prime-phylo →
1.0.11-8 →
armhf → 2019-12-17 06:43:44
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-02
+==============================================================================+
| prime-phylo 1.0.11-8 (armhf) Tue, 17 Dec 2019 06:28:22 +0000 |
+==============================================================================+
Package: prime-phylo
Version: 1.0.11-8
Source Version: 1.0.11-8
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bullseye-staging-armhf-sbuild-17f4c77c-d38b-48c2-a5a6-3497dcf62507' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [11.5 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.8 MB]
Fetched 24.3 MB in 20s (1241 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: 'prime-phylo' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/prime-phylo.git
Please use:
git clone https://salsa.debian.org/med-team/prime-phylo.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 759 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main prime-phylo 1.0.11-8 (dsc) [2173 B]
Get:2 http://172.17.0.1/private bullseye-staging/main prime-phylo 1.0.11-8 (tar) [751 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main prime-phylo 1.0.11-8 (diff) [6168 B]
Fetched 759 kB in 0s (1937 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/prime-phylo-3KHnC6/prime-phylo-1.0.11' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/prime-phylo-3KHnC6' 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-qu5Vad/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-qu5Vad/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-qu5Vad/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-qu5Vad/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-qu5Vad/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-qu5Vad/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-qu5Vad/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-qu5Vad/apt_archive ./ Packages [430 B]
Fetched 2106 B in 0s (9644 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:
libpam-cap netbase
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 20 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-qu5Vad/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 ... 13002 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-compat (= 12), gengetopt, cmake, libblas-dev, liblapack-dev, gfortran, bison, flex, libopenmpi-dev, libxml2-dev, libboost-dev, libboost-mpi-dev, libboost-serialization-dev, zlib1g-dev
Filtered Build-Depends: debhelper-compat (= 12), gengetopt, cmake, libblas-dev, liblapack-dev, gfortran, bison, flex, libopenmpi-dev, libxml2-dev, libboost-dev, libboost-mpi-dev, libboost-serialization-dev, zlib1g-dev
dpkg-deb: building package 'sbuild-build-depends-prime-phylo-dummy' in '/<<BUILDDIR>>/resolver-qu5Vad/apt_archive/sbuild-build-depends-prime-phylo-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-prime-phylo-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-qu5Vad/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-qu5Vad/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-qu5Vad/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-qu5Vad/apt_archive ./ Sources [579 B]
Get:5 copy:/<<BUILDDIR>>/resolver-qu5Vad/apt_archive ./ Packages [657 B]
Fetched 2569 B in 0s (11.1 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install prime-phylo 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:
libpam-cap netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bison bsdmainutils cmake
cmake-data cpp-9 debhelper dh-autoreconf dh-strip-nondeterminism dwz file
flex g++-9 gcc-9 gcc-9-base gengetopt gettext gettext-base gfortran
gfortran-9 groff-base ibverbs-providers icu-devtools intltool-debian
libarchive-zip-perl libarchive13 libasan5 libatomic1 libblas-dev libblas3
libboost-dev libboost-mpi-dev libboost-mpi1.67-dev libboost-mpi1.67.0
libboost-serialization-dev libboost-serialization1.67-dev
libboost-serialization1.67.0 libboost1.67-dev libbrotli1 libbsd0 libcc1-0
libcroco3 libcurl3-gnutls libdebhelper-perl libedit2 libelf1 libevent-2.1-7
libevent-core-2.1-7 libevent-dev libevent-extra-2.1-7 libevent-openssl-2.1-7
libevent-pthreads-2.1-7 libexpat1 libfile-stripnondeterminism-perl
libgcc-9-dev libgcc1 libgfortran-9-dev libgfortran5 libglib2.0-0 libgomp1
libgssapi-krb5-2 libhwloc-dev libhwloc-plugins libhwloc15 libibverbs-dev
libibverbs1 libicu-dev libicu63 libjsoncpp1 libk5crypto3 libkeyutils1
libkrb5-3 libkrb5support0 liblapack-dev liblapack3 libltdl-dev libltdl7
libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libnl-3-200 libnl-3-dev
libnl-route-3-200 libnl-route-3-dev libopenmpi-dev libopenmpi3 libpciaccess0
libpipeline1 libpmix2 libprocps7 libpsl5 librhash0 librtmp1 libsigsegv2
libssh2-1 libssl1.1 libstdc++-9-dev libstdc++6 libsub-override-perl
libtinfo5 libtool libubsan1 libuchardet0 libuv1 libxml2 libxml2-dev m4
man-db mpi-default-dev ocl-icd-libopencl1 openmpi-bin openmpi-common
openssh-client po-debconf procps sensible-utils zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc bison-doc wamerican | wordlist
whois vacation cmake-doc ninja-build gcc-9-locales dh-make flex-doc
gcc-9-doc gettext-doc libasprintf-dev libgettextpo-dev gfortran-doc
gfortran-9-doc libcoarrays-dev groff lrzip liblapack-doc libboost-doc
libboost-graph1.67-dev libboost1.67-doc libboost-atomic1.67-dev
libboost-chrono1.67-dev libboost-container1.67-dev libboost-context1.67-dev
libboost-coroutine1.67-dev libboost-date-time1.67-dev
libboost-exception1.67-dev libboost-fiber1.67-dev
libboost-filesystem1.67-dev libboost-graph-parallel1.67-dev
libboost-iostreams1.67-dev libboost-locale1.67-dev libboost-log1.67-dev
libboost-math1.67-dev libboost-mpi-python1.67-dev libboost-numpy1.67-dev
libboost-program-options1.67-dev libboost-python1.67-dev
libboost-random1.67-dev libboost-regex1.67-dev libboost-signals1.67-dev
libboost-stacktrace1.67-dev libboost-system1.67-dev libboost-test1.67-dev
libboost-thread1.67-dev libboost-timer1.67-dev libboost-type-erasure1.67-dev
libboost-wave1.67-dev libboost1.67-tools-dev libmpfrc++-dev libntl-dev
krb5-doc krb5-user icu-doc libtool-doc openmpi-doc pciutils libstdc++-9-doc
gcj-jdk pkg-config m4-doc apparmor less www-browser opencl-icd keychain
libpam-ssh monkeysphere ssh-askpass libmail-box-perl
Recommended packages:
libfl-dev curl | wget | lynx ca-certificates libarchive-cpio-perl
libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales libgpm2
libcoarrays-openmpi-dev publicsuffix xauth libmail-sendmail-perl psmisc
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bison bsdmainutils cmake
cmake-data debhelper dh-autoreconf dh-strip-nondeterminism dwz file flex
gengetopt gettext gettext-base gfortran gfortran-9 groff-base
ibverbs-providers icu-devtools intltool-debian libarchive-zip-perl
libarchive13 libblas-dev libblas3 libboost-dev libboost-mpi-dev
libboost-mpi1.67-dev libboost-mpi1.67.0 libboost-serialization-dev
libboost-serialization1.67-dev libboost-serialization1.67.0 libboost1.67-dev
libbrotli1 libbsd0 libcroco3 libcurl3-gnutls libdebhelper-perl libedit2
libelf1 libevent-2.1-7 libevent-core-2.1-7 libevent-dev libevent-extra-2.1-7
libevent-openssl-2.1-7 libevent-pthreads-2.1-7 libexpat1
libfile-stripnondeterminism-perl libgfortran-9-dev libgfortran5 libglib2.0-0
libgssapi-krb5-2 libhwloc-dev libhwloc-plugins libhwloc15 libibverbs-dev
libibverbs1 libicu-dev libicu63 libjsoncpp1 libk5crypto3 libkeyutils1
libkrb5-3 libkrb5support0 liblapack-dev liblapack3 libltdl-dev libltdl7
libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libnl-3-200 libnl-3-dev
libnl-route-3-200 libnl-route-3-dev libopenmpi-dev libopenmpi3 libpciaccess0
libpipeline1 libpmix2 libprocps7 libpsl5 librhash0 librtmp1 libsigsegv2
libssh2-1 libssl1.1 libsub-override-perl libtinfo5 libtool libuchardet0
libuv1 libxml2 libxml2-dev m4 man-db mpi-default-dev ocl-icd-libopencl1
openmpi-bin openmpi-common openssh-client po-debconf procps
sbuild-build-depends-prime-phylo-dummy sensible-utils zlib1g-dev
The following packages will be upgraded:
cpp-9 g++-9 gcc-9 gcc-9-base libasan5 libatomic1 libcc1-0 libgcc-9-dev
libgcc1 libgomp1 libstdc++-9-dev libstdc++6 libubsan1
13 upgraded, 109 newly installed, 0 to remove and 7 not upgraded.
Need to get 94.4 MB of archives.
After this operation, 362 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-qu5Vad/apt_archive ./ sbuild-build-depends-prime-phylo-dummy 0.invalid.0 [948 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.1+20191019-1 [316 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libcc1-0 armhf 9.2.1-21+rpi1 [38.0 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf gcc-9-base armhf 9.2.1-21+rpi1 [195 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libgcc1 armhf 1:9.2.1-21+rpi1 [37.0 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf libgomp1 armhf 9.2.1-21+rpi1 [73.8 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf libatomic1 armhf 9.2.1-21+rpi1 [8160 B]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libasan5 armhf 9.2.1-21+rpi1 [348 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf libubsan1 armhf 9.2.1-21+rpi1 [112 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf g++-9 armhf 9.2.1-21+rpi1 [8207 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf libstdc++-9-dev armhf 9.2.1-21+rpi1 [1707 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf libgcc-9-dev armhf 9.2.1-21+rpi1 [640 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf gcc-9 armhf 9.2.1-21+rpi1 [7715 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf cpp-9 armhf 9.2.1-21+rpi1 [7458 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf libstdc++6 armhf 9.2.1-21+rpi1 [414 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-3 [782 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.1-3 [28.3 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.0-1 [1261 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf flex armhf 2.6.4-6.2 [427 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libncurses6 armhf 6.1+20191019-1 [79.5 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libprocps7 armhf 2:3.3.15-2 [58.9 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf procps armhf 2:3.3.15-2 [235 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.37-6 [253 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.37-6 [111 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.37-6 [66.2 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf libedit2 armhf 3.1-20191025-1 [79.3 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf libkeyutils1 armhf 1.6-6 [14.0 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf libkrb5support0 armhf 1.17-6+b1 [61.5 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf libk5crypto3 armhf 1.17-6+b1 [112 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1d-2 [1268 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf libkrb5-3 armhf 1.17-6+b1 [316 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libgssapi-krb5-2 armhf 1.17-6+b1 [134 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf openssh-client armhf 1:8.1p1-1 [713 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.1-4 [771 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf bison armhf 2:3.4.2+dfsg-1 [869 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf cmake-data all 3.15.4-1+rpi1 [1580 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-2 [7974 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.4+dfsg1-8 [593 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libarchive13 armhf 3.4.0-1+b1 [292 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.7-5 [257 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libnghttp2-14 armhf 1.40.0-1 [73.9 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf libpsl5 armhf 0.20.2-2 [52.6 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b1 [54.3 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf libssh2-1 armhf 1.8.0-2.1 [126 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libcurl3-gnutls armhf 7.67.0-2 [284 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.9-1 [71.5 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf libjsoncpp1 armhf 1.7.4-3 [66.2 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf librhash0 armhf 1.3.8-1 [132 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf libuv1 armhf 1.33.1-2 [112 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf cmake armhf 3.15.4-1+rpi1 [2540 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-11 [547 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 12.7.2 [174 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.67-1 [104 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.6.3-1 [23.6 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.6.3-1 [14.6 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:70 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.62.3-2 [1137 kB]
Get:71 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:72 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:73 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:74 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:75 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 12.7.2 [1018 kB]
Get:76 http://172.17.0.1/private bullseye-staging/main armhf gengetopt armhf 2.22.6+dfsg0-3 [156 kB]
Get:77 http://172.17.0.1/private bullseye-staging/main armhf libgfortran5 armhf 9.2.1-21+rpi1 [231 kB]
Get:78 http://172.17.0.1/private bullseye-staging/main armhf libgfortran-9-dev armhf 9.2.1-21+rpi1 [279 kB]
Get:79 http://172.17.0.1/private bullseye-staging/main armhf gfortran-9 armhf 9.2.1-21+rpi1 [8099 kB]
Get:80 http://172.17.0.1/private bullseye-staging/main armhf gfortran armhf 4:9.2.1-3.1+rpi1 [1440 B]
Get:81 http://172.17.0.1/private bullseye-staging/main armhf libnl-3-200 armhf 3.4.0-1 [55.0 kB]
Get:82 http://172.17.0.1/private bullseye-staging/main armhf libnl-route-3-200 armhf 3.4.0-1 [132 kB]
Get:83 http://172.17.0.1/private bullseye-staging/main armhf libibverbs1 armhf 26.0-2 [47.1 kB]
Get:84 http://172.17.0.1/private bullseye-staging/main armhf ibverbs-providers armhf 26.0-2 [23.8 kB]
Get:85 http://172.17.0.1/private bullseye-staging/main armhf icu-devtools armhf 63.2-2 [163 kB]
Get:86 http://172.17.0.1/private bullseye-staging/main armhf libblas3 armhf 3.9.0-1 [108 kB]
Get:87 http://172.17.0.1/private bullseye-staging/main armhf libblas-dev armhf 3.9.0-1 [113 kB]
Get:88 http://172.17.0.1/private bullseye-staging/main armhf libboost1.67-dev armhf 1.67.0-13 [8386 kB]
Get:89 http://172.17.0.1/private bullseye-staging/main armhf libboost-dev armhf 1.67.0.2+b8 [4464 B]
Get:90 http://172.17.0.1/private bullseye-staging/main armhf libboost-serialization1.67.0 armhf 1.67.0-13 [300 kB]
Get:91 http://172.17.0.1/private bullseye-staging/main armhf libboost-serialization1.67-dev armhf 1.67.0-13 [365 kB]
Get:92 http://172.17.0.1/private bullseye-staging/main armhf libevent-2.1-7 armhf 2.1.11-stable-1 [165 kB]
Get:93 http://172.17.0.1/private bullseye-staging/main armhf libevent-core-2.1-7 armhf 2.1.11-stable-1 [124 kB]
Get:94 http://172.17.0.1/private bullseye-staging/main armhf libevent-pthreads-2.1-7 armhf 2.1.11-stable-1 [54.7 kB]
Get:95 http://172.17.0.1/private bullseye-staging/main armhf libltdl7 armhf 2.4.6-11 [387 kB]
Get:96 http://172.17.0.1/private bullseye-staging/main armhf libhwloc15 armhf 2.1.0+dfsg-2+rpi1 [112 kB]
Get:97 http://172.17.0.1/private bullseye-staging/main armhf libpciaccess0 armhf 0.14-1 [51.0 kB]
Get:98 http://172.17.0.1/private bullseye-staging/main armhf ocl-icd-libopencl1 armhf 2.2.12-2 [35.7 kB]
Get:99 http://172.17.0.1/private bullseye-staging/main armhf libhwloc-plugins armhf 2.1.0+dfsg-2+rpi1 [17.0 kB]
Get:100 http://172.17.0.1/private bullseye-staging/main armhf libpmix2 armhf 3.1.4-1+b1 [370 kB]
Get:101 http://172.17.0.1/private bullseye-staging/main armhf libopenmpi3 armhf 4.0.2-4+rpi1+b1 [1680 kB]
Get:102 http://172.17.0.1/private bullseye-staging/main armhf libboost-mpi1.67.0 armhf 1.67.0-13 [252 kB]
Get:103 http://172.17.0.1/private bullseye-staging/main armhf openmpi-common all 4.0.2-4+rpi1 [168 kB]
Get:104 http://172.17.0.1/private bullseye-staging/main armhf libnl-3-dev armhf 3.4.0-1 [92.4 kB]
Get:105 http://172.17.0.1/private bullseye-staging/main armhf libnl-route-3-dev armhf 3.4.0-1 [145 kB]
Get:106 http://172.17.0.1/private bullseye-staging/main armhf libibverbs-dev armhf 26.0-2 [165 kB]
Get:107 http://172.17.0.1/private bullseye-staging/main armhf libltdl-dev armhf 2.4.6-11 [159 kB]
Get:108 http://172.17.0.1/private bullseye-staging/main armhf libhwloc-dev armhf 2.1.0+dfsg-2+rpi1 [172 kB]
Get:109 http://172.17.0.1/private bullseye-staging/main armhf libevent-extra-2.1-7 armhf 2.1.11-stable-1 [98.7 kB]
Get:110 http://172.17.0.1/private bullseye-staging/main armhf libevent-openssl-2.1-7 armhf 2.1.11-stable-1 [59.7 kB]
Get:111 http://172.17.0.1/private bullseye-staging/main armhf libevent-dev armhf 2.1.11-stable-1 [279 kB]
Get:112 http://172.17.0.1/private bullseye-staging/main armhf openmpi-bin armhf 4.0.2-4+rpi1+b1 [183 kB]
Get:113 http://172.17.0.1/private bullseye-staging/main armhf libopenmpi-dev armhf 4.0.2-4+rpi1+b1 [906 kB]
Get:114 http://172.17.0.1/private bullseye-staging/main armhf mpi-default-dev armhf 1.13 [5476 B]
Get:115 http://172.17.0.1/private bullseye-staging/main armhf libboost-mpi1.67-dev armhf 1.67.0-13 [276 kB]
Get:116 http://172.17.0.1/private bullseye-staging/main armhf libboost-mpi-dev armhf 1.67.0.2+b8 [4332 B]
Get:117 http://172.17.0.1/private bullseye-staging/main armhf libboost-serialization-dev armhf 1.67.0.2+b8 [4472 B]
Get:118 http://172.17.0.1/private bullseye-staging/main armhf libicu-dev armhf 63.2-2 [8846 kB]
Get:119 http://172.17.0.1/private bullseye-staging/main armhf liblapack3 armhf 3.9.0-1 [1597 kB]
Get:120 http://172.17.0.1/private bullseye-staging/main armhf liblapack-dev armhf 3.9.0-1 [2981 kB]
Get:121 http://172.17.0.1/private bullseye-staging/main armhf libxml2-dev armhf 2.9.4+dfsg1-8 [660 kB]
Get:122 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [206 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 94.4 MB in 30s (3101 kB/s)
Selecting previously unselected package libbsd0:armhf.
(Reading database ... 13002 files and directories currently installed.)
Preparing to unpack .../libbsd0_0.10.0-1_armhf.deb ...
Unpacking libbsd0:armhf (0.10.0-1) ...
Selecting previously unselected package libtinfo5:armhf.
Preparing to unpack .../libtinfo5_6.1+20191019-1_armhf.deb ...
Unpacking libtinfo5:armhf (6.1+20191019-1) ...
Selecting previously unselected package bsdmainutils.
Preparing to unpack .../bsdmainutils_11.1.2_armhf.deb ...
Unpacking bsdmainutils (11.1.2) ...
Preparing to unpack .../libcc1-0_9.2.1-21+rpi1_armhf.deb ...
Unpacking libcc1-0:armhf (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Preparing to unpack .../gcc-9-base_9.2.1-21+rpi1_armhf.deb ...
Unpacking gcc-9-base:armhf (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Setting up gcc-9-base:armhf (9.2.1-21+rpi1) ...
(Reading database ... 13134 files and directories currently installed.)
Preparing to unpack .../libgcc1_1%3a9.2.1-21+rpi1_armhf.deb ...
Unpacking libgcc1:armhf (1:9.2.1-21+rpi1) over (1:9.2.1-19+rpi1+b1) ...
Setting up libgcc1:armhf (1:9.2.1-21+rpi1) ...
(Reading database ... 13134 files and directories currently installed.)
Preparing to unpack .../0-libgomp1_9.2.1-21+rpi1_armhf.deb ...
Unpacking libgomp1:armhf (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Preparing to unpack .../1-libatomic1_9.2.1-21+rpi1_armhf.deb ...
Unpacking libatomic1:armhf (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Preparing to unpack .../2-libasan5_9.2.1-21+rpi1_armhf.deb ...
Unpacking libasan5:armhf (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Preparing to unpack .../3-libubsan1_9.2.1-21+rpi1_armhf.deb ...
Unpacking libubsan1:armhf (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Preparing to unpack .../4-g++-9_9.2.1-21+rpi1_armhf.deb ...
Unpacking g++-9 (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Preparing to unpack .../5-libstdc++-9-dev_9.2.1-21+rpi1_armhf.deb ...
Unpacking libstdc++-9-dev:armhf (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Preparing to unpack .../6-libgcc-9-dev_9.2.1-21+rpi1_armhf.deb ...
Unpacking libgcc-9-dev:armhf (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Preparing to unpack .../7-gcc-9_9.2.1-21+rpi1_armhf.deb ...
Unpacking gcc-9 (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Preparing to unpack .../8-cpp-9_9.2.1-21+rpi1_armhf.deb ...
Unpacking cpp-9 (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Preparing to unpack .../9-libstdc++6_9.2.1-21+rpi1_armhf.deb ...
Unpacking libstdc++6:armhf (9.2.1-21+rpi1) over (9.2.1-19+rpi1+b1) ...
Setting up libstdc++6:armhf (9.2.1-21+rpi1) ...
Selecting previously unselected package libuchardet0:armhf.
(Reading database ... 13134 files and directories currently installed.)
Preparing to unpack .../000-libuchardet0_0.0.6-3_armhf.deb ...
Unpacking libuchardet0:armhf (0.0.6-3) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../001-groff-base_1.22.4-3_armhf.deb ...
Unpacking groff-base (1.22.4-3) ...
Selecting previously unselected package libpipeline1:armhf.
Preparing to unpack .../002-libpipeline1_1.5.1-3_armhf.deb ...
Unpacking libpipeline1:armhf (1.5.1-3) ...
Selecting previously unselected package man-db.
Preparing to unpack .../003-man-db_2.9.0-1_armhf.deb ...
Unpacking man-db (2.9.0-1) ...
Selecting previously unselected package libsigsegv2:armhf.
Preparing to unpack .../004-libsigsegv2_2.12-2_armhf.deb ...
Unpacking libsigsegv2:armhf (2.12-2) ...
Selecting previously unselected package m4.
Preparing to unpack .../005-m4_1.4.18-4_armhf.deb ...
Unpacking m4 (1.4.18-4) ...
Selecting previously unselected package flex.
Preparing to unpack .../006-flex_2.6.4-6.2_armhf.deb ...
Unpacking flex (2.6.4-6.2) ...
Selecting previously unselected package libncurses6:armhf.
Preparing to unpack .../007-libncurses6_6.1+20191019-1_armhf.deb ...
Unpacking libncurses6:armhf (6.1+20191019-1) ...
Selecting previously unselected package libprocps7:armhf.
Preparing to unpack .../008-libprocps7_2%3a3.3.15-2_armhf.deb ...
Unpacking libprocps7:armhf (2:3.3.15-2) ...
Selecting previously unselected package procps.
Preparing to unpack .../009-procps_2%3a3.3.15-2_armhf.deb ...
Unpacking procps (2:3.3.15-2) ...
Selecting previously unselected package sensible-utils.
Preparing to unpack .../010-sensible-utils_0.0.12+nmu1_all.deb ...
Unpacking sensible-utils (0.0.12+nmu1) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../011-libmagic-mgc_1%3a5.37-6_armhf.deb ...
Unpacking libmagic-mgc (1:5.37-6) ...
Selecting previously unselected package libmagic1:armhf.
Preparing to unpack .../012-libmagic1_1%3a5.37-6_armhf.deb ...
Unpacking libmagic1:armhf (1:5.37-6) ...
Selecting previously unselected package file.
Preparing to unpack .../013-file_1%3a5.37-6_armhf.deb ...
Unpacking file (1:5.37-6) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../014-gettext-base_0.19.8.1-10_armhf.deb ...
Unpacking gettext-base (0.19.8.1-10) ...
Selecting previously unselected package libedit2:armhf.
Preparing to unpack .../015-libedit2_3.1-20191025-1_armhf.deb ...
Unpacking libedit2:armhf (3.1-20191025-1) ...
Selecting previously unselected package libkeyutils1:armhf.
Preparing to unpack .../016-libkeyutils1_1.6-6_armhf.deb ...
