libbpp-phyl →
2.4.1-2 →
armhf → 2019-03-12 12:52:34
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-02
+==============================================================================+
| libbpp-phyl 2.4.1-2 (armhf) Tue, 12 Mar 2019 12:26:15 +0000 |
+==============================================================================+
Package: libbpp-phyl
Version: 2.4.1-2
Source Version: 2.4.1-2
Distribution: buster-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/buster-staging-armhf-sbuild-81acff49-c0c1-4e52-9c71-28068e4acc99' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private buster-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private buster-staging/main Sources [11.4 MB]
Get:3 http://172.17.0.1/private buster-staging/main armhf Packages [13.1 MB]
Fetched 24.4 MB in 9s (2710 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'libbpp-phyl' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/libbpp-phyl.git
Please use:
git clone https://salsa.debian.org/med-team/libbpp-phyl.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 659 kB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main libbpp-phyl 2.4.1-2 (dsc) [2153 B]
Get:2 http://172.17.0.1/private buster-staging/main libbpp-phyl 2.4.1-2 (tar) [600 kB]
Get:3 http://172.17.0.1/private buster-staging/main libbpp-phyl 2.4.1-2 (diff) [56.4 kB]
Fetched 659 kB in 0s (3912 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/libbpp-phyl-6akONw/libbpp-phyl-2.4.1' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/libbpp-phyl-6akONw' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-wmP47M/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-wmP47M/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-wmP47M/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ Packages [432 B]
Fetched 2108 B in 0s (8728 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
ca-certificates dbus dbus-user-session e2fsprogs-l10n krb5-locales libexpat1
libgpg-error-l10n libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3
libkrb5support0 libnss-systemd libpam-systemd openssl systemd-sysv
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 33 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 15903 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 11~), cmake, d-shlibs (>= 0.82), libbpp-seq-dev (>= 2.4.1)
Filtered Build-Depends: debhelper (>= 11~), cmake, d-shlibs (>= 0.82), libbpp-seq-dev (>= 2.4.1)
dpkg-deb: building package 'sbuild-build-depends-libbpp-phyl-dummy' in '/<<BUILDDIR>>/resolver-wmP47M/apt_archive/sbuild-build-depends-libbpp-phyl-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-libbpp-phyl-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ Sources [522 B]
Get:5 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ Packages [603 B]
Fetched 2458 B in 0s (10.6 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install libbpp-phyl build dependencies (apt-based resolver)
-----------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
ca-certificates dbus dbus-user-session e2fsprogs-l10n krb5-locales
libgpg-error-l10n libnss-systemd libpam-systemd openssl systemd-sysv
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils cmake cmake-data
d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext
gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13
libbpp-core-dev libbpp-core4 libbpp-seq-dev libbpp-seq12 libbsd0 libcroco3
libcurl4 libelf1 libfile-stripnondeterminism-perl libglib2.0-0 libicu63
libjsoncpp1 libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5
librhash0 librtmp1 libsigsegv2 libssh2-1 libtool libuchardet0 libuv1 libxml2
m4 man-db po-debconf
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation cmake-doc ninja-build dh-make gettext-doc libasprintf-dev
libgettextpo-dev groff lrzip libtool-doc gfortran | fortran95-compiler
gcj-jdk m4-doc apparmor less www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs publicsuffix libltdl-dev libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils cmake cmake-data
d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext
gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13
libbpp-core-dev libbpp-core4 libbpp-seq-dev libbpp-seq12 libbsd0 libcroco3
libcurl4 libelf1 libfile-stripnondeterminism-perl libglib2.0-0 libicu63
libjsoncpp1 libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5
librhash0 librtmp1 libsigsegv2 libssh2-1 libtool libuchardet0 libuv1 libxml2
m4 man-db po-debconf sbuild-build-depends-libbpp-phyl-dummy
0 upgraded, 48 newly installed, 0 to remove and 33 not upgraded.
Need to get 25.6 MB/25.6 MB of archives.
After this operation, 108 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-wmP47M/apt_archive ./ sbuild-build-depends-libbpp-phyl-dummy 0.invalid.0 [892 B]
Get:2 http://172.17.0.1/private buster-staging/main armhf libbsd0 armhf 0.9.1-2 [104 kB]
Get:3 http://172.17.0.1/private buster-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:4 http://172.17.0.1/private buster-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:5 http://172.17.0.1/private buster-staging/main armhf groff-base armhf 1.22.4-3 [782 kB]
Get:6 http://172.17.0.1/private buster-staging/main armhf libpipeline1 armhf 1.5.1-2 [26.6 kB]
Get:7 http://172.17.0.1/private buster-staging/main armhf man-db armhf 2.8.5-2 [1230 kB]
Get:8 http://172.17.0.1/private buster-staging/main armhf libmagic-mgc armhf 1:5.35-2 [242 kB]
Get:9 http://172.17.0.1/private buster-staging/main armhf libmagic1 armhf 1:5.35-2 [109 kB]
Get:10 http://172.17.0.1/private buster-staging/main armhf file armhf 1:5.35-2 [65.1 kB]
Get:11 http://172.17.0.1/private buster-staging/main armhf gettext-base armhf 0.19.8.1-9 [117 kB]
Get:12 http://172.17.0.1/private buster-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:13 http://172.17.0.1/private buster-staging/main armhf m4 armhf 1.4.18-2 [185 kB]
Get:14 http://172.17.0.1/private buster-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:15 http://172.17.0.1/private buster-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:16 http://172.17.0.1/private buster-staging/main armhf automake all 1:1.16.1-4 [771 kB]
Get:17 http://172.17.0.1/private buster-staging/main armhf autopoint all 0.19.8.1-9 [434 kB]
Get:18 http://172.17.0.1/private buster-staging/main armhf cmake-data all 3.13.4-1 [1476 kB]
Get:19 http://172.17.0.1/private buster-staging/main armhf libicu63 armhf 63.1-6 [7973 kB]
Get:20 http://172.17.0.1/private buster-staging/main armhf libxml2 armhf 2.9.4+dfsg1-7+b1 [570 kB]
Get:21 http://172.17.0.1/private buster-staging/main armhf libarchive13 armhf 3.3.3-4 [270 kB]
Get:22 http://172.17.0.1/private buster-staging/main armhf libnghttp2-14 armhf 1.36.0-2 [73.6 kB]
Get:23 http://172.17.0.1/private buster-staging/main armhf libpsl5 armhf 0.20.2-2 [52.6 kB]
Get:24 http://172.17.0.1/private buster-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2 [54.0 kB]
Get:25 http://172.17.0.1/private buster-staging/main armhf libssh2-1 armhf 1.8.0-2 [125 kB]
Get:26 http://172.17.0.1/private buster-staging/main armhf libcurl4 armhf 7.64.0-1 [292 kB]
Get:27 http://172.17.0.1/private buster-staging/main armhf librhash0 armhf 1.3.8-1 [132 kB]
Get:28 http://172.17.0.1/private buster-staging/main armhf libuv1 armhf 1.24.1-1 [96.7 kB]
Get:29 http://172.17.0.1/private buster-staging/main armhf cmake armhf 3.13.4-1 [2559 kB]
Get:30 http://172.17.0.1/private buster-staging/main armhf d-shlibs all 0.84 [17.2 kB]
Get:31 http://172.17.0.1/private buster-staging/main armhf libtool all 2.4.6-9 [547 kB]
Get:32 http://172.17.0.1/private buster-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:33 http://172.17.0.1/private buster-staging/main armhf libarchive-zip-perl all 1.64-1 [96.8 kB]
Get:34 http://172.17.0.1/private buster-staging/main armhf libfile-stripnondeterminism-perl all 1.1.1-1 [19.7 kB]
Get:35 http://172.17.0.1/private buster-staging/main armhf dh-strip-nondeterminism all 1.1.1-1 [13.0 kB]
Get:36 http://172.17.0.1/private buster-staging/main armhf libelf1 armhf 0.176-1 [158 kB]
Get:37 http://172.17.0.1/private buster-staging/main armhf dwz armhf 0.12-3 [66.0 kB]
Get:38 http://172.17.0.1/private buster-staging/main armhf libglib2.0-0 armhf 2.58.3-1 [1077 kB]
Get:39 http://172.17.0.1/private buster-staging/main armhf libcroco3 armhf 0.6.12-3 [132 kB]
Get:40 http://172.17.0.1/private buster-staging/main armhf gettext armhf 0.19.8.1-9 [1219 kB]
Get:41 http://172.17.0.1/private buster-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:42 http://172.17.0.1/private buster-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:43 http://172.17.0.1/private buster-staging/main armhf debhelper all 12.1.1 [1016 kB]
Get:44 http://172.17.0.1/private buster-staging/main armhf libbpp-core4 armhf 2.4.1-3 [487 kB]
Get:45 http://172.17.0.1/private buster-staging/main armhf libbpp-core-dev armhf 2.4.1-3 [892 kB]
Get:46 http://172.17.0.1/private buster-staging/main armhf libbpp-seq12 armhf 2.4.1-2 [414 kB]
Get:47 http://172.17.0.1/private buster-staging/main armhf libbpp-seq-dev armhf 2.4.1-2 [692 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 25.6 MB in 3s (8937 kB/s)
Selecting previously unselected package libbsd0:armhf.
(Reading database ... 15903 files and directories currently installed.)
Preparing to unpack .../00-libbsd0_0.9.1-2_armhf.deb ...
Unpacking libbsd0:armhf (0.9.1-2) ...
Selecting previously unselected package bsdmainutils.
Preparing to unpack .../01-bsdmainutils_11.1.2_armhf.deb ...
Unpacking bsdmainutils (11.1.2) ...
Selecting previously unselected package libuchardet0:armhf.
Preparing to unpack .../02-libuchardet0_0.0.6-3_armhf.deb ...
Unpacking libuchardet0:armhf (0.0.6-3) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../03-groff-base_1.22.4-3_armhf.deb ...
Unpacking groff-base (1.22.4-3) ...
Selecting previously unselected package libpipeline1:armhf.
Preparing to unpack .../04-libpipeline1_1.5.1-2_armhf.deb ...
Unpacking libpipeline1:armhf (1.5.1-2) ...
Selecting previously unselected package man-db.
Preparing to unpack .../05-man-db_2.8.5-2_armhf.deb ...
Unpacking man-db (2.8.5-2) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../06-libmagic-mgc_1%3a5.35-2_armhf.deb ...
Unpacking libmagic-mgc (1:5.35-2) ...
Selecting previously unselected package libmagic1:armhf.
Preparing to unpack .../07-libmagic1_1%3a5.35-2_armhf.deb ...
Unpacking libmagic1:armhf (1:5.35-2) ...
Selecting previously unselected package file.
Preparing to unpack .../08-file_1%3a5.35-2_armhf.deb ...
Unpacking file (1:5.35-2) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../09-gettext-base_0.19.8.1-9_armhf.deb ...
Unpacking gettext-base (0.19.8.1-9) ...
Selecting previously unselected package libsigsegv2:armhf.
Preparing to unpack .../10-libsigsegv2_2.12-2_armhf.deb ...
Unpacking libsigsegv2:armhf (2.12-2) ...
Selecting previously unselected package m4.
Preparing to unpack .../11-m4_1.4.18-2_armhf.deb ...
Unpacking m4 (1.4.18-2) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../12-autoconf_2.69-11_all.deb ...
Unpacking autoconf (2.69-11) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../13-autotools-dev_20180224.1_all.deb ...
Unpacking autotools-dev (20180224.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../14-automake_1%3a1.16.1-4_all.deb ...
Unpacking automake (1:1.16.1-4) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../15-autopoint_0.19.8.1-9_all.deb ...
Unpacking autopoint (0.19.8.1-9) ...
Selecting previously unselected package cmake-data.
Preparing to unpack .../16-cmake-data_3.13.4-1_all.deb ...
Unpacking cmake-data (3.13.4-1) ...
Selecting previously unselected package libicu63:armhf.
Preparing to unpack .../17-libicu63_63.1-6_armhf.deb ...
Unpacking libicu63:armhf (63.1-6) ...
Selecting previously unselected package libxml2:armhf.
Preparing to unpack .../18-libxml2_2.9.4+dfsg1-7+b1_armhf.deb ...
Unpacking libxml2:armhf (2.9.4+dfsg1-7+b1) ...
Selecting previously unselected package libarchive13:armhf.
Preparing to unpack .../19-libarchive13_3.3.3-4_armhf.deb ...
Unpacking libarchive13:armhf (3.3.3-4) ...
Selecting previously unselected package libnghttp2-14:armhf.
Preparing to unpack .../20-libnghttp2-14_1.36.0-2_armhf.deb ...
Unpacking libnghttp2-14:armhf (1.36.0-2) ...
Selecting previously unselected package libpsl5:armhf.
Preparing to unpack .../21-libpsl5_0.20.2-2_armhf.deb ...
Unpacking libpsl5:armhf (0.20.2-2) ...
Selecting previously unselected package librtmp1:armhf.
Preparing to unpack .../22-librtmp1_2.4+20151223.gitfa8646d.1-2_armhf.deb ...
Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2) ...
Selecting previously unselected package libssh2-1:armhf.
Preparing to unpack .../23-libssh2-1_1.8.0-2_armhf.deb ...
Unpacking libssh2-1:armhf (1.8.0-2) ...
Selecting previously unselected package libcurl4:armhf.
Preparing to unpack .../24-libcurl4_7.64.0-1_armhf.deb ...
Unpacking libcurl4:armhf (7.64.0-1) ...
Selecting previously unselected package libjsoncpp1:armhf.
Preparing to unpack .../25-libjsoncpp1_1.7.4-3_armhf.deb ...
Unpacking libjsoncpp1:armhf (1.7.4-3) ...
Selecting previously unselected package librhash0:armhf.
Preparing to unpack .../26-librhash0_1.3.8-1_armhf.deb ...
Unpacking librhash0:armhf (1.3.8-1) ...
Selecting previously unselected package libuv1:armhf.
Preparing to unpack .../27-libuv1_1.24.1-1_armhf.deb ...
Unpacking libuv1:armhf (1.24.1-1) ...
Selecting previously unselected package cmake.
Preparing to unpack .../28-cmake_3.13.4-1_armhf.deb ...
Unpacking cmake (3.13.4-1) ...
Selecting previously unselected package d-shlibs.
Preparing to unpack .../29-d-shlibs_0.84_all.deb ...
Unpacking d-shlibs (0.84) ...
Selecting previously unselected package libtool.
Preparing to unpack .../30-libtool_2.4.6-9_all.deb ...
Unpacking libtool (2.4.6-9) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../31-dh-autoreconf_19_all.deb ...
Unpacking dh-autoreconf (19) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../32-libarchive-zip-perl_1.64-1_all.deb ...
Unpacking libarchive-zip-perl (1.64-1) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../33-libfile-stripnondeterminism-perl_1.1.1-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (1.1.1-1) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../34-dh-strip-nondeterminism_1.1.1-1_all.deb ...
Unpacking dh-strip-nondeterminism (1.1.1-1) ...
Selecting previously unselected package libelf1:armhf.
Preparing to unpack .../35-libelf1_0.176-1_armhf.deb ...
Unpacking libelf1:armhf (0.176-1) ...
Selecting previously unselected package dwz.
Preparing to unpack .../36-dwz_0.12-3_armhf.deb ...
Unpacking dwz (0.12-3) ...
Selecting previously unselected package libglib2.0-0:armhf.
Preparing to unpack .../37-libglib2.0-0_2.58.3-1_armhf.deb ...
Unpacking libglib2.0-0:armhf (2.58.3-1) ...
Selecting previously unselected package libcroco3:armhf.
Preparing to unpack .../38-libcroco3_0.6.12-3_armhf.deb ...
Unpacking libcroco3:armhf (0.6.12-3) ...
Selecting previously unselected package gettext.
Preparing to unpack .../39-gettext_0.19.8.1-9_armhf.deb ...
Unpacking gettext (0.19.8.1-9) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../40-intltool-debian_0.35.0+20060710.5_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.5) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../41-po-debconf_1.0.21_all.deb ...
Unpacking po-debconf (1.0.21) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../42-debhelper_12.1.1_all.deb ...
Unpacking debhelper (12.1.1) ...
Selecting previously unselected package libbpp-core4:armhf.
Preparing to unpack .../43-libbpp-core4_2.4.1-3_armhf.deb ...
Unpacking libbpp-core4:armhf (2.4.1-3) ...
Selecting previously unselected package libbpp-core-dev.
Preparing to unpack .../44-libbpp-core-dev_2.4.1-3_armhf.deb ...
Unpacking libbpp-core-dev (2.4.1-3) ...
Selecting previously unselected package libbpp-seq12:armhf.
Preparing to unpack .../45-libbpp-seq12_2.4.1-2_armhf.deb ...
Unpacking libbpp-seq12:armhf (2.4.1-2) ...
Selecting previously unselected package libbpp-seq-dev.
Preparing to unpack .../46-libbpp-seq-dev_2.4.1-2_armhf.deb ...
Unpacking libbpp-seq-dev (2.4.1-2) ...
Selecting previously unselected package sbuild-build-depends-libbpp-phyl-dummy.
Preparing to unpack .../47-sbuild-build-depends-libbpp-phyl-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-libbpp-phyl-dummy (0.invalid.0) ...
Setting up libpipeline1:armhf (1.5.1-2) ...
Setting up libpsl5:armhf (0.20.2-2) ...
Setting up libmagic-mgc (1:5.35-2) ...
Setting up libarchive-zip-perl (1.64-1) ...
Setting up libglib2.0-0:armhf (2.58.3-1) ...
No schema files found: removed existing output file.
Setting up libnghttp2-14:armhf (1.36.0-2) ...
Setting up libmagic1:armhf (1:5.35-2) ...
Setting up gettext-base (0.19.8.1-9) ...
Setting up file (1:5.35-2) ...
Setting up libicu63:armhf (63.1-6) ...
Setting up autotools-dev (20180224.1) ...
Setting up libuv1:armhf (1.24.1-1) ...
Setting up libbpp-core4:armhf (2.4.1-3) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up autopoint (0.19.8.1-9) ...
Setting up d-shlibs (0.84) ...
Setting up librhash0:armhf (1.3.8-1) ...
Setting up libuchardet0:armhf (0.0.6-3) ...
