merge_adaptive_backward(__first, __middle, __buffer, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __buffer_end, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2431:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2459:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _BidirectionalIterator __new_middle ^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2463:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__merge_adaptive(__first, __first_cut, __new_middle, __len11, ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __len22, __buffer, __buffer_size, __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2465:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__merge_adaptive(__new_middle, __second_cut, __last, ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __len1 - __len11, ~~~~~~~~~~~~~~~~~ __len2 - __len22, __buffer, ~~~~~~~~~~~~~~~~~~~~~~~~~~~ __buffer_size, __comp); ~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h: In function '_OutputIterator std::__move_merge(_InputIterator, _InputIterator, _InputIterator, _InputIterator, _OutputIterator, _Compare) [with _InputIterator = std::pair*; _OutputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, std::pair)>]': /usr/include/c++/7/bits/stl_algo.h:2639:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __move_merge(_InputIterator __first1, _InputIterator __last1, ^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h: In function 'void std::__merge_sort_with_buffer(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Pointer = std::pair*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, std::pair)>]': /usr/include/c++/7/bits/stl_algo.h:2705:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __merge_sort_with_buffer(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2705:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2695:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__insertion_sort(__first, __first + __chunk_size, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2698:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__insertion_sort(__first, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2674:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __result = std::__move_merge(__first, __first + __step_size, ^~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2682:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__move_merge(__first, __first + __step_size, ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __first + __step_size, __last, __result, __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2682:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2698:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__insertion_sort(__first, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h: In function 'void std::__stable_sort_adaptive(_RandomAccessIterator, _RandomAccessIterator, _Pointer, _Distance, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Pointer = std::pair*; _Distance = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, std::pair)>]': /usr/include/c++/7/bits/stl_algo.h:2732:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __stable_sort_adaptive(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2732:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2732:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/7/bits/stl_algo.h:2741:31: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__stable_sort_adaptive(__first, __middle, __buffer, ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __buffer_size, __comp); ~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2743:31: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__stable_sort_adaptive(__middle, __last, __buffer, ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ __buffer_size, __comp); ~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2748:33: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__merge_sort_with_buffer(__first, __middle, __buffer, __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2749:33: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__merge_sort_with_buffer(__middle, __last, __buffer, __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:2751:28: note: parameter passing for argument of type 'const __gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__merge_adaptive(__first, __middle, __last, ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ _Distance(__middle - __first), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _Distance(__last - __middle), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __buffer, __buffer_size, ~~~~~~~~~~~~~~~~~~~~~~~~ __comp); ~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/bslmm.h:25, from src/bslmm.cpp:41: /usr/include/c++/7/bits/vector.tcc: In member function 'void BSLMM::MCMC(const gsl_matrix*, const gsl_matrix*, const gsl_vector*, const gsl_vector*, const