Unpacking libkeyutils1:armhf (1.6-6) ...
Selecting previously unselected package libkrb5support0:armhf.
Preparing to unpack .../017-libkrb5support0_1.17-6+b1_armhf.deb ...
Unpacking libkrb5support0:armhf (1.17-6+b1) ...
Selecting previously unselected package libk5crypto3:armhf.
Preparing to unpack .../018-libk5crypto3_1.17-6+b1_armhf.deb ...
Unpacking libk5crypto3:armhf (1.17-6+b1) ...
Selecting previously unselected package libssl1.1:armhf.
Preparing to unpack .../019-libssl1.1_1.1.1d-2_armhf.deb ...
Unpacking libssl1.1:armhf (1.1.1d-2) ...
Selecting previously unselected package libkrb5-3:armhf.
Preparing to unpack .../020-libkrb5-3_1.17-6+b1_armhf.deb ...
Unpacking libkrb5-3:armhf (1.17-6+b1) ...
Selecting previously unselected package libgssapi-krb5-2:armhf.
Preparing to unpack .../021-libgssapi-krb5-2_1.17-6+b1_armhf.deb ...
Unpacking libgssapi-krb5-2:armhf (1.17-6+b1) ...
Selecting previously unselected package openssh-client.
Preparing to unpack .../022-openssh-client_1%3a8.1p1-1_armhf.deb ...
Unpacking openssh-client (1:8.1p1-1) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../023-autoconf_2.69-11_all.deb ...
Unpacking autoconf (2.69-11) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../024-autotools-dev_20180224.1_all.deb ...
Unpacking autotools-dev (20180224.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../025-automake_1%3a1.16.1-4_all.deb ...
Unpacking automake (1:1.16.1-4) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../026-autopoint_0.19.8.1-10_all.deb ...
Unpacking autopoint (0.19.8.1-10) ...
Selecting previously unselected package bison.
Preparing to unpack .../027-bison_2%3a3.4.2+dfsg-1_armhf.deb ...
Unpacking bison (2:3.4.2+dfsg-1) ...
Selecting previously unselected package cmake-data.
Preparing to unpack .../028-cmake-data_3.15.4-1+rpi1_all.deb ...
Unpacking cmake-data (3.15.4-1+rpi1) ...
Selecting previously unselected package libicu63:armhf.
Preparing to unpack .../029-libicu63_63.2-2_armhf.deb ...
Unpacking libicu63:armhf (63.2-2) ...
Selecting previously unselected package libxml2:armhf.
Preparing to unpack .../030-libxml2_2.9.4+dfsg1-8_armhf.deb ...
Unpacking libxml2:armhf (2.9.4+dfsg1-8) ...
Selecting previously unselected package libarchive13:armhf.
Preparing to unpack .../031-libarchive13_3.4.0-1+b1_armhf.deb ...
Unpacking libarchive13:armhf (3.4.0-1+b1) ...
Selecting previously unselected package libbrotli1:armhf.
Preparing to unpack .../032-libbrotli1_1.0.7-5_armhf.deb ...
Unpacking libbrotli1:armhf (1.0.7-5) ...
Selecting previously unselected package libnghttp2-14:armhf.
Preparing to unpack .../033-libnghttp2-14_1.40.0-1_armhf.deb ...
Unpacking libnghttp2-14:armhf (1.40.0-1) ...
Selecting previously unselected package libpsl5:armhf.
Preparing to unpack .../034-libpsl5_0.20.2-2_armhf.deb ...
Unpacking libpsl5:armhf (0.20.2-2) ...
Selecting previously unselected package librtmp1:armhf.
Preparing to unpack .../035-librtmp1_2.4+20151223.gitfa8646d.1-2+b1_armhf.deb ...
Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b1) ...
Selecting previously unselected package libssh2-1:armhf.
Preparing to unpack .../036-libssh2-1_1.8.0-2.1_armhf.deb ...
Unpacking libssh2-1:armhf (1.8.0-2.1) ...
Selecting previously unselected package libcurl3-gnutls:armhf.
Preparing to unpack .../037-libcurl3-gnutls_7.67.0-2_armhf.deb ...
Unpacking libcurl3-gnutls:armhf (7.67.0-2) ...
Selecting previously unselected package libexpat1:armhf.
Preparing to unpack .../038-libexpat1_2.2.9-1_armhf.deb ...
Unpacking libexpat1:armhf (2.2.9-1) ...
Selecting previously unselected package libjsoncpp1:armhf.
Preparing to unpack .../039-libjsoncpp1_1.7.4-3_armhf.deb ...
Unpacking libjsoncpp1:armhf (1.7.4-3) ...
Selecting previously unselected package librhash0:armhf.
Preparing to unpack .../040-librhash0_1.3.8-1_armhf.deb ...
Unpacking librhash0:armhf (1.3.8-1) ...
Selecting previously unselected package libuv1:armhf.
Preparing to unpack .../041-libuv1_1.33.1-2_armhf.deb ...
Unpacking libuv1:armhf (1.33.1-2) ...
Selecting previously unselected package cmake.
Preparing to unpack .../042-cmake_3.15.4-1+rpi1_armhf.deb ...
Unpacking cmake (3.15.4-1+rpi1) ...
Selecting previously unselected package libtool.
Preparing to unpack .../043-libtool_2.4.6-11_all.deb ...
Unpacking libtool (2.4.6-11) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../044-dh-autoreconf_19_all.deb ...
Unpacking dh-autoreconf (19) ...
Selecting previously unselected package libdebhelper-perl.
Preparing to unpack .../045-libdebhelper-perl_12.7.2_all.deb ...
Unpacking libdebhelper-perl (12.7.2) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../046-libarchive-zip-perl_1.67-1_all.deb ...
Unpacking libarchive-zip-perl (1.67-1) ...
Selecting previously unselected package libsub-override-perl.
Preparing to unpack .../047-libsub-override-perl_0.09-2_all.deb ...
Unpacking libsub-override-perl (0.09-2) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../048-libfile-stripnondeterminism-perl_1.6.3-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (1.6.3-1) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../049-dh-strip-nondeterminism_1.6.3-1_all.deb ...
Unpacking dh-strip-nondeterminism (1.6.3-1) ...
Selecting previously unselected package libelf1:armhf.
Preparing to unpack .../050-libelf1_0.176-1.1_armhf.deb ...
Unpacking libelf1:armhf (0.176-1.1) ...
Selecting previously unselected package dwz.
Preparing to unpack .../051-dwz_0.13-5_armhf.deb ...
Unpacking dwz (0.13-5) ...
Selecting previously unselected package libglib2.0-0:armhf.
Preparing to unpack .../052-libglib2.0-0_2.62.3-2_armhf.deb ...
Unpacking libglib2.0-0:armhf (2.62.3-2) ...
Selecting previously unselected package libcroco3:armhf.
Preparing to unpack .../053-libcroco3_0.6.13-1_armhf.deb ...
Unpacking libcroco3:armhf (0.6.13-1) ...
Selecting previously unselected package gettext.
Preparing to unpack .../054-gettext_0.19.8.1-10_armhf.deb ...
Unpacking gettext (0.19.8.1-10) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../055-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 .../056-po-debconf_1.0.21_all.deb ...
Unpacking po-debconf (1.0.21) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../057-debhelper_12.7.2_all.deb ...
Unpacking debhelper (12.7.2) ...
Selecting previously unselected package gengetopt.
Preparing to unpack .../058-gengetopt_2.22.6+dfsg0-3_armhf.deb ...
Unpacking gengetopt (2.22.6+dfsg0-3) ...
Selecting previously unselected package libgfortran5:armhf.
Preparing to unpack .../059-libgfortran5_9.2.1-21+rpi1_armhf.deb ...
Unpacking libgfortran5:armhf (9.2.1-21+rpi1) ...
Selecting previously unselected package libgfortran-9-dev:armhf.
Preparing to unpack .../060-libgfortran-9-dev_9.2.1-21+rpi1_armhf.deb ...
Unpacking libgfortran-9-dev:armhf (9.2.1-21+rpi1) ...
Selecting previously unselected package gfortran-9.
Preparing to unpack .../061-gfortran-9_9.2.1-21+rpi1_armhf.deb ...
Unpacking gfortran-9 (9.2.1-21+rpi1) ...
Selecting previously unselected package gfortran.
Preparing to unpack .../062-gfortran_4%3a9.2.1-3.1+rpi1_armhf.deb ...
Unpacking gfortran (4:9.2.1-3.1+rpi1) ...
Selecting previously unselected package libnl-3-200:armhf.
Preparing to unpack .../063-libnl-3-200_3.4.0-1_armhf.deb ...
Unpacking libnl-3-200:armhf (3.4.0-1) ...
Selecting previously unselected package libnl-route-3-200:armhf.
Preparing to unpack .../064-libnl-route-3-200_3.4.0-1_armhf.deb ...
Unpacking libnl-route-3-200:armhf (3.4.0-1) ...
Selecting previously unselected package libibverbs1:armhf.
Preparing to unpack .../065-libibverbs1_26.0-2_armhf.deb ...
Unpacking libibverbs1:armhf (26.0-2) ...
Selecting previously unselected package ibverbs-providers:armhf.
Preparing to unpack .../066-ibverbs-providers_26.0-2_armhf.deb ...
Unpacking ibverbs-providers:armhf (26.0-2) ...
Selecting previously unselected package icu-devtools.
Preparing to unpack .../067-icu-devtools_63.2-2_armhf.deb ...
Unpacking icu-devtools (63.2-2) ...
Selecting previously unselected package libblas3:armhf.
Preparing to unpack .../068-libblas3_3.9.0-1_armhf.deb ...
Unpacking libblas3:armhf (3.9.0-1) ...
Selecting previously unselected package libblas-dev:armhf.
Preparing to unpack .../069-libblas-dev_3.9.0-1_armhf.deb ...
Unpacking libblas-dev:armhf (3.9.0-1) ...
Selecting previously unselected package libboost1.67-dev:armhf.
Preparing to unpack .../070-libboost1.67-dev_1.67.0-13_armhf.deb ...
Unpacking libboost1.67-dev:armhf (1.67.0-13) ...
Selecting previously unselected package libboost-dev:armhf.
Preparing to unpack .../071-libboost-dev_1.67.0.2+b8_armhf.deb ...
Unpacking libboost-dev:armhf (1.67.0.2+b8) ...
Selecting previously unselected package libboost-serialization1.67.0:armhf.
Preparing to unpack .../072-libboost-serialization1.67.0_1.67.0-13_armhf.deb ...
Unpacking libboost-serialization1.67.0:armhf (1.67.0-13) ...
Selecting previously unselected package libboost-serialization1.67-dev:armhf.
Preparing to unpack .../073-libboost-serialization1.67-dev_1.67.0-13_armhf.deb ...
Unpacking libboost-serialization1.67-dev:armhf (1.67.0-13) ...
Selecting previously unselected package libevent-2.1-7:armhf.
Preparing to unpack .../074-libevent-2.1-7_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-2.1-7:armhf (2.1.11-stable-1) ...
Selecting previously unselected package libevent-core-2.1-7:armhf.
Preparing to unpack .../075-libevent-core-2.1-7_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-core-2.1-7:armhf (2.1.11-stable-1) ...
Selecting previously unselected package libevent-pthreads-2.1-7:armhf.
Preparing to unpack .../076-libevent-pthreads-2.1-7_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-pthreads-2.1-7:armhf (2.1.11-stable-1) ...
Selecting previously unselected package libltdl7:armhf.
Preparing to unpack .../077-libltdl7_2.4.6-11_armhf.deb ...
Unpacking libltdl7:armhf (2.4.6-11) ...
Selecting previously unselected package libhwloc15:armhf.
Preparing to unpack .../078-libhwloc15_2.1.0+dfsg-2+rpi1_armhf.deb ...
Unpacking libhwloc15:armhf (2.1.0+dfsg-2+rpi1) ...
Selecting previously unselected package libpciaccess0:armhf.
Preparing to unpack .../079-libpciaccess0_0.14-1_armhf.deb ...
Unpacking libpciaccess0:armhf (0.14-1) ...
Selecting previously unselected package ocl-icd-libopencl1:armhf.
Preparing to unpack .../080-ocl-icd-libopencl1_2.2.12-2_armhf.deb ...
Unpacking ocl-icd-libopencl1:armhf (2.2.12-2) ...
Selecting previously unselected package libhwloc-plugins:armhf.
Preparing to unpack .../081-libhwloc-plugins_2.1.0+dfsg-2+rpi1_armhf.deb ...
Unpacking libhwloc-plugins:armhf (2.1.0+dfsg-2+rpi1) ...
Selecting previously unselected package libpmix2:armhf.
Preparing to unpack .../082-libpmix2_3.1.4-1+b1_armhf.deb ...
Unpacking libpmix2:armhf (3.1.4-1+b1) ...
Selecting previously unselected package libopenmpi3:armhf.
Preparing to unpack .../083-libopenmpi3_4.0.2-4+rpi1+b1_armhf.deb ...
Unpacking libopenmpi3:armhf (4.0.2-4+rpi1+b1) ...
Selecting previously unselected package libboost-mpi1.67.0.
Preparing to unpack .../084-libboost-mpi1.67.0_1.67.0-13_armhf.deb ...
Unpacking libboost-mpi1.67.0 (1.67.0-13) ...
Selecting previously unselected package openmpi-common.
Preparing to unpack .../085-openmpi-common_4.0.2-4+rpi1_all.deb ...
Unpacking openmpi-common (4.0.2-4+rpi1) ...
Selecting previously unselected package libnl-3-dev:armhf.
Preparing to unpack .../086-libnl-3-dev_3.4.0-1_armhf.deb ...
Unpacking libnl-3-dev:armhf (3.4.0-1) ...
Selecting previously unselected package libnl-route-3-dev:armhf.
Preparing to unpack .../087-libnl-route-3-dev_3.4.0-1_armhf.deb ...
Unpacking libnl-route-3-dev:armhf (3.4.0-1) ...
Selecting previously unselected package libibverbs-dev:armhf.
Preparing to unpack .../088-libibverbs-dev_26.0-2_armhf.deb ...
Unpacking libibverbs-dev:armhf (26.0-2) ...
Selecting previously unselected package libltdl-dev:armhf.
Preparing to unpack .../089-libltdl-dev_2.4.6-11_armhf.deb ...
Unpacking libltdl-dev:armhf (2.4.6-11) ...
Selecting previously unselected package libhwloc-dev:armhf.
Preparing to unpack .../090-libhwloc-dev_2.1.0+dfsg-2+rpi1_armhf.deb ...
Unpacking libhwloc-dev:armhf (2.1.0+dfsg-2+rpi1) ...
Selecting previously unselected package libevent-extra-2.1-7:armhf.
Preparing to unpack .../091-libevent-extra-2.1-7_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-extra-2.1-7:armhf (2.1.11-stable-1) ...
Selecting previously unselected package libevent-openssl-2.1-7:armhf.
Preparing to unpack .../092-libevent-openssl-2.1-7_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-openssl-2.1-7:armhf (2.1.11-stable-1) ...
Selecting previously unselected package libevent-dev.
Preparing to unpack .../093-libevent-dev_2.1.11-stable-1_armhf.deb ...
Unpacking libevent-dev (2.1.11-stable-1) ...
Selecting previously unselected package openmpi-bin.
Preparing to unpack .../094-openmpi-bin_4.0.2-4+rpi1+b1_armhf.deb ...
Unpacking openmpi-bin (4.0.2-4+rpi1+b1) ...
Selecting previously unselected package libopenmpi-dev:armhf.
Preparing to unpack .../095-libopenmpi-dev_4.0.2-4+rpi1+b1_armhf.deb ...
Unpacking libopenmpi-dev:armhf (4.0.2-4+rpi1+b1) ...
Selecting previously unselected package mpi-default-dev.
Preparing to unpack .../096-mpi-default-dev_1.13_armhf.deb ...
Unpacking mpi-default-dev (1.13) ...
Selecting previously unselected package libboost-mpi1.67-dev.
Preparing to unpack .../097-libboost-mpi1.67-dev_1.67.0-13_armhf.deb ...
Unpacking libboost-mpi1.67-dev (1.67.0-13) ...
Selecting previously unselected package libboost-mpi-dev.
Preparing to unpack .../098-libboost-mpi-dev_1.67.0.2+b8_armhf.deb ...
Unpacking libboost-mpi-dev (1.67.0.2+b8) ...
Selecting previously unselected package libboost-serialization-dev:armhf.
Preparing to unpack .../099-libboost-serialization-dev_1.67.0.2+b8_armhf.deb ...
Unpacking libboost-serialization-dev:armhf (1.67.0.2+b8) ...
Selecting previously unselected package libicu-dev:armhf.
Preparing to unpack .../100-libicu-dev_63.2-2_armhf.deb ...
Unpacking libicu-dev:armhf (63.2-2) ...
Selecting previously unselected package liblapack3:armhf.
Preparing to unpack .../101-liblapack3_3.9.0-1_armhf.deb ...
Unpacking liblapack3:armhf (3.9.0-1) ...
Selecting previously unselected package liblapack-dev:armhf.
Preparing to unpack .../102-liblapack-dev_3.9.0-1_armhf.deb ...
Unpacking liblapack-dev:armhf (3.9.0-1) ...
Selecting previously unselected package libxml2-dev:armhf.
Preparing to unpack .../103-libxml2-dev_2.9.4+dfsg1-8_armhf.deb ...
Unpacking libxml2-dev:armhf (2.9.4+dfsg1-8) ...
Selecting previously unselected package zlib1g-dev:armhf.
Preparing to unpack .../104-zlib1g-dev_1%3a1.2.11.dfsg-1_armhf.deb ...
Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-1) ...
Selecting previously unselected package sbuild-build-depends-prime-phylo-dummy.
Preparing to unpack .../105-sbuild-build-depends-prime-phylo-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-prime-phylo-dummy (0.invalid.0) ...
Setting up libexpat1:armhf (2.2.9-1) ...
Setting up libpipeline1:armhf (1.5.1-3) ...
Setting up libpciaccess0:armhf (0.14-1) ...
Setting up libkeyutils1:armhf (1.6-6) ...
Setting up libpsl5:armhf (0.20.2-2) ...
Setting up gengetopt (2.22.6+dfsg0-3) ...
Setting up libmagic-mgc (1:5.37-6) ...
Setting up libarchive-zip-perl (1.67-1) ...
Setting up libglib2.0-0:armhf (2.62.3-2) ...
No schema files found: doing nothing.
Setting up libssl1.1:armhf (1.1.1d-2) ...
Setting up libprocps7:armhf (2:3.3.15-2) ...
Setting up libdebhelper-perl (12.7.2) ...
Setting up libbrotli1:armhf (1.0.7-5) ...
Setting up libnghttp2-14:armhf (1.40.0-1) ...
Setting up libmagic1:armhf (1:5.37-6) ...
Setting up gettext-base (0.19.8.1-10) ...
Setting up file (1:5.37-6) ...
Setting up libgomp1:armhf (9.2.1-21+rpi1) ...
Setting up libicu63:armhf (63.2-2) ...
Setting up libkrb5support0:armhf (1.17-6+b1) ...
Setting up libasan5:armhf (9.2.1-21+rpi1) ...
Setting up autotools-dev (20180224.1) ...
Setting up libblas3:armhf (3.9.0-1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode
Setting up libuv1:armhf (1.33.1-2) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b1) ...
Setting up libncurses6:armhf (6.1+20191019-1) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up libevent-core-2.1-7:armhf (2.1.11-stable-1) ...
Setting up libatomic1:armhf (9.2.1-21+rpi1) ...
Setting up libevent-2.1-7:armhf (2.1.11-stable-1) ...
Setting up autopoint (0.19.8.1-10) ...
Setting up icu-devtools (63.2-2) ...
Setting up libk5crypto3:armhf (1.17-6+b1) ...
Setting up libltdl7:armhf (2.4.6-11) ...
Setting up libgfortran5:armhf (9.2.1-21+rpi1) ...
Setting up libubsan1:armhf (9.2.1-21+rpi1) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1) ...
Setting up sensible-utils (0.0.12+nmu1) ...
Setting up ocl-icd-libopencl1:armhf (2.2.12-2) ...
Setting up librhash0:armhf (1.3.8-1) ...
Setting up libuchardet0:armhf (0.0.6-3) ...
Setting up procps (2:3.3.15-2) ...
update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode
Setting up libnl-3-200:armhf (3.4.0-1) ...
Setting up openmpi-common (4.0.2-4+rpi1) ...
Setting up cpp-9 (9.2.1-21+rpi1) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libssh2-1:armhf (1.8.0-2.1) ...
Setting up cmake-data (3.15.4-1+rpi1) ...
Setting up libkrb5-3:armhf (1.17-6+b1) ...
Setting up libboost-serialization1.67.0:armhf (1.67.0-13) ...
Setting up libbsd0:armhf (0.10.0-1) ...
Setting up libtinfo5:armhf (6.1+20191019-1) ...
Setting up libelf1:armhf (0.176-1.1) ...
Setting up libicu-dev:armhf (63.2-2) ...
Setting up libxml2:armhf (2.9.4+dfsg1-8) ...
Setting up libcc1-0:armhf (9.2.1-21+rpi1) ...
Setting up libblas-dev:armhf (3.9.0-1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode
Setting up libjsoncpp1:armhf (1.7.4-3) ...
Setting up libevent-pthreads-2.1-7:armhf (2.1.11-stable-1) ...
Setting up libfile-stripnondeterminism-perl (1.6.3-1) ...
Setting up libevent-extra-2.1-7:armhf (2.1.11-stable-1) ...
Setting up liblapack3:armhf (3.9.0-1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode
Setting up libtool (2.4.6-11) ...
Setting up libarchive13:armhf (3.4.0-1+b1) ...
Setting up libedit2:armhf (3.1-20191025-1) ...
Setting up libevent-openssl-2.1-7:armhf (2.1.11-stable-1) ...
Setting up m4 (1.4.18-4) ...
Setting up libnl-route-3-200:armhf (3.4.0-1) ...
Setting up libgcc-9-dev:armhf (9.2.1-21+rpi1) ...
Setting up libxml2-dev:armhf (2.9.4+dfsg1-8) ...
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 libevent-dev (2.1.11-stable-1) ...
Setting up liblapack-dev:armhf (3.9.0-1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode
Setting up libhwloc15:armhf (2.1.0+dfsg-2+rpi1) ...
Setting up libgssapi-krb5-2:armhf (1.17-6+b1) ...
Setting up libcroco3:armhf (0.6.13-1) ...
Setting up autoconf (2.69-11) ...
Setting up dh-strip-nondeterminism (1.6.3-1) ...
Setting up dwz (0.13-5) ...
Setting up libnl-3-dev:armhf (3.4.0-1) ...
Setting up groff-base (1.22.4-3) ...
Setting up bison (2:3.4.2+dfsg-1) ...
update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode
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 gcc-9 (9.2.1-21+rpi1) ...
Setting up libibverbs1:armhf (26.0-2) ...
Setting up flex (2.6.4-6.2) ...
Setting up gettext (0.19.8.1-10) ...
Setting up libstdc++-9-dev:armhf (9.2.1-21+rpi1) ...
Setting up ibverbs-providers:armhf (26.0-2) ...
Setting up openssh-client (1:8.1p1-1) ...
Setting up libgfortran-9-dev:armhf (9.2.1-21+rpi1) ...
Setting up libcurl3-gnutls:armhf (7.67.0-2) ...
Setting up libhwloc-plugins:armhf (2.1.0+dfsg-2+rpi1) ...
Setting up man-db (2.9.0-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libnl-route-3-dev:armhf (3.4.0-1) ...
Setting up libltdl-dev:armhf (2.4.6-11) ...
Setting up g++-9 (9.2.1-21+rpi1) ...
Setting up cmake (3.15.4-1+rpi1) ...
Setting up libhwloc-dev:armhf (2.1.0+dfsg-2+rpi1) ...
Setting up libboost1.67-dev:armhf (1.67.0-13) ...
Setting up libboost-serialization1.67-dev:armhf (1.67.0-13) ...