Setting up libssh2-1:armhf (1.8.0-2) ...
Setting up cmake-data (3.13.4-1) ...
Setting up libbpp-seq12:armhf (2.4.1-2) ...
Setting up libbsd0:armhf (0.9.1-2) ...
Setting up libelf1:armhf (0.176-1) ...
Setting up libxml2:armhf (2.9.4+dfsg1-7+b1) ...
Setting up libjsoncpp1:armhf (1.7.4-3) ...
Setting up libfile-stripnondeterminism-perl (1.1.1-1) ...
Setting up libtool (2.4.6-9) ...
Setting up libarchive13:armhf (3.3.3-4) ...
Setting up m4 (1.4.18-2) ...
Setting up libbpp-core-dev (2.4.1-3) ...
Setting up bsdmainutils (11.1.2) ...
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 libcroco3:armhf (0.6.12-3) ...
Setting up autoconf (2.69-11) ...
Setting up dwz (0.12-3) ...
Setting up groff-base (1.22.4-3) ...
Setting up libcurl4:armhf (7.64.0-1) ...
Setting up automake (1:1.16.1-4) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libbpp-seq-dev (2.4.1-2) ...
Setting up gettext (0.19.8.1-9) ...
Setting up man-db (2.8.5-2) ...
Not building database; man-db/auto-update is not 'true'.
Created symlink /etc/systemd/system/timers.target.wants/man-db.timer -> /lib/systemd/system/man-db.timer.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up cmake (3.13.4-1) ...
Setting up po-debconf (1.0.21) ...
Setting up dh-autoreconf (19) ...
Setting up debhelper (12.1.1) ...
Setting up sbuild-build-depends-libbpp-phyl-dummy (0.invalid.0) ...
Setting up dh-strip-nondeterminism (1.1.1-1) ...
Processing triggers for libc-bin (2.28-7+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.4.0-124-generic armhf (armv8l)
Toolchain package versions: binutils_2.31.1-11+rpi1 dpkg-dev_1.19.5 g++-8_8.2.0-21+rpi1 gcc-8_8.2.0-21+rpi1 libc6-dev_2.28-7+rpi1 libstdc++-8-dev_8.2.0-21+rpi1 libstdc++6_8.2.0-21+rpi1 linux-libc-dev_4.18.20-2+rpi1
Package versions: adduser_3.118 apt_1.8.0~rc3 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.1+rpi1 base-passwd_3.5.46 bash_5.0-2 binutils_2.31.1-11+rpi1 binutils-arm-linux-gnueabihf_2.31.1-11+rpi1 binutils-common_2.31.1-11+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.33.1-0.1 build-essential_12.5 bzip2_1.0.6-9 ca-certificates_20190110 cmake_3.13.4-1 cmake-data_3.13.4-1 coreutils_8.30-1 cpio_2.12+dfsg-6 cpp_4:8.2.0-2+rpi1 cpp-8_8.2.0-21+rpi1 d-shlibs_0.84 dash_0.5.10.2-5 dbus_1.12.12-1 dbus-user-session_1.12.12-1 debconf_1.5.70 debhelper_12.1.1 debianutils_4.8.6.1 dh-autoreconf_19 dh-strip-nondeterminism_1.1.1-1 diffutils_1:3.7-2 dirmngr_2.2.12-1+rpi1 dmsetup_2:1.02.155-2 dpkg_1.19.5 dpkg-dev_1.19.5 dwz_0.12-3 e2fslibs_1.44.5-1 e2fsprogs_1.44.5-1 e2fsprogs-l10n_1.44.5-1 fakeroot_1.23-1 fdisk_2.33.1-0.1 file_1:5.35-2 findutils_4.6.0+git+20190209-2 g++_4:8.2.0-2+rpi1 g++-8_8.2.0-21+rpi1 gcc_4:8.2.0-2+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.4-2+rpi1+b19 gcc-5-base_5.5.0-8 gcc-8_8.2.0-21+rpi1 gcc-8-base_8.2.0-21+rpi1 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gnupg_2.2.12-1+rpi1 gnupg-agent_2.2.12-1+rpi1 gnupg-l10n_2.2.12-1+rpi1 gnupg-utils_2.2.12-1+rpi1 gpg_2.2.12-1+rpi1 gpg-agent_2.2.12-1+rpi1 gpg-wks-client_2.2.12-1+rpi1 gpg-wks-server_2.2.12-1+rpi1 gpgconf_2.2.12-1+rpi1 gpgsm_2.2.12-1+rpi1 gpgv_2.2.12-1+rpi1 grep_3.3-1 groff-base_1.22.4-3 gzip_1.9-3 hostname_3.21 inetutils-ping_2:1.9.4-7 init-system-helpers_1.56+nmu1 initramfs-tools_0.133 initramfs-tools-core_0.133 intltool-debian_0.35.0+20060710.5 klibc-utils_2.0.6-1+rpi1 kmod_26-1 krb5-locales_1.17-1 libacl1_2.2.52-5 libapparmor1_2.13.2-7 libapt-pkg5.0_1.8.0~rc3 libarchive-zip-perl_1.64-1 libarchive13_3.3.3-4 libargon2-1_0~20171227-0.2 libasan5_8.2.0-21+rpi1 libassuan0_2.5.2-1 libatomic1_8.2.0-21+rpi1 libattr1_1:2.4.47-4 libaudit-common_1:2.8.4-2 libaudit1_1:2.8.4-2+b1 libbinutils_2.31.1-11+rpi1 libblkid1_2.33.1-0.1 libbpp-core-dev_2.4.1-3 libbpp-core4_2.4.1-3 libbpp-seq-dev_2.4.1-2 libbpp-seq12_2.4.1-2 libbsd0_0.9.1-2 libbz2-1.0_1.0.6-9 libc-bin_2.28-7+rpi1 libc-dev-bin_2.28-7+rpi1 libc6_2.28-7+rpi1 libc6-dev_2.28-7+rpi1 libcap-ng0_0.7.9-2 libcap2_1:2.25-2 libcc1-0_8.2.0-21+rpi1 libcom-err2_1.44.5-1 libcroco3_0.6.12-3 libcryptsetup12_2:2.1.0-1 libcryptsetup4_2:1.7.5-1 libcurl4_7.64.0-1 libdb5.3_5.3.28+dfsg1-0.3 libdbus-1-3_1.12.12-1 libdebconfclient0_0.247 libdevmapper1.02.1_2:1.02.155-2 libdpkg-perl_1.19.5 libdrm-common_2.4.97-1+rpi1 libdrm2_2.4.97-1+rpi1 libelf1_0.176-1 libexpat1_2.2.6-1 libext2fs2_1.44.5-1 libfakeroot_1.23-1 libfdisk1_2.33.1-0.1 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.1.1-1 libgcc-8-dev_8.2.0-21+rpi1 libgcc1_1:8.2.0-21+rpi1 libgcrypt20_1.8.4-5 libgdbm-compat4_1.18.1-3 libgdbm3_1.8.3-14 libgdbm6_1.18.1-3 libglib2.0-0_2.58.3-1 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.6-2 libgomp1_8.2.0-21+rpi1 libgpg-error-l10n_1.35-1 libgpg-error0_1.35-1 libgssapi-krb5-2_1.17-1 libhogweed4_3.4.1-1 libicu63_63.1-6 libidn11_1.33-2.2 libidn2-0_2.0.5-1 libip4tc0_1.8.2-3 libisl19_0.20-2 libjson-c3_0.12.1+ds-2 libjsoncpp1_1.7.4-3 libk5crypto3_1.17-1 libkeyutils1_1.6-2 libklibc_2.0.6-1+rpi1 libkmod2_26-1 libkrb5-3_1.17-1 libkrb5support0_1.17-1 libksba8_1.3.5-2 libldap-2.4-2_2.4.47+dfsg-3+rpi1 libldap-common_2.4.47+dfsg-3+rpi1 liblz4-1_1.8.3-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.35-2 libmagic1_1:5.35-2 libmount1_2.33.1-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncurses5_6.1+20181013-2 libncurses6_6.1+20181013-2 libncursesw5_6.1+20181013-2 libncursesw6_6.1+20181013-2 libnettle6_3.4.1-1 libnghttp2-14_1.36.0-2 libnpth0_1.6-1 libnss-systemd_241-1+rpi1 libp11-kit0_0.23.15-2 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam-systemd_241-1+rpi1 libpam0g_1.3.1-5 libpcre3_2:8.39-11+rpi1 libperl5.24_5.24.1-7 libperl5.28_5.28.1-4 libpipeline1_1.5.1-2 libplymouth4_0.9.4-1 libpng16-16_1.6.36-5 libprocps7_2:3.3.15-2 libpsl5_0.20.2-2 libreadline7_7.0-5 librhash0_1.3.8-1 librtmp1_2.4+20151223.gitfa8646d.1-2 libsasl2-2_2.1.27+dfsg-1 libsasl2-modules-db_2.1.27+dfsg-1 libseccomp2_2.3.3-4 libselinux1_2.8-1+b1 libsemanage-common_2.8-2 libsemanage1_2.8-2 libsepol1_2.8-1 libsigsegv2_2.12-2 libsmartcols1_2.33.1-0.1 libsqlite3-0_3.26.0+fossilbc891ac6b-2 libss2_1.44.5-1 libssh2-1_1.8.0-2 libssl1.1_1.1.1a-1 libstdc++-8-dev_8.2.0-21+rpi1 libstdc++6_8.2.0-21+rpi1 libsystemd0_241-1+rpi1 libtasn1-6_4.13-3 libtinfo5_6.1+20181013-2 libtinfo6_6.1+20181013-2 libtool_2.4.6-9 libubsan1_8.2.0-21+rpi1 libuchardet0_0.0.6-3 libudev1_241-1+rpi1 libunistring2_0.9.10-1 libustr-1.0-1_1.0.4-6 libuuid1_2.33.1-0.1 libuv1_1.24.1-1 libxml2_2.9.4+dfsg1-7+b1 libzstd1_1.3.8+dfsg-3+rpi1 linux-base_4.5 linux-libc-dev_4.18.20-2+rpi1 login_1:4.5-1.1 lsb-base_10.2018112800+rpi1 m4_1.4.18-2 make_4.2.1-1.2 makedev_2.3.1-94 man-db_2.8.5-2 mawk_1.3.3-17 mount_2.33.1-0.1 multiarch-support_2.28-7+rpi1 nano_3.2-2 ncurses-base_6.1+20181013-2 ncurses-bin_6.1+20181013-2 netbase_5.6 openssl_1.1.1a-1 passwd_1:4.5-1.1 patch_2.7.6-3 perl_5.28.1-4 perl-base_5.28.1-4 perl-modules-5.24_5.24.1-7 perl-modules-5.28_5.28.1-4 pinentry-curses_1.1.0-1 plymouth_0.9.4-1 po-debconf_1.0.21 procps_2:3.3.15-2 raspbian-archive-keyring_20120528.2 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-libbpp-phyl-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 systemd_241-1+rpi1 systemd-sysv_241-1+rpi1 sysvinit-utils_2.93-8 tar_1.30+dfsg-5 tzdata_2018i-1 udev_241-1+rpi1 util-linux_2.33.1-0.1 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Fri Mar 1 17:21:34 2019 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./libbpp-phyl_2.4.1-2.dsc
dpkg-source: info: extracting libbpp-phyl in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking libbpp-phyl_2.4.1.orig.tar.gz
dpkg-source: info: unpacking libbpp-phyl_2.4.1-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying unforce-cxxflags.patch
dpkg-source: info: applying increase_test_tolerance.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=buster-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=buster-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=buster-staging-armhf-sbuild-81acff49-c0c1-4e52-9c71-28068e4acc99
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package libbpp-phyl
dpkg-buildpackage: info: source version 2.4.1-2
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_clean
debian/rules build-arch
dh build-arch
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
cd obj-arm-linux-gnueabihf && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf ..
-- The CXX compiler identification is GNU 8.2.0
-- Check for working CXX compiler: /usr/bin/c++
-- Check for working CXX compiler: /usr/bin/c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- bpp-core 4.1.0 found:
-- static lib: /usr/lib/arm-linux-gnueabihf/libbpp-core.a
-- shared lib: /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
-- includes: /usr/include
-- bpp-seq 12.0.0 found:
-- static lib: /usr/lib/arm-linux-gnueabihf/libbpp-seq.a
-- shared lib: /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0
-- includes: /usr/include
-- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE)
-- Configuring done
-- Generating done
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_EXPORT_NO_PACKAGE_REGISTRY
-- Build files have been written to: /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf
dh_auto_build -a
cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<PKGBUILDDIR>> -B/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/CMakeFiles /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
make[2]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/bpp-phyl-shared.dir/build.make src/CMakeFiles/bpp-phyl-shared.dir/depend
make -f src/CMakeFiles/bpp-phyl-static.dir/build.make src/CMakeFiles/bpp-phyl-static.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/CMakeFiles/bpp-phyl-shared.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/CMakeFiles/bpp-phyl-static.dir/DependInfo.cmake --color=
Scanning dependencies of target bpp-phyl-static
Scanning dependencies of target bpp-phyl-shared
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/bpp-phyl-static.dir/build.make src/CMakeFiles/bpp-phyl-static.dir/build
make -f src/CMakeFiles/bpp-phyl-shared.dir/build.make src/CMakeFiles/bpp-phyl-shared.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 0%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp.o
[ 0%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/BipartitionList.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp
[ 0%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/BipartitionList.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/BipartitionList.cpp
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp
[ 0%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionList.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionList.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/BipartitionList.cpp
[ 0%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/BipartitionTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/BipartitionTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/BipartitionTools.cpp
[ 1%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp
[ 1%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/BipartitionTools.cpp
[ 2%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp
[ 2%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/BioNJ.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/BioNJ.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/BioNJ.cpp
[ 2%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/DistanceEstimation.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/DistanceEstimation.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/DistanceEstimation.cpp
[ 2%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/BioNJ.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/BioNJ.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/BioNJ.cpp
[ 2%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/DistanceEstimation.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/DistanceEstimation.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/DistanceEstimation.cpp
[ 2%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/HierarchicalClustering.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/HierarchicalClustering.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/HierarchicalClustering.cpp
[ 3%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/HierarchicalClustering.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/HierarchicalClustering.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/HierarchicalClustering.cpp
[ 4%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/NeighborJoining.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/NeighborJoining.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/NeighborJoining.cpp
[ 4%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/NeighborJoining.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/NeighborJoining.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/NeighborJoining.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/HierarchicalClustering.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/HierarchicalClustering.cpp:41:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/HierarchicalClustering.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/HierarchicalClustering.cpp:41:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::NodeTemplate<bpp::ClusterInfos>]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/HierarchicalClustering.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/HierarchicalClustering.cpp:41:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/HierarchicalClustering.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/HierarchicalClustering.cpp:41:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::NodeTemplate<bpp::ClusterInfos>]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 4%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/PGMA.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/PGMA.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/PGMA.cpp
[ 4%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp
[ 4%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/PGMA.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/PGMA.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/PGMA.cpp
[ 4%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/PGMA.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/PGMA.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/PGMA.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/PGMA.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::NodeTemplate<bpp::PGMAInfos>]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 5%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp
[ 6%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/PGMA.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/PGMA.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/PGMA.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Distance/PGMA.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::NodeTemplate<bpp::PGMAInfos>]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 6%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/CladogramPlot.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/CladogramPlot.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/CladogramPlot.cpp
[ 6%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/CladogramPlot.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/CladogramPlot.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/CladogramPlot.cpp
[ 6%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/PhylogramPlot.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/PhylogramPlot.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/PhylogramPlot.cpp
[ 6%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/PhylogramPlot.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/PhylogramPlot.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/PhylogramPlot.cpp
[ 7%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.cpp
[ 7%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/TreeDrawingListener.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/TreeDrawingListener.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/TreeDrawingListener.cpp
[ 7%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.cpp
[ 7%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOFrequenciesSetFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOFrequenciesSetFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOFrequenciesSetFormat.cpp
[ 7%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOMultiTreeReaderFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOMultiTreeReaderFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOMultiTreeReaderFormat.cpp
[ 8%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOMultiTreeWriterFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOMultiTreeWriterFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOMultiTreeWriterFormat.cpp
[ 9%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/TreeDrawingListener.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/TreeDrawingListener.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Graphics/TreeDrawingListener.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/../Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/../Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/../Model/SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoFrequenciesSetFactory.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOFrequenciesSetFormat.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOFrequenciesSetFormat.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void bpp::BppOFrequenciesSetFormat::initialize_(bpp::FrequenciesSet&, const bpp::SiteContainer*)':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 9%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppORateDistributionFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppORateDistributionFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppORateDistributionFormat.cpp
[ 9%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp
[ 9%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOFrequenciesSetFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOFrequenciesSetFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOFrequenciesSetFormat.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Prob/DiscreteDistribution.h:43,
from /usr/include/Bpp/Io/IoDiscreteDistributionFactory.h:43,
from /usr/include/Bpp/Io/BppODiscreteDistributionFormat.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppORateDistributionFormat.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppORateDistributionFormat.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
[ 9%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOTransitionModelFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOTransitionModelFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOTransitionModelFormat.cpp
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Prob/DiscreteDistribution.h:43,
from /usr/include/Bpp/Io/IoDiscreteDistributionFactory.h:43,
from /usr/include/Bpp/Io/BppODiscreteDistributionFormat.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppORateDistributionFormat.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppORateDistributionFormat.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'virtual bpp::DiscreteDistribution* bpp::BppORateDistributionFormat::read(const string&, bool)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 10%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOTreeReaderFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOTreeReaderFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOTreeReaderFormat.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/../Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/../Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/../Model/SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoFrequenciesSetFactory.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOFrequenciesSetFormat.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOFrequenciesSetFormat.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void bpp::BppOFrequenciesSetFormat::initialize_(bpp::FrequenciesSet&, const bpp::SiteContainer*)':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 10%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOTreeWriterFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOTreeWriterFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOTreeWriterFormat.cpp
[ 10%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp
[ 11%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoFrequenciesSetFactory.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoFrequenciesSetFactory.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoFrequenciesSetFactory.cpp
[ 11%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOMultiTreeReaderFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOMultiTreeReaderFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOMultiTreeReaderFormat.cpp
[ 11%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoPairedSiteLikelihoods.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoPairedSiteLikelihoods.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoPairedSiteLikelihoods.cpp
[ 11%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp
[ 11%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOMultiTreeWriterFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOMultiTreeWriterFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOMultiTreeWriterFormat.cpp
[ 11%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoTreeFactory.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoTreeFactory.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoTreeFactory.cpp
[ 12%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppORateDistributionFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppORateDistributionFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppORateDistributionFormat.cpp
[ 13%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/Newick.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/Newick.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/Newick.cpp
[ 13%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/NexusIoTree.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/NexusIoTree.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/NexusIoTree.cpp
[ 13%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/Nhx.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/Nhx.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/Nhx.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Prob/DiscreteDistribution.h:43,
from /usr/include/Bpp/Io/IoDiscreteDistributionFactory.h:43,
from /usr/include/Bpp/Io/BppODiscreteDistributionFormat.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppORateDistributionFormat.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppORateDistributionFormat.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
[ 13%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.cpp
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Prob/DiscreteDistribution.h:43,
from /usr/include/Bpp/Io/IoDiscreteDistributionFactory.h:43,
from /usr/include/Bpp/Io/BppODiscreteDistributionFormat.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppORateDistributionFormat.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppORateDistributionFormat.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'virtual bpp::DiscreteDistribution* bpp::BppORateDistributionFormat::read(const string&, bool)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 14%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.cpp
[ 14%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp
[ 14%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTransitionModelFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTransitionModelFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOTransitionModelFormat.cpp
[ 14%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.cpp
[ 14%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.cpp
[ 15%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTreeReaderFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTreeReaderFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOTreeReaderFormat.cpp
[ 15%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTreeWriterFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTreeWriterFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/BppOTreeWriterFormat.cpp
[ 16%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.cpp
[ 16%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp
[ 16%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp
[ 16%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp:41:
/usr/include/c++/8/bits/vector.tcc: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::iterator) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:172:5: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc:172:5: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp:41:
/usr/include/c++/8/bits/stl_vector.h: In member function 'void bpp::DRASDRTreeLikelihoodData::reInit(const bpp::Node*)':
/usr/include/c++/8/bits/stl_vector.h:1348:71: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg));
^
/usr/include/c++/8/bits/stl_vector.h:1348:71: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg));
^
[ 16%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp
[ 16%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoFrequenciesSetFactory.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoFrequenciesSetFactory.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoFrequenciesSetFactory.cpp
[ 17%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoPairedSiteLikelihoods.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoPairedSiteLikelihoods.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoPairedSiteLikelihoods.cpp
[ 17%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp
[ 17%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoTreeFactory.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoTreeFactory.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/IoTreeFactory.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/bits/stl_vector.h: In member function 'bpp::DRHomogeneousMixedTreeLikelihood& bpp::DRHomogeneousMixedTreeLikelihood::operator=(const bpp::DRHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::DRHomogeneousMixedTreeLikelihood::DRHomogeneousMixedTreeLikelihood(const bpp::DRHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::DRHomogeneousMixedTreeLikelihood::DRHomogeneousMixedTreeLikelihood(const bpp::DRHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 17%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/Newick.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/Newick.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/Newick.cpp
[ 18%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'virtual double bpp::DRHomogeneousMixedTreeLikelihood::getLogLikelihood() const':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 19%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/NexusIoTree.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/NexusIoTree.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/NexusIoTree.cpp
[ 19%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp
[ 19%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRTreeLikelihoodTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRTreeLikelihoodTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRTreeLikelihoodTools.cpp
[ 19%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/Nhx.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/Nhx.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/Nhx.cpp
[ 19%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.cpp
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'virtual double bpp::DRHomogeneousTreeLikelihood::getLogLikelihood() const':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 20%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.cpp
[ 20%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'virtual double bpp::DRNonHomogeneousTreeLikelihood::getLogLikelihood() const':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 21%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/MarginalAncestralStateReconstruction.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/MarginalAncestralStateReconstruction.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/MarginalAncestralStateReconstruction.cpp
[ 21%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.cpp
[ 21%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.cpp
In file included from /usr/include/c++/8/map:60,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp:40:
/usr/include/c++/8/bits/stl_tree.h: In member 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<const bpp::Node*&&>, std::tuple<>}; _Key = const bpp::Node*; _Val = std::pair<const bpp::Node* const, double>; _KeyOfValue = std::_Select1st<std::pair<const bpp::Node* const, double> >; _Compare = std::less<const bpp::Node*>; _Alloc = std::allocator<std::pair<const bpp::Node* const, double> >]':
/usr/include/c++/8/bits/stl_tree.h:2411:7: note: parameter passing for argument of type 'std::_Rb_tree<const bpp::Node*, std::pair<const bpp::Node* const, double>, std::_Select1st<std::pair<const bpp::Node* const, double> >, std::less<const bpp::Node*>, std::allocator<std::pair<const bpp::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const bpp::Node* const, double> >'} changed in GCC 7.1
_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/map:61,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp:40:
/usr/include/c++/8/bits/stl_map.h: In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](std::map<_Key, _Tp, _Compare, _Alloc>::key_type&&) [with _Key = const bpp::Node*; _Tp = double; _Compare = std::less<const bpp::Node*>; _Alloc = std::allocator<std::pair<const bpp::Node* const, double> >]':
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<const bpp::Node*, std::pair<const bpp::Node* const, double>, std::_Select1st<std::pair<const bpp::Node* const, double> >, std::less<const bpp::Node*>, std::allocator<std::pair<const bpp::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const bpp::Node* const, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
[ 21%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp
[ 21%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/PairedSiteLikelihoods.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/PairedSiteLikelihoods.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/PairedSiteLikelihoods.cpp
[ 21%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.cpp
[ 22%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/8/map:60,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_tree.h: In member 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<const int&>, std::tuple<>}; _Key = int; _Val = std::pair<const int, double>; _KeyOfValue = std::_Select1st<std::pair<const int, double> >; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]':