gsl_vector*)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/algorithm:62:0, from src/bslmm.cpp:23: /usr/include/c++/7/bits/stl_algo.h:5003:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _TmpBuf __buf(__first, __last); ^~~~~ /usr/include/c++/7/bits/stl_algo.h:5006:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__inplace_stable_sort(__first, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:5008:29: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__stable_sort_adaptive(__first, __last, __buf.begin(), ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _DistanceType(__buf.size()), __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/bslmm.h:25, from src/bslmm.cpp:41: /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In member function 'void BSLMM::MCMC(const gsl_matrix*, const gsl_vector*)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/algorithm:62:0, from src/bslmm.cpp:23: /usr/include/c++/7/bits/stl_algo.h:5003:15: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _TmpBuf __buf(__first, __last); ^~~~~ /usr/include/c++/7/bits/stl_algo.h:5006:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__inplace_stable_sort(__first, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_algo.h:5008:29: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__stable_sort_adaptive(__first, __last, __buf.begin(), ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _DistanceType(__buf.size()), __comp); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/gzstream.o src/gzstream.cpp g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/io.o src/io.cpp g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/lapack.o src/lapack.cpp g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/ldr.o src/ldr.cpp g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/lm.o src/lm.cpp In file included from /usr/include/c++/7/vector:69:0, from src/lapack.h:22, from src/lm.cpp:44: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const SUMSTAT&}; _Tp = SUMSTAT; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/lapack.h:22, from src/lm.cpp:44: /usr/include/c++/7/bits/stl_vector.h: In member function 'void LM::AnalyzePlink(const gsl_matrix*, const gsl_vector*)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h: In member function 'void LM::AnalyzeGene(const gsl_matrix*, const gsl_vector*)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h: In member function 'void LM::AnalyzeBimbam(const gsl_matrix*, const gsl_vector*)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/lapack.h:22, from src/lm.cpp:44: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector >::iterator {aka __gnu_cxx::__normal_iterator*, std::vector > >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In function 'void MatrixCalcLmLR(const gsl_matrix*, const gsl_vector*, std::vector >&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/lmm.o src/lmm.cpp g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/logistic.o src/logistic.cpp In file included from /usr/include/c++/7/vector:69:0, from /usr/include/c++/7/regex:51, from src/io.cpp:30: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const SNPINFO&}; _Tp = SNPINFO; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/main.o src/main.cpp In file included from /usr/include/c++/7/vector:64:0, from /usr/include/c++/7/regex:51, from src/io.cpp:30: /usr/include/c++/7/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = SNPINFO; _Alloc = std::allocator]': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h: In function 'bool ReadFile_bim(const string&, std::vector&)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/io.h:28, from src/lmm.cpp:46: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const SUMSTAT&}; _Tp = SUMSTAT; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector >::iterator {aka __gnu_cxx::__normal_iterator*, std::vector > >}' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector >::iterator {aka __gnu_cxx::__normal_iterator*, std::vector > >}' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector >::iterator {aka __gnu_cxx::__normal_iterator*, std::vector > >}' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc: In function 'void CalcLambda(char, FUNC_PARAM&, double, double, size_t, double&, double&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In function 'void CalcLambda(char, FUNC_PARAM&, double, double, size_t, double&, double&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In function 'void CalcLambda(char, FUNC_PARAM&, double, double, size_t, double&, double&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/io.h:28, from src/lmm.cpp:46: /usr/include/c++/7/bits/stl_vector.h: In member function 'void LMM::AnalyzeGene(const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_vector*)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/mathfunc.o src/mathfunc.cpp In file included from /usr/include/c++/7/vector:69:0, from src/io.h:28, from src/lmm.cpp:46: /usr/include/c++/7/bits/vector.tcc: In function 'void MatrixCalcLR(const gsl_matrix*, const gsl_matrix*, const gsl_vector*, const gsl_vector*, double, double, size_t, std::vector >&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/io.h:28, from src/lmm.cpp:46: /usr/include/c++/7/bits/stl_vector.h: In member function 'void LMM::AnalyzeBimbamGXE(const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_vector*, const gsl_vector*)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h: In member function 'void LMM::AnalyzePlinkGXE(const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_vector*, const gsl_vector*)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h: In member function 'void LMM::Analyze(std::function, std::allocator >, std::vector > >(unsigned int)>&, const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_vector*, std::set >)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h: In function 'bool ReadFile_cvt(const string&, std::vector&, std::vector >&, size_t&)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from /usr/include/c++/7/regex:51, from src/io.cpp:30: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In function 'void ReadFile_beta(const string&, const std::map, unsigned int>&, const std::map, double>&, std::vector&, std::vector&, std::vector&, std::vector&, size_t&, size_t&, size_t&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from /usr/include/c++/7/regex:51, from src/io.cpp:30: /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from /usr/include/c++/7/regex:51, from src/io.cpp:30: /usr/include/c++/7/bits/vector.tcc: In function 'bool ReadFile_column(const string&, std::vector&, std::vector&, const int&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from /usr/include/c++/7/regex:51, from src/io.cpp:30: /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from /usr/include/c++/7/regex:51, from src/io.cpp:30: /usr/include/c++/7/bits/vector.tcc: In function 'bool ReadFile_gene(const string&, std::vector&, std::vector&, size_t&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from /usr/include/c++/7/regex:51, from src/io.cpp:30: /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/mathfunc.cpp:35: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from /usr/include/c++/7/regex:51, from src/io.cpp:30: /usr/include/c++/7/bits/vector.tcc: In function 'void Calcq(size_t, const std::vector&, const std::vector&, const std::vector&, const std::vector&, gsl_matrix*, gsl_vector*, gsl_vector*)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In function 'void StandardizeMatrix(gsl_matrix*)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/mvlmm.o src/mvlmm.cpp g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/param.o src/param.cpp In file included from /usr/include/c++/7/map:60:0, from src/io.cpp:29: /usr/include/c++/7/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::allocator >&>, std::tuple<>}; _Key = std::__cxx11::basic_string; _Val = std::pair, double>; _KeyOfValue = std::_Select1st, double> >; _Compare = std::less >; _Alloc = std::allocator, double> >]': /usr/include/c++/7/bits/stl_tree.h:2395:7: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/map:61:0, from src/io.cpp:29: /usr/include/c++/7/bits/stl_map.h: In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = std::__cxx11::basic_string; _Tp = double; _Compare = std::less >; _Alloc = std::allocator, double> >]': /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ In file included from /usr/include/c++/7/vector:64:0, from /usr/include/c++/7/regex:51, from src/io.cpp:30: /usr/include/c++/7/bits/stl_vector.h: In function 'bool ReadFile_geno(const string&, const std::set >&, const gsl_matrix*, std::vector&, std::vector&, const double&, const double&, const double&, const double&, std::map, std::__cxx11::basic_string >&, std::map, long int>&, std::map, double>&, std::vector&, size_t&)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/prdt.o src/prdt.cpp In file included from /usr/include/c++/7/map:61:0, from src/io.cpp:29: /usr/include/c++/7/bits/stl_map.h: In function 'bool ReadFile_anno(const string&, std::map, std::__cxx11::basic_string >&, std::map, long int>&, std::map, double>&)': /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ /usr/include/c++/7/bits/stl_map.h: In function 'bool ReadFile_est(const string&, const std::vector&, std::map, double>&)': /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ /usr/include/c++/7/bits/stl_map.h: In function 'bool ReadFile_wsnp(const string&, std::map, double>&)': /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ In file included from /usr/include/c++/7/vector:69:0, from /usr/include/c++/7/regex:51, from src/io.cpp:30: /usr/include/c++/7/bits/vector.tcc: In function 'bool ReadFile_pheno(const string&, std::vector >&, std::vector >&, const std::vector&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In function 'bool ReadFile_fam(const string&, std::vector >&, std::vector >&, std::map, int>&, const std::vector&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/map:60:0, from src/io.h:27, from src/prdt.cpp:35: /usr/include/c++/7/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::allocator >&>, std::tuple<>}; _Key = std::__cxx11::basic_string; _Val = std::pair, double>; _KeyOfValue = std::_Select1st, double> >; _Compare = std::less >; _Alloc = std::allocator, double> >]': /usr/include/c++/7/bits/stl_tree.h:2395:7: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/map:61:0, from src/io.h:27, from src/prdt.cpp:35: /usr/include/c++/7/bits/stl_map.h: In member function 'void PRDT::AnalyzePlink(gsl_vector*)': /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ /usr/include/c++/7/bits/vector.tcc: In function 'bool ReadFile_wsnp(const string&, size_t, std::map, std::vector >&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/stl_map.h: In member function 'void PRDT::AnalyzeBimbam(gsl_vector*)': /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/varcov.o src/varcov.cpp In file included from /usr/include/c++/7/vector:69:0, from src/io.h:28, from src/mvlmm.cpp:42: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const MPHSUMSTAT&}; _Tp = MPHSUMSTAT; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc: In member function 'void MVLMM::AnalyzeBimbam(const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_matrix*)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/io.h:28, from src/mvlmm.cpp:42: /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/io.h:28, from src/mvlmm.cpp:42: /usr/include/c++/7/bits/vector.tcc: In member function 'void MVLMM::AnalyzePlink(const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_matrix*)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/io.h:28, from src/mvlmm.cpp:42: /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/io.h:28, from src/param.cpp:38: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In member function 'void PARAM::CheckCvt()': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In member function 'void PARAM::ProcessCvtPhen()': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/varcov.cpp:31: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc: In function 'void Calc_Cor(std::vector >&, std::vector&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In function 'void JackknifeAKtoS(const gsl_matrix*, const gsl_matrix*, const gsl_matrix*, gsl_matrix*, gsl_matrix*)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/io.h:28, from src/mvlmm.cpp:42: /usr/include/c++/7/bits/vector.tcc: In member function 'void MVLMM::AnalyzeBimbamGXE(const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_matrix*, const gsl_vector*)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/io.h:28, from src/mvlmm.cpp:42: /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const SNPINFO&}; _Tp = SNPINFO; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc: In member function 'void VARCOV::AnalyzePlink()': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/varcov.cpp:31: /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In member function 'void PARAM::UpdateWeight(size_t, const std::map, double>&, size_t, const gsl_vector*, std::map, double>&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/io.h:28, from src/mvlmm.cpp:42: /usr/include/c++/7/bits/vector.tcc: In member function 'void MVLMM::AnalyzePlinkGXE(const gsl_matrix*, const gsl_vector*, const gsl_matrix*, const gsl_matrix*, const gsl_vector*)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/io.h:28, from src/mvlmm.cpp:42: /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/varcov.cpp:31: /usr/include/c++/7/bits/vector.tcc: In member function 'void VARCOV::AnalyzeBimbam()': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/varcov.cpp:31: /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In member function 'void PARAM::ObtainWeight(const std::set >&, std::map, double>&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -g -O2 -fdebug-prefix-map=/build/gemma-0.97+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc -c -o src/vc.o src/vc.cpp In file included from /usr/include/c++/7/vector:69:0, from src/vc.cpp:33: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/vc.cpp:33: /usr/include/c++/7/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h: In function 'void CalcVCss(const gsl_matrix*, const gsl_matrix*, const gsl_matrix*, const gsl_vector*, const gsl_vector*, double, std::vector&, std::vector&, double&, double&, std::vector&, std::vector&, std::vector&, std::vector&)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:69:0, from src/vc.cpp:33: /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector::iterator {aka __gnu_cxx::__normal_iterator >}' changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/vector:64:0, from src/vc.cpp:33: /usr/include/c++/7/bits/stl_vector.h: In member function 'void VC::CalcVChe(const gsl_matrix*, const gsl_matrix*, const gsl_vector*)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h: In member function 'void VC::CalcVCreml(bool, const gsl_matrix*, const gsl_matrix*, const gsl_vector*)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h: In member function 'void VC::CalcVCacl(const gsl_matrix*, const gsl_matrix*, const gsl_vector*)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h: In function 'void CalcCIss(const gsl_matrix*, const gsl_matrix*, const gsl_matrix*, const gsl_matrix*, const gsl_matrix*, const gsl_vector*, const gsl_vector*, const gsl_vector*, const std::vector&, const std::vector&, std::vector&, double&, double&, std::vector&, std::vector&, std::vector&, std::vector&)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/map:60:0, from src/vc.cpp:28: /usr/include/c++/7/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::allocator >&>, std::tuple<>}; _Key = std::__cxx11::basic_string; _Val = std::pair, double>; _KeyOfValue = std::_Select1st, double> >; _Compare = std::less >; _Alloc = std::allocator, double> >]': /usr/include/c++/7/bits/stl_tree.h:2395:7: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/map:61:0, from src/vc.cpp:28: /usr/include/c++/7/bits/stl_map.h: In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = std::__cxx11::basic_string; _Tp = double; _Compare = std::less >; _Alloc = std::allocator, double> >]': /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ In file included from /usr/include/c++/7/vector:64:0, from src/vc.cpp:33: /usr/include/c++/7/bits/stl_vector.h: In function 'void ReadFile_cor(const string&, const std::set >&, std::vector >&, std::vector&, std::vector&, std::vector&, std::map, unsigned int>&, std::map, double>&)': /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/c++/7/bits/stl_vector.h:948:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/7/map:61:0, from src/vc.cpp:28: /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ In file included from /usr/include/c++/7/vector:69:0, from src/vc.cpp:33: /usr/include/c++/7/bits/vector.tcc: In function 'void ReadFile_beta(bool, const string&, const std::map, unsigned int>&, std::map, unsigned int>&, std::map, double>&, std::map, unsigned int>&, gsl_vector*, gsl_vector*, gsl_vector*, size_t&, size_t&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/7/map:61:0, from src/vc.cpp:28: /usr/include/c++/7/bits/stl_map.h:493:4: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, double>, std::_Select1st, double> >, std::less >, std::allocator, double> > >::const_iterator {aka std::_Rb_tree_const_iterator, double> >}' changed in GCC 7.1 __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, ^~~ In file included from /usr/include/c++/7/vector:69:0, from src/vc.cpp:33: /usr/include/c++/7/bits/vector.tcc: In function 'void ReadFile_cor(const string&, const std::vector >&, const std::vector&, const std::vector&, const std::vector&, const std::map, unsigned int>&, const std::map, unsigned int>&, const std::map, double>&, const std::map, unsigned int>&, size_t, const double&, const double&, const double&, gsl_matrix*, gsl_matrix*, gsl_vector*, size_t&, size_t&, size_t&, size_t&)': /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), std::forward<_Args>(__args)...); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DOPENBLAS -isystem//usr/include/x86_64-linux-gnu/ -g -Wall -O3 -std=gnu++11 -isystem//usr/include/eigen3 -I/usr/include/catch -Isrc src/bslmm.o src/bslmmdap.o src/debug.o src/eigenlib.o src/fastblas.o src/gemma.o src/gzstream.o src/io.o src/lapack.o src/ldr.o src/lm.o src/lmm.o src/logistic.o src/main.o src/mathfunc.o src/mvlmm.o src/param.o src/prdt.o src/varcov.o src/vc.o -lgsl -lopenblas -pthread -lz -lgfortran -lquadmath -o ./bin/gemma /usr/bin/ld: cannot find -lquadmath collect2: error: ld returned 1 exit status Makefile:155: recipe for target 'bin/gemma' failed make[1]: *** [bin/gemma] Error 1 make[1]: Leaving directory '/build/gemma-0.97+dfsg' dh_auto_build: make -j4 returned exit code 2 debian/rules:18: recipe for target 'build' failed make: *** [build] Error 2 dpkg-buildpackage: error: debian/rules build subprocess returned exit status 2 I: Terminate timeout process I: copying local configuration /usr/lib/pbuilder/pbuilder-modules: line 1: 28714 Terminated ( : Timeout process; sleep "${TIMEOUT_TIME}"; log.i "Terminating build process due to timeout "; kill "${BUILD_PID}" || true ) E: Failed autobuilding of package I: unmounting /sys filesystem I: unmounting /proc filesystem I: unmounting /dev filesystem I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env  I: removing directory /var/cache/pbuilder/build/6720 and its subdirectories FAILED to build: 1