Setting up gfortran-9 (9.2.1-21+rpi1) ...
Setting up libpmix2:armhf (3.1.4-1+b1) ...
Setting up po-debconf (1.0.21) ...
Setting up libopenmpi3:armhf (4.0.2-4+rpi1+b1) ...
Setting up libboost-mpi1.67.0 (1.67.0-13) ...
Setting up libibverbs-dev:armhf (26.0-2) ...
Setting up gfortran (4:9.2.1-3.1+rpi1) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
Setting up libboost-serialization-dev:armhf (1.67.0.2+b8) ...
Setting up libboost-dev:armhf (1.67.0.2+b8) ...
Setting up openmpi-bin (4.0.2-4+rpi1+b1) ...
update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode
update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode
Setting up libopenmpi-dev:armhf (4.0.2-4+rpi1+b1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/openmpi/include to provide /usr/include/arm-linux-gnueabihf/mpi (mpi-arm-linux-gnueabihf) in auto mode
Setting up mpi-default-dev (1.13) ...
Setting up libboost-mpi1.67-dev (1.67.0-13) ...
Setting up libboost-mpi-dev (1.67.0.2+b8) ...
Setting up dh-autoreconf (19) ...
Setting up debhelper (12.7.2) ...
Setting up sbuild-build-depends-prime-phylo-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.29-3+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.15.0-58-generic armhf (armv8l)
Toolchain package versions: binutils_2.33.1-5+rpi1 dpkg-dev_1.19.7 g++-9_9.2.1-21+rpi1 gcc-9_9.2.1-21+rpi1 libc6-dev_2.29-3+rpi1 libstdc++-9-dev_9.2.1-21+rpi1 libstdc++6_9.2.1-21+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2
Package versions: adduser_3.118 apt_1.8.4 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.46 bash_5.0-5 binutils_2.33.1-5+rpi1 binutils-arm-linux-gnueabihf_2.33.1-5+rpi1 binutils-common_2.33.1-5+rpi1 bison_2:3.4.2+dfsg-1 bsdmainutils_11.1.2 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 cmake_3.15.4-1+rpi1 cmake-data_3.15.4-1+rpi1 coreutils_8.30-3 cpp_4:9.2.1-3.1+rpi1 cpp-9_9.2.1-21+rpi1 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.7.2 debianutils_4.9 dh-autoreconf_19 dh-strip-nondeterminism_1.6.3-1 diffutils_1:3.7-3 dirmngr_2.2.17-3+b1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.4-1 fakeroot_1.24-1 fdisk_2.34-0.1 file_1:5.37-6 findutils_4.7.0-1 flex_2.6.4-6.2 g++_4:9.2.1-3.1+rpi1 g++-9_9.2.1-21+rpi1 gcc_4:9.2.1-3.1+rpi1 gcc-9_9.2.1-21+rpi1 gcc-9-base_9.2.1-21+rpi1 gengetopt_2.22.6+dfsg0-3 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gfortran_4:9.2.1-3.1+rpi1 gfortran-9_9.2.1-21+rpi1 gnupg_2.2.17-3 gnupg-l10n_2.2.17-3 gnupg-utils_2.2.17-3+b1 gpg_2.2.17-3+b1 gpg-agent_2.2.17-3+b1 gpg-wks-client_2.2.17-3+b1 gpg-wks-server_2.2.17-3+b1 gpgconf_2.2.17-3+b1 gpgsm_2.2.17-3+b1 gpgv_2.2.17-3+b1 grep_3.3-1 groff-base_1.22.4-3 gzip_1.9-3 hostname_3.23 ibverbs-providers_26.0-2 icu-devtools_63.2-2 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20190709-2 libacl1_2.2.53-5 libapt-pkg5.0_1.8.4 libarchive-zip-perl_1.67-1 libarchive13_3.4.0-1+b1 libasan5_9.2.1-21+rpi1 libassuan0_2.5.3-7 libatomic1_9.2.1-21+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2+b1 libbinutils_2.33.1-5+rpi1 libblas-dev_3.9.0-1 libblas3_3.9.0-1 libblkid1_2.34-0.1 libboost-dev_1.67.0.2+b8 libboost-mpi-dev_1.67.0.2+b8 libboost-mpi1.67-dev_1.67.0-13 libboost-mpi1.67.0_1.67.0-13 libboost-serialization-dev_1.67.0.2+b8 libboost-serialization1.67-dev_1.67.0-13 libboost-serialization1.67.0_1.67.0-13 libboost1.67-dev_1.67.0-13 libbrotli1_1.0.7-5 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.29-3+rpi1 libc-dev-bin_2.29-3+rpi1 libc6_2.29-3+rpi1 libc6-dev_2.29-3+rpi1 libcap-ng0_0.7.9-2.1 libcap2_1:2.27-1 libcap2-bin_1:2.27-1 libcc1-0_9.2.1-21+rpi1 libcom-err2_1.45.4-1 libcroco3_0.6.13-1 libcurl3-gnutls_7.67.0-2 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.250 libdebhelper-perl_12.7.2 libdpkg-perl_1.19.7 libedit2_3.1-20191025-1 libelf1_0.176-1.1 libevent-2.1-7_2.1.11-stable-1 libevent-core-2.1-7_2.1.11-stable-1 libevent-dev_2.1.11-stable-1 libevent-extra-2.1-7_2.1.11-stable-1 libevent-openssl-2.1-7_2.1.11-stable-1 libevent-pthreads-2.1-7_2.1.11-stable-1 libexpat1_2.2.9-1 libext2fs2_1.45.4-1 libfakeroot_1.24-1 libfdisk1_2.34-0.1 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.6.3-1 libgcc-9-dev_9.2.1-21+rpi1 libgcc1_1:9.2.1-21+rpi1 libgcrypt20_1.8.5-3 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran-9-dev_9.2.1-21+rpi1 libgfortran5_9.2.1-21+rpi1 libglib2.0-0_2.62.3-2 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.10-5 libgomp1_9.2.1-21+rpi1 libgpg-error0_1.36-7 libgssapi-krb5-2_1.17-6+b1 libhogweed5_3.5.1+really3.5.1-2 libhwloc-dev_2.1.0+dfsg-2+rpi1 libhwloc-plugins_2.1.0+dfsg-2+rpi1 libhwloc15_2.1.0+dfsg-2+rpi1 libibverbs-dev_26.0-2 libibverbs1_26.0-2 libicu-dev_63.2-2 libicu63_63.2-2 libidn2-0_2.2.0-2 libisl22_0.22-2 libjsoncpp1_1.7.4-3 libk5crypto3_1.17-6+b1 libkeyutils1_1.6-6 libkrb5-3_1.17-6+b1 libkrb5support0_1.17-6+b1 libksba8_1.3.5-2 liblapack-dev_3.9.0-1 liblapack3_3.9.0-1 libldap-2.4-2_2.4.48+dfsg-1+b2 libldap-common_2.4.48+dfsg-1 libltdl-dev_2.4.6-11 libltdl7_2.4.6-11 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.37-6 libmagic1_1:5.37-6 libmount1_2.34-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncurses6_6.1+20191019-1 libncursesw6_6.1+20191019-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1 libnl-3-200_3.4.0-1 libnl-3-dev_3.4.0-1 libnl-route-3-200_3.4.0-1 libnl-route-3-dev_3.4.0-1 libnpth0_1.6-1 libopenmpi-dev_4.0.2-4+rpi1+b1 libopenmpi3_4.0.2-4+rpi1+b1 libp11-kit0_0.23.18.1-2 libpam-cap_1:2.27-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpciaccess0_0.14-1 libpcre2-8-0_10.34-3 libpcre3_2:8.39-12 libperl5.30_5.30.0-9 libpipeline1_1.5.1-3 libpmix2_3.1.4-1+b1 libprocps7_2:3.3.15-2 libpsl5_0.20.2-2 libreadline7_7.0-5 libreadline8_8.0-3 librhash0_1.3.8-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b1 librust-bitflags-dev_1.2.1-1 librust-cloudabi+default-dev_0.0.3-1 librust-cloudabi-dev_0.0.3-1 librust-fuchsia-zircon-dev_0.3.3-2 librust-fuchsia-zircon-sys-dev_0.3.3-2 librust-libc-dev_0.2.62-1 librust-phf-codegen-dev_0.7.23-1 librust-phf-generator-dev_0.7.23-1 librust-phf-shared-dev_0.7.23-2+b1 librust-rand-0.5+alloc-dev_0.5.5-2+rpi1 librust-rand-0.5+std-dev_0.5.5-2+rpi1 librust-rand-0.5-dev_0.5.5-2+rpi1 librust-rand-core-0.2+alloc-dev_0.2.2-1 librust-rand-core-0.2+std-dev_0.2.2-1 librust-rand-core-0.2-dev_0.2.2-1 librust-rand-core-dev_0.3.0-1 librust-siphasher-dev_0.2.3-1 librust-winapi-dev_0.3.6-1 librust-winapi-i686-pc-windows-gnu-dev_0.4.0-1 librust-winapi-x86-64-pc-windows-gnu-dev_0.4.0-1 libsasl2-2_2.1.27+dfsg-1+b1 libsasl2-modules-db_2.1.27+dfsg-1+b1 libseccomp2_2.4.2-2+rpi1 libselinux1_2.9-3 libsemanage-common_2.9-3 libsemanage1_2.9-3 libsepol1_2.9-2 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1 libsqlite3-0_3.30.1-1 libss2_1.45.4-1 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1d-2 libstdc++-9-dev_9.2.1-21+rpi1 libstdc++6_9.2.1-21+rpi1 libsub-override-perl_0.09-2 libsystemd0_243-8+rpi1 libtasn1-6_4.14-3 libtinfo5_6.1+20191019-1 libtinfo6_6.1+20191019-1 libtool_2.4.6-11 libubsan1_9.2.1-21+rpi1 libuchardet0_0.0.6-3 libudev1_243-8+rpi1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libuv1_1.33.1-2 libxml2_2.9.4+dfsg1-8 libxml2-dev_2.9.4+dfsg1-8 libzstd1_1.4.4+dfsg-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.7-2 logsave_1.45.4-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-1 mawk_1.3.3-17 mount_2.34-0.1 mpi-default-dev_1.13 ncurses-base_6.1+20191019-1 ncurses-bin_6.1+20191019-1 netbase_5.7 ocl-icd-libopencl1_2.2.12-2 openmpi-bin_4.0.2-4+rpi1+b1 openmpi-common_4.0.2-4+rpi1 openssh-client_1:8.1p1-1 passwd_1:4.7-2 patch_2.7.6-6 perl_5.30.0-9 perl-base_5.30.0-9 perl-modules-5.30_5.30.0-9 pinentry-curses_1.1.0-3 po-debconf_1.0.21 procps_2:3.3.15-2 raspbian-archive-keyring_20120528.2 readline-common_8.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-prime-phylo-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-1 tar_1.30+dfsg-6 tzdata_2019c-3 util-linux_2.34-0.1 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_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 Wed Dec 11 14:06:53 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 ./prime-phylo_1.0.11-8.dsc
dpkg-source: info: extracting prime-phylo in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking prime-phylo_1.0.11.orig.tar.gz
dpkg-source: info: unpacking prime-phylo_1.0.11-8.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying fix-ftbfs-with-Boost160.patch
dpkg-source: info: applying fix-gcc-8.patch
dpkg-source: info: applying 0003-Fix-build-with-Boost-1.67.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=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-17f4c77c-d38b-48c2-a5a6-3497dcf62507
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package prime-phylo
dpkg-buildpackage: info: source version 1.0.11-8
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --buildsystem=cmake
dh_auto_clean -O--buildsystem=cmake
dh_autoreconf_clean -O--buildsystem=cmake
dh_clean -O--buildsystem=cmake
debian/rules build-arch
dh build-arch --buildsystem=cmake
dh_update_autotools_config -a -O--buildsystem=cmake
dh_autoreconf -a -O--buildsystem=cmake
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_configure -- \
-Dofficial_binary_packaging=on \
-Dprime_dynamic=on \
-DCMAKE_INSTALL_PREFIX=/usr \
-DCMAKE_INSTALL_RPATH=/usr/lib/prime-phylo \
-DCMAKE_BUILD_TYPE=RELEASE
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 -Dofficial_binary_packaging=on -Dprime_dynamic=on -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_INSTALL_RPATH=/usr/lib/prime-phylo -DCMAKE_BUILD_TYPE=RELEASE ..
-- The CXX compiler identification is GNU 9.2.1
-- 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
-- The Fortran compiler identification is GNU 9.2.1
-- Check for working Fortran compiler: /usr/bin/gfortran
-- Check for working Fortran compiler: /usr/bin/gfortran -- works
-- Detecting Fortran compiler ABI info
-- Detecting Fortran compiler ABI info - done
-- Checking whether /usr/bin/gfortran supports Fortran 90
-- Checking whether /usr/bin/gfortran supports Fortran 90 -- yes
-- The C compiler identification is GNU 9.2.1
-- Check for working C compiler: /usr/bin/cc
-- Check for working C compiler: /usr/bin/cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Looking for Fortran sgemm
-- Looking for Fortran sgemm - not found
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE
-- Looking for Fortran sgemm
-- Looking for Fortran sgemm - found
-- Found BLAS: /usr/lib/arm-linux-gnueabihf/libblas.so
hittade /usr/lib/arm-linux-gnueabihf/libblas.so
-- Looking for Fortran cheev
-- Looking for Fortran cheev - not found
-- Looking for Fortran cheev
-- Looking for Fortran cheev - found
-- A library with LAPACK API found.
-- Found BISON: /usr/bin/bison (found version "3.4.2")
-- Found FLEX: /usr/bin/flex (found version "2.6.4")
-- Found MPI_C: /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so (found version "3.1")
-- Found MPI_CXX: /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so (found version "3.1")
-- Found MPI_Fortran: /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_usempif08.so (found version "3.1")
-- Found MPI: TRUE (found version "3.1")
-- Found Boost: /usr/include (found suitable version "1.67.0", minimum required is "1.40.0") found components: mpi serialization
-- Found LibXml2: /usr/lib/arm-linux-gnueabihf/libxml2.so (found version "2.9.4")
mpilib is /usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi;/usr/lib/arm-linux-gnueabihf/openmpi/include
included path is
CMake Warning (dev) at src/cxx/CMakeLists.txt:366 (get_target_property):
Policy CMP0026 is not set: Disallow use of the LOCATION target property.
Run "cmake --help-policy CMP0026" for policy details. Use the cmake_policy
command to set the policy and suppress this warning.
The LOCATION property should not be read from target "primeDTLSR". Use the
target name directly with add_custom_command, or use the generator
expression $<TARGET_FILE>, as appropriate.
Call Stack (most recent call first):
src/cxx/applications/primeDTLSR/CMakeLists.txt:30 (prime_add_tests)
This warning is for project developers. Use -Wno-dev to suppress it.
CMake Warning (dev) at src/cxx/CMakeLists.txt:366 (get_target_property):
Policy CMP0026 is not set: Disallow use of the LOCATION target property.
Run "cmake --help-policy CMP0026" for policy details. Use the cmake_policy
command to set the policy and suppress this warning.
The LOCATION property should not be read from target "primeDLRS". Use the
target name directly with add_custom_command, or use the generator
expression $<TARGET_FILE>, as appropriate.
Call Stack (most recent call first):
src/cxx/applications/primeDLRS/CMakeLists.txt:27 (prime_add_tests)
This warning is for project developers. Use -Wno-dev to suppress it.
CMake Warning (dev) at src/cxx/CMakeLists.txt:366 (get_target_property):
Policy CMP0026 is not set: Disallow use of the LOCATION target property.
Run "cmake --help-policy CMP0026" for policy details. Use the cmake_policy
command to set the policy and suppress this warning.
The LOCATION property should not be read from target "showtree". Use the
target name directly with add_custom_command, or use the generator
expression $<TARGET_FILE>, as appropriate.
Call Stack (most recent call first):
src/cxx/tools/showtree/CMakeLists.txt:12 (prime_add_tests)
This warning is for project developers. Use -Wno-dev to suppress it.
CMake Warning (dev) at CMakeLists.txt:120 (if):
Policy CMP0053 is not set: Simplify variable reference and escape sequence
evaluation. Run "cmake --help-policy CMP0053" for policy details. Use the
cmake_policy command to set the policy and suppress this warning.
For input:
'@CMAKE_SOURCE_DIR@/excluded_from_release'
the old evaluation rules produce:
'/<<PKGBUILDDIR>>/excluded_from_release'
but the new evaluation rules produce:
'@CMAKE_SOURCE_DIR@/excluded_from_release'
Using the old result for compatibility since the policy is not set.
This warning is for project developers. Use -Wno-dev to suppress it.
-- Configuring done
-- Generating done
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_EXPORT_NO_PACKAGE_REGISTRY
CMAKE_INSTALL_LIBDIR
CMAKE_INSTALL_LOCALSTATEDIR
CMAKE_INSTALL_RUNSTATEDIR
CMAKE_INSTALL_SYSCONFDIR
-- Build files have been written to: /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_build -a -O--buildsystem=cmake
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/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/build.make src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 1%] [BISON][MyParser2] Building parser with bison 3.4.2
[ 1%] [FLEX][MyScanner2] Building scanner with flex 2.6.4
cd /<<PKGBUILDDIR>>/src/cxx/libraries/sfile && /usr/bin/bison -d -d -o /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile/gb.tab.c gb.y
cd /<<PKGBUILDDIR>>/src/cxx/libraries/sfile && /usr/bin/flex -o/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile/lexer.c seqreader.l
gb.y: warning: 1 nonterminal useless in grammar [-Wother]
gb.y: warning: 1 rule useless in grammar [-Wother]
gb.y:258.1-12: warning: nonterminal useless in grammar: darwin_entry [-Wother]
258 | darwin_entry : TEXT {$$ = NULL; /* Not implemented yet */}
| ^~~~~~~~~~~~
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src/cxx/libraries/sfile /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/DependInfo.cmake --color=
Scanning dependencies of target prime-phylo-sfile
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/build.make src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 2%] Building C object src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/gbread.c.o
[ 2%] Building C object src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/sfile.c.o
[ 3%] Building C object src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/lexer.c.o
[ 3%] Building C object src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/gb.tab.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_sfile_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile -I/<<PKGBUILDDIR>>/src/cxx/libraries/sfile -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo-sfile.dir/sfile.c.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/sfile/sfile.c
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_sfile_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile -I/<<PKGBUILDDIR>>/src/cxx/libraries/sfile -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo-sfile.dir/gbread.c.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/sfile/gbread.c
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_sfile_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile -I/<<PKGBUILDDIR>>/src/cxx/libraries/sfile -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo-sfile.dir/lexer.c.o -c /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile/lexer.c
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_sfile_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile -I/<<PKGBUILDDIR>>/src/cxx/libraries/sfile -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo-sfile.dir/gb.tab.c.o -c /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile/gb.tab.c
/<<PKGBUILDDIR>>/src/cxx/libraries/sfile/gbread.c: In function 'main':
/<<PKGBUILDDIR>>/src/cxx/libraries/sfile/gbread.c:17:10: warning: implicit declaration of function 'strcmp' [-Wimplicit-function-declaration]
17 | if (!strcmp(argv[opt], "-d")) {
| ^~~~~~
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile/gb.tab.c: In function 'yyparse':
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile/gb.tab.c:1246:16: warning: implicit declaration of function 'yylex' [-Wimplicit-function-declaration]
1246 | yychar = yylex ();
| ^~~~~
gb.y: In function 'yyerror':
gb.y:291:70: warning: implicit declaration of function 'linenumber' [-Wimplicit-function-declaration]
gb.y: In function 'add_to_seq':
gb.y:402:9: warning: unused variable 'new_buf' [-Wunused-variable]
/<<PKGBUILDDIR>>/src/cxx/libraries/sfile/sfile.c: In function 'seq_print':
/<<PKGBUILDDIR>>/src/cxx/libraries/sfile/sfile.c:265:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
265 | printf("%9d", char_counter + 1);
| ^~~~~ ~~~~~~~~~~~~~~~~
| |
| long int
/<<PKGBUILDDIR>>/src/cxx/libraries/sfile/sfile.c:212:15: warning: variable 'date' set but not used [-Wunused-but-set-variable]
212 | char *top, *date;
| ^~~~
seqreader.l: In function 'seq_read':
seqreader.l:270:9: warning: unused variable 'code' [-Wunused-variable]
At top level:
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile/lexer.c:1864:16: warning: 'input' defined but not used [-Wunused-function]
1864 | static int input (void)
| ^~~~~
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile/lexer.c:1821:17: warning: 'yyunput' defined but not used [-Wunused-function]
1821 | static void yyunput (int c, char * yy_bp )
| ^~~~~~~
[ 4%] Linking C shared library libprime-phylo-sfile.so
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile && /usr/bin/cmake -E cmake_link_script CMakeFiles/prime-phylo-sfile.dir/link.txt --verbose=1
/usr/bin/cc -fPIC -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libprime-phylo-sfile.so -o libprime-phylo-sfile.so CMakeFiles/prime-phylo-sfile.dir/gbread.c.o CMakeFiles/prime-phylo-sfile.dir/sfile.c.o CMakeFiles/prime-phylo-sfile.dir/lexer.c.o CMakeFiles/prime-phylo-sfile.dir/gb.tab.c.o -Wl,-rpath,::::::::::::::::::::
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 4%] Built target prime-phylo-sfile
make -f src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/build.make src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 5%] [BISON][MyParser] Building parser with bison 3.4.2
[ 5%] [FLEX][MyScanner] Building scanner with flex 2.6.4
cd /<<PKGBUILDDIR>>/src/cxx/libraries/prime && /usr/bin/bison -d -y -p yytree_ -d -o /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime/NHXparse.c NHXparse.y
cd /<<PKGBUILDDIR>>/src/cxx/libraries/prime && /usr/bin/flex -Pyytree_ -o/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime/lexer.c NHX.l
NHXparse.y:105.1-7: warning: POSIX Yacc does not support %expect [-Wyacc]
105 | %expect 4
| ^~~~~~~
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src/cxx/libraries/prime /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/DependInfo.cmake --color=
Scanning dependencies of target prime-phylo
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/build.make src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 7%] Building C object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/NHXtree.c.o
[ 7%] Building C object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/NHXannotation.c.o
[ 7%] Building C object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/NHXnode.c.o
[ 7%] Building C object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/lexer.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/NHXtree.c.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/NHXtree.c
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/NHXnode.c.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/NHXnode.c
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/NHXannotation.c.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/NHXannotation.c
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/lexer.c.o -c /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime/lexer.c
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/NHXnode.c: In function 'NHX_debug_print':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/NHXnode.c:155:25: warning: format '%d' expects argument of type 'int', but argument 3 has type 'double' [-Wformat=]
155 | fprintf(stderr, "BW:\t%d\n", l->arg.t);
| ~^ ~~~~~~~~
| | |
| int double
| %f
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime/lexer.c:1597:16: warning: 'input' defined but not used [-Wunused-function]
1597 | static int input (void)
| ^~~~~
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime/lexer.c:1554:17: warning: 'yyunput' defined but not used [-Wunused-function]
1554 | static void yyunput (int c, char * yy_bp )
| ^~~~~~~
In file included from /usr/include/string.h:494,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/NHXannotation.c:4:
In function 'strncpy',
inlined from 'new_annotation' at /<<PKGBUILDDIR>>/src/cxx/libraries/prime/NHXannotation.c:80:3:
/usr/include/arm-linux-gnueabihf/bits/string_fortified.h:106:10: warning: '__builtin_strncpy' specified bound 5 equals destination size [-Wstringop-truncation]
106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest));
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
[ 8%] Building C object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/NHXparse.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/NHXparse.c.o -c /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime/NHXparse.c
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime/NHXparse.c: In function 'yytree_parse':
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime/NHXparse.c:68:25: warning: implicit declaration of function 'yytree_lex' [-Wimplicit-function-declaration]
68 | #define yylex yytree_lex
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime/NHXparse.c:1289:16: note: in expansion of macro 'yylex'
1289 | yychar = yylex ();
| ^~~~~
NHXparse.y: In function 'read_tree':
NHXparse.y:351:5: warning: implicit declaration of function 'close'; did you mean 'pclose'? [-Wimplicit-function-declaration]
NHXparse.y: In function 'read_tree_string':
NHXparse.y:399:3: warning: implicit declaration of function 'read_from_string'; did you mean 'read_tree_string'? [-Wimplicit-function-declaration]
NHXparse.y:404:3: warning: implicit declaration of function 'close_string_buffer' [-Wimplicit-function-declaration]
[ 8%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/AnError.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/AnError.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/AnError.cc
[ 9%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/Beep.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/Beep.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Beep.cc
[ 10%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/BeepOption.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/BeepOption.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepOption.cc
[ 10%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/Hacks.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/Hacks.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Hacks.cc
[ 11%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ODESolver.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ODESolver.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.cc
[ 11%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/PRNG.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/PRNG.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/PRNG.cc
[ 12%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/PrimeOptionMap.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/PrimeOptionMap.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/PrimeOptionMap.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.cc:4:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:359:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C2' of non-integral type [-fpermissive]
359 | static const Real C2 = 1.0 / 5.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:360:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C3' of non-integral type [-fpermissive]
360 | static const Real C3 = 3.0 / 10.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:361:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C4' of non-integral type [-fpermissive]
361 | static const Real C4 = 4.0 / 5.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:362:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C5' of non-integral type [-fpermissive]
362 | static const Real C5 = 8.0 / 9.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:363:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A21' of non-integral type [-fpermissive]
363 | static const Real A21 = 1.0 / 5.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:364:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A31' of non-integral type [-fpermissive]
364 | static const Real A31 = 3.0 / 40.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:365:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A32' of non-integral type [-fpermissive]
365 | static const Real A32 = 9.0 / 40.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:366:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A41' of non-integral type [-fpermissive]
366 | static const Real A41 = 44.0 / 45.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:367:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A42' of non-integral type [-fpermissive]
367 | static const Real A42 = -56.0 / 15.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:368:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A43' of non-integral type [-fpermissive]
368 | static const Real A43 = 32.0 / 9.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:369:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A51' of non-integral type [-fpermissive]
369 | static const Real A51 = 19372.0 / 6561.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:370:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A52' of non-integral type [-fpermissive]
370 | static const Real A52 = -25360.0 / 2187.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:371:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A53' of non-integral type [-fpermissive]
371 | static const Real A53 = 64448.0 / 6561.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:372:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A54' of non-integral type [-fpermissive]
372 | static const Real A54 = -212.0 / 729.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:373:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A61' of non-integral type [-fpermissive]
373 | static const Real A61 = 9017.0 / 3168.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:374:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A62' of non-integral type [-fpermissive]
374 | static const Real A62 = -355.0 / 33.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:375:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A63' of non-integral type [-fpermissive]
375 | static const Real A63 = 46732.0 / 5247.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:376:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A64' of non-integral type [-fpermissive]
376 | static const Real A64 = 49.0 / 176.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:377:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A65' of non-integral type [-fpermissive]
377 | static const Real A65 = -5103.0 / 18656.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:378:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A71' of non-integral type [-fpermissive]
378 | static const Real A71 = 35.0 / 384.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:379:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A73' of non-integral type [-fpermissive]
379 | static const Real A73 = 500.0 / 1113.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:380:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A74' of non-integral type [-fpermissive]
380 | static const Real A74 = 125.0 / 192.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:381:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A75' of non-integral type [-fpermissive]
381 | static const Real A75 = -2187.0 / 6784.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:382:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A76' of non-integral type [-fpermissive]
382 | static const Real A76 = 11.0 / 84.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:383:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E1' of non-integral type [-fpermissive]
383 | static const Real E1 = 71.0 / 57600.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:384:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E3' of non-integral type [-fpermissive]
384 | static const Real E3 = -71.0 / 16695.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:385:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E4' of non-integral type [-fpermissive]
385 | static const Real E4 = 71.0 / 1920.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:386:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E5' of non-integral type [-fpermissive]
386 | static const Real E5 = -17253.0 / 339200.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:387:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E6' of non-integral type [-fpermissive]
387 | static const Real E6 = 22.0 / 525.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:388:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E7' of non-integral type [-fpermissive]
388 | static const Real E7 = -1.0 / 40.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:391:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D1' of non-integral type [-fpermissive]
391 | static const Real D1 = -12715105075.0 / 11282082432.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:392:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D3' of non-integral type [-fpermissive]
392 | static const Real D3 = 87487479700.0 / 32700410799.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:393:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D4' of non-integral type [-fpermissive]
393 | static const Real D4 = -10690763975.0 / 1880347072.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:394:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D5' of non-integral type [-fpermissive]
394 | static const Real D5 = 701980252875.0 / 199316789632.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:395:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D6' of non-integral type [-fpermissive]
395 | static const Real D6 = -1453857185.0 / 822651844.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:396:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D7' of non-integral type [-fpermissive]
396 | static const Real D7 = 69997945.0 / 29380423.0;
| ^~
[ 12%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ProbabilityModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ProbabilityModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ProbabilityModel.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/PrimeOptionMap.cc:3:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/PrimeOption.hh: In member function 'void beep::UserSubstitutionMatrixOption::parseParams(std::string&, unsigned int, std::vector<beep::UserSubstMatrixParams>&)':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/PrimeOption.hh:405:23: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=]
405 | catch(std::exception e)
| ^
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/PrimeOption.hh:423:23: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=]
423 | catch(std::exception e)
| ^
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepOption.hh:10,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepOption.cc:5:
/usr/include/c++/9/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++/9/bits/vector.tcc:426:7: 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
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepOption.hh:10,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepOption.cc:5:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void beep::option::BeepOptionMap::parseUserSubstModel(beep::option::UserSubstModelOption*, int&, int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
[ 13%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/DiscreteGamma.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/DiscreteGamma.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/DiscreteGamma.cc
/usr/include/c++/9/bits/stl_vector.h: In member function 'std::vector<double> beep::option::BeepOptionMap::getDoubleX3(std::string)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