/usr/include/c++/8/bits/stl_tree.h:2411:7: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/map:61,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/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 = int; _Tp = double; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]':
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'void bpp::BranchLikelihood::computeLogLikelihood()':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 23%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.cpp
[ 23%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp
[ 23%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RASTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RASTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RASTools.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp:41:
/usr/include/c++/8/bits/vector.tcc: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::iterator) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:172:5: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc:172:5: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
[ 23%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp:41:
/usr/include/c++/8/bits/stl_vector.h: In member function 'void bpp::DRASDRTreeLikelihoodData::reInit(const bpp::Node*)':
/usr/include/c++/8/bits/stl_vector.h:1348:71: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg));
^
/usr/include/c++/8/bits/stl_vector.h:1348:71: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg));
^
[ 23%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp
[ 23%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp
[ 23%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp
In file included from /usr/include/c++/8/map:60,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp:41:
/usr/include/c++/8/bits/stl_tree.h: In member 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<const bpp::Node*&&>, std::tuple<>}; _Key = const bpp::Node*; _Val = std::pair<const bpp::Node* const, double>; _KeyOfValue = std::_Select1st<std::pair<const bpp::Node* const, double> >; _Compare = std::less<const bpp::Node*>; _Alloc = std::allocator<std::pair<const bpp::Node* const, double> >]':
/usr/include/c++/8/bits/stl_tree.h:2411:7: note: parameter passing for argument of type 'std::_Rb_tree<const bpp::Node*, std::pair<const bpp::Node* const, double>, std::_Select1st<std::pair<const bpp::Node* const, double> >, std::less<const bpp::Node*>, std::allocator<std::pair<const bpp::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const bpp::Node* const, double> >'} changed in GCC 7.1
_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/map:61,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp:41:
/usr/include/c++/8/bits/stl_map.h: In member function 'virtual void bpp::RHomogeneousClockTreeLikelihood::initBranchLengthsParameters(bool)':
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<const bpp::Node*, std::pair<const bpp::Node* const, double>, std::_Select1st<std::pair<const bpp::Node* const, double> >, std::less<const bpp::Node*>, std::allocator<std::pair<const bpp::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const bpp::Node* const, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<const bpp::Node*, std::pair<const bpp::Node* const, double>, std::_Select1st<std::pair<const bpp::Node* const, double> >, std::less<const bpp::Node*>, std::allocator<std::pair<const bpp::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const bpp::Node* const, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::RHomogeneousMixedTreeLikelihood::RHomogeneousMixedTreeLikelihood(const bpp::RHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::RHomogeneousMixedTreeLikelihood::RHomogeneousMixedTreeLikelihood(const bpp::RHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'bpp::RHomogeneousMixedTreeLikelihood& bpp::RHomogeneousMixedTreeLikelihood::operator=(const bpp::RHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 24%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/bits/stl_vector.h: In member function 'bpp::DRHomogeneousMixedTreeLikelihood& bpp::DRHomogeneousMixedTreeLikelihood::operator=(const bpp::DRHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::DRHomogeneousMixedTreeLikelihood::DRHomogeneousMixedTreeLikelihood(const bpp::DRHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::DRHomogeneousMixedTreeLikelihood::DRHomogeneousMixedTreeLikelihood(const bpp::DRHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 24%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RNonHomogeneousMixedTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RNonHomogeneousMixedTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousMixedTreeLikelihood.cpp
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'virtual double bpp::DRHomogeneousMixedTreeLikelihood::getLogLikelihood() const':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 25%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'virtual double bpp::DRHomogeneousTreeLikelihood::getLogLikelihood() const':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'virtual double bpp::RHomogeneousTreeLikelihood::getLogLikelihood() const':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 25%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRTreeLikelihoodTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRTreeLikelihoodTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRTreeLikelihoodTools.cpp
[ 25%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp
[ 25%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp
[ 25%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/TreeLikelihoodTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/TreeLikelihoodTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihoodTools.cpp
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/8/map:60,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp:40:
/usr/include/c++/8/bits/stl_tree.h: In member 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<const bpp::Node*&&>, std::tuple<>}; _Key = const bpp::Node*; _Val = std::pair<const bpp::Node* const, double>; _KeyOfValue = std::_Select1st<std::pair<const bpp::Node* const, double> >; _Compare = std::less<const bpp::Node*>; _Alloc = std::allocator<std::pair<const bpp::Node* const, double> >]':
/usr/include/c++/8/bits/stl_tree.h:2411:7: note: parameter passing for argument of type 'std::_Rb_tree<const bpp::Node*, std::pair<const bpp::Node* const, double>, std::_Select1st<std::pair<const bpp::Node* const, double> >, std::less<const bpp::Node*>, std::allocator<std::pair<const bpp::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const bpp::Node* const, double> >'} changed in GCC 7.1
_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/map:61,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp:40:
/usr/include/c++/8/bits/stl_map.h: In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](std::map<_Key, _Tp, _Compare, _Alloc>::key_type&&) [with _Key = const bpp::Node*; _Tp = double; _Compare = std::less<const bpp::Node*>; _Alloc = std::allocator<std::pair<const bpp::Node* const, double> >]':
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<const bpp::Node*, std::pair<const bpp::Node* const, double>, std::_Select1st<std::pair<const bpp::Node* const, double> >, std::less<const bpp::Node*>, std::allocator<std::pair<const bpp::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const bpp::Node* const, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'virtual double bpp::DRNonHomogeneousTreeLikelihood::getLogLikelihood() const':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 26%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/MarginalAncestralStateReconstruction.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/MarginalAncestralStateReconstruction.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/MarginalAncestralStateReconstruction.cpp
[ 26%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp
[ 26%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/PairedSiteLikelihoods.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/PairedSiteLikelihoods.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/PairedSiteLikelihoods.cpp
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp:41:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
[ 26%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.cpp
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp:41:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp:41:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'virtual double bpp::RNonHomogeneousTreeLikelihood::getLogLikelihood() const':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/8/map:60,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_tree.h: In member 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<const int&>, std::tuple<>}; _Key = int; _Val = std::pair<const int, double>; _KeyOfValue = std::_Select1st<std::pair<const int, double> >; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]':
/usr/include/c++/8/bits/stl_tree.h:2411:7: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/map:61,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/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 = int; _Tp = double; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]':
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'void bpp::BranchLikelihood::computeLogLikelihood()':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 27%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RASTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RASTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RASTools.cpp
[ 27%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp
[ 28%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/DecompositionMethods.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/DecompositionMethods.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/DecompositionMethods.cpp
[ 28%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp
[ 28%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/DecompositionReward.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/DecompositionReward.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/DecompositionReward.cpp
In file included from /usr/include/c++/8/map:60,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp:41:
/usr/include/c++/8/bits/stl_tree.h: In member 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<const bpp::Node*&&>, std::tuple<>}; _Key = const bpp::Node*; _Val = std::pair<const bpp::Node* const, double>; _KeyOfValue = std::_Select1st<std::pair<const bpp::Node* const, double> >; _Compare = std::less<const bpp::Node*>; _Alloc = std::allocator<std::pair<const bpp::Node* const, double> >]':
/usr/include/c++/8/bits/stl_tree.h:2411:7: note: parameter passing for argument of type 'std::_Rb_tree<const bpp::Node*, std::pair<const bpp::Node* const, double>, std::_Select1st<std::pair<const bpp::Node* const, double> >, std::less<const bpp::Node*>, std::allocator<std::pair<const bpp::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const bpp::Node* const, double> >'} changed in GCC 7.1
_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/map:61,
from /usr/include/Bpp/Utils/MapTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:46,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp:41:
/usr/include/c++/8/bits/stl_map.h: In member function 'virtual void bpp::RHomogeneousClockTreeLikelihood::initBranchLengthsParameters(bool)':
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<const bpp::Node*, std::pair<const bpp::Node* const, double>, std::_Select1st<std::pair<const bpp::Node* const, double> >, std::less<const bpp::Node*>, std::allocator<std::pair<const bpp::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const bpp::Node* const, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<const bpp::Node*, std::pair<const bpp::Node* const, double>, std::_Select1st<std::pair<const bpp::Node* const, double> >, std::less<const bpp::Node*>, std::allocator<std::pair<const bpp::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const bpp::Node* const, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp:39:
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::RHomogeneousMixedTreeLikelihood::RHomogeneousMixedTreeLikelihood(const bpp::RHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::RHomogeneousMixedTreeLikelihood::RHomogeneousMixedTreeLikelihood(const bpp::RHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'bpp::RHomogeneousMixedTreeLikelihood& bpp::RHomogeneousMixedTreeLikelihood::operator=(const bpp::RHomogeneousMixedTreeLikelihood&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 29%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp
[ 29%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RNonHomogeneousMixedTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RNonHomogeneousMixedTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousMixedTreeLikelihood.cpp
[ 29%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp
[ 29%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/DecompositionSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/DecompositionSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/DecompositionSubstitutionCount.cpp
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp:40:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'virtual double bpp::RHomogeneousTreeLikelihood::getLogLikelihood() const':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 30%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.cpp
[ 30%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/NaiveSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/NaiveSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/NaiveSubstitutionCount.cpp
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp:41:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
In file included from /usr/include/c++/8/bits/stl_algo.h:61,
from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp:41:
/usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/8/algorithm:62,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/../Node.h:55,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihood.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp:41:
/usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h: In member function 'virtual double bpp::RNonHomogeneousTreeLikelihood::getLogLikelihood() const':
/usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__introsort_loop(__first, __last,
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
std::__lg(__last - __first) * 2,
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
__comp);
~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 30%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/OneJumpSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/OneJumpSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/OneJumpSubstitutionCount.cpp
[ 30%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/TreeLikelihoodTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/TreeLikelihoodTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Likelihood/TreeLikelihoodTools.cpp
[ 30%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/ProbabilisticRewardMapping.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/ProbabilisticRewardMapping.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/ProbabilisticRewardMapping.cpp
[ 31%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.cpp
[ 31%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/RewardMappingTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/RewardMappingTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/RewardMappingTools.cpp
[ 32%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionMethods.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionMethods.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/DecompositionMethods.cpp
[ 32%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/SubstitutionMappingTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/SubstitutionMappingTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/SubstitutionMappingTools.cpp
[ 32%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionReward.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionReward.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/DecompositionReward.cpp
[ 32%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/DecompositionSubstitutionCount.cpp
[ 33%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/SubstitutionRegister.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/SubstitutionRegister.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/SubstitutionRegister.cpp
[ 33%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.cpp
[ 34%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/NaiveSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/NaiveSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/NaiveSubstitutionCount.cpp
[ 34%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/UniformizationSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/UniformizationSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/UniformizationSubstitutionCount.cpp
[ 34%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/WeightedSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/WeightedSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/WeightedSubstitutionCount.cpp
[ 34%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/OneJumpSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/OneJumpSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/OneJumpSubstitutionCount.cpp
[ 34%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractBiblioMixedSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractBiblioMixedSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractBiblioMixedSubstitutionModel.cpp
[ 34%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/ProbabilisticRewardMapping.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/ProbabilisticRewardMapping.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/ProbabilisticRewardMapping.cpp
[ 35%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.cpp
[ 35%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/RewardMappingTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/RewardMappingTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/RewardMappingTools.cpp
[ 36%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractBiblioSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractBiblioSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractBiblioSubstitutionModel.cpp
[ 36%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractFromSubstitutionModelTransitionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractFromSubstitutionModelTransitionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractFromSubstitutionModelTransitionModel.cpp
[ 36%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/SubstitutionMappingTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/SubstitutionMappingTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/SubstitutionMappingTools.cpp
[ 36%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/SubstitutionRegister.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/SubstitutionRegister.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/SubstitutionRegister.cpp
[ 36%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.cpp
[ 36%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp
[ 37%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractSubstitutionModel.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixedSubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixedSubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::AbstractMixedSubstitutionModel::AbstractMixedSubstitutionModel(const bpp::AbstractMixedSubstitutionModel&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::AbstractMixedSubstitutionModel::AbstractMixedSubstitutionModel(const bpp::AbstractMixedSubstitutionModel&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'bpp::AbstractMixedSubstitutionModel& bpp::AbstractMixedSubstitutionModel::operator=(const bpp::AbstractMixedSubstitutionModel&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 37%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractWordSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractWordSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractWordSubstitutionModel.cpp
[ 37%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/BinarySubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/BinarySubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/BinarySubstitutionModel.cpp
[ 38%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonAARateSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonAARateSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonAARateSubstitutionModel.cpp
[ 39%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/UniformizationSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/UniformizationSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/UniformizationSubstitutionCount.cpp
[ 39%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/WeightedSubstitutionCount.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/WeightedSubstitutionCount.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Mapping/WeightedSubstitutionCount.cpp
[ 39%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractBiblioMixedSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractBiblioMixedSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractBiblioMixedSubstitutionModel.cpp
[ 39%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonAAFitnessSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonAAFitnessSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonAAFitnessSubstitutionModel.cpp
[ 39%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonCpGSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonCpGSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonCpGSubstitutionModel.cpp
[ 39%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractBiblioSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractBiblioSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractBiblioSubstitutionModel.cpp
[ 39%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonBGCSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonBGCSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonBGCSubstitutionModel.cpp
[ 40%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonDistanceSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonDistanceSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonDistanceSubstitutionModel.cpp
[ 40%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.cpp
[ 40%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonFrequenciesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonFrequenciesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonFrequenciesSubstitutionModel.cpp
[ 41%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractFromSubstitutionModelTransitionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractFromSubstitutionModelTransitionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractFromSubstitutionModelTransitionModel.cpp
[ 41%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.cpp
[ 41%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp
[ 41%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonPhaseFrequenciesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonPhaseFrequenciesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonPhaseFrequenciesSubstitutionModel.cpp
[ 42%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractSubstitutionModel.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixedSubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixedSubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::AbstractMixedSubstitutionModel::AbstractMixedSubstitutionModel(const bpp::AbstractMixedSubstitutionModel&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In copy constructor 'bpp::AbstractMixedSubstitutionModel::AbstractMixedSubstitutionModel(const bpp::AbstractMixedSubstitutionModel&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'bpp::AbstractMixedSubstitutionModel& bpp::AbstractMixedSubstitutionModel::operator=(const bpp::AbstractMixedSubstitutionModel&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 43%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonSubstitutionModel.cpp
[ 43%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractKroneckerCodonSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractKroneckerCodonSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractKroneckerCodonSubstitutionModel.cpp
[ 43%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonAdHocSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonAdHocSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonAdHocSubstitutionModel.cpp
[ 43%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractWordSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractWordSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractWordSubstitutionModel.cpp
[ 43%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/BinarySubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/BinarySubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/BinarySubstitutionModel.cpp
[ 44%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonDistanceFrequenciesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonDistanceFrequenciesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonDistanceFrequenciesSubstitutionModel.cpp
[ 44%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonDistancePhaseFrequenciesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonDistancePhaseFrequenciesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonDistancePhaseFrequenciesSubstitutionModel.cpp
[ 44%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonDistanceSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonDistanceSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonDistanceSubstitutionModel.cpp
[ 44%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/GY94.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/GY94.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/GY94.cpp
[ 45%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/KCM.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/KCM.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/KCM.cpp
[ 45%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonAARateSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonAARateSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonAARateSubstitutionModel.cpp
[ 46%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonAAFitnessSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonAAFitnessSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonAAFitnessSubstitutionModel.cpp
[ 46%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonCpGSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonCpGSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonCpGSubstitutionModel.cpp
[ 46%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceFrequenciesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceFrequenciesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceFrequenciesSubstitutionModel.cpp
[ 46%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceSubstitutionModel.cpp
[ 46%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonBGCSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonBGCSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonBGCSubstitutionModel.cpp
[ 46%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonDistanceSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonDistanceSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonDistanceSubstitutionModel.cpp
[ 46%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/MG94.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/MG94.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/MG94.cpp
[ 47%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/SENCA.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/SENCA.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/SENCA.cpp
[ 48%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.cpp
[ 48%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonFrequenciesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonFrequenciesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonFrequenciesSubstitutionModel.cpp
[ 48%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/TripletSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/TripletSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/TripletSubstitutionModel.cpp
In file included from /usr/include/c++/8/map:60,
from /usr/include/Bpp/Seq/Alphabet/AbstractAlphabet.h:52,
from /usr/include/Bpp/Seq/Alphabet/LetterAlphabet.h:49,
from /usr/include/Bpp/Seq/Alphabet/NucleicAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/CodonAlphabet.h:43,
from /usr/include/Bpp/Seq/GeneticCode/GeneticCode.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonSubstitutionModel.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/SENCA.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/SENCA.cpp:41:
/usr/include/c++/8/bits/stl_tree.h: In member 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<const int&>, std::tuple<>}; _Key = int; _Val = std::pair<const int, double>; _KeyOfValue = std::_Select1st<std::pair<const int, double> >; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]':
/usr/include/c++/8/bits/stl_tree.h:2411:7: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/map:61,
from /usr/include/Bpp/Seq/Alphabet/AbstractAlphabet.h:52,
from /usr/include/Bpp/Seq/Alphabet/LetterAlphabet.h:49,
from /usr/include/Bpp/Seq/Alphabet/NucleicAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/CodonAlphabet.h:43,
from /usr/include/Bpp/Seq/GeneticCode/GeneticCode.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonSubstitutionModel.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/SENCA.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/SENCA.cpp:41:
/usr/include/c++/8/bits/stl_map.h: In member function 'virtual void bpp::SENCA::setFreq(std::map<int, double>&)':
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
[ 48%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YN98.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YN98.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YN98.cpp
[ 49%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M1.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M1.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M1.cpp
[ 49%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonPhaseFrequenciesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonPhaseFrequenciesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonPhaseFrequenciesSubstitutionModel.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M1.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M1.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 50%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonSubstitutionModel.cpp