[ 14%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/Probability.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/Probability.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Probability.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/PrimeOptionMap.hh:12,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/PrimeOptionMap.cc:1:
/usr/include/c++/9/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++/9/bits/vector.tcc:426:7: 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
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/PrimeOptionMap.hh:12,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/PrimeOptionMap.cc:1:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void beep::UserSubstitutionMatrixOption::parseParams(std::string&, unsigned int, std::vector<beep::UserSubstMatrixParams>&)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h: In member function 'void beep::TmplPrimeOption<T>::parseParams(std::string&, unsigned int, std::vector<T>&) [with T = double]':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
[ 14%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/Tokenizer.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/Tokenizer.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Tokenizer.cc
[ 15%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/TimeEstimator.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/TimeEstimator.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TimeEstimator.cc
[ 15%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/BranchSwapping.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/BranchSwapping.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BranchSwapping.cc
[ 16%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/DiscTree.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/DiscTree.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/DiscTree.cc
[ 17%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EdgeDiscPtMaps.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EdgeDiscPtMaps.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscPtMaps.cc
[ 17%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EdgeDiscTree.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EdgeDiscTree.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscTree.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/DiscTree.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/DiscTree.cc:6:
/usr/include/c++/9/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++/9/bits/vector.tcc:426:7: 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
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void beep::DiscTree::createGridTimes()':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
[ 18%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EpochPtMaps.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EpochPtMaps.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc
[ 18%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EpochPtSet.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EpochPtSet.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtSet.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtSet.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtSet.cc:5:
/usr/include/c++/9/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++/9/bits/vector.tcc:426:7: 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
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtSet.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtSet.cc:5:
/usr/include/c++/9/bits/stl_vector.h: In constructor 'beep::EpochPtSet::EpochPtSet(std::vector<const beep::Node*>, beep::Real, beep::Real, unsigned int)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
[ 19%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EpochTree.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EpochTree.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochTree.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:9,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochTree.hh:54:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochTree::MIN_SPLICE_DELTA' of non-integral type [-fpermissive]
54 | static const Real MIN_SPLICE_DELTA = 0.0001;
| ^~~~~~~~~~~~~~~~
[ 19%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/InvMRCA.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/InvMRCA.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/InvMRCA.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochTree.cc:7:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochTree.hh:54:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochTree::MIN_SPLICE_DELTA' of non-integral type [-fpermissive]
54 | static const Real MIN_SPLICE_DELTA = 0.0001;
| ^~~~~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtMap<T>::setWithMin(unsigned int, unsigned int, beep::EpochPtMap<T>::const_iterator, const T&) [with T = double]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:188:14: note: parameter passing for argument of type 'beep::EpochPtMap<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
188 | inline void setWithMin(unsigned i, unsigned j, const_iterator start, const T& lowerBound)
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtMap<T>::setWithMax(unsigned int, unsigned int, beep::EpochPtMap<T>::const_iterator, const T&) [with T = double]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:206:14: note: parameter passing for argument of type 'beep::EpochPtMap<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
206 | inline void setWithMax(unsigned i, unsigned j, const_iterator start, const T& upperBound)
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:206:14: note: parameter passing for argument of type 'beep::EpochPtMap<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtPtMap<T>::setWithMin(unsigned int, unsigned int, unsigned int, unsigned int, beep::EpochPtPtMap<T>::const_iterator, const T&) [with T = double]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:438:14: note: parameter passing for argument of type 'beep::EpochPtPtMap<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
438 | inline void setWithMin(unsigned i, unsigned j, unsigned p, unsigned q,
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtPtMap<T>::setWithMax(unsigned int, unsigned int, unsigned int, unsigned int, beep::EpochPtPtMap<T>::const_iterator, const T&) [with T = double]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:461:14: note: parameter passing for argument of type 'beep::EpochPtPtMap<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
461 | inline void setWithMax(unsigned i, unsigned j, unsigned p, unsigned q,
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtMap<T>::setWithMin(unsigned int, unsigned int, beep::EpochPtMap<T>::const_iterator, const T&) [with T = beep::Probability]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:188:14: note: parameter passing for argument of type 'beep::EpochPtMap<beep::Probability>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >'} changed in GCC 7.1
188 | inline void setWithMin(unsigned i, unsigned j, const_iterator start, const T& lowerBound)
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtMap<T>::setWithMax(unsigned int, unsigned int, beep::EpochPtMap<T>::const_iterator, const T&) [with T = beep::Probability]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:206:14: note: parameter passing for argument of type 'beep::EpochPtMap<beep::Probability>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >'} changed in GCC 7.1
206 | inline void setWithMax(unsigned i, unsigned j, const_iterator start, const T& upperBound)
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtPtMap<T>::setWithMin(unsigned int, unsigned int, unsigned int, unsigned int, beep::EpochPtPtMap<T>::const_iterator, const T&) [with T = beep::Probability]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:438:14: note: parameter passing for argument of type 'beep::EpochPtPtMap<beep::Probability>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >'} changed in GCC 7.1
438 | inline void setWithMin(unsigned i, unsigned j, unsigned p, unsigned q,
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtPtMap<T>::setWithMax(unsigned int, unsigned int, unsigned int, unsigned int, beep::EpochPtPtMap<T>::const_iterator, const T&) [with T = beep::Probability]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:461:14: note: parameter passing for argument of type 'beep::EpochPtPtMap<beep::Probability>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >'} changed in GCC 7.1
461 | inline void setWithMax(unsigned i, unsigned j, unsigned p, unsigned q,
| ^~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochTree.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochTree.cc:7:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {beep::EpochPtSet}; _Tp = beep::EpochPtSet; _Alloc = std::allocator<beep::EpochPtSet>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<beep::EpochPtSet>::iterator' {aka '__gnu_cxx::__normal_iterator<beep::EpochPtSet*, std::vector<beep::EpochPtSet> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
[ 20%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/Node.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/Node.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Node.cc
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {beep::EpochPtSet}; _Tp = beep::EpochPtSet; _Alloc = std::allocator<beep::EpochPtSet>]':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::EpochPtSet*, std::vector<beep::EpochPtSet> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_assign_aux(_ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:300:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
300 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:300:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
/usr/include/c++/9/bits/vector.tcc:300:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtMap<T>::set(unsigned int, unsigned int, beep::EpochPtMap<T>::const_iterator) [with T = double]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:162:14: note: parameter passing for argument of type 'beep::EpochPtMap<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
162 | inline void set(unsigned i, unsigned j, const_iterator start)
| ^~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/usr/include/c++/9/bits/stl_vector.h:1625:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1625 | { _M_assign_aux(__first, __last, std::__iterator_category(__first)); }
| ^~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtMap<T>::set(const EpochTime&, beep::EpochPtMap<T>::const_iterator) [with T = double]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:173:14: note: parameter passing for argument of type 'beep::EpochPtMap<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
173 | inline void set(const EpochTime& tm, const_iterator start)
| ^~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/usr/include/c++/9/bits/stl_vector.h:1625:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1625 | { _M_assign_aux(__first, __last, std::__iterator_category(__first)); }
| ^~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtPtMap<T>::set(unsigned int, unsigned int, unsigned int, unsigned int, beep::EpochPtPtMap<T>::const_iterator) [with T = double]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:403:14: note: parameter passing for argument of type 'beep::EpochPtPtMap<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
403 | inline void set(unsigned i, unsigned j, unsigned p, unsigned q,
| ^~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/usr/include/c++/9/bits/stl_vector.h:1625:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1625 | { _M_assign_aux(__first, __last, std::__iterator_category(__first)); }
| ^~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtPtMap<T>::set(beep::EpochTime, beep::EpochTime, beep::EpochPtPtMap<T>::const_iterator) [with T = double]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:418:14: note: parameter passing for argument of type 'beep::EpochPtPtMap<double>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >'} changed in GCC 7.1
418 | inline void set(EpochTime tm1, EpochTime tm2, const_iterator start)
| ^~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/usr/include/c++/9/bits/stl_vector.h:1625:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1625 | { _M_assign_aux(__first, __last, std::__iterator_category(__first)); }
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_assign_aux(_ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >; _Tp = beep::Probability; _Alloc = std::allocator<beep::Probability>]':
/usr/include/c++/9/bits/vector.tcc:300:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
300 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:300:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtMap<T>::set(unsigned int, unsigned int, beep::EpochPtMap<T>::const_iterator) [with T = beep::Probability]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:162:14: note: parameter passing for argument of type 'beep::EpochPtMap<beep::Probability>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >'} changed in GCC 7.1
162 | inline void set(unsigned i, unsigned j, const_iterator start)
| ^~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/usr/include/c++/9/bits/stl_vector.h:1625:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
1625 | { _M_assign_aux(__first, __last, std::__iterator_category(__first)); }
| ^~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtMap<T>::set(const EpochTime&, beep::EpochPtMap<T>::const_iterator) [with T = beep::Probability]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:173:14: note: parameter passing for argument of type 'beep::EpochPtMap<beep::Probability>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >'} changed in GCC 7.1
173 | inline void set(const EpochTime& tm, const_iterator start)
| ^~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/usr/include/c++/9/bits/stl_vector.h:1625:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
1625 | { _M_assign_aux(__first, __last, std::__iterator_category(__first)); }
| ^~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtPtMap<T>::set(unsigned int, unsigned int, unsigned int, unsigned int, beep::EpochPtPtMap<T>::const_iterator) [with T = beep::Probability]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:403:14: note: parameter passing for argument of type 'beep::EpochPtPtMap<beep::Probability>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >'} changed in GCC 7.1
403 | inline void set(unsigned i, unsigned j, unsigned p, unsigned q,
| ^~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/usr/include/c++/9/bits/stl_vector.h:1625:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
1625 | { _M_assign_aux(__first, __last, std::__iterator_category(__first)); }
| ^~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh: In member function 'void beep::EpochPtPtMap<T>::set(beep::EpochTime, beep::EpochTime, beep::EpochPtPtMap<T>::const_iterator) [with T = beep::Probability]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:418:14: note: parameter passing for argument of type 'beep::EpochPtPtMap<beep::Probability>::const_iterator' {aka '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >'} changed in GCC 7.1
418 | inline void set(EpochTime tm1, EpochTime tm2, const_iterator start)
| ^~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.cc:5:
/usr/include/c++/9/bits/stl_vector.h:1625:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<const beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
1625 | { _M_assign_aux(__first, __last, std::__iterator_category(__first)); }
| ^~~~~~~~~~~~~
[ 21%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/NodeMap.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/NodeMap.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/NodeMap.cc
[ 21%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/NodeNodeMap.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/NodeNodeMap.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/NodeNodeMap.cc
[ 22%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/RandomTreeGenerator.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/RandomTreeGenerator.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/RandomTreeGenerator.cc
[ 22%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/StrStrMap.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/StrStrMap.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/StrStrMap.cc
[ 23%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/Tree.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/Tree.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Tree.cc
[ 23%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/TreeAnalysis.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/TreeAnalysis.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeAnalysis.cc
[ 24%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/TreeDiscretizer.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/TreeDiscretizer.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeDiscretizer.cc
[ 25%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/TreeDiscretizers.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/TreeDiscretizers.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeDiscretizers.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Tree.cc:7:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:509:5: 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
509 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
[ 25%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/TreeMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/TreeMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeDiscretizers.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeDiscretizers.cc:4:
/usr/include/c++/9/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++/9/bits/vector.tcc:426:7: 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
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/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++/9/bits/vector.tcc:426:7: 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
/usr/include/c++/9/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++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeDiscretizers.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeDiscretizers.cc:4:
/usr/include/c++/9/bits/stl_vector.h: In member function 'virtual void beep::EquiSplitEdgeDiscretizer::discretizeEdge(const beep::Node*, std::vector<double, std::allocator<double> >&) const':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h: In member function 'virtual void beep::StepSizeEdgeDiscretizer::discretizeEdge(const beep::Node*, std::vector<double, std::allocator<double> >&) const':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Tree.cc:7:
/usr/include/c++/9/bits/stl_vector.h: In member function 'virtual beep::Node* beep::Tree::addNode(beep::Node*, beep::Node*, unsigned int, std::string)':
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeDiscretizer.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeDiscretizer.cc:6:
/usr/include/c++/9/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++/9/bits/vector.tcc:426:7: 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
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
[ 26%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/TreeIO.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/TreeIO.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeIO.cc
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeDiscretizer.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeDiscretizer.cc:6:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void beep::TreeDiscretizerOld::update()':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
[ 26%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/TreeInputOutput.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/TreeInputOutput.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeInputOutput.cc
[ 27%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/TreeIOTraits.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/TreeIOTraits.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeIOTraits.cc
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.cc: In constructor 'beep::TreeMCMC::TreeMCMC(beep::MCMCModel&, beep::Tree&, const Real&)':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.cc:26:15: warning: passing NULL to non-pointer argument 1 of 'beep::RealVector::RealVector(unsigned int)' [-Wconversion-null]
26 | old_times(NULL),
| ^~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BranchSwapping.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.cc:1:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:257:25: note: declared here
257 | RealVector(unsigned n_elems) //!< All elems are initialized to zero.
| ~~~~~~~~~^~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.cc:27:15: warning: passing NULL to non-pointer argument 1 of 'beep::RealVector::RealVector(unsigned int)' [-Wconversion-null]
27 | old_rates(NULL),
| ^~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BranchSwapping.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.cc:1:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:257:25: note: declared here
257 | RealVector(unsigned n_elems) //!< All elems are initialized to zero.
| ~~~~~~~~~^~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.cc:28:17: warning: passing NULL to non-pointer argument 1 of 'beep::RealVector::RealVector(unsigned int)' [-Wconversion-null]
28 | old_lengths(NULL),
| ^~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BranchSwapping.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.cc:1:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:257:25: note: declared here
257 | RealVector(unsigned n_elems) //!< All elems are initialized to zero.
| ~~~~~~~~~^~~~~~~
[ 28%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/TreePerturbationEvent.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/TreePerturbationEvent.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreePerturbationEvent.cc
[ 28%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ConstRateModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ConstRateModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ConstRateModel.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BranchSwapping.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeMCMC.cc:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {beep::Probability}; _Tp = beep::Probability; _Alloc = std::allocator<beep::Probability>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<beep::Probability, std::allocator<beep::Probability> >::iterator' {aka '__gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void beep::OrthologyMCMC::estimateOrthology(bool)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeInputOutput.cc: In member function 'void beep::TreeInputOutput::fromFileStream(FILE*, beep::inputFormats)':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeInputOutput.cc:118:22: warning: converting to non-pointer type 'char' from NULL [-Wconversion-null]
118 | buf[ bytes_read ]=NULL;
| ^~~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeIO.hh:10,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeIO.cc:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const beep::Tree&}; _Tp = beep::Tree; _Alloc = std::allocator<beep::Tree>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<beep::Tree>::iterator' {aka '__gnu_cxx::__normal_iterator<beep::Tree*, std::vector<beep::Tree> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
[ 29%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/Density2P_common.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/Density2P_common.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Density2P_common.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeInputOutput.hh:13,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeInputOutput.cc:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const beep::Tree&}; _Tp = beep::Tree; _Alloc = std::allocator<beep::Tree>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<beep::Tree>::iterator' {aka '__gnu_cxx::__normal_iterator<beep::Tree*, std::vector<beep::Tree> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeInputOutput.cc: In member function 'beep::Node* beep::TreeInputOutput::extendBeepTree(beep::Tree&, xmlNodePtr, const beep::TreeIOTraits&, std::vector<beep::SetOfNodes>*, beep::StrStrMap*, std::map<const beep::Node*, beep::Node*>*, std::map<const beep::Node*, unsigned int>*)':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeInputOutput.cc:1049:22: warning: 'idInt' may be used uninitialized in this function [-Wmaybe-uninitialized]
1049 | new_node = S.addNode(l, r, idInt, name);
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~
[ 29%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/Density2P_positive.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/Density2P_positive.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Density2P_positive.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Density2P_common.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/InvGaussDensity.hh:89:25: warning: 'constexpr' needed for in-class initialization of static data member 'const double beep::InvGaussDensity::pi' of non-integral type [-fpermissive]
89 | static const double pi = 3.14159265358979; //!< math.constant \f$\pi\f$
| ^~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Density2P_common.cc:6:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/LogNormDensity.hh:81:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::LogNormDensity::pi' of non-integral type [-fpermissive]
81 | static const Real pi = 3.14159265358979; //! math. constant \f$ \pi \f$.
| ^~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeIO.hh:10,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeIO.cc:1:
/usr/include/c++/9/bits/stl_vector.h: In member function 'std::vector<beep::Tree> beep::TreeIO::readAllBeepTrees(const beep::TreeIOTraits&, std::vector<beep::SetOfNodes>*, std::vector<beep::StrStrMap>*)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::Tree*, std::vector<beep::Tree> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
[ 30%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/Density2PMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/Density2PMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Density2PMCMC.cc
[ 30%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EdgeRateMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EdgeRateMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeRateMCMC.cc
[ 31%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EdgeRateMCMC_common.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EdgeRateMCMC_common.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeRateMCMC_common.cc
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeInputOutput.hh:13,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeInputOutput.cc:1:
/usr/include/c++/9/bits/stl_vector.h: In member function 'std::vector<beep::Tree> beep::TreeInputOutput::readAllBeepTrees(beep::TreeIOTraits&, std::vector<beep::SetOfNodes>*, std::vector<beep::StrStrMap>*)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::Tree*, std::vector<beep::Tree> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
[ 32%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EdgeRateModel_common.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EdgeRateModel_common.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeRateModel_common.cc
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeRateMCMC_common.cc: In member function 'void beep::EdgeRateMCMC_common<Templ_EdgeRateModel>::generateRates() [with Templ_EdgeRateModel = beep::gbmRateModel]':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeRateMCMC_common.cc:104:30: warning: unused variable 'fparam' [-Wunused-variable]
104 | Real fparam = std::log(rate) - 0.5 * variance * (rtime - 3.0 * ltime);
| ^~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeRateMCMC_common.cc:105:30: warning: unused variable 'rparam' [-Wunused-variable]
105 | Real rparam = variance * (rtime + ltime);
| ^~~~~~
[ 32%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EdgeWeightHandler.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EdgeWeightHandler.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeWeightHandler.cc
[ 33%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EdgeWeightMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EdgeWeightMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeWeightMCMC.cc
[ 33%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/GammaDensity.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/GammaDensity.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/GammaDensity.cc
[ 34%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/InvGaussDensity.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/InvGaussDensity.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/InvGaussDensity.cc
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeWeightMCMC.cc: In member function 'void beep::EdgeWeightMCMC::showCurrentTree()':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeWeightMCMC.cc:106:27: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
106 | for (int i = 0; i < t.size(); i++)
| ~~^~~~~~~~~~
[ 34%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/LengthRateModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/LengthRateModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/LengthRateModel.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/InvGaussDensity.cc:1:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/InvGaussDensity.hh:89:25: warning: 'constexpr' needed for in-class initialization of static data member 'const double beep::InvGaussDensity::pi' of non-integral type [-fpermissive]
89 | static const double pi = 3.14159265358979; //!< math.constant \f$\pi\f$
| ^~
[ 35%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/LogNormDensity.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/LogNormDensity.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/LogNormDensity.cc
[ 36%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/NormalDensity.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/NormalDensity.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/NormalDensity.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/NormalDensity.cc:1:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/NormalDensity.hh:84:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::NormalDensity::pi' of non-integral type [-fpermissive]
84 | static const Real pi = 3.14159265358979; //! math. constant \f$ \pi \f$.
| ^~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/LogNormDensity.cc:1:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/LogNormDensity.hh:81:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::LogNormDensity::pi' of non-integral type [-fpermissive]
81 | static const Real pi = 3.14159265358979; //! math. constant \f$ \pi \f$.
| ^~
[ 36%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/UniformDensity.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/UniformDensity.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/UniformDensity.cc
[ 37%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/VarRateModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/VarRateModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/VarRateModel.cc
[ 37%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SiteRateHandler.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SiteRateHandler.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SiteRateHandler.cc
[ 38%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/DummyMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/DummyMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/DummyMCMC.cc
[ 38%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/MCMCModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/MCMCModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/MCMCModel.cc
[ 39%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/StdMCMCModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/StdMCMCModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/StdMCMCModel.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SiteRateHandler.cc:7:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SiteRateHandler.hh:83:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::SiteRateHandler::MAX' of non-integral type [-fpermissive]
83 | static const Real MAX = 1e10; //!< rates do not change for alpha > MAX.
| ^~~
[ 40%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/MCMCObject.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/MCMCObject.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/MCMCObject.cc
[ 40%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SimpleMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SimpleMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SimpleMCMC.cc
[ 41%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SimpleMCMCPostSample.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SimpleMCMCPostSample.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SimpleMCMCPostSample.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/StdMCMCModel.cc:5:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/LogNormDensity.hh:81:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::LogNormDensity::pi' of non-integral type [-fpermissive]
81 | static const Real pi = 3.14159265358979; //! math. constant \f$ \pi \f$.
| ^~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/StdMCMCModel.cc:6:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/NormalDensity.hh:84:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::NormalDensity::pi' of non-integral type [-fpermissive]
84 | static const Real pi = 3.14159265358979; //! math. constant \f$ \pi \f$.