[ 50%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractKroneckerCodonSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractKroneckerCodonSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractKroneckerCodonSubstitutionModel.cpp
[ 50%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M10.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M10.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M10.cpp
[ 50%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonAdHocSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonAdHocSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonAdHocSubstitutionModel.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M10.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M10.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 50%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonDistanceFrequenciesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonDistanceFrequenciesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonDistanceFrequenciesSubstitutionModel.cpp
[ 51%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonDistancePhaseFrequenciesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonDistancePhaseFrequenciesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonDistancePhaseFrequenciesSubstitutionModel.cpp
[ 51%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonDistanceSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonDistanceSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonDistanceSubstitutionModel.cpp
[ 51%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M2.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M2.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M2.cpp
[ 51%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M3.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M3.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M3.cpp
[ 51%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/GY94.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/GY94.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/GY94.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M2.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M2.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 52%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/KCM.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/KCM.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/KCM.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M3.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M3.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 52%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceFrequenciesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceFrequenciesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceFrequenciesSubstitutionModel.cpp
[ 53%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M7.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M7.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M7.cpp
[ 53%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceSubstitutionModel.cpp
[ 53%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M8.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M8.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M8.cpp
[ 53%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M9.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M9.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M9.cpp
[ 53%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/MG94.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/MG94.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/MG94.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M8.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M8.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 54%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M9.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M9.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 54%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp
[ 55%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/SENCA.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/SENCA.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/SENCA.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/AbstractAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/WordAlphabet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
[ 55%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/TripletSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/TripletSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/TripletSubstitutionModel.cpp
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/AbstractAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/WordAlphabet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'virtual void bpp::FullPerAACodonFrequenciesSet::setFrequencies(const std::vector<double, std::allocator<double> >&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp:41:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In constructor 'bpp::FullCodonFrequenciesSet::FullCodonFrequenciesSet(const bpp::GeneticCode*, bool, short unsigned int, const string&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In constructor 'bpp::FullCodonFrequenciesSet::FullCodonFrequenciesSet(const bpp::GeneticCode*, bool, short unsigned int, const string&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp:41:
/usr/include/c++/8/bits/stl_vector.h: In constructor 'bpp::FullFrequenciesSet::FullFrequenciesSet(bpp::StateMap*, bool, short unsigned int, const string&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In constructor 'bpp::FullFrequenciesSet::FullFrequenciesSet(bpp::StateMap*, bool, short unsigned int, const string&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 55%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YN98.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YN98.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YN98.cpp
In file included from /usr/include/c++/8/map:60,
from /usr/include/Bpp/Seq/Alphabet/AbstractAlphabet.h:52,
from /usr/include/Bpp/Seq/Alphabet/LetterAlphabet.h:49,
from /usr/include/Bpp/Seq/Alphabet/NucleicAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/CodonAlphabet.h:43,
from /usr/include/Bpp/Seq/GeneticCode/GeneticCode.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonSubstitutionModel.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/SENCA.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/SENCA.cpp:41:
/usr/include/c++/8/bits/stl_tree.h: In member 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<const int&>, std::tuple<>}; _Key = int; _Val = std::pair<const int, double>; _KeyOfValue = std::_Select1st<std::pair<const int, double> >; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]':
/usr/include/c++/8/bits/stl_tree.h:2411:7: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/map:61,
from /usr/include/Bpp/Seq/Alphabet/AbstractAlphabet.h:52,
from /usr/include/Bpp/Seq/Alphabet/LetterAlphabet.h:49,
from /usr/include/Bpp/Seq/Alphabet/NucleicAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/CodonAlphabet.h:43,
from /usr/include/Bpp/Seq/GeneticCode/GeneticCode.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/CodonSubstitutionModel.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/SENCA.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/SENCA.cpp:41:
/usr/include/c++/8/bits/stl_map.h: In member function 'virtual void bpp::SENCA::setFreq(std::map<int, double>&)':
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
[ 55%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/MvaFrequenciesSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/MvaFrequenciesSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/MvaFrequenciesSet.cpp
[ 55%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.cpp
[ 56%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.cpp
[ 56%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M1.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M1.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M1.cpp
[ 57%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M10.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M10.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M10.cpp
[ 57%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FromMixtureSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FromMixtureSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FromMixtureSubstitutionModel.cpp
[ 57%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/InMixedSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/InMixedSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/InMixedSubstitutionModel.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M1.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M1.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M10.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M10.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 57%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/KroneckerWordSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/KroneckerWordSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/KroneckerWordSubstitutionModel.cpp
[ 58%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.cpp
[ 58%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M2.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M2.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M2.cpp
[ 58%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MixedSubstitutionModelSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MixedSubstitutionModelSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixedSubstitutionModelSet.cpp
[ 58%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M3.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M3.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M3.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M2.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M2.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 58%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MixtureOfASubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MixtureOfASubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfASubstitutionModel.cpp
[ 59%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MixtureOfSubstitutionModels.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MixtureOfSubstitutionModels.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfSubstitutionModels.cpp
[ 59%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/F84.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/F84.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/F84.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M3.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M3.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixedSubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfASubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfASubstitutionModel.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfSubstitutionModels.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfSubstitutionModels.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 60%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M7.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M7.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M7.cpp
[ 60%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M8.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M8.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M8.cpp
[ 60%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/GTR.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/GTR.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/GTR.cpp
[ 60%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M9.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M9.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M9.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M8.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M8.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 60%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/HKY85.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/HKY85.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/HKY85.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/../AbstractBiblioMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M9.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Codon/YNGP_M9.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 60%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp
[ 61%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp
[ 62%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/JCnuc.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/JCnuc.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/JCnuc.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp:41:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
[ 62%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/MvaFrequenciesSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/MvaFrequenciesSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/MvaFrequenciesSet.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/AbstractAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/WordAlphabet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/AbstractAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/WordAlphabet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'virtual void bpp::FullPerAACodonFrequenciesSet::setFrequencies(const std::vector<double, std::allocator<double> >&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp:41:
/usr/include/c++/8/bits/stl_vector.h: In constructor 'bpp::FullFrequenciesSet::FullFrequenciesSet(bpp::StateMap*, bool, short unsigned int, const string&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In constructor 'bpp::FullFrequenciesSet::FullFrequenciesSet(bpp::StateMap*, bool, short unsigned int, const string&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In constructor 'bpp::FullCodonFrequenciesSet::FullCodonFrequenciesSet(const bpp::GeneticCode*, bool, short unsigned int, const string&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In constructor 'bpp::FullCodonFrequenciesSet::FullCodonFrequenciesSet(const bpp::GeneticCode*, bool, short unsigned int, const string&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 62%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/K80.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/K80.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/K80.cpp
[ 62%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.cpp
[ 62%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.cpp
[ 62%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/L95.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/L95.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/L95.cpp
[ 62%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/RN95.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/RN95.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/RN95.cpp
[ 63%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FromMixtureSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FromMixtureSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FromMixtureSubstitutionModel.cpp
[ 64%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/RN95s.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/RN95s.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/RN95s.cpp
[ 64%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/InMixedSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/InMixedSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/InMixedSubstitutionModel.cpp
[ 64%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/SSR.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/SSR.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/SSR.cpp
[ 64%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/KroneckerWordSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/KroneckerWordSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/KroneckerWordSubstitutionModel.cpp
[ 65%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.cpp
[ 65%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/T92.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/T92.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/T92.cpp
[ 66%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/TN93.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/TN93.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/TN93.cpp
[ 66%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MixedSubstitutionModelSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MixedSubstitutionModelSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixedSubstitutionModelSet.cpp
[ 66%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MixtureOfASubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MixtureOfASubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfASubstitutionModel.cpp
[ 66%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/YpR.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/YpR.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/YpR.cpp
[ 66%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/gBGC.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/gBGC.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/gBGC.cpp
[ 66%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MixtureOfSubstitutionModels.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MixtureOfSubstitutionModels.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfSubstitutionModels.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/../StateMap.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/SubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixedSubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfASubstitutionModel.h:42,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfASubstitutionModel.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfSubstitutionModels.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/MixtureOfSubstitutionModels.cpp:39:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 67%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/F84.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/F84.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/F84.cpp
[ 67%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/GTR.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/GTR.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/GTR.cpp
[ 67%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/OneChangeTransitionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/OneChangeTransitionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/OneChangeTransitionModel.cpp
[ 67%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/HKY85.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/HKY85.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/HKY85.cpp
[ 67%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/JCnuc.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/JCnuc.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/JCnuc.cpp
[ 68%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.cpp
[ 68%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/Coala.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/Coala.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/Coala.cpp
[ 68%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/CoalaCore.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/CoalaCore.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/CoalaCore.cpp
[ 69%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/K80.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/K80.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/K80.cpp
In file included from /usr/include/c++/8/map:60,
from /usr/include/Bpp/Numeric/AbstractParametrizable.h:47,
from /usr/include/Bpp/Numeric/Function/Functions.h:45,
from /usr/include/Bpp/Numeric/NumTools.h:43,
from /usr/include/Bpp/Numeric/Matrix/Matrix.h:48,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/CoalaCore.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/CoalaCore.cpp:41:
/usr/include/c++/8/bits/stl_tree.h: In member 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<const int&>, std::tuple<>}; _Key = int; _Val = std::pair<const int, double>; _KeyOfValue = std::_Select1st<std::pair<const int, double> >; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]':
/usr/include/c++/8/bits/stl_tree.h:2411:7: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/map:61,
from /usr/include/Bpp/Numeric/AbstractParametrizable.h:47,
from /usr/include/Bpp/Numeric/Function/Functions.h:45,
from /usr/include/Bpp/Numeric/NumTools.h:43,
from /usr/include/Bpp/Numeric/Matrix/Matrix.h:48,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/CoalaCore.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/CoalaCore.cpp:41:
/usr/include/c++/8/bits/stl_map.h: In member function 'bpp::ParameterList bpp::CoalaCore::computeCOA(const bpp::SequenceContainer&, bool)':
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
[ 69%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/L95.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/L95.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/L95.cpp
[ 69%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/RN95.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/RN95.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/RN95.cpp
[ 69%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/DSO78.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/DSO78.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/DSO78.cpp
[ 70%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/RN95s.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/RN95s.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/RN95s.cpp
[ 70%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/SSR.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/SSR.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/SSR.cpp
[ 71%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/JCprot.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/JCprot.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/JCprot.cpp
[ 71%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/T92.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/T92.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/T92.cpp
[ 71%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/JTT92.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/JTT92.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/JTT92.cpp
[ 71%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/TN93.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/TN93.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/TN93.cpp
[ 71%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LG08.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LG08.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LG08.cpp
[ 72%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LG10_EX_EHO.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LG10_EX_EHO.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LG10_EX_EHO.cpp
[ 73%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/YpR.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/YpR.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/YpR.cpp
[ 73%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/gBGC.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/gBGC.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Nucleotide/gBGC.cpp
[ 73%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/OneChangeTransitionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/OneChangeTransitionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/OneChangeTransitionModel.cpp
[ 73%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LGL08_CAT.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LGL08_CAT.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LGL08_CAT.cpp
[ 73%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_EHO.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_EHO.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LLG08_EHO.cpp
[ 73%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.cpp
[ 74%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/Coala.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/Coala.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/Coala.cpp
[ 74%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/CoalaCore.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/CoalaCore.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/CoalaCore.cpp
[ 74%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_EX2.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_EX2.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LLG08_EX2.cpp
In file included from /usr/include/c++/8/map:60,
from /usr/include/Bpp/Numeric/AbstractParametrizable.h:47,
from /usr/include/Bpp/Numeric/Function/Functions.h:45,
from /usr/include/Bpp/Numeric/NumTools.h:43,
from /usr/include/Bpp/Numeric/Matrix/Matrix.h:48,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/CoalaCore.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/CoalaCore.cpp:41:
/usr/include/c++/8/bits/stl_tree.h: In member 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<const int&>, std::tuple<>}; _Key = int; _Val = std::pair<const int, double>; _KeyOfValue = std::_Select1st<std::pair<const int, double> >; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]':
/usr/include/c++/8/bits/stl_tree.h:2411:7: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/map:61,
from /usr/include/Bpp/Numeric/AbstractParametrizable.h:47,
from /usr/include/Bpp/Numeric/Function/Functions.h:45,
from /usr/include/Bpp/Numeric/NumTools.h:43,
from /usr/include/Bpp/Numeric/Matrix/Matrix.h:48,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/CoalaCore.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/CoalaCore.cpp:41:
/usr/include/c++/8/bits/stl_map.h: In member function 'bpp::ParameterList bpp::CoalaCore::computeCOA(const bpp::SequenceContainer&, bool)':
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
[ 75%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_EX3.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_EX3.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LLG08_EX3.cpp
[ 75%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/DSO78.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/DSO78.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/DSO78.cpp
[ 75%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_UL2.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_UL2.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LLG08_UL2.cpp
[ 76%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/JCprot.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/JCprot.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/JCprot.cpp
[ 76%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/JTT92.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/JTT92.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/JTT92.cpp
[ 76%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LG08.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LG08.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LG08.cpp
[ 76%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LG10_EX_EHO.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LG10_EX_EHO.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LG10_EX_EHO.cpp
[ 76%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_UL3.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_UL3.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LLG08_UL3.cpp
[ 76%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/UserProteinSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/UserProteinSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/UserProteinSubstitutionModel.cpp
[ 77%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/WAG01.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/WAG01.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/WAG01.cpp
[ 78%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LGL08_CAT.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LGL08_CAT.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LGL08_CAT.cpp
[ 78%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/RE08.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/RE08.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/RE08.cpp
[ 78%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/RegisterRatesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/RegisterRatesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/RegisterRatesSubstitutionModel.cpp
[ 78%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_EHO.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_EHO.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LLG08_EHO.cpp
[ 79%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/StateMap.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/StateMap.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/StateMap.cpp
[ 79%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_EX2.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_EX2.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LLG08_EX2.cpp
[ 79%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/SubstitutionModelSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/SubstitutionModelSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/SubstitutionModelSet.cpp
[ 79%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/SubstitutionModelSetTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/SubstitutionModelSetTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/SubstitutionModelSetTools.cpp
[ 80%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_EX3.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_EX3.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LLG08_EX3.cpp
[ 80%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/WordSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/WordSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/WordSubstitutionModel.cpp
[ 81%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/NNITopologySearch.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/NNITopologySearch.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp
[ 81%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_UL2.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_UL2.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LLG08_UL2.cpp
[ 81%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_UL3.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_UL3.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/LLG08_UL3.cpp
In file included from /usr/include/c++/8/vector:69,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TopologySearch.h:48,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(std::vector<_Tp, _Alloc>::const_iterator, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:118:5: note: parameter passing for argument of type 'std::vector<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc:149:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(begin() + (__position - cbegin()), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TopologySearch.h:48,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'void bpp::NNITopologySearch::searchBetter()':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp: In member function 'void bpp::NNITopologySearch::searchPhyML()':
/<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp:290:87: note: parameter passing for argument of type 'std::vector<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >'} changed in GCC 7.1
improvement.insert(improvement.begin() + static_cast<ptrdiff_t>(pos), diff);
^
/<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp:296:55: note: parameter passing for argument of type 'std::vector<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >'} changed in GCC 7.1
improvement.insert(improvement.end(), diff);
^
[ 81%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Node.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Node.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Node.cpp
[ 81%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/OptimizationTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/OptimizationTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/OptimizationTools.cpp
[ 81%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/UserProteinSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/UserProteinSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/UserProteinSubstitutionModel.cpp
[ 82%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Parsimony/AbstractTreeParsimonyScore.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Parsimony/AbstractTreeParsimonyScore.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Parsimony/AbstractTreeParsimonyScore.cpp
[ 83%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/WAG01.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/WAG01.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/Protein/WAG01.cpp
[ 83%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyData.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyData.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Parsimony/DRTreeParsimonyData.cpp
[ 83%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyScore.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyScore.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Parsimony/DRTreeParsimonyScore.cpp
[ 83%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/RE08.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/RE08.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/RE08.cpp
[ 83%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/PatternTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/PatternTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/PatternTools.cpp
[ 83%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/RegisterRatesSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/RegisterRatesSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/RegisterRatesSubstitutionModel.cpp
[ 84%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/PhyloStatistics.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/PhyloStatistics.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/PhyloStatistics.cpp
[ 84%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/StateMap.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/StateMap.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/StateMap.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Tree.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/PhyloStatistics.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/PhyloStatistics.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Tree.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/PhyloStatistics.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/PhyloStatistics.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'void bpp::PhyloStatistics::computeForSubtree_(const bpp::Node*, double&, size_t&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 85%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/SubstitutionModelSet.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/SubstitutionModelSet.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/SubstitutionModelSet.cpp
[ 85%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/MutationProcess.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/MutationProcess.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/MutationProcess.cpp
[ 85%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/SubstitutionModelSetTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/SubstitutionModelSetTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/SubstitutionModelSetTools.cpp
[ 85%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp
[ 85%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/WordSubstitutionModel.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/WordSubstitutionModel.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Model/WordSubstitutionModel.cpp
[ 85%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/SequenceSimulationTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/SequenceSimulationTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/SequenceSimulationTools.cpp
[ 86%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/SitePatterns.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/SitePatterns.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/SitePatterns.cpp
[ 87%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/NNITopologySearch.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/NNITopologySearch.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp
[ 87%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Node.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Node.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Node.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /usr/include/Bpp/Seq/SymbolList.h:43,
from /usr/include/Bpp/Seq/Site.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/SiteSimulator.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/DetailedSiteSimulator.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp:42:
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const bpp::MutationPath&}; _Tp = bpp::MutationPath; _Alloc = std::allocator<bpp::MutationPath>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<bpp::MutationPath>::iterator' {aka '__gnu_cxx::__normal_iterator<bpp::MutationPath*, std::vector<bpp::MutationPath> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /usr/include/Bpp/Seq/SymbolList.h:43,
from /usr/include/Bpp/Seq/Site.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/SiteSimulator.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/DetailedSiteSimulator.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp:42:
/usr/include/c++/8/bits/stl_vector.h: In member function 'virtual void bpp::SiteSimulationResult::addNode(int, bpp::MutationPath)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<bpp::MutationPath*, std::vector<bpp::MutationPath> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 87%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/OptimizationTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/OptimizationTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/OptimizationTools.cpp
[ 87%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeExceptions.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeExceptions.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.cpp
In file included from /usr/include/c++/8/vector:69,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TopologySearch.h:48,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(std::vector<_Tp, _Alloc>::const_iterator, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:118:5: note: parameter passing for argument of type 'std::vector<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc:149:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(begin() + (__position - cbegin()), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TopologySearch.h:48,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'void bpp::NNITopologySearch::searchBetter()':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 87%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeTemplateTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeTemplateTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.cpp
/<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp: In member function 'void bpp::NNITopologySearch::searchPhyML()':
/<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp:290:87: note: parameter passing for argument of type 'std::vector<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >'} changed in GCC 7.1
improvement.insert(improvement.begin() + static_cast<ptrdiff_t>(pos), diff);
^
/<<PKGBUILDDIR>>/src/Bpp/Phyl/NNITopologySearch.cpp:296:55: note: parameter passing for argument of type 'std::vector<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double> >'} changed in GCC 7.1
improvement.insert(improvement.end(), diff);
^
[ 87%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Parsimony/AbstractTreeParsimonyScore.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Parsimony/AbstractTreeParsimonyScore.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Parsimony/AbstractTreeParsimonyScore.cpp
[ 88%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyData.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyData.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Parsimony/DRTreeParsimonyData.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.cpp:42:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.cpp:42:
/usr/include/c++/8/bits/stl_vector.h: In static member function 'static bpp::Vdouble bpp::TreeTemplateTools::getBranchLengths(const bpp::Node&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.cpp:42:
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, double>}; _Tp = std::pair<std::__cxx11::basic_string<char>, double>; _Alloc = std::allocator<std::pair<std::__cxx11::basic_string<char>, double> >]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<std::pair<std::__cxx11::basic_string<char>, double> >::iterator' {aka '__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, double>}; _Tp = std::pair<std::__cxx11::basic_string<char>, double>; _Alloc = std::allocator<std::pair<std::__cxx11::basic_string<char>, double> >]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
[ 89%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.cpp
[ 89%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyScore.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyScore.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Parsimony/DRTreeParsimonyScore.cpp
[ 89%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/PatternTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/PatternTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/PatternTools.cpp
[ 89%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/PhyloStatistics.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/PhyloStatistics.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/PhyloStatistics.cpp
[ 90%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Simulation/MutationProcess.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Simulation/MutationProcess.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/MutationProcess.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Tree.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/PhyloStatistics.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/PhyloStatistics.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Tree.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/PhyloStatistics.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/PhyloStatistics.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'void bpp::PhyloStatistics::computeForSubtree_(const bpp::Node*, double&, size_t&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 90%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp
[ 90%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Simulation/SequenceSimulationTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Simulation/SequenceSimulationTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/SequenceSimulationTools.cpp
[ 91%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/SitePatterns.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/SitePatterns.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/SitePatterns.cpp
/usr/include/c++/8/bits/stl_vector.h: In static member function 'static bpp::Vdouble bpp::TreeTools::getBranchLengths(const bpp::Tree&, int)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 91%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/TreeExceptions.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/TreeExceptions.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.cpp
[ 91%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/TreeTemplateTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/TreeTemplateTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.cpp
[ 91%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/TreeTools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/TreeTools.cpp.o -c /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.cpp
[ 91%] Linking CXX static library libbpp-phyl.a
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -P CMakeFiles/bpp-phyl-static.dir/cmake_clean_target.cmake
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpp-phyl-static.dir/link.txt --verbose=1
/usr/bin/ar qc libbpp-phyl.a CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionList.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/BioNJ.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/DistanceEstimation.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/HierarchicalClustering.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/NeighborJoining.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/PGMA.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/CladogramPlot.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/PhylogramPlot.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/TreeDrawingListener.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOFrequenciesSetFormat.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOMultiTreeReaderFormat.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOMultiTreeWriterFormat.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppORateDistributionFormat.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOTransitionModelFormat.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOTreeReaderFormat.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOTreeWriterFormat.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoFrequenciesSetFactory.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoPairedSiteLikelihoods.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoTreeFactory.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/Newick.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/NexusIoTree.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/Nhx.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRTreeLikelihoodTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/MarginalAncestralStateReconstruction.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/PairedSiteLikelihoods.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RASTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RNonHomogeneousMixedTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/TreeLikelihoodTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/DecompositionMethods.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/DecompositionReward.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/DecompositionSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/NaiveSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/OneJumpSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/ProbabilisticRewardMapping.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/RewardMappingTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/SubstitutionMappingTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/SubstitutionRegister.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/UniformizationSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Mapping/WeightedSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractBiblioMixedSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractBiblioSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractFromSubstitutionModelTransitionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/AbstractWordSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/BinarySubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonAARateSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonAAFitnessSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonCpGSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonBGCSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonDistanceSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonFrequenciesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonPhaseFrequenciesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractCodonSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/AbstractKroneckerCodonSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonAdHocSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonDistanceFrequenciesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonDistancePhaseFrequenciesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/CodonDistanceSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/GY94.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/KCM.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceFrequenciesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/MG94.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/SENCA.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/TripletSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YN98.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M1.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M10.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M2.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M3.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M7.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M8.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Codon/YNGP_M9.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/MvaFrequenciesSet.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FromMixtureSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/InMixedSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/KroneckerWordSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MixedSubstitutionModelSet.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MixtureOfASubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/MixtureOfSubstitutionModels.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/F84.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/GTR.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/HKY85.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/JCnuc.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/K80.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/L95.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/RN95.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/RN95s.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/SSR.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/T92.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/TN93.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/YpR.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Nucleotide/gBGC.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/OneChangeTransitionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/Coala.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/CoalaCore.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/DSO78.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/JCprot.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/JTT92.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LG08.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LG10_EX_EHO.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LGL08_CAT.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_EHO.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_EX2.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_EX3.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_UL2.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/LLG08_UL3.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/UserProteinSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/Protein/WAG01.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/RE08.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/RegisterRatesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/StateMap.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/SubstitutionModelSet.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/SubstitutionModelSetTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/WordSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/NNITopologySearch.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Node.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/OptimizationTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Parsimony/AbstractTreeParsimonyScore.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyData.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyScore.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/PatternTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/PhyloStatistics.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/MutationProcess.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/SequenceSimulationTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/SitePatterns.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeExceptions.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeTemplateTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeTools.cpp.o
/usr/bin/ranlib libbpp-phyl.a
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 91%] Built target bpp-phyl-static
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /usr/include/Bpp/Seq/SymbolList.h:43,
from /usr/include/Bpp/Seq/Site.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/SiteSimulator.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/DetailedSiteSimulator.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp:42:
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const bpp::MutationPath&}; _Tp = bpp::MutationPath; _Alloc = std::allocator<bpp::MutationPath>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<bpp::MutationPath>::iterator' {aka '__gnu_cxx::__normal_iterator<bpp::MutationPath*, std::vector<bpp::MutationPath> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Seq/Alphabet/Alphabet.h:45,
from /usr/include/Bpp/Seq/SymbolList.h:43,
from /usr/include/Bpp/Seq/Site.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/SiteSimulator.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/DetailedSiteSimulator.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp:42:
/usr/include/c++/8/bits/stl_vector.h: In member function 'virtual void bpp::SiteSimulationResult::addNode(int, bpp::MutationPath)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<bpp::MutationPath*, std::vector<bpp::MutationPath> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.cpp:42:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.cpp:42:
/usr/include/c++/8/bits/stl_vector.h: In static member function 'static bpp::Vdouble bpp::TreeTemplateTools::getBranchLengths(const bpp::Node&)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.h:45,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTemplateTools.cpp:42:
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, double>}; _Tp = std::pair<std::__cxx11::basic_string<char>, double>; _Alloc = std::allocator<std::pair<std::__cxx11::basic_string<char>, double> >]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<std::pair<std::__cxx11::basic_string<char>, double> >::iterator' {aka '__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, double>}; _Tp = std::pair<std::__cxx11::basic_string<char>, double>; _Alloc = std::allocator<std::pair<std::__cxx11::basic_string<char>, double> >]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Text/TextTools.h:49,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeExceptions.h:44,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.h:43,
from /<<PKGBUILDDIR>>/src/Bpp/Phyl/TreeTools.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double> bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In static member function 'static bpp::Vdouble bpp::TreeTools::getBranchLengths(const bpp::Tree&, int)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 92%] Linking CXX shared library libbpp-phyl.so
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpp-phyl-shared.dir/link.txt --verbose=1
/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libbpp-phyl.so.12 -o libbpp-phyl.so.12.0.0 CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/BipartitionList.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/BipartitionTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/BioNJ.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/DistanceEstimation.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/HierarchicalClustering.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/NeighborJoining.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/PGMA.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/CladogramPlot.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/PhylogramPlot.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/TreeDrawingListener.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOFrequenciesSetFormat.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOMultiTreeReaderFormat.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOMultiTreeWriterFormat.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppORateDistributionFormat.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTransitionModelFormat.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTreeReaderFormat.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTreeWriterFormat.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoFrequenciesSetFactory.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoPairedSiteLikelihoods.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoTreeFactory.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/Newick.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/NexusIoTree.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/Nhx.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRTreeLikelihoodTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/MarginalAncestralStateReconstruction.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/PairedSiteLikelihoods.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RASTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RNonHomogeneousMixedTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/TreeLikelihoodTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionMethods.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionReward.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/NaiveSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/OneJumpSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/ProbabilisticRewardMapping.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/RewardMappingTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/SubstitutionMappingTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/SubstitutionRegister.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/UniformizationSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/WeightedSubstitutionCount.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractBiblioMixedSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractBiblioSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractFromSubstitutionModelTransitionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractWordSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/BinarySubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonAARateSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonAAFitnessSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonCpGSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonBGCSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonDistanceSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonFrequenciesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonPhaseFrequenciesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractCodonSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/AbstractKroneckerCodonSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonAdHocSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonDistanceFrequenciesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonDistancePhaseFrequenciesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/CodonDistanceSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/GY94.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/KCM.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceFrequenciesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/MG94.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/SENCA.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/TripletSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YN98.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M1.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M10.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M2.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M3.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M7.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M8.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M9.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/MvaFrequenciesSet.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/FromMixtureSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/InMixedSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/KroneckerWordSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MixedSubstitutionModelSet.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MixtureOfASubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/MixtureOfSubstitutionModels.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/F84.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/GTR.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/HKY85.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/JCnuc.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/K80.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/L95.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/RN95.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/RN95s.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/SSR.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/T92.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/TN93.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/YpR.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Nucleotide/gBGC.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/OneChangeTransitionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/Coala.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/CoalaCore.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/DSO78.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/JCprot.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/JTT92.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LG08.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LG10_EX_EHO.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LGL08_CAT.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_EHO.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_EX2.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_EX3.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_UL2.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/LLG08_UL3.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/UserProteinSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Protein/WAG01.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/RE08.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/RegisterRatesSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/StateMap.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/SubstitutionModelSet.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/SubstitutionModelSetTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/WordSubstitutionModel.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/NNITopologySearch.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Node.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/OptimizationTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Parsimony/AbstractTreeParsimonyScore.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyData.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Parsimony/DRTreeParsimonyScore.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/PatternTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/PhyloStatistics.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Simulation/MutationProcess.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Simulation/SequenceSimulationTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/SitePatterns.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/TreeExceptions.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/TreeTemplateTools.cpp.o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/TreeTools.cpp.o /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_symlink_library libbpp-phyl.so.12.0.0 libbpp-phyl.so.12 libbpp-phyl.so