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SimpleMCMC.cc: In member function 'virtual void beep::SimpleMCMC::iterate(unsigned int, unsigned int)':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SimpleMCMC.cc:78:14: warning: variable 'check_number_nonupdate' set but not used [-Wunused-but-set-variable]
78 | unsigned check_number_nonupdate = 0;
| ^~~~~~~~~~~~~~~~~~~~~~
[ 41%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SimpleML.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SimpleML.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SimpleML.cc
[ 42%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/mcmc/MCMCSampler.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/mcmc/MCMCSampler.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/mcmc/MCMCSampler.cc
[ 43%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/mcmc/GSRSampler.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/mcmc/GSRSampler.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/mcmc/GSRSampler.cc
[ 43%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/mcmc/PosteriorSampler.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/mcmc/PosteriorSampler.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/mcmc/PosteriorSampler.cc
[ 44%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SimpleObserver.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SimpleObserver.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SimpleObserver.cc
[ 44%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/MpiMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/MpiMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/MpiMCMC.cc
[ 45%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/MultiGSR.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/MultiGSR.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/MultiGSR.cc
[ 45%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/MpiMultiGSR.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/MpiMultiGSR.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/MpiMultiGSR.cc
[ 46%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/BDTreeGenerator.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/BDTreeGenerator.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BDTreeGenerator.cc
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/MpiMultiGSR.cc: In member function 'virtual beep::Probability beep::MpiMultiGSR::calcDataProbability(unsigned int)':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/MpiMultiGSR.cc:338:6: warning: operation on 'i' may be undefined [-Wsequence-point]
338 | p[++i] = geneFams[i]->initStateProb();//updateDataProbability();
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/MpiMultiGSR.cc:338:6: warning: operation on 'i' may be undefined [-Wsequence-point]
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/MpiMultiGSR.cc:338:6: warning: operation on 'i' may be undefined [-Wsequence-point]
[ 47%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/BirthDeathMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/BirthDeathMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BirthDeathMCMC.cc
In file included from /usr/include/c++/9/map:60,
from /usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx/mpicxx.h:42,
from /usr/lib/arm-linux-gnueabihf/openmpi/include/mpi.h:2868,
from /usr/include/boost/mpi/config.hpp:20,
from /usr/include/boost/mpi/environment.hpp:16,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Probability.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:8,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BDTreeGenerator.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BDTreeGenerator.cc:1:
/usr/include/c++/9/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<beep::Node* const&>, std::tuple<>}; _Key = beep::Node*; _Val = std::pair<beep::Node* const, double>; _KeyOfValue = std::_Select1st<std::pair<beep::Node* const, double> >; _Compare = std::less<beep::Node*>; _Alloc = std::allocator<std::pair<beep::Node* const, double> >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<beep::Node*, std::pair<beep::Node* const, double>, std::_Select1st<std::pair<beep::Node* const, double> >, std::less<beep::Node*>, std::allocator<std::pair<beep::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<beep::Node* const, double> >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:61,
from /usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx/mpicxx.h:42,
from /usr/lib/arm-linux-gnueabihf/openmpi/include/mpi.h:2868,
from /usr/include/boost/mpi/config.hpp:20,
from /usr/include/boost/mpi/environment.hpp:16,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Probability.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:8,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BDTreeGenerator.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BDTreeGenerator.cc:1:
/usr/include/c++/9/bits/stl_map.h: In member function 'beep::Node* beep::BDTreeGenerator::generateX(beep::Node*, beep::Real)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<beep::Node*, std::pair<beep::Node* const, double>, std::_Select1st<std::pair<beep::Node* const, double> >, std::less<beep::Node*>, std::allocator<std::pair<beep::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<beep::Node* const, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h: In member function 'beep::Node* beep::BDTreeGenerator::generateV(beep::Node*)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<beep::Node*, std::pair<beep::Node* const, double>, std::_Select1st<std::pair<beep::Node* const, double> >, std::less<beep::Node*>, std::allocator<std::pair<beep::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<beep::Node* const, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<beep::Node*, std::pair<beep::Node* const, double>, std::_Select1st<std::pair<beep::Node* const, double> >, std::less<beep::Node*>, std::allocator<std::pair<beep::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<beep::Node* const, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
[ 47%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/BirthDeathProbs.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/BirthDeathProbs.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BirthDeathProbs.cc
/usr/include/c++/9/bits/stl_map.h: In member function 'virtual bool beep::BDTreeGenerator::generateTree(beep::Tree&, bool)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<beep::Node*, std::pair<beep::Node* const, double>, std::_Select1st<std::pair<beep::Node* const, double> >, std::less<beep::Node*>, std::allocator<std::pair<beep::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<beep::Node* const, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<beep::Node*, std::pair<beep::Node* const, double>, std::_Select1st<std::pair<beep::Node* const, double> >, std::less<beep::Node*>, std::allocator<std::pair<beep::Node* const, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<beep::Node* const, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
[ 48%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/CongruentGuestTreeTimeMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/CongruentGuestTreeTimeMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/CongruentGuestTreeTimeMCMC.cc
In file included from /usr/include/c++/9/vector:72,
from /usr/include/boost/archive/detail/helper_collection.hpp:20,
from /usr/include/boost/archive/detail/basic_oarchive.hpp:26,
from /usr/include/boost/archive/detail/oserializer.hpp:66,
from /usr/include/boost/mpi/detail/mpi_datatype_oarchive.hpp:14,
from /usr/include/boost/mpi/detail/mpi_datatype_cache.hpp:13,
from /usr/include/boost/mpi/datatype.hpp:27,
from /usr/include/boost/mpi/communicator.hpp:22,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/MpiMultiGSR.hh:11,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/MpiMultiGSR.cc:6:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {beep::SeriGSRvars}; _Tp = beep::SeriGSRvars; _Alloc = std::allocator<beep::SeriGSRvars>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<beep::SeriGSRvars>::iterator' {aka '__gnu_cxx::__normal_iterator<beep::SeriGSRvars*, std::vector<beep::SeriGSRvars> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
[ 48%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/DiscBirthDeathProbs.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/DiscBirthDeathProbs.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/DiscBirthDeathProbs.cc
/usr/include/c++/9/bits/vector.tcc: In member function 'void beep::MpiMultiGSR::updateGvars(unsigned int)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::SeriGSRvars*, std::vector<beep::SeriGSRvars> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
[ 49%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EdgeDiscBDMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EdgeDiscBDMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscBDMCMC.cc
[ 49%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EdgeDiscBDProbs.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EdgeDiscBDProbs.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscBDProbs.cc
[ 50%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EdgeDiscGSR.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EdgeDiscGSR.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BirthDeathProbs.hh:9,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/DiscBirthDeathProbs.cc:5:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const beep::Probability&}; _Tp = beep::Probability; _Alloc = std::allocator<beep::Probability>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<beep::Probability, std::allocator<beep::Probability> >::iterator' {aka '__gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_assign_aux(_ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >; _Tp = beep::Probability; _Alloc = std::allocator<beep::Probability>]':
/usr/include/c++/9/bits/vector.tcc:300:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
300 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:300:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BirthDeathProbs.hh:9,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/DiscBirthDeathProbs.cc:5:
/usr/include/c++/9/bits/stl_vector.h: In copy constructor 'beep::DiscBirthDeathProbs::DiscBirthDeathProbs(const beep::DiscBirthDeathProbs&)':
/usr/include/c++/9/bits/stl_vector.h:1625:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
1625 | { _M_assign_aux(__first, __last, std::__iterator_category(__first)); }
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BirthDeathProbs.hh:9,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/DiscBirthDeathProbs.cc:5:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {beep::Probability}; _Tp = beep::Probability; _Alloc = std::allocator<beep::Probability>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<beep::Probability, std::allocator<beep::Probability> >::iterator' {aka '__gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {beep::Probability}; _Tp = beep::Probability; _Alloc = std::allocator<beep::Probability>]':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BirthDeathProbs.hh:9,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/DiscBirthDeathProbs.cc:5:
/usr/include/c++/9/bits/stl_vector.h: In member function 'const beep::Node* beep::DiscBirthDeathProbs::getConstLinValsForPath(std::vector<beep::Probability, std::allocator<beep::Probability> >&, beep::DiscTree::Point, beep::DiscTree::Point, bool) const':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h: In member function 'void beep::DiscBirthDeathProbs::copyLeafBProbs(std::vector<beep::Probability, std::allocator<beep::Probability> >&, unsigned int)':
/usr/include/c++/9/bits/stl_vector.h:1625:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::Probability*, std::vector<beep::Probability, std::allocator<beep::Probability> > >' changed in GCC 7.1
1625 | { _M_assign_aux(__first, __last, std::__iterator_category(__first)); }
| ^~~~~~~~~~~~~
[ 51%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EpochBDTMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EpochBDTMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTMCMC.cc
[ 51%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EpochBDTProbs.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EpochBDTProbs.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.cc:8:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.hh: In constructor 'beep::EdgeDiscGSR::EdgeDiscGSR(beep::Tree*, beep::EdgeDiscTree*, beep::StrStrMap*, beep::Density2P*, beep::EdgeDiscBDProbs*, beep::UnsignedVector*)':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.hh:588:14: warning: 'beep::EdgeDiscGSR::m_calculatedAtAndBelow' will be initialized after [-Wreorder]
588 | bool m_calculatedAtAndBelow;
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.hh:583:14: warning: 'bool beep::EdgeDiscGSR::m_calculatedAtBars' [-Wreorder]
583 | bool m_calculatedAtBars;
| ^~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.cc:23:5: warning: when initialized here [-Wreorder]
23 | EdgeDiscGSR::EdgeDiscGSR(Tree* G,
| ^~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.cc: In member function 'void beep::EdgeDiscGSR::convertDensitiesToProbabilities()':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.cc:475:27: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
475 | for (int i = 0; i < m_G->getNumberOfNodes(); i++) {
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.cc:485:27: warning: variable 'xpt' set but not used [-Wunused-but-set-variable]
485 | Point xpt = x.getPt();
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.cc:525:27: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
525 | for (int i = 0; i < m_G->getNumberOfNodes(); i++) {
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.cc:528:19: warning: unused variable 'parent' [-Wunused-variable]
528 | Node *parent = u->getParent();
| ^~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.cc: In member function 'beep::Probability beep::EdgeDiscGSR::getTotalPlacementDensity(const beep::Node*)':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EdgeDiscGSR.cc:897:18: warning: unused variable 'timeStep' [-Wunused-variable]
897 | Real timeStep = u->isLeaf() ? 1.0 : m_DS->getTimestep(xPoint.first);
| ^~~~~~~~
[ 52%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EpochDLTRS.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EpochDLTRS.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochDLTRS.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTMCMC.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTMCMC.cc:1:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:359:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C2' of non-integral type [-fpermissive]
359 | static const Real C2 = 1.0 / 5.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:360:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C3' of non-integral type [-fpermissive]
360 | static const Real C3 = 3.0 / 10.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:361:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C4' of non-integral type [-fpermissive]
361 | static const Real C4 = 4.0 / 5.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:362:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C5' of non-integral type [-fpermissive]
362 | static const Real C5 = 8.0 / 9.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:363:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A21' of non-integral type [-fpermissive]
363 | static const Real A21 = 1.0 / 5.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:364:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A31' of non-integral type [-fpermissive]
364 | static const Real A31 = 3.0 / 40.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:365:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A32' of non-integral type [-fpermissive]
365 | static const Real A32 = 9.0 / 40.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:366:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A41' of non-integral type [-fpermissive]
366 | static const Real A41 = 44.0 / 45.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:367:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A42' of non-integral type [-fpermissive]
367 | static const Real A42 = -56.0 / 15.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:368:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A43' of non-integral type [-fpermissive]
368 | static const Real A43 = 32.0 / 9.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:369:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A51' of non-integral type [-fpermissive]
369 | static const Real A51 = 19372.0 / 6561.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:370:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A52' of non-integral type [-fpermissive]
370 | static const Real A52 = -25360.0 / 2187.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:371:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A53' of non-integral type [-fpermissive]
371 | static const Real A53 = 64448.0 / 6561.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:372:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A54' of non-integral type [-fpermissive]
372 | static const Real A54 = -212.0 / 729.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:373:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A61' of non-integral type [-fpermissive]
373 | static const Real A61 = 9017.0 / 3168.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:374:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A62' of non-integral type [-fpermissive]
374 | static const Real A62 = -355.0 / 33.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:375:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A63' of non-integral type [-fpermissive]
375 | static const Real A63 = 46732.0 / 5247.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:376:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A64' of non-integral type [-fpermissive]
376 | static const Real A64 = 49.0 / 176.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:377:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A65' of non-integral type [-fpermissive]
377 | static const Real A65 = -5103.0 / 18656.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:378:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A71' of non-integral type [-fpermissive]
378 | static const Real A71 = 35.0 / 384.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:379:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A73' of non-integral type [-fpermissive]
379 | static const Real A73 = 500.0 / 1113.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:380:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A74' of non-integral type [-fpermissive]
380 | static const Real A74 = 125.0 / 192.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:381:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A75' of non-integral type [-fpermissive]
381 | static const Real A75 = -2187.0 / 6784.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:382:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A76' of non-integral type [-fpermissive]
382 | static const Real A76 = 11.0 / 84.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:383:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E1' of non-integral type [-fpermissive]
383 | static const Real E1 = 71.0 / 57600.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:384:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E3' of non-integral type [-fpermissive]
384 | static const Real E3 = -71.0 / 16695.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:385:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E4' of non-integral type [-fpermissive]
385 | static const Real E4 = 71.0 / 1920.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:386:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E5' of non-integral type [-fpermissive]
386 | static const Real E5 = -17253.0 / 339200.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:387:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E6' of non-integral type [-fpermissive]
387 | static const Real E6 = 22.0 / 525.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:388:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E7' of non-integral type [-fpermissive]
388 | static const Real E7 = -1.0 / 40.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:391:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D1' of non-integral type [-fpermissive]
391 | static const Real D1 = -12715105075.0 / 11282082432.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:392:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D3' of non-integral type [-fpermissive]
392 | static const Real D3 = 87487479700.0 / 32700410799.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:393:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D4' of non-integral type [-fpermissive]
393 | static const Real D4 = -10690763975.0 / 1880347072.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:394:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D5' of non-integral type [-fpermissive]
394 | static const Real D5 = 701980252875.0 / 199316789632.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:395:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D6' of non-integral type [-fpermissive]
395 | static const Real D6 = -1453857185.0 / 822651844.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:396:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D7' of non-integral type [-fpermissive]
396 | static const Real D7 = 69997945.0 / 29380423.0;
| ^~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:9,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTMCMC.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTMCMC.cc:1:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochTree.hh:54:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochTree::MIN_SPLICE_DELTA' of non-integral type [-fpermissive]
54 | static const Real MIN_SPLICE_DELTA = 0.0001;
| ^~~~~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTMCMC.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTMCMC.cc:1:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:50:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochBDTProbs::REL_TOL' of non-integral type [-fpermissive]
50 | static const Real REL_TOL = 1e-6;
| ^~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:55:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochBDTProbs::ABS_TOL' of non-integral type [-fpermissive]
55 | static const Real ABS_TOL = 1e-6;
| ^~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.cc:7:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:359:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C2' of non-integral type [-fpermissive]
359 | static const Real C2 = 1.0 / 5.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:360:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C3' of non-integral type [-fpermissive]
360 | static const Real C3 = 3.0 / 10.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:361:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C4' of non-integral type [-fpermissive]
361 | static const Real C4 = 4.0 / 5.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:362:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C5' of non-integral type [-fpermissive]
362 | static const Real C5 = 8.0 / 9.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:363:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A21' of non-integral type [-fpermissive]
363 | static const Real A21 = 1.0 / 5.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:364:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A31' of non-integral type [-fpermissive]
364 | static const Real A31 = 3.0 / 40.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:365:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A32' of non-integral type [-fpermissive]
365 | static const Real A32 = 9.0 / 40.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:366:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A41' of non-integral type [-fpermissive]
366 | static const Real A41 = 44.0 / 45.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:367:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A42' of non-integral type [-fpermissive]
367 | static const Real A42 = -56.0 / 15.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:368:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A43' of non-integral type [-fpermissive]
368 | static const Real A43 = 32.0 / 9.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:369:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A51' of non-integral type [-fpermissive]
369 | static const Real A51 = 19372.0 / 6561.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:370:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A52' of non-integral type [-fpermissive]
370 | static const Real A52 = -25360.0 / 2187.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:371:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A53' of non-integral type [-fpermissive]
371 | static const Real A53 = 64448.0 / 6561.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:372:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A54' of non-integral type [-fpermissive]
372 | static const Real A54 = -212.0 / 729.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:373:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A61' of non-integral type [-fpermissive]
373 | static const Real A61 = 9017.0 / 3168.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:374:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A62' of non-integral type [-fpermissive]
374 | static const Real A62 = -355.0 / 33.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:375:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A63' of non-integral type [-fpermissive]
375 | static const Real A63 = 46732.0 / 5247.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:376:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A64' of non-integral type [-fpermissive]
376 | static const Real A64 = 49.0 / 176.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:377:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A65' of non-integral type [-fpermissive]
377 | static const Real A65 = -5103.0 / 18656.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:378:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A71' of non-integral type [-fpermissive]
378 | static const Real A71 = 35.0 / 384.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:379:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A73' of non-integral type [-fpermissive]
379 | static const Real A73 = 500.0 / 1113.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:380:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A74' of non-integral type [-fpermissive]
380 | static const Real A74 = 125.0 / 192.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:381:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A75' of non-integral type [-fpermissive]
381 | static const Real A75 = -2187.0 / 6784.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:382:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A76' of non-integral type [-fpermissive]
382 | static const Real A76 = 11.0 / 84.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:383:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E1' of non-integral type [-fpermissive]
383 | static const Real E1 = 71.0 / 57600.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:384:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E3' of non-integral type [-fpermissive]
384 | static const Real E3 = -71.0 / 16695.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:385:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E4' of non-integral type [-fpermissive]
385 | static const Real E4 = 71.0 / 1920.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:386:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E5' of non-integral type [-fpermissive]
386 | static const Real E5 = -17253.0 / 339200.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:387:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E6' of non-integral type [-fpermissive]
387 | static const Real E6 = 22.0 / 525.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:388:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E7' of non-integral type [-fpermissive]
388 | static const Real E7 = -1.0 / 40.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:391:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D1' of non-integral type [-fpermissive]
391 | static const Real D1 = -12715105075.0 / 11282082432.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:392:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D3' of non-integral type [-fpermissive]
392 | static const Real D3 = 87487479700.0 / 32700410799.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:393:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D4' of non-integral type [-fpermissive]
393 | static const Real D4 = -10690763975.0 / 1880347072.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:394:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D5' of non-integral type [-fpermissive]
394 | static const Real D5 = 701980252875.0 / 199316789632.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:395:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D6' of non-integral type [-fpermissive]
395 | static const Real D6 = -1453857185.0 / 822651844.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:396:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D7' of non-integral type [-fpermissive]
396 | static const Real D7 = 69997945.0 / 29380423.0;
| ^~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:9,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.cc:7:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochTree.hh:54:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochTree::MIN_SPLICE_DELTA' of non-integral type [-fpermissive]
54 | static const Real MIN_SPLICE_DELTA = 0.0001;
| ^~~~~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.cc:7:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:50:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochBDTProbs::REL_TOL' of non-integral type [-fpermissive]
50 | static const Real REL_TOL = 1e-6;
| ^~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:55:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochBDTProbs::ABS_TOL' of non-integral type [-fpermissive]
55 | static const Real ABS_TOL = 1e-6;
| ^~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochDLTRS.cc:3:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:359:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C2' of non-integral type [-fpermissive]
359 | static const Real C2 = 1.0 / 5.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:360:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C3' of non-integral type [-fpermissive]
360 | static const Real C3 = 3.0 / 10.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:361:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C4' of non-integral type [-fpermissive]
361 | static const Real C4 = 4.0 / 5.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:362:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C5' of non-integral type [-fpermissive]
362 | static const Real C5 = 8.0 / 9.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:363:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A21' of non-integral type [-fpermissive]
363 | static const Real A21 = 1.0 / 5.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:364:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A31' of non-integral type [-fpermissive]
364 | static const Real A31 = 3.0 / 40.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:365:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A32' of non-integral type [-fpermissive]
365 | static const Real A32 = 9.0 / 40.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:366:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A41' of non-integral type [-fpermissive]
366 | static const Real A41 = 44.0 / 45.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:367:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A42' of non-integral type [-fpermissive]
367 | static const Real A42 = -56.0 / 15.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:368:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A43' of non-integral type [-fpermissive]
368 | static const Real A43 = 32.0 / 9.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:369:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A51' of non-integral type [-fpermissive]
369 | static const Real A51 = 19372.0 / 6561.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:370:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A52' of non-integral type [-fpermissive]
370 | static const Real A52 = -25360.0 / 2187.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:371:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A53' of non-integral type [-fpermissive]
371 | static const Real A53 = 64448.0 / 6561.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:372:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A54' of non-integral type [-fpermissive]
372 | static const Real A54 = -212.0 / 729.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:373:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A61' of non-integral type [-fpermissive]
373 | static const Real A61 = 9017.0 / 3168.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:374:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A62' of non-integral type [-fpermissive]
374 | static const Real A62 = -355.0 / 33.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:375:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A63' of non-integral type [-fpermissive]
375 | static const Real A63 = 46732.0 / 5247.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:376:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A64' of non-integral type [-fpermissive]
376 | static const Real A64 = 49.0 / 176.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:377:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A65' of non-integral type [-fpermissive]
377 | static const Real A65 = -5103.0 / 18656.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:378:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A71' of non-integral type [-fpermissive]
378 | static const Real A71 = 35.0 / 384.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:379:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A73' of non-integral type [-fpermissive]
379 | static const Real A73 = 500.0 / 1113.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:380:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A74' of non-integral type [-fpermissive]
380 | static const Real A74 = 125.0 / 192.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:381:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A75' of non-integral type [-fpermissive]
381 | static const Real A75 = -2187.0 / 6784.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:382:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A76' of non-integral type [-fpermissive]
382 | static const Real A76 = 11.0 / 84.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:383:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E1' of non-integral type [-fpermissive]
383 | static const Real E1 = 71.0 / 57600.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:384:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E3' of non-integral type [-fpermissive]
384 | static const Real E3 = -71.0 / 16695.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:385:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E4' of non-integral type [-fpermissive]
385 | static const Real E4 = 71.0 / 1920.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:386:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E5' of non-integral type [-fpermissive]
386 | static const Real E5 = -17253.0 / 339200.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:387:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E6' of non-integral type [-fpermissive]
387 | static const Real E6 = 22.0 / 525.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:388:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E7' of non-integral type [-fpermissive]
388 | static const Real E7 = -1.0 / 40.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:391:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D1' of non-integral type [-fpermissive]
391 | static const Real D1 = -12715105075.0 / 11282082432.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:392:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D3' of non-integral type [-fpermissive]
392 | static const Real D3 = 87487479700.0 / 32700410799.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:393:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D4' of non-integral type [-fpermissive]
393 | static const Real D4 = -10690763975.0 / 1880347072.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:394:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D5' of non-integral type [-fpermissive]
394 | static const Real D5 = 701980252875.0 / 199316789632.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:395:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D6' of non-integral type [-fpermissive]
395 | static const Real D6 = -1453857185.0 / 822651844.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:396:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D7' of non-integral type [-fpermissive]
396 | static const Real D7 = 69997945.0 / 29380423.0;
| ^~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:9,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochDLTRS.cc:3:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochTree.hh:54:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochTree::MIN_SPLICE_DELTA' of non-integral type [-fpermissive]
54 | static const Real MIN_SPLICE_DELTA = 0.0001;
| ^~~~~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochDLTRS.cc:3:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:50:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochBDTProbs::REL_TOL' of non-integral type [-fpermissive]
50 | static const Real REL_TOL = 1e-6;
| ^~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:55:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochBDTProbs::ABS_TOL' of non-integral type [-fpermissive]
55 | static const Real ABS_TOL = 1e-6;
| ^~~~~~~
[ 52%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/GammaMap.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/GammaMap.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/GammaMap.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BirthDeathProbs.hh:9,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.cc:6:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:509:5: 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
509 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BirthDeathProbs.hh:9,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.cc:6:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void beep::EpochBDTProbs::appendInitVals(beep::EpochBDTProbs::realvec&) const':
/usr/include/c++/9/bits/stl_vector.h:1335:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1335 | _M_fill_insert(begin() + __offset, __n, __x);
| ^~~~~~~~~~~~~~
[ 53%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/GuestTreeModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/GuestTreeModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/GuestTreeModel.cc
[ 54%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EnumerateReconciliationModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EnumerateReconciliationModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EnumerateReconciliationModel.cc
[ 54%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/fastGEM_BirthDeathMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/fastGEM_BirthDeathMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM_BirthDeathMCMC.cc
[ 55%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/fastGEM_BirthDeathProbs.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/fastGEM_BirthDeathProbs.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM_BirthDeathProbs.cc
[ 55%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/fastGEM.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/fastGEM.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM.cc
[ 56%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/LambdaMap.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/LambdaMap.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/LambdaMap.cc
[ 56%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/MaxReconciledTreeModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/MaxReconciledTreeModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/MaxReconciledTreeModel.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM_BirthDeathProbs.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM_BirthDeathProbs.cc:5:
/usr/include/c++/9/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++/9/bits/vector.tcc:426:7: 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
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In constructor 'beep::fastGEM_BirthDeathProbs::fastGEM_BirthDeathProbs(beep::Tree&, unsigned int, std::vector<double, std::allocator<double> >*, const Real&, const Real&)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM.cc: In member function 'unsigned int beep::fastGEM::calcMaxProb(unsigned int)':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM.cc:136:14: warning: variable 'topRateProb' set but not used [-Wunused-but-set-variable]
136 | Probability topRateProb = df->operator()(rate);
| ^~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM.cc: In member function 'void beep::fastGEM::printSa()':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM.cc:1298:10: warning: variable 'zeroTotalQuotient' set but not used [-Wunused-but-set-variable]
1298 | Real zeroTotalQuotient = 0.0;
| ^~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM.cc: In member function 'void beep::fastGEM::printLb()':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM.cc:1325:10: warning: variable 'zeroTotalQuotient' set but not used [-Wunused-but-set-variable]
1325 | Real zeroTotalQuotient = 0.0;
| ^~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM.cc: In member function 'void beep::fastGEM::printLt()':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/fastGEM.cc:1356:10: warning: variable 'zeroTotalQuotient' set but not used [-Wunused-but-set-variable]
1356 | Real zeroTotalQuotient = 0.0;
| ^~~~~~~~~~~~~~~~~
[ 57%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/PerturbationObservable.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/PerturbationObservable.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/PerturbationObservable.cc
[ 58%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ReconciledTreeModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ReconciledTreeModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciledTreeModel.cc
[ 58%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ReconciledTreeTimeModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ReconciledTreeTimeModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciledTreeTimeModel.cc
[ 59%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ReconciledTreeTimeMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ReconciledTreeTimeMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciledTreeTimeMCMC.cc
[ 59%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ReconciliationModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ReconciliationModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationModel.cc
[ 60%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ReconciliationSampler.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ReconciliationSampler.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationSampler.cc
[ 60%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ReconciliationTimeModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ReconciliationTimeModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationTimeModel.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciledTreeTimeMCMC.cc:3:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/LogNormDensity.hh:81:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::LogNormDensity::pi' of non-integral type [-fpermissive]
81 | static const Real pi = 3.14159265358979; //! math. constant \f$ \pi \f$.
| ^~
[ 61%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ReconciliationTimeMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ReconciliationTimeMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationTimeMCMC.cc
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationSampler.cc: In member function 'void beep::ReconciliationSampler::setAttributesAndProbabilities()':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationSampler.cc:161:17: warning: variable 'p' set but not used [-Wunused-but-set-variable]
161 | Probability p = calculateDataProbability();
| ^
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationTimeModel.cc: In member function 'std::string beep::ReconciliationTimeModel::table4os() const':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationTimeModel.cc:319:58: warning: typedef 'MapIter' locally defined but not used [-Wunused-local-typedefs]
319 | typedef std::map<unsigned, unsigned>::const_iterator MapIter;
| ^~~~~~~
[ 62%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ReconciliationTimeSampler.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ReconciliationTimeSampler.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationTimeSampler.cc
[ 62%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/ReconciliationTreeGenerator.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/ReconciliationTreeGenerator.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationTreeGenerator.cc
[ 63%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/DLRSOrthoCalculator.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/DLRSOrthoCalculator.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/DLRSOrthoCalculator.cc
[ 63%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SetOfNodes.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SetOfNodes.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SetOfNodes.cc
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationTimeSampler.cc: In member function 'const string beep::ReconciliationTimeSampler::table4os() const':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationTimeSampler.cc:422:58: warning: typedef 'MapIter' locally defined but not used [-Wunused-local-typedefs]
422 | typedef std::map<unsigned, unsigned>::const_iterator MapIter;
| ^~~~~~~
[ 64%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/TopTimeMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/TopTimeMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TopTimeMCMC.cc
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationTreeGenerator.cc: In constructor 'beep::ReconciliationTreeGenerator::ReconciliationTreeGenerator(beep::BirthDeathProbs&, const string&)':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationTreeGenerator.cc:31:3: warning: 'beep::ReconciliationTreeGenerator::R' is initialized with itself [-Winit-self]
31 | ReconciliationTreeGenerator::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~
[ 65%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/HybridBranchSwapping.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/HybridBranchSwapping.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridBranchSwapping.cc
[ 65%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/HybridTree.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/HybridTree.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTree.cc
[ 66%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/HybridTreeIO.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/HybridTreeIO.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTreeIO.cc
[ 66%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/HybridTreeInputOutput.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/HybridTreeInputOutput.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTreeInputOutput.cc
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTree.cc: In member function 'beep::Tree& beep::HybridTree::getBinaryTree() const':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTree.cc:367:43: warning: ISO C++ forbids comparison between pointer and integer [-fpermissive]
367 | if(rootNode && bTree.getRootNode() == false)
| ^~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeIO.hh:10,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTreeIO.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTreeIO.cc:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const beep::HybridTree&}; _Tp = beep::HybridTree; _Alloc = std::allocator<beep::HybridTree>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<beep::HybridTree>::iterator' {aka '__gnu_cxx::__normal_iterator<beep::HybridTree*, std::vector<beep::HybridTree> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeIO.hh:10,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTreeIO.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTreeIO.cc:1:
/usr/include/c++/9/bits/stl_vector.h: In member function 'std::vector<beep::HybridTree> beep::HybridTreeIO::readAllHybridTrees(beep::TreeIOTraits, std::vector<beep::SetOfNodes>*, std::vector<beep::StrStrMap>*)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::HybridTree*, std::vector<beep::HybridTree> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
[ 67%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/BDHybridTreeGenerator.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/BDHybridTreeGenerator.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BDHybridTreeGenerator.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeInputOutput.hh:13,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTreeInputOutput.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTreeInputOutput.cc:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const beep::HybridTree&}; _Tp = beep::HybridTree; _Alloc = std::allocator<beep::HybridTree>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<beep::HybridTree>::iterator' {aka '__gnu_cxx::__normal_iterator<beep::HybridTree*, std::vector<beep::HybridTree> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TreeInputOutput.hh:13,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTreeInputOutput.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridTreeInputOutput.cc:1:
/usr/include/c++/9/bits/stl_vector.h: In member function 'std::vector<beep::HybridTree> beep::HybridTreeInputOutput::readAllHybridTrees(beep::TreeIOTraits&, std::vector<beep::SetOfNodes>*, std::vector<beep::StrStrMap>*)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::HybridTree*, std::vector<beep::HybridTree> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
[ 67%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/BirthDeathInHybridProbs.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/BirthDeathInHybridProbs.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BirthDeathInHybridProbs.cc
[ 68%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/BirthDeathInHybridMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/BirthDeathInHybridMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BirthDeathInHybridMCMC.cc
[ 69%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/HybridBDTreeGenerator.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/HybridBDTreeGenerator.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridBDTreeGenerator.cc
[ 69%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/HybridGuestTreeMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/HybridGuestTreeMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridGuestTreeMCMC.cc
[ 70%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/HybridGuestTreeModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/HybridGuestTreeModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridGuestTreeModel.cc
[ 70%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/HybridHostTreeMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/HybridHostTreeMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridHostTreeMCMC.cc
[ 71%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/HybridHostTreeModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/HybridHostTreeModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridHostTreeModel.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridHostTreeModel.cc:6:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/NormalDensity.hh:84:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::NormalDensity::pi' of non-integral type [-fpermissive]
84 | static const Real pi = 3.14159265358979; //! math. constant \f$ \pi \f$.
| ^~
[ 71%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EnumHybridGuestTreeMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EnumHybridGuestTreeMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EnumHybridGuestTreeMCMC.cc
In file included from /usr/include/c++/9/vector:72,
from /usr/include/boost/archive/detail/helper_collection.hpp:20,
from /usr/include/boost/archive/detail/basic_oarchive.hpp:26,
from /usr/include/boost/archive/detail/oserializer.hpp:66,
from /usr/include/boost/mpi/detail/mpi_datatype_oarchive.hpp:14,
from /usr/include/boost/mpi/detail/mpi_datatype_cache.hpp:13,
from /usr/include/boost/mpi/datatype.hpp:27,
from /usr/include/boost/mpi/communicator.hpp:22,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Probability.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ProbabilityModel.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridHostTreeModel.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridHostTreeModel.cc:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:509:5: 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
509 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
[ 72%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/EnumHybridGuestTreeModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/EnumHybridGuestTreeModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EnumHybridGuestTreeModel.cc
In file included from /usr/include/c++/9/vector:67,
from /usr/include/boost/archive/detail/helper_collection.hpp:20,
from /usr/include/boost/archive/detail/basic_oarchive.hpp:26,
from /usr/include/boost/archive/detail/oserializer.hpp:66,
from /usr/include/boost/mpi/detail/mpi_datatype_oarchive.hpp:14,
from /usr/include/boost/mpi/detail/mpi_datatype_cache.hpp:13,
from /usr/include/boost/mpi/datatype.hpp:27,
from /usr/include/boost/mpi/communicator.hpp:22,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Probability.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ProbabilityModel.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridHostTreeModel.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridHostTreeModel.cc:1:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void beep::HybridHostTreeModel::setMaxGhosts(unsigned int)':
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:60,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Beep.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ProbabilityModel.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridHostTreeModel.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridHostTreeModel.cc:1:
/usr/include/c++/9/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 double&>, std::tuple<>}; _Key = double; _Val = std::pair<const double, std::pair<beep::Node*, unsigned int> >; _KeyOfValue = std::_Select1st<std::pair<const double, std::pair<beep::Node*, unsigned int> > >; _Compare = std::less<double>; _Alloc = std::allocator<std::pair<const double, std::pair<beep::Node*, unsigned int> > >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::pair<beep::Node*, unsigned int> >, std::_Select1st<std::pair<const double, std::pair<beep::Node*, unsigned int> > >, std::less<double>, std::allocator<std::pair<const double, std::pair<beep::Node*, unsigned int> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const double, std::pair<beep::Node*, unsigned int> > >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:61,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/Beep.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ProbabilityModel.hh:6,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridHostTreeModel.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/HybridHostTreeModel.cc:1:
/usr/include/c++/9/bits/stl_map.h: In member function 'void beep::HybridHostTreeModel::initNodeOrder()':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::pair<beep::Node*, unsigned int> >, std::_Select1st<std::pair<const double, std::pair<beep::Node*, unsigned int> > >, std::less<double>, std::allocator<std::pair<const double, std::pair<beep::Node*, unsigned int> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const double, std::pair<beep::Node*, unsigned int> > >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
[ 73%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/CacheSubstitutionModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/CacheSubstitutionModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/CacheSubstitutionModel.cc
[ 73%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/FastCacheSubstitutionModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/FastCacheSubstitutionModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/FastCacheSubstitutionModel.cc
In file included from /usr/include/c++/9/ext/hash_map:60,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/FastCacheSubstitutionModel.hh:8,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/FastCacheSubstitutionModel.cc:1:
/usr/include/c++/9/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp]
32 | #warning \
| ^~~~~~~
[ 74%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/MatrixCache.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/MatrixCache.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/MatrixCache.cc
[ 74%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/TransitionHandler.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/TransitionHandler.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/TransitionHandler.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/CacheSubstitutionModel.cc:9:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SiteRateHandler.hh:83:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::SiteRateHandler::MAX' of non-integral type [-fpermissive]
83 | static const Real MAX = 1e10; //!< rates do not change for alpha > MAX.
| ^~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/FastCacheSubstitutionModel.cc:9:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SiteRateHandler.hh:83:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::SiteRateHandler::MAX' of non-integral type [-fpermissive]
83 | static const Real MAX = 1e10; //!< rates do not change for alpha > MAX.
| ^~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/BeepVector.hh:5,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/LambdaMap.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/GammaMap.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/ReconciliationModel.hh:8,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/GuestTreeModel.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EnumHybridGuestTreeModel.hh:4,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EnumHybridGuestTreeModel.cc:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {beep::ReconciledTreeTimeModel}; _Tp = beep::ReconciledTreeTimeModel; _Alloc = std::allocator<beep::ReconciledTreeTimeModel>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<beep::ReconciledTreeTimeModel>::iterator' {aka '__gnu_cxx::__normal_iterator<beep::ReconciledTreeTimeModel*, std::vector<beep::ReconciledTreeTimeModel> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {beep::GuestTreeModel}; _Tp = beep::GuestTreeModel; _Alloc = std::allocator<beep::GuestTreeModel>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<beep::GuestTreeModel>::iterator' {aka '__gnu_cxx::__normal_iterator<beep::GuestTreeModel*, std::vector<beep::GuestTreeModel> >'} changed in GCC 7.1
/usr/include/c++/9/bits/vector.tcc: In member function 'void beep::EnumHybridGuestTreeModel::inits()':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::ReconciledTreeTimeModel*, std::vector<beep::ReconciledTreeTimeModel> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<beep::GuestTreeModel*, std::vector<beep::GuestTreeModel> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
[ 75%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/MatrixTransitionHandler.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/MatrixTransitionHandler.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/MatrixTransitionHandler.cc
[ 75%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SeqIO.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SeqIO.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SeqIO.cc
[ 76%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SequenceGenerator.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SequenceGenerator.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceGenerator.cc
[ 77%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SequenceType.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SequenceType.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceType.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceGenerator.hh:15,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceGenerator.cc:4:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SiteRateHandler.hh:83:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::SiteRateHandler::MAX' of non-integral type [-fpermissive]
83 | static const Real MAX = 1e10; //!< rates do not change for alpha > MAX.
| ^~~
[ 77%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SequenceData.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SequenceData.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceData.cc
[ 78%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SubstitutionModel.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SubstitutionModel.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SubstitutionModel.cc
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceType.cc:270:10: warning: 'std::ostream& beep::operator<<(std::ostream&, const beep::SequenceType&)' has not been declared within 'beep'
270 | ostream& beep::operator<<(ostream& os, const SequenceType& dt)
| ^~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceType.cc:8:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceType.hh:56:26: note: only here as a 'friend'
56 | friend std::ostream& operator<<(std::ostream& os, const SequenceType& dt);
| ^~~~~~~~
[ 78%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/SubstitutionMCMC.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/SubstitutionMCMC.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SubstitutionMCMC.cc
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SubstitutionModel.cc:9:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SiteRateHandler.hh:83:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::SiteRateHandler::MAX' of non-integral type [-fpermissive]
83 | static const Real MAX = 1e10; //!< rates do not change for alpha > MAX.