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 92%] Built target bpp-phyl-shared
make -f test/CMakeFiles/test_mapping.dir/build.make test/CMakeFiles/test_mapping.dir/depend
make -f test/CMakeFiles/test_likelihood.dir/build.make test/CMakeFiles/test_likelihood.dir/depend
make -f test/CMakeFiles/test_likelihood_nh.dir/build.make test/CMakeFiles/test_likelihood_nh.dir/depend
make -f test/CMakeFiles/test_likelihood_clock.dir/build.make test/CMakeFiles/test_likelihood_clock.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_mapping.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_likelihood_nh.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_likelihood.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_likelihood_clock.dir/DependInfo.cmake --color=
Scanning dependencies of target test_likelihood_nh
Scanning dependencies of target test_likelihood
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_likelihood.dir/build.make test/CMakeFiles/test_likelihood.dir/build
make -f test/CMakeFiles/test_likelihood_nh.dir/build.make test/CMakeFiles/test_likelihood_nh.dir/build
Scanning dependencies of target test_likelihood_clock
Scanning dependencies of target test_mapping
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_likelihood_clock.dir/build.make test/CMakeFiles/test_likelihood_clock.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_mapping.dir/build.make test/CMakeFiles/test_mapping.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 92%] Building CXX object test/CMakeFiles/test_likelihood.dir/test_likelihood.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_likelihood.dir/test_likelihood.cpp.o -c /<<PKGBUILDDIR>>/test/test_likelihood.cpp
[ 92%] Building CXX object test/CMakeFiles/test_likelihood_nh.dir/test_likelihood_nh.cpp.o
[ 93%] Building CXX object test/CMakeFiles/test_likelihood_clock.dir/test_likelihood_clock.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_likelihood_nh.dir/test_likelihood_nh.cpp.o -c /<<PKGBUILDDIR>>/test/test_likelihood_nh.cpp
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_likelihood_clock.dir/test_likelihood_clock.cpp.o -c /<<PKGBUILDDIR>>/test/test_likelihood_clock.cpp
[ 93%] Building CXX object test/CMakeFiles/test_mapping.dir/test_mapping.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_mapping.dir/test_mapping.cpp.o -c /<<PKGBUILDDIR>>/test/test_mapping.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Io/FileTools.h:46,
from /usr/include/Bpp/App/ApplicationTools.h:44,
from /<<PKGBUILDDIR>>/test/test_mapping.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Io/FileTools.h:46,
from /usr/include/Bpp/App/ApplicationTools.h:44,
from /<<PKGBUILDDIR>>/test/test_mapping.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double, std::allocator<double> > bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::NodeTemplate<bpp::SimData>]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Matrix/MatrixTools.h:43,
from /<<PKGBUILDDIR>>/test/test_likelihood_nh.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Matrix/MatrixTools.h:43,
from /<<PKGBUILDDIR>>/test/test_likelihood_nh.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double, std::allocator<double> > bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::NodeTemplate<bpp::SimData>]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 93%] Linking CXX executable test_likelihood_clock
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_likelihood_clock.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_likelihood_clock.dir/test_likelihood_clock.cpp.o -o test_likelihood_clock -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
[ 93%] Linking CXX executable test_likelihood
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_likelihood.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_likelihood.dir/test_likelihood.cpp.o -o test_likelihood -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 93%] Built target test_likelihood_clock
make -f test/CMakeFiles/test_simulations.dir/build.make test/CMakeFiles/test_simulations.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_simulations.dir/DependInfo.cmake --color=
Scanning dependencies of target test_simulations
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_simulations.dir/build.make test/CMakeFiles/test_simulations.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 94%] Built target test_likelihood
[ 94%] Building CXX object test/CMakeFiles/test_simulations.dir/test_simulations.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_simulations.dir/test_simulations.cpp.o -c /<<PKGBUILDDIR>>/test/test_simulations.cpp
make -f test/CMakeFiles/test_detailed_simulations.dir/build.make test/CMakeFiles/test_detailed_simulations.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_detailed_simulations.dir/DependInfo.cmake --color=
Scanning dependencies of target test_detailed_simulations
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_detailed_simulations.dir/build.make test/CMakeFiles/test_detailed_simulations.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 95%] Building CXX object test/CMakeFiles/test_detailed_simulations.dir/test_detailed_simulations.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_detailed_simulations.dir/test_detailed_simulations.cpp.o -c /<<PKGBUILDDIR>>/test/test_detailed_simulations.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Io/FileTools.h:46,
from /usr/include/Bpp/App/ApplicationTools.h:44,
from /<<PKGBUILDDIR>>/test/test_mapping.cpp:40:
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const bpp::MutationPath&}; _Tp = bpp::MutationPath; _Alloc = std::allocator<bpp::MutationPath>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<bpp::MutationPath>::iterator' {aka '__gnu_cxx::__normal_iterator<bpp::MutationPath*, std::vector<bpp::MutationPath> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Io/FileTools.h:46,
from /usr/include/Bpp/App/ApplicationTools.h:44,
from /<<PKGBUILDDIR>>/test/test_mapping.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'virtual void bpp::SiteSimulationResult::addNode(int, bpp::MutationPath)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<bpp::MutationPath*, std::vector<bpp::MutationPath> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 96%] Linking CXX executable test_likelihood_nh
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_likelihood_nh.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_likelihood_nh.dir/test_likelihood_nh.cpp.o -o test_likelihood_nh -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 96%] Built target test_likelihood_nh
make -f test/CMakeFiles/test_mapping_codon.dir/build.make test/CMakeFiles/test_mapping_codon.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_mapping_codon.dir/DependInfo.cmake --color=
Scanning dependencies of target test_mapping_codon
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_mapping_codon.dir/build.make test/CMakeFiles/test_mapping_codon.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 96%] Building CXX object test/CMakeFiles/test_mapping_codon.dir/test_mapping_codon.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_mapping_codon.dir/test_mapping_codon.cpp.o -c /<<PKGBUILDDIR>>/test/test_mapping_codon.cpp
[ 96%] Linking CXX executable test_mapping
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mapping.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_mapping.dir/test_mapping.cpp.o -o test_mapping -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 96%] Built target test_mapping
make -f test/CMakeFiles/test_models.dir/build.make test/CMakeFiles/test_models.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_models.dir/DependInfo.cmake --color=
Scanning dependencies of target test_models
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_models.dir/build.make test/CMakeFiles/test_models.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 96%] Building CXX object test/CMakeFiles/test_models.dir/test_models.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_models.dir/test_models.cpp.o -c /<<PKGBUILDDIR>>/test/test_models.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Prob/DiscreteDistribution.h:43,
from /usr/include/Bpp/Numeric/Prob/AbstractDiscreteDistribution.h:43,
from /usr/include/Bpp/Numeric/Prob/ConstantDistribution.h:43,
from /<<PKGBUILDDIR>>/test/test_detailed_simulations.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Prob/DiscreteDistribution.h:43,
from /usr/include/Bpp/Numeric/Prob/AbstractDiscreteDistribution.h:43,
from /usr/include/Bpp/Numeric/Prob/ConstantDistribution.h:43,
from /<<PKGBUILDDIR>>/test/test_detailed_simulations.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double, std::allocator<double> > bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::NodeTemplate<bpp::SimData>]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Prob/DiscreteDistribution.h:43,
from /usr/include/Bpp/Numeric/Prob/AbstractDiscreteDistribution.h:43,
from /usr/include/Bpp/Numeric/Prob/ConstantDistribution.h:43,
from /<<PKGBUILDDIR>>/test/test_detailed_simulations.cpp:40:
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const bpp::MutationPath&}; _Tp = bpp::MutationPath; _Alloc = std::allocator<bpp::MutationPath>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<bpp::MutationPath>::iterator' {aka '__gnu_cxx::__normal_iterator<bpp::MutationPath*, std::vector<bpp::MutationPath> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Prob/DiscreteDistribution.h:43,
from /usr/include/Bpp/Numeric/Prob/AbstractDiscreteDistribution.h:43,
from /usr/include/Bpp/Numeric/Prob/ConstantDistribution.h:43,
from /<<PKGBUILDDIR>>/test/test_detailed_simulations.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'virtual void bpp::SiteSimulationResult::addNode(int, bpp::MutationPath)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<bpp::MutationPath*, std::vector<bpp::MutationPath> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 96%] Linking CXX executable test_models
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_models.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_models.dir/test_models.cpp.o -o test_models -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 96%] Built target test_models
make -f test/CMakeFiles/test_nhx.dir/build.make test/CMakeFiles/test_nhx.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_nhx.dir/DependInfo.cmake --color=
Scanning dependencies of target test_nhx
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_nhx.dir/build.make test/CMakeFiles/test_nhx.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 96%] Building CXX object test/CMakeFiles/test_nhx.dir/test_nhx.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_nhx.dir/test_nhx.cpp.o -c /<<PKGBUILDDIR>>/test/test_nhx.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Matrix/MatrixTools.h:43,
from /<<PKGBUILDDIR>>/test/test_simulations.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Matrix/MatrixTools.h:43,
from /<<PKGBUILDDIR>>/test/test_simulations.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double, std::allocator<double> > bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::NodeTemplate<bpp::SimData>]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Matrix/MatrixTools.h:43,
from /<<PKGBUILDDIR>>/test/test_simulations.cpp:40:
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const bpp::MutationPath&}; _Tp = bpp::MutationPath; _Alloc = std::allocator<bpp::MutationPath>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<bpp::MutationPath>::iterator' {aka '__gnu_cxx::__normal_iterator<bpp::MutationPath*, std::vector<bpp::MutationPath> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Numeric/VectorExceptions.h:47,
from /usr/include/Bpp/Numeric/VectorTools.h:43,
from /usr/include/Bpp/Numeric/Matrix/MatrixTools.h:43,
from /<<PKGBUILDDIR>>/test/test_simulations.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'virtual void bpp::SiteSimulationResult::addNode(int, bpp::MutationPath)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<bpp::MutationPath*, std::vector<bpp::MutationPath> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 96%] Linking CXX executable test_detailed_simulations
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_detailed_simulations.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_detailed_simulations.dir/test_detailed_simulations.cpp.o -o test_detailed_simulations -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 96%] Built target test_detailed_simulations
make -f test/CMakeFiles/test_bowker.dir/build.make test/CMakeFiles/test_bowker.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_bowker.dir/DependInfo.cmake --color=
Scanning dependencies of target test_bowker
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_bowker.dir/build.make test/CMakeFiles/test_bowker.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 96%] Building CXX object test/CMakeFiles/test_bowker.dir/test_bowker.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_bowker.dir/test_bowker.cpp.o -c /<<PKGBUILDDIR>>/test/test_bowker.cpp
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Io/FileTools.h:46,
from /usr/include/Bpp/App/ApplicationTools.h:44,
from /<<PKGBUILDDIR>>/test/test_mapping_codon.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Io/FileTools.h:46,
from /usr/include/Bpp/App/ApplicationTools.h:44,
from /<<PKGBUILDDIR>>/test/test_mapping_codon.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double, std::allocator<double> > bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::NodeTemplate<bpp::SimData>]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In function 'int main()':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 97%] Linking CXX executable test_simulations
[ 97%] Linking CXX executable test_nhx
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_nhx.dir/link.txt --verbose=1
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_simulations.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_nhx.dir/test_nhx.cpp.o -o test_nhx -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_simulations.dir/test_simulations.cpp.o -o test_simulations -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 97%] Built target test_nhx
make -f test/CMakeFiles/test_parsimony.dir/build.make test/CMakeFiles/test_parsimony.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_parsimony.dir/DependInfo.cmake --color=
Scanning dependencies of target test_parsimony
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_parsimony.dir/build.make test/CMakeFiles/test_parsimony.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 97%] Building CXX object test/CMakeFiles/test_parsimony.dir/test_parsimony.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_parsimony.dir/test_parsimony.cpp.o -c /<<PKGBUILDDIR>>/test/test_parsimony.cpp
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 97%] Built target test_simulations
make -f test/CMakeFiles/test_tree.dir/build.make test/CMakeFiles/test_tree.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_tree.dir/DependInfo.cmake --color=
Scanning dependencies of target test_tree
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_tree.dir/build.make test/CMakeFiles/test_tree.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 97%] Building CXX object test/CMakeFiles/test_tree.dir/test_tree.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_tree.dir/test_tree.cpp.o -c /<<PKGBUILDDIR>>/test/test_tree.cpp
[ 98%] Linking CXX executable test_mapping_codon
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mapping_codon.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_mapping_codon.dir/test_mapping_codon.cpp.o -o test_mapping_codon -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 98%] Built target test_mapping_codon
make -f test/CMakeFiles/test_tree_getpath.dir/build.make test/CMakeFiles/test_tree_getpath.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_tree_getpath.dir/DependInfo.cmake --color=
Scanning dependencies of target test_tree_getpath
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_tree_getpath.dir/build.make test/CMakeFiles/test_tree_getpath.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 99%] Building CXX object test/CMakeFiles/test_tree_getpath.dir/test_tree_getpath.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_tree_getpath.dir/test_tree_getpath.cpp.o -c /<<PKGBUILDDIR>>/test/test_tree_getpath.cpp
[ 99%] Linking CXX executable test_tree_getpath
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tree_getpath.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_tree_getpath.dir/test_tree_getpath.cpp.o -o test_tree_getpath -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 99%] Built target test_tree_getpath
make -f test/CMakeFiles/test_tree_rootat.dir/build.make test/CMakeFiles/test_tree_rootat.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_tree_rootat.dir/DependInfo.cmake --color=
Scanning dependencies of target test_tree_rootat
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_tree_rootat.dir/build.make test/CMakeFiles/test_tree_rootat.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 99%] Building CXX object test/CMakeFiles/test_tree_rootat.dir/test_tree_rootat.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/c++ -I/<<PKGBUILDDIR>>/src -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_tree_rootat.dir/test_tree_rootat.cpp.o -c /<<PKGBUILDDIR>>/test/test_tree_rootat.cpp
[ 99%] Linking CXX executable test_parsimony
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_parsimony.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_parsimony.dir/test_parsimony.cpp.o -o test_parsimony -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 99%] Built target test_parsimony
In file included from /usr/include/c++/8/vector:69,
from /usr/include/Bpp/Seq/Alphabet/LetterAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/NucleicAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/DNA.h:44,
from /<<PKGBUILDDIR>>/test/test_bowker.cpp:40:
/usr/include/c++/8/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<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from /usr/include/Bpp/Seq/Alphabet/LetterAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/NucleicAlphabet.h:45,
from /usr/include/Bpp/Seq/Alphabet/DNA.h:44,
from /<<PKGBUILDDIR>>/test/test_bowker.cpp:40:
/usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector<double, std::allocator<double> > bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::NodeTemplate<bpp::SimData>]':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
[ 99%] Linking CXX executable test_tree
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tree.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_tree.dir/test_tree.cpp.o -o test_tree -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 99%] Built target test_tree
[100%] Linking CXX executable test_tree_rootat
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tree_rootat.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_tree_rootat.dir/test_tree_rootat.cpp.o -o test_tree_rootat -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[100%] Built target test_tree_rootat
[100%] Linking CXX executable test_bowker
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_bowker.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_bowker.dir/test_bowker.cpp.o -o test_bowker -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[100%] Built target test_bowker
make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
/usr/bin/cmake -E cmake_progress_start /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/CMakeFiles 0
make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
dh_auto_test -a
cd obj-arm-linux-gnueabihf && make -j4 test ARGS\+=-j4
make[1]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
Running tests...
/usr/bin/ctest --force-new-ctest-process -j4
Test project /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf
Start 1: test_bowker
Start 2: test_detailed_simulations
Start 3: test_likelihood
Start 4: test_likelihood_clock
1/14 Test #4: test_likelihood_clock ............ Passed 0.14 sec
Start 5: test_likelihood_nh
2/14 Test #3: test_likelihood .................. Passed 0.24 sec
Start 6: test_mapping
3/14 Test #2: test_detailed_simulations ........ Passed 2.35 sec
Start 7: test_mapping_codon
4/14 Test #6: test_mapping ..................... Passed 4.55 sec
Start 8: test_models
5/14 Test #8: test_models ...................... Passed 0.18 sec
Start 9: test_nhx
6/14 Test #9: test_nhx ......................... Passed 0.03 sec
Start 10: test_parsimony
7/14 Test #10: test_parsimony ................... Passed 0.03 sec
Start 11: test_simulations
8/14 Test #5: test_likelihood_nh ............... Passed 6.92 sec
Start 12: test_tree
9/14 Test #12: test_tree ........................ Passed 11.80 sec
Start 13: test_tree_getpath
10/14 Test #13: test_tree_getpath ................ Passed 0.03 sec
Start 14: test_tree_rootat
11/14 Test #14: test_tree_rootat ................. Passed 0.32 sec
12/14 Test #7: test_mapping_codon ............... Passed 32.87 sec
13/14 Test #1: test_bowker ...................... Passed 38.62 sec
14/14 Test #11: test_simulations ................. Passed 129.72 sec
100% tests passed, 0 tests failed out of 14
Total Test time (real) = 134.76 sec
make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
dh_auto_install -a
cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/<<PKGBUILDDIR>>/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<PKGBUILDDIR>> -B/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/CMakeFiles /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
make[2]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/bpp-phyl-shared.dir/build.make src/CMakeFiles/bpp-phyl-shared.dir/depend
make -f src/CMakeFiles/bpp-phyl-static.dir/build.make src/CMakeFiles/bpp-phyl-static.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/CMakeFiles/bpp-phyl-static.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/CMakeFiles/bpp-phyl-shared.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/bpp-phyl-shared.dir/build.make src/CMakeFiles/bpp-phyl-shared.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/bpp-phyl-static.dir/build.make src/CMakeFiles/bpp-phyl-static.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'src/CMakeFiles/bpp-phyl-shared.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'src/CMakeFiles/bpp-phyl-static.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 76%] Built target bpp-phyl-static
[ 92%] Built target bpp-phyl-shared
make -f test/CMakeFiles/test_mapping.dir/build.make test/CMakeFiles/test_mapping.dir/depend
make -f test/CMakeFiles/test_likelihood.dir/build.make test/CMakeFiles/test_likelihood.dir/depend
make -f test/CMakeFiles/test_likelihood_nh.dir/build.make test/CMakeFiles/test_likelihood_nh.dir/depend
make -f test/CMakeFiles/test_likelihood_clock.dir/build.make test/CMakeFiles/test_likelihood_clock.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_mapping.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_likelihood.dir/DependInfo.cmake --color=
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_likelihood_clock.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_likelihood_nh.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_mapping.dir/build.make test/CMakeFiles/test_mapping.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_likelihood.dir/build.make test/CMakeFiles/test_likelihood.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_likelihood_nh.dir/build.make test/CMakeFiles/test_likelihood_nh.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_likelihood_clock.dir/build.make test/CMakeFiles/test_likelihood_clock.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_mapping.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_likelihood_clock.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_likelihood.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_likelihood_nh.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 92%] Built target test_mapping
make -f test/CMakeFiles/test_simulations.dir/build.make test/CMakeFiles/test_simulations.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_simulations.dir/DependInfo.cmake --color=
[ 94%] Built target test_likelihood_nh
[ 94%] Built target test_likelihood_clock
make -f test/CMakeFiles/test_detailed_simulations.dir/build.make test/CMakeFiles/test_detailed_simulations.dir/depend
make -f test/CMakeFiles/test_mapping_codon.dir/build.make test/CMakeFiles/test_mapping_codon.dir/depend
[ 94%] Built target test_likelihood
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_detailed_simulations.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_mapping_codon.dir/DependInfo.cmake --color=
make -f test/CMakeFiles/test_models.dir/build.make test/CMakeFiles/test_models.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_models.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_simulations.dir/build.make test/CMakeFiles/test_simulations.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_models.dir/build.make test/CMakeFiles/test_models.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_mapping_codon.dir/build.make test/CMakeFiles/test_mapping_codon.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_detailed_simulations.dir/build.make test/CMakeFiles/test_detailed_simulations.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_models.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_simulations.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_detailed_simulations.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_mapping_codon.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 94%] Built target test_models
make -f test/CMakeFiles/test_nhx.dir/build.make test/CMakeFiles/test_nhx.dir/depend
[ 95%] Built target test_simulations
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_nhx.dir/DependInfo.cmake --color=
make -f test/CMakeFiles/test_bowker.dir/build.make test/CMakeFiles/test_bowker.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_bowker.dir/DependInfo.cmake --color=
[ 96%] Built target test_detailed_simulations
make -f test/CMakeFiles/test_parsimony.dir/build.make test/CMakeFiles/test_parsimony.dir/depend
[ 97%] Built target test_mapping_codon
make -f test/CMakeFiles/test_tree.dir/build.make test/CMakeFiles/test_tree.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_parsimony.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_tree.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_nhx.dir/build.make test/CMakeFiles/test_nhx.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_bowker.dir/build.make test/CMakeFiles/test_bowker.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_nhx.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_bowker.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_parsimony.dir/build.make test/CMakeFiles/test_parsimony.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_tree.dir/build.make test/CMakeFiles/test_tree.dir/build
[ 98%] Built target test_nhx
make -f test/CMakeFiles/test_tree_getpath.dir/build.make test/CMakeFiles/test_tree_getpath.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_parsimony.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_tree_getpath.dir/DependInfo.cmake --color=
[ 98%] Built target test_bowker
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_tree.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_tree_rootat.dir/build.make test/CMakeFiles/test_tree_rootat.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/test/CMakeFiles/test_tree_rootat.dir/DependInfo.cmake --color=
[ 98%] Built target test_parsimony
[ 98%] Built target test_tree
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_tree_getpath.dir/build.make test/CMakeFiles/test_tree_getpath.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_tree_getpath.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f test/CMakeFiles/test_tree_rootat.dir/build.make test/CMakeFiles/test_tree_rootat.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'test/CMakeFiles/test_tree_rootat.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 99%] Built target test_tree_getpath
[100%] Built target test_tree_rootat
make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
/usr/bin/cmake -E cmake_progress_start /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/CMakeFiles 0
make -f CMakeFiles/Makefile2 preinstall
make[2]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[2]: Nothing to be done for 'preinstall'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
Install the project...
/usr/bin/cmake -P cmake_install.cmake
-- Install configuration: "None"
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/bpp-phyl/bpp-phyl-config.cmake
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/bpp-phyl/bpp-phyl-config-version.cmake
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbpp-phyl.a
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbpp-phyl.so
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Distance
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Distance/NeighborJoining.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Distance/HierarchicalClustering.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Distance/PGMA.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Distance/DistanceMethod.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Distance/DistanceEstimation.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Distance/BioNJ.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/TS98.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/BinarySubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/WordSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractWordSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/FromMixtureSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/WAG01.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/Coala.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/LGL08_CAT.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/LG08.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/LLG08_UL2.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/LLG08_EX3.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/DSO78.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/JTT92.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/LLG08_EHO.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/LG10_EX_EHO.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/UserProteinSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/LLG08_EX2.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/JCprot.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/LLG08_UL3.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/ProteinSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Protein/CoalaCore.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/SubstitutionModelSetTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/StateMap.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/OneChangeTransitionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractBiblioSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/MixtureOfASubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractFromSubstitutionModelTransitionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/InMixedSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/G2001.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractBiblioMixedSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/FrequenciesSet
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/FrequenciesSet/MvaFrequenciesSet.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/FrequenciesSet/ProteinFrequenciesSet.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/MixtureOfSubstitutionModels.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/CodonSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/AbstractKroneckerCodonSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/AbstractCodonSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/TripletSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/AbstractCodonFrequenciesSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/CodonDistanceSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/SENCA.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/AbstractCodonAAFitnessSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceFrequenciesSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/AbstractCodonBGCSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/YN98.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/CodonAdHocSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/KCM.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/AbstractCodonCpGSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/YNGP_M.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/YNGP_M1.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/YNGP_M2.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/AbstractCodonAARateSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/GY94.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/AbstractCodonDistanceSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/YNGP_M8.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/CodonDistanceFrequenciesSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/MG94.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/AbstractCodonPhaseFrequenciesSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/YNGP_M7.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/YNGP_M9.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/YNGP_M3.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/CodonDistancePhaseFrequenciesSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Codon/YNGP_M10.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/MixedSubstitutionModelSet.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractWrappedModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/RN95.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/SSR.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/HKY85.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/TN93.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/RN95s.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/L95.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/gBGC.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/YpR.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/GTR.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/JCnuc.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/K80.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/NucleotideSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/T92.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/Nucleotide/F84.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/RE08.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/RegisterRatesSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/AnonymousSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/KroneckerWordSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/WrappedModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/MixedSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/SubstitutionModelSet.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/RateDistribution
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/RateDistribution/ExponentialDiscreteRateDistribution.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/RateDistribution/GaussianDiscreteRateDistribution.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/RateDistribution/GammaDiscreteRateDistribution.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/RateDistribution/ConstantRateDistribution.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Model/SubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/PatternTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Simulation
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Simulation/MutationProcess.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Simulation/SequenceSimulator.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Simulation/SiteSimulator.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Simulation/DetailedSiteSimulator.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Simulation/HomogeneousSequenceSimulator.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Simulation/SequenceSimulationTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/OneJumpSubstitutionCount.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/WeightedSubstitutionCount.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/DecompositionReward.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/SubstitutionMapping.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/DecompositionSubstitutionCount.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/RewardMapping.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/RewardMappingTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/UniformizationSubstitutionCount.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/Mapping.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/SubstitutionCount.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/SubstitutionMappingTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/SubstitutionRegister.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/ProbabilisticRewardMapping.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/DecompositionMethods.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/CategorySubstitutionRegister.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/Reward.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Mapping/NaiveSubstitutionCount.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/BipartitionList.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Tree.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/TreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/PairedSiteLikelihoods.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/SitePartitionTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/ClockTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/DRTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/RASTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/MarginalAncestralStateReconstruction.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/DRTreeLikelihoodTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/HomogeneousTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/TreeLikelihoodData.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/AbstractTreeLikelihoodData.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/DiscreteRatesAcrossSitesTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/TreeLikelihoodTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/RNonHomogeneousMixedTreeLikelihood.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/TreeExceptions.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/BipartitionTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/NodeTemplate.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Graphics
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Graphics/PhylogramPlot.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Graphics/TreeDrawingListener.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Graphics/CladogramPlot.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Graphics/AbstractTreeDrawing.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Graphics/TreeDrawing.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Graphics/AbstractDendrogramPlot.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Node.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/IoFrequenciesSetFactory.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/IoTree.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/BppOMultiTreeWriterFormat.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/IoDistanceMatrix.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/BppOTreeReaderFormat.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/BppOTreeWriterFormat.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/IoFrequenciesSet.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/IoSubstitutionModelFactory.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/Newick.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/IoDistanceMatrixFactory.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/BppOFrequenciesSetFormat.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/NexusIoTree.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/BppOTransitionModelFormat.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/IoPairedSiteLikelihoods.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/IoTreeFactory.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/IoSubstitutionModel.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/BppORateDistributionFormat.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/BppOMultiTreeReaderFormat.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/Nhx.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Io/BppOSubstitutionModelFormat.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/TreeTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/NNISearchable.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/TopologySearch.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/SitePatterns.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/TreeTemplateTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/AncestralStateReconstruction.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/TreeTemplate.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/NNITopologySearch.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/PhyloStatistics.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/OptimizationTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/App
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/App/PhylogeneticsApplicationTools.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Parsimony
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Parsimony/TreeParsimonyData.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Parsimony/TreeParsimonyScore.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Parsimony/AbstractTreeParsimonyScore.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Parsimony/DRTreeParsimonyData.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Parsimony/DRTreeParsimonyScore.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/Bpp/Phyl/Parsimony/AbstractTreeParsimonyData.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/bpp-phyl/bpp-phyl-targets.cmake
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/cmake/bpp-phyl/bpp-phyl-targets-none.cmake
make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
debian/rules override_dh_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_install
d-shlibmove --commit \
--multiarch \
--devunversioned \
--exclude-la \
--movedev debian/tmp/usr/include/* usr/include \
--movedev debian/tmp/usr/lib/*/cmake usr/lib/arm-linux-gnueabihf \
debian/tmp/usr/lib/*/*.so
Library package automatic movement utility
--> libbpp-core-dev package exists.
--> libbpp-seq-dev package exists.
set -e
install -d -m 755 debian/libbpp-phyl-dev/usr/lib/arm-linux-gnueabihf
install -d -m 755 debian/libbpp-phyl12/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libbpp-phyl.a debian/libbpp-phyl-dev/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libbpp-phyl.so debian/libbpp-phyl-dev/usr/lib/arm-linux-gnueabihf
mv /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12 debian/libbpp-phyl12/usr/lib/arm-linux-gnueabihf
mv /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 debian/libbpp-phyl12/usr/lib/arm-linux-gnueabihf
PKGDEV=libbpp-phyl-dev
PKGSHL=libbpp-phyl12
install -d -m 755 debian/libbpp-phyl-dev/usr/include
mv debian/tmp/usr/include/Bpp debian/libbpp-phyl-dev/usr/include
install -d -m 755 debian/libbpp-phyl-dev/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/cmake debian/libbpp-phyl-dev/usr/lib/arm-linux-gnueabihf
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_installdocs -a
dh_installchangelogs -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_missing -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libbpp-phyl12/usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 found in none of the libraries
dh_installdeb -a
dh_gencontrol -a
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'libbpp-phyl12-dbgsym' in '../libbpp-phyl12-dbgsym_2.4.1-2_armhf.deb'.
dpkg-deb: building package 'libbpp-phyl12' in '../libbpp-phyl12_2.4.1-2_armhf.deb'.
dpkg-deb: building package 'libbpp-phyl-dev' in '../libbpp-phyl-dev_2.4.1-2_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../libbpp-phyl_2.4.1-2_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2019-03-12T12:52:26Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
libbpp-phyl_2.4.1-2_armhf.changes:
----------------------------------
Format: 1.8
Date: Fri, 01 Mar 2019 15:52:37 +0100
Source: libbpp-phyl
Binary: libbpp-phyl-dev libbpp-phyl12 libbpp-phyl12-dbgsym
Architecture: armhf
Version: 2.4.1-2
Distribution: buster-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
libbpp-phyl-dev - Bio++ Phylogenetic library development files
libbpp-phyl12 - Bio++ Phylogenetic library
Closes: 923457
Changes:
libbpp-phyl (2.4.1-2) unstable; urgency=medium
.
[ Jelmer Vernooij ]
* Use secure copyright file specification URI.
* Trim trailing whitespace.
.
[ Michael R. Crusoe ]
* libbpp-phyl-dev: Multi-Arch: same & add missing ${devlibs:Depends}
* Remove trailing whitespace in debian/copyright
* Standards-Version: 4.3.0
.
[ Andreas Tille ]
* Adapt symbols to new gcc version
Closes: #923457
* More sensible way to provide symbols amd64 only
Checksums-Sha1:
56ae9a026ea03ddd77f9ddeaa67df60ba9f32ca2 2921892 libbpp-phyl-dev_2.4.1-2_armhf.deb
99e407e1499a1e9641b899a726e29b40b60378bb 44357260 libbpp-phyl12-dbgsym_2.4.1-2_armhf.deb
1a19696d7063b79bfaf6601aa0fb5bf58180a481 1318984 libbpp-phyl12_2.4.1-2_armhf.deb
3092a1c2c2c71e54e04d70e0681b0872012889f4 6582 libbpp-phyl_2.4.1-2_armhf.buildinfo
Checksums-Sha256:
f58a40febeaa055e3fe0c4e473726b77f47ce75069c252011ef08f0ef46aa561 2921892 libbpp-phyl-dev_2.4.1-2_armhf.deb
5d7d96d4c9f8e8488f2b869fc49989d37c23be2f2c69ae19f762fd7925ac241e 44357260 libbpp-phyl12-dbgsym_2.4.1-2_armhf.deb
2ca0dcee898d5686751902849aab099bbb7ecec5d36be326fb8a8e378a208735 1318984 libbpp-phyl12_2.4.1-2_armhf.deb
e393444ed9d1aabc3243435ca77c4e03c48b10e35dc09827521d92484c0568ea 6582 libbpp-phyl_2.4.1-2_armhf.buildinfo
Files:
4b5d65bef34c744d7ee0445c18cb9ed4 2921892 libdevel optional libbpp-phyl-dev_2.4.1-2_armhf.deb
1dda040bda34f28da71906a4531f731b 44357260 debug optional libbpp-phyl12-dbgsym_2.4.1-2_armhf.deb
2339c5761ddd24e6bd2698d82ccabb4f 1318984 libs optional libbpp-phyl12_2.4.1-2_armhf.deb
3077a8879e7e130123b3c4055a7698a9 6582 science optional libbpp-phyl_2.4.1-2_armhf.buildinfo
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
libbpp-phyl-dev_2.4.1-2_armhf.deb
---------------------------------
new Debian package, version 2.0.
size 2921892 bytes: control archive=6668 bytes.
900 bytes, 20 lines control
19680 bytes, 225 lines md5sums
Package: libbpp-phyl-dev
Source: libbpp-phyl
Version: 2.4.1-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 32133
Depends: libbpp-phyl12 (= 2.4.1-2), libbpp-core-dev, libbpp-seq-dev (>= 2.4.1)
Section: libdevel
Priority: optional
Multi-Arch: same
Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page
Description: Bio++ Phylogenetic library development files
Bio++ is a set of C++ libraries for Bioinformatics, including sequence
analysis, phylogenetics, molecular evolution and population genetics.
Bio++ is Object Oriented and is designed to be both easy to use and
computer efficient. Bio++ intends to help programmers to write computer
expensive programs, by providing them a set of re-usable tools.
.
This package contains the static library and the header files of the
Bio++ classes for phylogenetics.