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceData.cc: In member function 'std::map<char, double> beep::SequenceData::getBaseFrequencies()':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceData.cc:288:31: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
288 | for (int i = 0; i < seqType.alphabetSize(); i++)
| ~~^~~~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceData.cc:303:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string<char>::size_type' {aka 'unsigned int'} [-Wsign-compare]
303 | for (int j = 0; j < seq.length(); j++) {
| ~~^~~~~~~~~~~~~~
[ 79%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/LA_Vector.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/LA_Vector.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/LA_Vector.cc
[ 80%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/LA_Matrix.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/LA_Matrix.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/LA_Matrix.cc
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceData.cc:6:
/usr/include/c++/9/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++/9/bits/vector.tcc:426:7: 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
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/LA_Matrix.cc: In constructor 'beep::LA_Matrix::LA_Matrix()':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/LA_Matrix.cc:19:5: warning: 'beep::LA_Matrix::dim' is initialized with itself [-Winit-self]
19 | LA_Matrix::LA_Matrix()
| ^~~~~~~~~
[ 80%] Building CXX object src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/LA_DiagonalMatrix.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -Dprime_phylo_EXPORTS -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi/ompi/mpi/cxx -I/usr/lib/openmpi/include/openmpi/ompi/mpi/cxx -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -fPIC -o CMakeFiles/prime-phylo.dir/LA_DiagonalMatrix.cc.o -c /<<PKGBUILDDIR>>/src/cxx/libraries/prime/LA_DiagonalMatrix.cc
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/LA_Matrix.cc: In constructor 'beep::LA_Matrix::LA_Matrix()':
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/LA_Matrix.cc:20:13: warning: '*<unknown>.beep::LA_Matrix::dim' is used uninitialized in this function [-Wuninitialized]
20 | : dim(dim),
| ^~~
In file included from /usr/include/c++/9/map:60,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceData.cc:2:
/usr/include/c++/9/bits/stl_tree.h: In member function 'std::pair<std::_Rb_tree_node_base*, std::_Rb_tree_node_base*> std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, const key_type&) [with _Key = char; _Val = std::pair<const char, double>; _KeyOfValue = std::_Select1st<std::pair<const char, double> >; _Compare = std::less<char>; _Alloc = std::allocator<std::pair<const char, double> >]':
/usr/include/c++/9/bits/stl_tree.h:2187:5: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
2187 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/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<char&&>, std::tuple<>}; _Key = char; _Val = std::pair<const char, double>; _KeyOfValue = std::_Select1st<std::pair<const char, double> >; _Compare = std::less<char>; _Alloc = std::allocator<std::pair<const char, double> >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/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 char&>, std::tuple<>}; _Key = char; _Val = std::pair<const char, double>; _KeyOfValue = std::_Select1st<std::pair<const char, double> >; _Compare = std::less<char>; _Alloc = std::allocator<std::pair<const char, double> >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceData.cc:6:
/usr/include/c++/9/bits/vector.tcc: In member function 'std::map<char, double> beep::SequenceData::getBaseFrequencies()':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:61,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/SequenceData.cc:2:
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<char, std::pair<const char, double>, std::_Select1st<std::pair<const char, double> >, std::less<char>, std::allocator<std::pair<const char, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const char, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
[ 81%] Linking CXX shared library libprime-phylo.so
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime && /usr/bin/cmake -E cmake_link_script CMakeFiles/prime-phylo.dir/link.txt --verbose=1
/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libprime-phylo.so -o libprime-phylo.so CMakeFiles/prime-phylo.dir/NHXnode.c.o CMakeFiles/prime-phylo.dir/NHXtree.c.o CMakeFiles/prime-phylo.dir/NHXannotation.c.o CMakeFiles/prime-phylo.dir/lexer.c.o CMakeFiles/prime-phylo.dir/NHXparse.c.o CMakeFiles/prime-phylo.dir/AnError.cc.o CMakeFiles/prime-phylo.dir/Beep.cc.o CMakeFiles/prime-phylo.dir/BeepOption.cc.o CMakeFiles/prime-phylo.dir/Hacks.cc.o CMakeFiles/prime-phylo.dir/ODESolver.cc.o CMakeFiles/prime-phylo.dir/PRNG.cc.o CMakeFiles/prime-phylo.dir/PrimeOptionMap.cc.o CMakeFiles/prime-phylo.dir/ProbabilityModel.cc.o CMakeFiles/prime-phylo.dir/DiscreteGamma.cc.o CMakeFiles/prime-phylo.dir/Probability.cc.o CMakeFiles/prime-phylo.dir/Tokenizer.cc.o CMakeFiles/prime-phylo.dir/TimeEstimator.cc.o CMakeFiles/prime-phylo.dir/BranchSwapping.cc.o CMakeFiles/prime-phylo.dir/DiscTree.cc.o CMakeFiles/prime-phylo.dir/EdgeDiscPtMaps.cc.o CMakeFiles/prime-phylo.dir/EdgeDiscTree.cc.o CMakeFiles/prime-phylo.dir/EpochPtMaps.cc.o CMakeFiles/prime-phylo.dir/EpochPtSet.cc.o CMakeFiles/prime-phylo.dir/EpochTree.cc.o CMakeFiles/prime-phylo.dir/InvMRCA.cc.o CMakeFiles/prime-phylo.dir/Node.cc.o CMakeFiles/prime-phylo.dir/NodeMap.cc.o CMakeFiles/prime-phylo.dir/NodeNodeMap.cc.o CMakeFiles/prime-phylo.dir/RandomTreeGenerator.cc.o CMakeFiles/prime-phylo.dir/StrStrMap.cc.o CMakeFiles/prime-phylo.dir/Tree.cc.o CMakeFiles/prime-phylo.dir/TreeAnalysis.cc.o CMakeFiles/prime-phylo.dir/TreeDiscretizer.cc.o CMakeFiles/prime-phylo.dir/TreeDiscretizers.cc.o CMakeFiles/prime-phylo.dir/TreeMCMC.cc.o CMakeFiles/prime-phylo.dir/TreeIO.cc.o CMakeFiles/prime-phylo.dir/TreeInputOutput.cc.o CMakeFiles/prime-phylo.dir/TreeIOTraits.cc.o CMakeFiles/prime-phylo.dir/TreePerturbationEvent.cc.o CMakeFiles/prime-phylo.dir/ConstRateModel.cc.o CMakeFiles/prime-phylo.dir/Density2P_common.cc.o CMakeFiles/prime-phylo.dir/Density2P_positive.cc.o CMakeFiles/prime-phylo.dir/Density2PMCMC.cc.o CMakeFiles/prime-phylo.dir/EdgeRateMCMC.cc.o CMakeFiles/prime-phylo.dir/EdgeRateMCMC_common.cc.o CMakeFiles/prime-phylo.dir/EdgeRateModel_common.cc.o CMakeFiles/prime-phylo.dir/EdgeWeightHandler.cc.o CMakeFiles/prime-phylo.dir/EdgeWeightMCMC.cc.o CMakeFiles/prime-phylo.dir/GammaDensity.cc.o CMakeFiles/prime-phylo.dir/InvGaussDensity.cc.o CMakeFiles/prime-phylo.dir/LengthRateModel.cc.o CMakeFiles/prime-phylo.dir/LogNormDensity.cc.o CMakeFiles/prime-phylo.dir/NormalDensity.cc.o CMakeFiles/prime-phylo.dir/UniformDensity.cc.o CMakeFiles/prime-phylo.dir/VarRateModel.cc.o CMakeFiles/prime-phylo.dir/SiteRateHandler.cc.o CMakeFiles/prime-phylo.dir/DummyMCMC.cc.o CMakeFiles/prime-phylo.dir/MCMCModel.cc.o CMakeFiles/prime-phylo.dir/StdMCMCModel.cc.o CMakeFiles/prime-phylo.dir/MCMCObject.cc.o CMakeFiles/prime-phylo.dir/SimpleMCMC.cc.o CMakeFiles/prime-phylo.dir/SimpleMCMCPostSample.cc.o CMakeFiles/prime-phylo.dir/SimpleML.cc.o CMakeFiles/prime-phylo.dir/mcmc/MCMCSampler.cc.o CMakeFiles/prime-phylo.dir/mcmc/GSRSampler.cc.o CMakeFiles/prime-phylo.dir/mcmc/PosteriorSampler.cc.o CMakeFiles/prime-phylo.dir/SimpleObserver.cc.o CMakeFiles/prime-phylo.dir/MpiMCMC.cc.o CMakeFiles/prime-phylo.dir/MultiGSR.cc.o CMakeFiles/prime-phylo.dir/MpiMultiGSR.cc.o CMakeFiles/prime-phylo.dir/BDTreeGenerator.cc.o CMakeFiles/prime-phylo.dir/BirthDeathMCMC.cc.o CMakeFiles/prime-phylo.dir/BirthDeathProbs.cc.o CMakeFiles/prime-phylo.dir/CongruentGuestTreeTimeMCMC.cc.o CMakeFiles/prime-phylo.dir/DiscBirthDeathProbs.cc.o CMakeFiles/prime-phylo.dir/EdgeDiscBDMCMC.cc.o CMakeFiles/prime-phylo.dir/EdgeDiscBDProbs.cc.o CMakeFiles/prime-phylo.dir/EdgeDiscGSR.cc.o CMakeFiles/prime-phylo.dir/EpochBDTMCMC.cc.o CMakeFiles/prime-phylo.dir/EpochBDTProbs.cc.o CMakeFiles/prime-phylo.dir/EpochDLTRS.cc.o CMakeFiles/prime-phylo.dir/GammaMap.cc.o CMakeFiles/prime-phylo.dir/GuestTreeModel.cc.o CMakeFiles/prime-phylo.dir/EnumerateReconciliationModel.cc.o CMakeFiles/prime-phylo.dir/fastGEM_BirthDeathMCMC.cc.o CMakeFiles/prime-phylo.dir/fastGEM_BirthDeathProbs.cc.o CMakeFiles/prime-phylo.dir/fastGEM.cc.o CMakeFiles/prime-phylo.dir/LambdaMap.cc.o CMakeFiles/prime-phylo.dir/MaxReconciledTreeModel.cc.o CMakeFiles/prime-phylo.dir/PerturbationObservable.cc.o CMakeFiles/prime-phylo.dir/ReconciledTreeModel.cc.o CMakeFiles/prime-phylo.dir/ReconciledTreeTimeModel.cc.o CMakeFiles/prime-phylo.dir/ReconciledTreeTimeMCMC.cc.o CMakeFiles/prime-phylo.dir/ReconciliationModel.cc.o CMakeFiles/prime-phylo.dir/ReconciliationSampler.cc.o CMakeFiles/prime-phylo.dir/ReconciliationTimeModel.cc.o CMakeFiles/prime-phylo.dir/ReconciliationTimeMCMC.cc.o CMakeFiles/prime-phylo.dir/ReconciliationTimeSampler.cc.o CMakeFiles/prime-phylo.dir/ReconciliationTreeGenerator.cc.o CMakeFiles/prime-phylo.dir/DLRSOrthoCalculator.cc.o CMakeFiles/prime-phylo.dir/SetOfNodes.cc.o CMakeFiles/prime-phylo.dir/TopTimeMCMC.cc.o CMakeFiles/prime-phylo.dir/HybridBranchSwapping.cc.o CMakeFiles/prime-phylo.dir/HybridTree.cc.o CMakeFiles/prime-phylo.dir/HybridTreeIO.cc.o CMakeFiles/prime-phylo.dir/HybridTreeInputOutput.cc.o CMakeFiles/prime-phylo.dir/BDHybridTreeGenerator.cc.o CMakeFiles/prime-phylo.dir/BirthDeathInHybridProbs.cc.o CMakeFiles/prime-phylo.dir/BirthDeathInHybridMCMC.cc.o CMakeFiles/prime-phylo.dir/HybridBDTreeGenerator.cc.o CMakeFiles/prime-phylo.dir/HybridGuestTreeMCMC.cc.o CMakeFiles/prime-phylo.dir/HybridGuestTreeModel.cc.o CMakeFiles/prime-phylo.dir/HybridHostTreeMCMC.cc.o CMakeFiles/prime-phylo.dir/HybridHostTreeModel.cc.o CMakeFiles/prime-phylo.dir/EnumHybridGuestTreeMCMC.cc.o CMakeFiles/prime-phylo.dir/EnumHybridGuestTreeModel.cc.o CMakeFiles/prime-phylo.dir/CacheSubstitutionModel.cc.o CMakeFiles/prime-phylo.dir/FastCacheSubstitutionModel.cc.o CMakeFiles/prime-phylo.dir/MatrixCache.cc.o CMakeFiles/prime-phylo.dir/TransitionHandler.cc.o CMakeFiles/prime-phylo.dir/MatrixTransitionHandler.cc.o CMakeFiles/prime-phylo.dir/SeqIO.cc.o CMakeFiles/prime-phylo.dir/SequenceGenerator.cc.o CMakeFiles/prime-phylo.dir/SequenceType.cc.o CMakeFiles/prime-phylo.dir/SequenceData.cc.o CMakeFiles/prime-phylo.dir/SubstitutionModel.cc.o CMakeFiles/prime-phylo.dir/SubstitutionMCMC.cc.o CMakeFiles/prime-phylo.dir/LA_Vector.cc.o CMakeFiles/prime-phylo.dir/LA_Matrix.cc.o CMakeFiles/prime-phylo.dir/LA_DiagonalMatrix.cc.o -L/usr/lib/arm-linux-gnueabihf/liblapack.so -L/usr/lib/arm-linux-gnueabihf/libblas.so -Wl,-rpath,/usr/lib/arm-linux-gnueabihf/liblapack.so:/usr/lib/arm-linux-gnueabihf/libblas.so:/usr/lib/arm-linux-gnueabihf/openmpi/lib:/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile: -llapack -lblas -lxml2 /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so -lboost_mpi -lboost_serialization ../sfile/libprime-phylo-sfile.so
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 81%] Built target prime-phylo
make -f src/cxx/applications/primeGEM/CMakeFiles/primeGEM.dir/build.make src/cxx/applications/primeGEM/CMakeFiles/primeGEM.dir/depend
make -f src/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.dir/build.make src/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.dir/depend
make -f src/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.dir/build.make src/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.dir/depend
make -f src/cxx/tools/treesize/CMakeFiles/treesize.dir/build.make src/cxx/tools/treesize/CMakeFiles/treesize.dir/depend
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>>/src/cxx/applications/primeDTLSR /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDTLSR /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.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/cxx/applications/primeDLRS /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDLRS /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 83%] Generating cmdline.c, cmdline.h
[ 83%] Generating cmdline.c, cmdline.h
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM && /usr/bin/gengetopt -i /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM/cmdline.ggo --file-name=cmdline --output-dir=/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize && /usr/bin/gengetopt -i /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize/cmdline.ggo --file-name=cmdline --output-dir=/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src/cxx/tools/treesize /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize/CMakeFiles/treesize.dir/DependInfo.cmake --color=
Scanning dependencies of target primeDTLSR
Scanning dependencies of target primeDLRS
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.dir/build.make src/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.dir/build.make src/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.dir/build
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>>/src/cxx/applications/primeGEM /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM/CMakeFiles/primeGEM.dir/DependInfo.cmake --color=
[ 83%] Building CXX object src/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.dir/idolatrous.cc.o
[ 83%] Building CXX object src/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.dir/primeDLRS.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDTLSR && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDTLSR -I/<<PKGBUILDDIR>>/src/cxx/applications/primeDTLSR -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -o CMakeFiles/primeDTLSR.dir/idolatrous.cc.o -c /<<PKGBUILDDIR>>/src/cxx/applications/primeDTLSR/idolatrous.cc
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDLRS && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDLRS -I/<<PKGBUILDDIR>>/src/cxx/applications/primeDLRS -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -o CMakeFiles/primeDLRS.dir/primeDLRS.cc.o -c /<<PKGBUILDDIR>>/src/cxx/applications/primeDLRS/primeDLRS.cc
Scanning dependencies of target treesize
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/treesize/CMakeFiles/treesize.dir/build.make src/cxx/tools/treesize/CMakeFiles/treesize.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
Scanning dependencies of target primeGEM
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/applications/primeGEM/CMakeFiles/primeGEM.dir/build.make src/cxx/applications/primeGEM/CMakeFiles/primeGEM.dir/build
[ 83%] Building CXX object src/cxx/tools/treesize/CMakeFiles/treesize.dir/treesize.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize -I/<<PKGBUILDDIR>>/src/cxx/tools/treesize -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -o CMakeFiles/treesize.dir/treesize.cc.o -c /<<PKGBUILDDIR>>/src/cxx/tools/treesize/treesize.cc
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 83%] Building CXX object src/cxx/applications/primeGEM/CMakeFiles/primeGEM.dir/troyo.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM -I/<<PKGBUILDDIR>>/src/cxx/applications/primeGEM -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -o CMakeFiles/primeGEM.dir/troyo.cc.o -c /<<PKGBUILDDIR>>/src/cxx/applications/primeGEM/troyo.cc
/<<PKGBUILDDIR>>/src/cxx/tools/treesize/treesize.cc: In function 'int main(int, char**)':
/<<PKGBUILDDIR>>/src/cxx/tools/treesize/treesize.cc:55:13: warning: enumeration value 'input_format__NULL' not handled in switch [-Wswitch]
55 | switch(args_info.input_format_arg)
| ^
/<<PKGBUILDDIR>>/src/cxx/tools/treesize/treesize.cc:90:18: warning: catching polymorphic type 'class beep::AnError' by value [-Wcatch-value=]
90 | catch (AnError e) {
| ^
[ 84%] Building C object src/cxx/tools/treesize/CMakeFiles/treesize.dir/cmdline.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize -I/<<PKGBUILDDIR>>/src/cxx/tools/treesize -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -o CMakeFiles/treesize.dir/cmdline.c.o -c /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize/cmdline.c
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize/cmdline.c: In function 'update_arg':
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize/cmdline.c:395:9: warning: variable 'stop_char' set but not used [-Wunused-but-set-variable]
395 | char *stop_char = 0;
| ^~~~~~~~~
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize/cmdline.c: In function 'cmdline_parser_internal':
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize/cmdline.c:483:7: warning: variable 'check_required' set but not used [-Wunused-but-set-variable]
483 | int check_required;
| ^~~~~~~~~~~~~~
[ 85%] Linking CXX executable treesize
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize && /usr/bin/cmake -E cmake_link_script CMakeFiles/treesize.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/treesize.dir/treesize.cc.o CMakeFiles/treesize.dir/cmdline.c.o -o treesize -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime:/usr/lib/arm-linux-gnueabihf/openmpi/lib:/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile: ../../libraries/prime/libprime-phylo.so -llapack -lblas -lxml2 /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so -lboost_mpi -lboost_serialization ../../libraries/sfile/libprime-phylo-sfile.so
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 85%] Built target treesize
make -f src/cxx/tools/showtree/CMakeFiles/showtree.dir/build.make src/cxx/tools/showtree/CMakeFiles/showtree.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 85%] Generating cmdline.c, cmdline.h
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree && /usr/bin/gengetopt -i /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree/cmdline.ggo --file-name=cmdline --output-dir=/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src/cxx/tools/showtree /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree/CMakeFiles/showtree.dir/DependInfo.cmake --color=
Scanning dependencies of target showtree
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/showtree/CMakeFiles/showtree.dir/build.make src/cxx/tools/showtree/CMakeFiles/showtree.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 86%] Building CXX object src/cxx/tools/showtree/CMakeFiles/showtree.dir/showtree.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree -I/<<PKGBUILDDIR>>/src/cxx/tools/showtree -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -o CMakeFiles/showtree.dir/showtree.cc.o -c /<<PKGBUILDDIR>>/src/cxx/tools/showtree/showtree.cc
/<<PKGBUILDDIR>>/src/cxx/tools/showtree/showtree.cc: In function 'void outputSingleTree(beep::Tree&, beep::TreeIOTraits&, gengetopt_args_info&)':
/<<PKGBUILDDIR>>/src/cxx/tools/showtree/showtree.cc:30:20: warning: variable 'nw' set but not used [-Wunused-but-set-variable]
30 | bool et, nt, bl, nw;
| ^~
/<<PKGBUILDDIR>>/src/cxx/tools/showtree/showtree.cc: In function 'int main(int, char**)':
/<<PKGBUILDDIR>>/src/cxx/tools/showtree/showtree.cc:174:37: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<beep::Tree>::size_type' {aka 'unsigned int'} [-Wsign-compare]
174 | if(args_info.tree_number_arg >= Tvec.size())
| ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/tools/showtree/showtree.cc:198:18: warning: catching polymorphic type 'class beep::AnError' by value [-Wcatch-value=]
198 | catch (AnError e)
| ^
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochPtMaps.hh:9,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochDLTRS.hh:11,
from /<<PKGBUILDDIR>>/src/cxx/applications/primeDTLSR/idolatrous.cc:11:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochTree.hh:54:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochTree::MIN_SPLICE_DELTA' of non-integral type [-fpermissive]
54 | static const Real MIN_SPLICE_DELTA = 0.0001;
| ^~~~~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTMCMC.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/applications/primeDTLSR/idolatrous.cc:13:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:359:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C2' of non-integral type [-fpermissive]
359 | static const Real C2 = 1.0 / 5.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:360:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C3' of non-integral type [-fpermissive]
360 | static const Real C3 = 3.0 / 10.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:361:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C4' of non-integral type [-fpermissive]
361 | static const Real C4 = 4.0 / 5.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:362:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::C5' of non-integral type [-fpermissive]
362 | static const Real C5 = 8.0 / 9.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:363:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A21' of non-integral type [-fpermissive]
363 | static const Real A21 = 1.0 / 5.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:364:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A31' of non-integral type [-fpermissive]
364 | static const Real A31 = 3.0 / 40.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:365:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A32' of non-integral type [-fpermissive]
365 | static const Real A32 = 9.0 / 40.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:366:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A41' of non-integral type [-fpermissive]
366 | static const Real A41 = 44.0 / 45.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:367:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A42' of non-integral type [-fpermissive]
367 | static const Real A42 = -56.0 / 15.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:368:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A43' of non-integral type [-fpermissive]
368 | static const Real A43 = 32.0 / 9.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:369:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A51' of non-integral type [-fpermissive]
369 | static const Real A51 = 19372.0 / 6561.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:370:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A52' of non-integral type [-fpermissive]
370 | static const Real A52 = -25360.0 / 2187.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:371:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A53' of non-integral type [-fpermissive]
371 | static const Real A53 = 64448.0 / 6561.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:372:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A54' of non-integral type [-fpermissive]
372 | static const Real A54 = -212.0 / 729.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:373:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A61' of non-integral type [-fpermissive]
373 | static const Real A61 = 9017.0 / 3168.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:374:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A62' of non-integral type [-fpermissive]
374 | static const Real A62 = -355.0 / 33.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:375:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A63' of non-integral type [-fpermissive]
375 | static const Real A63 = 46732.0 / 5247.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:376:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A64' of non-integral type [-fpermissive]
376 | static const Real A64 = 49.0 / 176.0;
| ^~~
In file included from /<<PKGBUILDDIR>>/src/cxx/applications/primeDLRS/primeDLRS.cc:13:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/InvGaussDensity.hh:89:25: warning: 'constexpr' needed for in-class initialization of static data member 'const double beep::InvGaussDensity::pi' of non-integral type [-fpermissive]
89 | static const double pi = 3.14159265358979; //!< math.constant \f$\pi\f$
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:377:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A65' of non-integral type [-fpermissive]
377 | static const Real A65 = -5103.0 / 18656.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:378:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A71' of non-integral type [-fpermissive]
378 | static const Real A71 = 35.0 / 384.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:379:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A73' of non-integral type [-fpermissive]
379 | static const Real A73 = 500.0 / 1113.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:380:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A74' of non-integral type [-fpermissive]
380 | static const Real A74 = 125.0 / 192.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:381:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A75' of non-integral type [-fpermissive]
381 | static const Real A75 = -2187.0 / 6784.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:382:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::A76' of non-integral type [-fpermissive]
382 | static const Real A76 = 11.0 / 84.0;
| ^~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:383:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E1' of non-integral type [-fpermissive]
383 | static const Real E1 = 71.0 / 57600.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:384:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E3' of non-integral type [-fpermissive]
384 | static const Real E3 = -71.0 / 16695.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:385:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E4' of non-integral type [-fpermissive]
385 | static const Real E4 = 71.0 / 1920.0;
| ^~
In file included from /<<PKGBUILDDIR>>/src/cxx/applications/primeDLRS/primeDLRS.cc:14:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/LogNormDensity.hh:81:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::LogNormDensity::pi' of non-integral type [-fpermissive]
81 | static const Real pi = 3.14159265358979; //! math. constant \f$ \pi \f$.
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:386:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E5' of non-integral type [-fpermissive]
386 | static const Real E5 = -17253.0 / 339200.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:387:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E6' of non-integral type [-fpermissive]
387 | static const Real E6 = 22.0 / 525.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:388:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::E7' of non-integral type [-fpermissive]
388 | static const Real E7 = -1.0 / 40.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:391:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D1' of non-integral type [-fpermissive]
391 | static const Real D1 = -12715105075.0 / 11282082432.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:392:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D3' of non-integral type [-fpermissive]
392 | static const Real D3 = 87487479700.0 / 32700410799.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:393:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D4' of non-integral type [-fpermissive]
393 | static const Real D4 = -10690763975.0 / 1880347072.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:394:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D5' of non-integral type [-fpermissive]
394 | static const Real D5 = 701980252875.0 / 199316789632.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:395:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D6' of non-integral type [-fpermissive]
395 | static const Real D6 = -1453857185.0 / 822651844.0;
| ^~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/ODESolver.hh:396:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::ODESolver::D7' of non-integral type [-fpermissive]
396 | static const Real D7 = 69997945.0 / 29380423.0;
| ^~
In file included from /<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTMCMC.hh:7,
from /<<PKGBUILDDIR>>/src/cxx/applications/primeDTLSR/idolatrous.cc:13:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:50:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochBDTProbs::REL_TOL' of non-integral type [-fpermissive]
50 | static const Real REL_TOL = 1e-6;
| ^~~~~~~
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/EpochBDTProbs.hh:55:20: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::EpochBDTProbs::ABS_TOL' of non-integral type [-fpermissive]
55 | static const Real ABS_TOL = 1e-6;
| ^~~~~~~
In file included from /<<PKGBUILDDIR>>/src/cxx/applications/primeDTLSR/idolatrous.cc:16:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/InvGaussDensity.hh:89:25: warning: 'constexpr' needed for in-class initialization of static data member 'const double beep::InvGaussDensity::pi' of non-integral type [-fpermissive]
89 | static const double pi = 3.14159265358979; //!< math.constant \f$\pi\f$
| ^~
In file included from /<<PKGBUILDDIR>>/src/cxx/applications/primeDTLSR/idolatrous.cc:17:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/LogNormDensity.hh:81:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::LogNormDensity::pi' of non-integral type [-fpermissive]
81 | static const Real pi = 3.14159265358979; //! math. constant \f$ \pi \f$.
| ^~
In file included from /<<PKGBUILDDIR>>/src/cxx/applications/primeDLRS/primeDLRS.cc:22:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SiteRateHandler.hh:83:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::SiteRateHandler::MAX' of non-integral type [-fpermissive]
83 | static const Real MAX = 1e10; //!< rates do not change for alpha > MAX.
| ^~~
In file included from /<<PKGBUILDDIR>>/src/cxx/applications/primeDTLSR/idolatrous.cc:23:
/<<PKGBUILDDIR>>/src/cxx/libraries/prime/SiteRateHandler.hh:83:23: warning: 'constexpr' needed for in-class initialization of static data member 'const Real beep::SiteRateHandler::MAX' of non-integral type [-fpermissive]
83 | static const Real MAX = 1e10; //!< rates do not change for alpha > MAX.