drwxr-xr-x root/root 0 2019-03-01 14:52 ./
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/
-rw-r--r-- root/root 3681 2018-08-13 09:51 ./usr/include/Bpp/Phyl/AncestralStateReconstruction.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/App/
-rw-r--r-- root/root 31125 2018-08-13 09:51 ./usr/include/Bpp/Phyl/App/PhylogeneticsApplicationTools.h
-rw-r--r-- root/root 7990 2018-08-13 09:51 ./usr/include/Bpp/Phyl/BipartitionList.h
-rw-r--r-- root/root 6470 2018-08-13 09:51 ./usr/include/Bpp/Phyl/BipartitionTools.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Distance/
-rw-r--r-- root/root 7601 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.h
-rw-r--r-- root/root 3862 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Distance/BioNJ.h
-rw-r--r-- root/root 18923 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Distance/DistanceEstimation.h
-rw-r--r-- root/root 3353 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Distance/DistanceMethod.h
-rw-r--r-- root/root 3978 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Distance/HierarchicalClustering.h
-rw-r--r-- root/root 4163 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Distance/NeighborJoining.h
-rw-r--r-- root/root 4060 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Distance/PGMA.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Graphics/
-rw-r--r-- root/root 3284 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Graphics/AbstractDendrogramPlot.h
-rw-r--r-- root/root 12400 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Graphics/AbstractTreeDrawing.h
-rw-r--r-- root/root 3423 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Graphics/CladogramPlot.h
-rw-r--r-- root/root 3351 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Graphics/PhylogramPlot.h
-rw-r--r-- root/root 11685 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Graphics/TreeDrawing.h
-rw-r--r-- root/root 6574 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.h
-rw-r--r-- root/root 8890 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Graphics/TreeDrawingListener.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Io/
-rw-r--r-- root/root 4567 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/BppOFrequenciesSetFormat.h
-rw-r--r-- root/root 3291 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/BppOMultiTreeReaderFormat.h
-rw-r--r-- root/root 3291 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/BppOMultiTreeWriterFormat.h
-rw-r--r-- root/root 3192 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/BppORateDistributionFormat.h
-rw-r--r-- root/root 7953 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/BppOSubstitutionModelFormat.h
-rw-r--r-- root/root 3621 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/BppOTransitionModelFormat.h
-rw-r--r-- root/root 3235 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/BppOTreeReaderFormat.h
-rw-r--r-- root/root 3235 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/BppOTreeWriterFormat.h
-rw-r--r-- root/root 4889 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/IoDistanceMatrix.h
-rw-r--r-- root/root 3578 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/IoDistanceMatrixFactory.h
-rw-r--r-- root/root 4434 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/IoFrequenciesSet.h
-rw-r--r-- root/root 3233 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/IoFrequenciesSetFactory.h
-rw-r--r-- root/root 4278 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/IoPairedSiteLikelihoods.h
-rw-r--r-- root/root 4622 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/IoSubstitutionModel.h
-rw-r--r-- root/root 3291 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/IoSubstitutionModelFactory.h
-rw-r--r-- root/root 7531 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/IoTree.h
-rw-r--r-- root/root 3037 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/IoTreeFactory.h
-rw-r--r-- root/root 6114 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/Newick.h
-rw-r--r-- root/root 4349 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/NexusIoTree.h
-rw-r--r-- root/root 8314 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/Nhx.h
-rw-r--r-- root/root 3032 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Likelihood/
-rw-r--r-- root/root 5194 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.h
-rw-r--r-- root/root 9681 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h
-rw-r--r-- root/root 9980 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h
-rw-r--r-- root/root 9945 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.h
-rw-r--r-- root/root 4829 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/AbstractTreeLikelihoodData.h
-rw-r--r-- root/root 2829 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/ClockTreeLikelihood.h
-rw-r--r-- root/root 14460 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.h
-rw-r--r-- root/root 10807 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.h
-rw-r--r-- root/root 7304 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.h
-rw-r--r-- root/root 12091 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.h
-rw-r--r-- root/root 12466 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/DRNonHomogeneousTreeLikelihood.h
-rw-r--r-- root/root 3944 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/DRTreeLikelihood.h
-rw-r--r-- root/root 3282 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/DRTreeLikelihoodTools.h
-rw-r--r-- root/root 7808 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/DiscreteRatesAcrossSitesTreeLikelihood.h
-rw-r--r-- root/root 4029 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/GlobalClockTreeLikelihoodFunctionWrapper.h
-rw-r--r-- root/root 4147 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/HomogeneousTreeLikelihood.h
-rw-r--r-- root/root 7118 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/MarginalAncestralStateReconstruction.h
-rw-r--r-- root/root 8396 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/NNIHomogeneousTreeLikelihood.h
-rw-r--r-- root/root 4467 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/NonHomogeneousTreeLikelihood.h
-rw-r--r-- root/root 6184 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/PairedSiteLikelihoods.h
-rw-r--r-- root/root 4263 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.h
-rw-r--r-- root/root 2576 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/RASTools.h
-rw-r--r-- root/root 6335 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.h
-rw-r--r-- root/root 6764 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.h
-rw-r--r-- root/root 10924 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/RHomogeneousTreeLikelihood.h
-rw-r--r-- root/root 10136 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/RNonHomogeneousMixedTreeLikelihood.h
-rw-r--r-- root/root 11312 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/RNonHomogeneousTreeLikelihood.h
-rw-r--r-- root/root 3540 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/SitePartitionTreeLikelihood.h
-rw-r--r-- root/root 13839 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/TreeLikelihood.h
-rw-r--r-- root/root 4296 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/TreeLikelihoodData.h
-rw-r--r-- root/root 4568 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Likelihood/TreeLikelihoodTools.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Mapping/
-rw-r--r-- root/root 12487 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/CategorySubstitutionRegister.h
-rw-r--r-- root/root 5372 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/DecompositionMethods.h
-rw-r--r-- root/root 3948 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/DecompositionReward.h
-rw-r--r-- root/root 4165 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/DecompositionSubstitutionCount.h
-rw-r--r-- root/root 4585 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.h
-rw-r--r-- root/root 7052 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/Mapping.h
-rw-r--r-- root/root 6660 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/NaiveSubstitutionCount.h
-rw-r--r-- root/root 4204 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/OneJumpSubstitutionCount.h
-rw-r--r-- root/root 5460 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/ProbabilisticRewardMapping.h
-rw-r--r-- root/root 6663 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.h
-rw-r--r-- root/root 6574 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/Reward.h
-rw-r--r-- root/root 3228 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/RewardMapping.h
-rw-r--r-- root/root 4801 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/RewardMappingTools.h
-rw-r--r-- root/root 8275 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/SubstitutionCount.h
-rw-r--r-- root/root 3705 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/SubstitutionMapping.h
-rw-r--r-- root/root 30913 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/SubstitutionMappingTools.h
-rw-r--r-- root/root 38069 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/SubstitutionRegister.h
-rw-r--r-- root/root 4555 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/UniformizationSubstitutionCount.h
-rw-r--r-- root/root 3734 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Mapping/WeightedSubstitutionCount.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Model/
-rw-r--r-- root/root 5577 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/AbstractBiblioMixedSubstitutionModel.h
-rw-r--r-- root/root 4358 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/AbstractBiblioSubstitutionModel.h
-rw-r--r-- root/root 4607 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/AbstractFromSubstitutionModelTransitionModel.h
-rw-r--r-- root/root 7458 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.h
-rw-r--r-- root/root 6253 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.h
-rw-r--r-- root/root 16193 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/AbstractSubstitutionModel.h
-rw-r--r-- root/root 8034 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/AbstractWordSubstitutionModel.h
-rw-r--r-- root/root 7901 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/AbstractWrappedModel.h
-rw-r--r-- root/root 3011 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/AnonymousSubstitutionModel.h
-rw-r--r-- root/root 5050 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/BinarySubstitutionModel.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Model/Codon/
-rw-r--r-- root/root 4685 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/AbstractCodonAAFitnessSubstitutionModel.h
-rw-r--r-- root/root 5255 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/AbstractCodonAARateSubstitutionModel.h
-rw-r--r-- root/root 4487 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/AbstractCodonBGCSubstitutionModel.h
-rw-r--r-- root/root 3855 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/AbstractCodonCpGSubstitutionModel.h
-rw-r--r-- root/root 5249 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/AbstractCodonDistanceSubstitutionModel.h
-rw-r--r-- root/root 4491 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/AbstractCodonFitnessSubstitutionModel.h
-rw-r--r-- root/root 4320 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/AbstractCodonFrequenciesSubstitutionModel.h
-rw-r--r-- root/root 4690 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/AbstractCodonPhaseFrequenciesSubstitutionModel.h
-rw-r--r-- root/root 6191 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/AbstractCodonSubstitutionModel.h
-rw-r--r-- root/root 7560 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/AbstractKroneckerCodonSubstitutionModel.h
-rw-r--r-- root/root 5114 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/CodonAdHocSubstitutionModel.h
-rw-r--r-- root/root 6334 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/CodonDistanceFrequenciesSubstitutionModel.h
-rw-r--r-- root/root 5817 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/CodonDistancePhaseFrequenciesSubstitutionModel.h
-rw-r--r-- root/root 4831 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/CodonDistanceSubstitutionModel.h
-rw-r--r-- root/root 3498 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/CodonSubstitutionModel.h
-rw-r--r-- root/root 4108 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/GY94.h
-rw-r--r-- root/root 3865 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/KCM.h
-rw-r--r-- root/root 8297 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceFrequenciesSubstitutionModel.h
-rw-r--r-- root/root 7202 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/KroneckerCodonDistanceSubstitutionModel.h
-rw-r--r-- root/root 3903 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/MG94.h
-rw-r--r-- root/root 4922 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/SENCA.h
-rw-r--r-- root/root 3702 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/TripletSubstitutionModel.h
-rw-r--r-- root/root 4501 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/YN98.h
-rw-r--r-- root/root 3234 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/YNGP_M.h
-rw-r--r-- root/root 3369 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/YNGP_M1.h
-rw-r--r-- root/root 3652 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/YNGP_M10.h
-rw-r--r-- root/root 3303 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/YNGP_M2.h
-rw-r--r-- root/root 3262 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/YNGP_M3.h
-rw-r--r-- root/root 3073 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/YNGP_M7.h
-rw-r--r-- root/root 3271 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/YNGP_M8.h
-rw-r--r-- root/root 3644 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Codon/YNGP_M9.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Model/FrequenciesSet/
-rw-r--r-- root/root 14637 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/FrequenciesSet/CodonFrequenciesSet.h
-rw-r--r-- root/root 12351 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/FrequenciesSet/FrequenciesSet.h
-rw-r--r-- root/root 4441 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/FrequenciesSet/MvaFrequenciesSet.h
-rw-r--r-- root/root 5918 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.h
-rw-r--r-- root/root 4507 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/FrequenciesSet/ProteinFrequenciesSet.h
-rw-r--r-- root/root 7524 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.h
-rw-r--r-- root/root 4482 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/FromMixtureSubstitutionModel.h
-rw-r--r-- root/root 5716 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/G2001.h
-rw-r--r-- root/root 8504 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/InMixedSubstitutionModel.h
-rw-r--r-- root/root 5423 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/KroneckerWordSubstitutionModel.h
-rw-r--r-- root/root 11767 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.h
-rw-r--r-- root/root 4325 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/MixedSubstitutionModel.h
-rw-r--r-- root/root 10723 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/MixedSubstitutionModelSet.h
-rw-r--r-- root/root 5976 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/MixtureOfASubstitutionModel.h
-rw-r--r-- root/root 6911 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/MixtureOfSubstitutionModels.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Model/Nucleotide/
-rw-r--r-- root/root 9394 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/F84.h
-rw-r--r-- root/root 5972 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/GTR.h
-rw-r--r-- root/root 9216 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/HKY85.h
-rw-r--r-- root/root 5910 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/JCnuc.h
-rw-r--r-- root/root 8366 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/K80.h
-rw-r--r-- root/root 4200 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/L95.h
-rw-r--r-- root/root 4420 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/NucleotideSubstitutionModel.h
-rw-r--r-- root/root 5604 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/RN95.h
-rw-r--r-- root/root 4634 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/RN95s.h
-rw-r--r-- root/root 4409 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/SSR.h
-rw-r--r-- root/root 7825 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/T92.h
-rw-r--r-- root/root 6308 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/TN93.h
-rw-r--r-- root/root 7409 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/YpR.h
-rw-r--r-- root/root 3642 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Nucleotide/gBGC.h
-rw-r--r-- root/root 6526 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.h
-rw-r--r-- root/root 4152 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/OneChangeTransitionModel.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Model/Protein/
-rw-r--r-- root/root 4576 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/Coala.h
-rw-r--r-- root/root 3954 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/CoalaCore.h
-rw-r--r-- root/root 5260 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/DSO78.h
-rw-r--r-- root/root 8554 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/JCprot.h
-rw-r--r-- root/root 5182 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/JTT92.h
-rw-r--r-- root/root 4991 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/LG08.h
-rw-r--r-- root/root 4020 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/LG10_EX_EHO.h
-rw-r--r-- root/root 3961 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/LGL08_CAT.h
-rw-r--r-- root/root 4038 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/LLG08_EHO.h
-rw-r--r-- root/root 3778 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/LLG08_EX2.h
-rw-r--r-- root/root 4069 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/LLG08_EX3.h
-rw-r--r-- root/root 3801 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/LLG08_UL2.h
-rw-r--r-- root/root 3982 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/LLG08_UL3.h
-rw-r--r-- root/root 4182 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/ProteinSubstitutionModel.h
-rw-r--r-- root/root 5892 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/UserProteinSubstitutionModel.h
-rw-r--r-- root/root 5157 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/Protein/WAG01.h
-rw-r--r-- root/root 12982 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/RE08.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Model/RateDistribution/
-rw-r--r-- root/root 2275 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/RateDistribution/ConstantRateDistribution.h
-rw-r--r-- root/root 2424 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/RateDistribution/ExponentialDiscreteRateDistribution.h
-rw-r--r-- root/root 2400 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/RateDistribution/GammaDiscreteRateDistribution.h
-rw-r--r-- root/root 2412 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/RateDistribution/GaussianDiscreteRateDistribution.h
-rw-r--r-- root/root 6983 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/RegisterRatesSubstitutionModel.h
-rw-r--r-- root/root 6872 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/StateMap.h
-rw-r--r-- root/root 18846 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/SubstitutionModel.h
-rw-r--r-- root/root 17727 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/SubstitutionModelSet.h
-rw-r--r-- root/root 3642 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/SubstitutionModelSetTools.h
-rw-r--r-- root/root 4149 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/TS98.h
-rw-r--r-- root/root 4486 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/WordSubstitutionModel.h
-rw-r--r-- root/root 2587 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Model/WrappedModel.h
-rw-r--r-- root/root 4430 2018-08-13 09:51 ./usr/include/Bpp/Phyl/NNISearchable.h
-rw-r--r-- root/root 5590 2018-08-13 09:51 ./usr/include/Bpp/Phyl/NNITopologySearch.h
-rw-r--r-- root/root 18872 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Node.h
-rw-r--r-- root/root 6424 2018-08-13 09:51 ./usr/include/Bpp/Phyl/NodeTemplate.h
-rw-r--r-- root/root 34188 2018-08-13 09:51 ./usr/include/Bpp/Phyl/OptimizationTools.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Parsimony/
-rw-r--r-- root/root 3942 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Parsimony/AbstractTreeParsimonyData.h
-rw-r--r-- root/root 3793 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Parsimony/AbstractTreeParsimonyScore.h
-rw-r--r-- root/root 9546 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Parsimony/DRTreeParsimonyData.h
-rw-r--r-- root/root 6185 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Parsimony/DRTreeParsimonyScore.h
-rw-r--r-- root/root 3483 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Parsimony/TreeParsimonyData.h
-rw-r--r-- root/root 3241 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Parsimony/TreeParsimonyScore.h
-rw-r--r-- root/root 3738 2018-08-13 09:51 ./usr/include/Bpp/Phyl/PatternTools.h
-rw-r--r-- root/root 3691 2018-08-13 09:51 ./usr/include/Bpp/Phyl/PhyloStatistics.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/include/Bpp/Phyl/Simulation/
-rw-r--r-- root/root 8235 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Simulation/DetailedSiteSimulator.h
-rw-r--r-- root/root 2573 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Simulation/HomogeneousSequenceSimulator.h
-rw-r--r-- root/root 12789 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Simulation/MutationProcess.h
-rw-r--r-- root/root 10877 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.h
-rw-r--r-- root/root 4165 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Simulation/SequenceSimulationTools.h
-rw-r--r-- root/root 2363 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Simulation/SequenceSimulator.h
-rw-r--r-- root/root 2515 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Simulation/SiteSimulator.h
-rw-r--r-- root/root 5513 2018-08-13 09:51 ./usr/include/Bpp/Phyl/SitePatterns.h
-rw-r--r-- root/root 4172 2018-08-13 09:51 ./usr/include/Bpp/Phyl/TopologySearch.h
-rw-r--r-- root/root 14464 2018-08-13 09:51 ./usr/include/Bpp/Phyl/Tree.h
-rw-r--r-- root/root 7641 2018-08-13 09:51 ./usr/include/Bpp/Phyl/TreeExceptions.h
-rw-r--r-- root/root 19136 2018-08-13 09:51 ./usr/include/Bpp/Phyl/TreeTemplate.h
-rw-r--r-- root/root 44061 2018-08-13 09:51 ./usr/include/Bpp/Phyl/TreeTemplateTools.h
-rw-r--r-- root/root 28969 2018-08-13 09:51 ./usr/include/Bpp/Phyl/TreeTools.h
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/lib/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/cmake/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/cmake/bpp-phyl/
-rw-r--r-- root/root 1610 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/cmake/bpp-phyl/bpp-phyl-config-version.cmake
-rw-r--r-- root/root 2311 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/cmake/bpp-phyl/bpp-phyl-config.cmake
-rw-r--r-- root/root 1515 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/cmake/bpp-phyl/bpp-phyl-targets-none.cmake
-rw-r--r-- root/root 3939 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/cmake/bpp-phyl/bpp-phyl-targets.cmake
-rw-r--r-- root/root 31214412 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/libbpp-phyl.a
lrwxrwxrwx root/root 0 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/libbpp-phyl.so -> libbpp-phyl.so.12
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/share/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/share/doc/libbpp-phyl-dev/
-rw-r--r-- root/root 2220 2019-03-01 14:52 ./usr/share/doc/libbpp-phyl-dev/changelog.Debian.gz
-rw-r--r-- root/root 7468 2018-08-13 09:51 ./usr/share/doc/libbpp-phyl-dev/changelog.gz
-rw-r--r-- root/root 23163 2019-03-01 14:52 ./usr/share/doc/libbpp-phyl-dev/copyright
libbpp-phyl12-dbgsym_2.4.1-2_armhf.deb
--------------------------------------
new Debian package, version 2.0.
size 44357260 bytes: control archive=556 bytes.
411 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: libbpp-phyl12-dbgsym
Source: libbpp-phyl
Version: 2.4.1-2
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 45039
Depends: libbpp-phyl12 (= 2.4.1-2)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for libbpp-phyl12
Build-Ids: a201f2fe607f4eeb0ec85c8c4595c43f61c8c29f
drwxr-xr-x root/root 0 2019-03-01 14:52 ./
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/lib/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/lib/debug/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/lib/debug/.build-id/a2/
-rw-r--r-- root/root 46109540 2019-03-01 14:52 ./usr/lib/debug/.build-id/a2/01f2fe607f4eeb0ec85c8c4595c43f61c8c29f.debug
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/share/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/share/doc/
lrwxrwxrwx root/root 0 2019-03-01 14:52 ./usr/share/doc/libbpp-phyl12-dbgsym -> libbpp-phyl12
libbpp-phyl12_2.4.1-2_armhf.deb
-------------------------------
new Debian package, version 2.0.
size 1318984 bytes: control archive=1024 bytes.
845 bytes, 19 lines control
313 bytes, 4 lines md5sums
29 bytes, 1 lines shlibs
67 bytes, 2 lines triggers
Package: libbpp-phyl12
Source: libbpp-phyl
Version: 2.4.1-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 6619
Depends: libbpp-core4, libbpp-seq12, libc6 (>= 2.4), libgcc1 (>= 1:3.5), libstdc++6 (>= 5.2)
Section: libs
Priority: optional
Multi-Arch: same
Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page
Description: Bio++ Phylogenetic library
Bio++ is a set of C++ libraries for Bioinformatics, including sequence
analysis, phylogenetics, molecular evolution and population genetics.
Bio++ is Object Oriented and is designed to be both easy to use and
computer efficient. Bio++ intends to help programmers to write computer
expensive programs, by providing them a set of re-usable tools.
.
This package contains the Bio++ classes for phylogenetics.
drwxr-xr-x root/root 0 2019-03-01 14:52 ./
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/lib/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/
lrwxrwxrwx root/root 0 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12 -> libbpp-phyl.so.12.0.0
-rw-r--r-- root/root 6731192 2019-03-01 14:52 ./usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/share/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-03-01 14:52 ./usr/share/doc/libbpp-phyl12/
-rw-r--r-- root/root 2220 2019-03-01 14:52 ./usr/share/doc/libbpp-phyl12/changelog.Debian.gz
-rw-r--r-- root/root 7468 2018-08-13 09:51 ./usr/share/doc/libbpp-phyl12/changelog.gz
-rw-r--r-- root/root 23163 2019-03-01 14:52 ./usr/share/doc/libbpp-phyl12/copyright
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 1256448
Build-Time: 1394
Distribution: buster-staging
Host Architecture: armhf
Install-Time: 159
Job: libbpp-phyl_2.4.1-2
Machine Architecture: armhf
Package: libbpp-phyl
Package-Time: 1571
Source-Version: 2.4.1-2
Space: 1256448
Status: successful
Version: 2.4.1-2
--------------------------------------------------------------------------------
Finished at 2019-03-12T12:52:26Z
Build needed 00:26:11, 1256448k disk space