| ^~~
/<<PKGBUILDDIR>>/src/cxx/applications/primeGEM/troyo.cc: In function 'int main(int, char**)':
/<<PKGBUILDDIR>>/src/cxx/applications/primeGEM/troyo.cc:197:18: warning: catching polymorphic type 'class beep::AnError' by value [-Wcatch-value=]
197 | catch(AnError e)
| ^
[ 86%] Building C object src/cxx/tools/showtree/CMakeFiles/showtree.dir/cmdline.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree -I/<<PKGBUILDDIR>>/src/cxx/tools/showtree -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -o CMakeFiles/showtree.dir/cmdline.c.o -c /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree/cmdline.c
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree/cmdline.c: In function 'cmdline_parser_internal':
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree/cmdline.c:554:7: warning: variable 'check_required' set but not used [-Wunused-but-set-variable]
554 | int check_required;
| ^~~~~~~~~~~~~~
[ 87%] Linking CXX executable showtree
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree && /usr/bin/cmake -E cmake_link_script CMakeFiles/showtree.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/showtree.dir/showtree.cc.o CMakeFiles/showtree.dir/cmdline.c.o -o showtree -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime:/usr/lib/arm-linux-gnueabihf/openmpi/lib:/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile: ../../libraries/prime/libprime-phylo.so -llapack -lblas -lxml2 /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so -lboost_mpi -lboost_serialization ../../libraries/sfile/libprime-phylo-sfile.so
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 87%] Built target showtree
[ 88%] Building C object src/cxx/applications/primeGEM/CMakeFiles/primeGEM.dir/cmdline.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM -I/<<PKGBUILDDIR>>/src/cxx/applications/primeGEM -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -o CMakeFiles/primeGEM.dir/cmdline.c.o -c /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM/cmdline.c
make -f src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/build.make src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 89%] Generating cmdline.c, cmdline.h
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile && /usr/bin/gengetopt -i /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile/cmdline.ggo --file-name=cmdline --output-dir=/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src/cxx/tools/reconcile /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/DependInfo.cmake --color=
Scanning dependencies of target reconcile
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/build.make src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 90%] Building CXX object src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/Rootalyzer.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile -I/<<PKGBUILDDIR>>/src/cxx/tools/reconcile -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -o CMakeFiles/reconcile.dir/Rootalyzer.cc.o -c /<<PKGBUILDDIR>>/src/cxx/tools/reconcile/Rootalyzer.cc
[ 90%] Linking CXX executable primeGEM
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM && /usr/bin/cmake -E cmake_link_script CMakeFiles/primeGEM.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/primeGEM.dir/troyo.cc.o CMakeFiles/primeGEM.dir/cmdline.c.o -o primeGEM -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime:/usr/lib/arm-linux-gnueabihf/openmpi/lib:/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile: ../../libraries/prime/libprime-phylo.so -llapack -lblas -lxml2 /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so -lboost_mpi -lboost_serialization ../../libraries/sfile/libprime-phylo-sfile.so
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 90%] Built target primeGEM
make -f src/cxx/tools/reroot/CMakeFiles/reroot.dir/build.make src/cxx/tools/reroot/CMakeFiles/reroot.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 91%] Generating cmdline.c, cmdline.h
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot && /usr/bin/gengetopt -i /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot/cmdline.ggo --file-name=cmdline --output-dir=/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src/cxx/tools/reroot /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot/CMakeFiles/reroot.dir/DependInfo.cmake --color=
Scanning dependencies of target reroot
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/reroot/CMakeFiles/reroot.dir/build.make src/cxx/tools/reroot/CMakeFiles/reroot.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 91%] Building CXX object src/cxx/tools/reroot/CMakeFiles/reroot.dir/reroot.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot -I/<<PKGBUILDDIR>>/src/cxx/tools/reroot -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -o CMakeFiles/reroot.dir/reroot.cc.o -c /<<PKGBUILDDIR>>/src/cxx/tools/reroot/reroot.cc
[ 91%] Building CXX object src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/reconcile.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile -I/<<PKGBUILDDIR>>/src/cxx/tools/reconcile -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -o CMakeFiles/reconcile.dir/reconcile.cc.o -c /<<PKGBUILDDIR>>/src/cxx/tools/reconcile/reconcile.cc
[ 92%] Linking CXX executable primeDLRS
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDLRS && /usr/bin/cmake -E cmake_link_script CMakeFiles/primeDLRS.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/primeDLRS.dir/primeDLRS.cc.o -o primeDLRS -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime:/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile:/usr/lib/arm-linux-gnueabihf/openmpi/lib: ../../libraries/prime/libprime-phylo.so ../../libraries/sfile/libprime-phylo-sfile.so -llapack -lblas -lxml2 /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so -lboost_mpi -lboost_serialization
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 92%] Built target primeDLRS
[ 93%] Building C object src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/cmdline.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile -I/<<PKGBUILDDIR>>/src/cxx/tools/reconcile -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -o CMakeFiles/reconcile.dir/cmdline.c.o -c /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile/cmdline.c
[ 94%] Linking CXX executable primeDTLSR
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDTLSR && /usr/bin/cmake -E cmake_link_script CMakeFiles/primeDTLSR.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/primeDTLSR.dir/idolatrous.cc.o -o primeDTLSR -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime:/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile:/usr/lib/arm-linux-gnueabihf/openmpi/lib: ../../libraries/prime/libprime-phylo.so ../../libraries/sfile/libprime-phylo-sfile.so -llapack -lblas -lxml2 /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so -lboost_mpi -lboost_serialization
/<<PKGBUILDDIR>>/src/cxx/tools/reroot/reroot.cc: In function 'int main(int, char**)':
/<<PKGBUILDDIR>>/src/cxx/tools/reroot/reroot.cc:76:13: warning: enumeration value 'input_format__NULL' not handled in switch [-Wswitch]
76 | switch(args_info.input_format_arg)
| ^
/<<PKGBUILDDIR>>/src/cxx/tools/reroot/reroot.cc:181:18: warning: catching polymorphic type 'class beep::AnError' by value [-Wcatch-value=]
181 | catch (AnError e) {
| ^
make -f src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/build.make src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 94%] Generating cmdline.c, cmdline.h
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames && /usr/bin/gengetopt -i /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames/cmdline.ggo --file-name=cmdline --output-dir=/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames
[ 94%] Built target primeDTLSR
make -f src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/build.make src/cxx/tools/chainsaw/CMakeFiles/chainsaw.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/cxx/tools/tree2leafnames /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/DependInfo.cmake --color=
[ 94%] Generating cmdline.c, cmdline.h
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw && /usr/bin/gengetopt -i /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw/cmdline.ggo --file-name=cmdline --output-dir=/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw
Scanning dependencies of target tree2leafnames
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/build.make src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/build
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src/cxx/tools/chainsaw /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 95%] Building CXX object src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/tree2leafnames.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames -I/<<PKGBUILDDIR>>/src/cxx/tools/tree2leafnames -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -o CMakeFiles/tree2leafnames.dir/tree2leafnames.cc.o -c /<<PKGBUILDDIR>>/src/cxx/tools/tree2leafnames/tree2leafnames.cc
Scanning dependencies of target chainsaw
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/build.make src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 96%] Building CXX object src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/chainsaw.cc.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw && /usr/bin/c++ -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw -I/<<PKGBUILDDIR>>/src/cxx/tools/chainsaw -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -o CMakeFiles/chainsaw.dir/chainsaw.cc.o -c /<<PKGBUILDDIR>>/src/cxx/tools/chainsaw/chainsaw.cc
/<<PKGBUILDDIR>>/src/cxx/tools/tree2leafnames/tree2leafnames.cc: In function 'int main(int, char**)':
/<<PKGBUILDDIR>>/src/cxx/tools/tree2leafnames/tree2leafnames.cc:51:11: warning: enumeration value 'input_format__NULL' not handled in switch [-Wswitch]
51 | switch(args_info.input_format_arg)
| ^
/<<PKGBUILDDIR>>/src/cxx/tools/tree2leafnames/tree2leafnames.cc:95:18: warning: catching polymorphic type 'class beep::AnError' by value [-Wcatch-value=]
95 | catch (AnError e) {
| ^
[ 97%] Building C object src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/cmdline.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames -I/<<PKGBUILDDIR>>/src/cxx/tools/tree2leafnames -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -o CMakeFiles/tree2leafnames.dir/cmdline.c.o -c /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames/cmdline.c
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames/cmdline.c: In function 'update_arg':
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames/cmdline.c:388:9: warning: variable 'stop_char' set but not used [-Wunused-but-set-variable]
388 | char *stop_char = 0;
| ^~~~~~~~~
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames/cmdline.c: In function 'cmdline_parser_internal':
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames/cmdline.c:472:7: warning: variable 'check_required' set but not used [-Wunused-but-set-variable]
472 | int check_required;
| ^~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/tools/reconcile/reconcile.cc: In function 'int main(int, char**)':
/<<PKGBUILDDIR>>/src/cxx/tools/reconcile/reconcile.cc:37:21: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
37 | char *ofilename = "mpr.out";
| ^~~~~~~~~
/<<PKGBUILDDIR>>/src/cxx/tools/reconcile/reconcile.cc:128:18: warning: catching polymorphic type 'class beep::AnError' by value [-Wcatch-value=]
128 | catch (AnError e) {
| ^
/<<PKGBUILDDIR>>/src/cxx/tools/reconcile/reconcile.cc: In function 'void populateGsMap(beep::Tree, beep::StrStrMap&)':
/<<PKGBUILDDIR>>/src/cxx/tools/reconcile/reconcile.cc:157:23: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
157 | for (int i = 0; i < gtree.getNumberOfNodes(); i++) {
| ~~^~~~~~~~~~~~~~~~~~~~~~~~~~
[ 97%] Linking CXX executable tree2leafnames
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames && /usr/bin/cmake -E cmake_link_script CMakeFiles/tree2leafnames.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/tree2leafnames.dir/tree2leafnames.cc.o CMakeFiles/tree2leafnames.dir/cmdline.c.o -o tree2leafnames -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime:/usr/lib/arm-linux-gnueabihf/openmpi/lib:/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile: ../../libraries/prime/libprime-phylo.so -llapack -lblas -lxml2 /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so -lboost_mpi -lboost_serialization ../../libraries/sfile/libprime-phylo-sfile.so
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 97%] Built target tree2leafnames
[ 98%] Building C object src/cxx/tools/reroot/CMakeFiles/reroot.dir/cmdline.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot -I/<<PKGBUILDDIR>>/src/cxx/tools/reroot -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -o CMakeFiles/reroot.dir/cmdline.c.o -c /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot/cmdline.c
[ 98%] Building C object src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/cmdline.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw && /usr/bin/cc -DONLY_ONE_TIMESAMPLE -DPERTURBED_NODE -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw -I/<<PKGBUILDDIR>>/src/cxx/tools/chainsaw -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/usr/lib/arm-linux-gnueabihf/openmpi/include/ompi/mpi/cxx -I/usr/include/libxml2 -I/<<PKGBUILDDIR>>/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime -I/<<PKGBUILDDIR>>/src/cxx/libraries -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -fexceptions -g -o CMakeFiles/chainsaw.dir/cmdline.c.o -c /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw/cmdline.c
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw/cmdline.c: In function 'cmdline_parser_internal':
/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw/cmdline.c:539:7: warning: variable 'check_required' set but not used [-Wunused-but-set-variable]
539 | int check_required;
| ^~~~~~~~~~~~~~
[ 99%] Linking CXX executable reroot
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot && /usr/bin/cmake -E cmake_link_script CMakeFiles/reroot.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/reroot.dir/reroot.cc.o CMakeFiles/reroot.dir/cmdline.c.o -o reroot -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime:/usr/lib/arm-linux-gnueabihf/openmpi/lib:/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile: ../../libraries/prime/libprime-phylo.so -llapack -lblas -lxml2 /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so -lboost_mpi -lboost_serialization ../../libraries/sfile/libprime-phylo-sfile.so
[ 99%] Linking CXX executable reconcile
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile && /usr/bin/cmake -E cmake_link_script CMakeFiles/reconcile.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/reconcile.dir/Rootalyzer.cc.o CMakeFiles/reconcile.dir/reconcile.cc.o CMakeFiles/reconcile.dir/cmdline.c.o -o reconcile -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime:/usr/lib/arm-linux-gnueabihf/openmpi/lib:/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile: ../../libraries/prime/libprime-phylo.so -llapack -lblas -lxml2 /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so -lboost_mpi -lboost_serialization ../../libraries/sfile/libprime-phylo-sfile.so
/<<PKGBUILDDIR>>/src/cxx/tools/chainsaw/chainsaw.cc: In function 'beep::Tree ReadGuestTree(gengetopt_args_info&, std::vector<beep::SetOfNodes>*, beep::StrStrMap*)':
/<<PKGBUILDDIR>>/src/cxx/tools/chainsaw/chainsaw.cc:90:9: warning: enumeration value 'guest_tree_format__NULL' not handled in switch [-Wswitch]
90 | switch(ai.guest_tree_format_arg)
| ^
/<<PKGBUILDDIR>>/src/cxx/tools/chainsaw/chainsaw.cc: In function 'beep::Tree ReadHostTree(gengetopt_args_info&)':
/<<PKGBUILDDIR>>/src/cxx/tools/chainsaw/chainsaw.cc:114:9: warning: enumeration value 'host_tree_format__NULL' not handled in switch [-Wswitch]
114 | switch(ai.host_tree_format_arg)
| ^
/<<PKGBUILDDIR>>/src/cxx/tools/chainsaw/chainsaw.cc: In function 'int main(int, char**)':
/<<PKGBUILDDIR>>/src/cxx/tools/chainsaw/chainsaw.cc:163:17: warning: catching polymorphic type 'class beep::AnError' by value [-Wcatch-value=]
163 | catch (AnError e) {
| ^
/<<PKGBUILDDIR>>/src/cxx/tools/chainsaw/chainsaw.cc:188:18: warning: catching polymorphic type 'class beep::AnError' by value [-Wcatch-value=]
188 | catch (AnError e) {
| ^
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 99%] Built target reroot
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 99%] Built target reconcile
[100%] Linking CXX executable chainsaw
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw && /usr/bin/cmake -E cmake_link_script CMakeFiles/chainsaw.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -Wdate-time -D_FORTIFY_SOURCE=2 -Wreorder -Wall -fexceptions -g -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/chainsaw.dir/chainsaw.cc.o CMakeFiles/chainsaw.dir/cmdline.c.o -o chainsaw -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime:/usr/lib/arm-linux-gnueabihf/openmpi/lib:/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile: ../../libraries/prime/libprime-phylo.so -llapack -lblas -lxml2 /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so -lboost_mpi -lboost_serialization ../../libraries/sfile/libprime-phylo-sfile.so
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[100%] Built target chainsaw
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 -O--buildsystem=cmake
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch --buildsystem=cmake
dh_testroot -a -O--buildsystem=cmake
dh_prep -a -O--buildsystem=cmake
dh_auto_install -a -O--buildsystem=cmake
cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/<<PKGBUILDDIR>>/debian/prime-phylo 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/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/build.make src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.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/cxx/libraries/sfile /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/build.make src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'src/cxx/libraries/sfile/CMakeFiles/prime-phylo-sfile.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 4%] Built target prime-phylo-sfile
make -f src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/build.make src/cxx/libraries/prime/CMakeFiles/prime-phylo.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/cxx/libraries/prime /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/build.make src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'src/cxx/libraries/prime/CMakeFiles/prime-phylo.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 81%] Built target prime-phylo
make -f src/cxx/applications/primeGEM/CMakeFiles/primeGEM.dir/build.make src/cxx/applications/primeGEM/CMakeFiles/primeGEM.dir/depend
make -f src/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.dir/build.make src/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.dir/depend
make -f src/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.dir/build.make src/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.dir/depend
make -f src/cxx/tools/treesize/CMakeFiles/treesize.dir/build.make src/cxx/tools/treesize/CMakeFiles/treesize.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/cxx/applications/primeGEM /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeGEM/CMakeFiles/primeGEM.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/cxx/applications/primeDTLSR /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDTLSR /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.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/cxx/applications/primeDLRS /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDLRS /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.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/cxx/tools/treesize /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/treesize/CMakeFiles/treesize.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/treesize/CMakeFiles/treesize.dir/build.make src/cxx/tools/treesize/CMakeFiles/treesize.dir/build
make -f src/cxx/applications/primeGEM/CMakeFiles/primeGEM.dir/build.make src/cxx/applications/primeGEM/CMakeFiles/primeGEM.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.dir/build.make src/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.dir/build
make -f src/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.dir/build.make src/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'src/cxx/tools/treesize/CMakeFiles/treesize.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/cxx/applications/primeGEM/CMakeFiles/primeGEM.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/cxx/applications/primeDLRS/CMakeFiles/primeDLRS.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/cxx/applications/primeDTLSR/CMakeFiles/primeDTLSR.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 85%] Built target primeGEM
[ 86%] Built target treesize
make -f src/cxx/tools/showtree/CMakeFiles/showtree.dir/build.make src/cxx/tools/showtree/CMakeFiles/showtree.dir/depend
[ 87%] Built target primeDLRS
make -f src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/build.make src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/depend
make -f src/cxx/tools/reroot/CMakeFiles/reroot.dir/build.make src/cxx/tools/reroot/CMakeFiles/reroot.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/cxx/tools/showtree /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/showtree/CMakeFiles/showtree.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/cxx/tools/reconcile /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/DependInfo.cmake --color=
[ 88%] Built target primeDTLSR
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/cxx/tools/reroot /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/reroot/CMakeFiles/reroot.dir/DependInfo.cmake --color=
make -f src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/build.make src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.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/cxx/tools/tree2leafnames /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/showtree/CMakeFiles/showtree.dir/build.make src/cxx/tools/showtree/CMakeFiles/showtree.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/build.make src/cxx/tools/reconcile/CMakeFiles/reconcile.dir/build
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/reroot/CMakeFiles/reroot.dir/build.make src/cxx/tools/reroot/CMakeFiles/reroot.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'src/cxx/tools/showtree/CMakeFiles/showtree.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/cxx/tools/reconcile/CMakeFiles/reconcile.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/cxx/tools/reroot/CMakeFiles/reroot.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/build.make src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'src/cxx/tools/tree2leafnames/CMakeFiles/tree2leafnames.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 90%] Built target showtree
make -f src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/build.make src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/depend
[ 93%] Built target reconcile
[ 96%] Built target reroot
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/cxx/tools/chainsaw /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/DependInfo.cmake --color=
[ 98%] Built target tree2leafnames
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/build.make src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'src/cxx/tools/chainsaw/CMakeFiles/chainsaw.dir/build'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[100%] Built target chainsaw
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: "Debug"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/share/man/man1/chainsaw.1
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/share/man/man1/mcmc_analysis.1
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/share/man/man1/primeDLRS.1
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/share/man/man1/primeDTLSR.1
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/share/man/man1/primeGEM.1
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/share/man/man1/reconcile.1
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/share/man/man1/reroot.1
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/share/man/man1/showtree.1
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/share/man/man1/tree2leafnames.1
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/share/man/man1/treesize.1
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/lib/prime-phylo/libprime-phylo.so
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/prime-phylo/usr/lib/prime-phylo/libprime-phylo.so" to "/usr/lib/prime-phylo"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/lib/prime-phylo/libprime-phylo-sfile.so
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/prime-phylo/usr/lib/prime-phylo/libprime-phylo-sfile.so" to "/usr/lib/prime-phylo"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/primeGEM
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/primeGEM" to "/usr/lib/prime-phylo"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/primeDTLSR
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/primeDTLSR" to "/usr/lib/prime-phylo"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/primeDLRS
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/primeDLRS" to "/usr/lib/prime-phylo"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/treesize
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/treesize" to "/usr/lib/prime-phylo"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/showtree
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/showtree" to "/usr/lib/prime-phylo"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/reconcile
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/reconcile" to "/usr/lib/prime-phylo"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/reroot
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/reroot" to "/usr/lib/prime-phylo"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/tree2leafnames
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/tree2leafnames" to "/usr/lib/prime-phylo"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/chainsaw
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/chainsaw" to "/usr/lib/prime-phylo"
-- Installing: /<<PKGBUILDDIR>>/debian/prime-phylo/usr/bin/mcmc_analysis
make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
dh_installdocs -a -O--buildsystem=cmake
dh_installchangelogs -a -O--buildsystem=cmake
dh_installman -a -O--buildsystem=cmake
dh_installinit -a -O--buildsystem=cmake
dh_installsystemduser -a -O--buildsystem=cmake
dh_perl -a -O--buildsystem=cmake
dh_link -a -O--buildsystem=cmake
dh_strip_nondeterminism -a -O--buildsystem=cmake
dh_compress -a -O--buildsystem=cmake
dh_fixperms -a -O--buildsystem=cmake
dh_missing -a -O--buildsystem=cmake
dh_dwz -a -O--buildsystem=cmake
dh_strip -a -O--buildsystem=cmake
debian/rules override_dh_makeshlibs
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_makeshlibs -pprime-phylo -Xprime-phylo.so -Xprime-phylo-sfile.so
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_shlibdeps -a -O--buildsystem=cmake
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: debian/prime-phylo/usr/bin/reroot contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: debian/prime-phylo/usr/bin/primeDTLSR contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: debian/prime-phylo/usr/bin/reconcile contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: debian/prime-phylo/usr/bin/primeDLRS contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: debian/prime-phylo/usr/bin/primeGEM contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo-sfile.so'
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo-sfile.so'
dpkg-shlibdeps: warning: debian/prime-phylo/usr/lib/prime-phylo/libprime-phylo.so contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: debian/prime-phylo/usr/bin/chainsaw contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: debian/prime-phylo/usr/bin/tree2leafnames contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: debian/prime-phylo/usr/bin/showtree contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: can't extract name and version from library name 'libprime-phylo.so'
dpkg-shlibdeps: warning: debian/prime-phylo/usr/bin/treesize contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dh_installdeb -a -O--buildsystem=cmake
dh_gencontrol -a -O--buildsystem=cmake
dh_md5sums -a -O--buildsystem=cmake
dh_builddeb -a -O--buildsystem=cmake
dpkg-deb: building package 'prime-phylo-dbgsym' in '../prime-phylo-dbgsym_1.0.11-8_armhf.deb'.
dpkg-deb: building package 'prime-phylo' in '../prime-phylo_1.0.11-8_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../prime-phylo_1.0.11-8_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 2019-12-17T06:43:40Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
prime-phylo_1.0.11-8_armhf.changes:
-----------------------------------
Format: 1.8
Date: Wed, 11 Dec 2019 14:49:07 +0100
Source: prime-phylo
Binary: prime-phylo prime-phylo-dbgsym
Architecture: armhf
Version: 1.0.11-8
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
prime-phylo - bayesian estimation of gene trees taking the species tree into ac
Changes:
prime-phylo (1.0.11-8) unstable; urgency=medium
.
* Suggests: s/python-biopython/python3-biopython/
* debhelper-compat 12
* Standards-Version: 4.4.1
* Trim trailing whitespace.
* Remove obsolete field Contact from debian/upstream/metadata.
Checksums-Sha1:
0e51c62bcef11193a5b5b5b608b6792e5ec128c0 8899748 prime-phylo-dbgsym_1.0.11-8_armhf.deb
2923c7fc8bb4b8fb5e902736ba50c568b76d8d08 7316 prime-phylo_1.0.11-8_armhf.buildinfo
0f59b2f0f1d96a816b6c9cd809b366982e7ad1b1 668468 prime-phylo_1.0.11-8_armhf.deb
Checksums-Sha256:
d84cc17aa5e986120c96c8f9af52c2ba28d41e65caf6d6b3bfa9400edf68b15d 8899748 prime-phylo-dbgsym_1.0.11-8_armhf.deb
c95c819dc06f67ec4d5e0e473036445532bbe2aafab79b41568582d514594754 7316 prime-phylo_1.0.11-8_armhf.buildinfo
654264d287950a07471cccd9091836a411914c99ec8a83eb25c9028310a24a77 668468 prime-phylo_1.0.11-8_armhf.deb
Files:
c043288ed45abe7a7d3287469ec77c63 8899748 debug optional prime-phylo-dbgsym_1.0.11-8_armhf.deb
35c78d7f92e049db8fc69f1397d80cc3 7316 science optional prime-phylo_1.0.11-8_armhf.buildinfo
adb60526d9bd51b46bdd468d04692b82 668468 science optional prime-phylo_1.0.11-8_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
prime-phylo-dbgsym_1.0.11-8_armhf.deb
-------------------------------------
new Debian package, version 2.0.
size 8899748 bytes: control archive=1092 bytes.
799 bytes, 12 lines control
1257 bytes, 12 lines md5sums
Package: prime-phylo-dbgsym
Source: prime-phylo
Version: 1.0.11-8
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 9343
Depends: prime-phylo (= 1.0.11-8)
Section: debug
Priority: optional
Description: debug symbols for prime-phylo
Build-Ids: 456bf2c3e0c5e3980de3c8fffd6b8d55ccdb48ba 853bd3e33ee98e98911e77c93e04d54771d9f827 8e0f08e34d83d150c25b5759ea082384c8b2a1dd a3f85d099767838470836988d244416ae9450540 af62c76cbaf2f98bd32c8192c4c28a82811a3bdc b1dd4b397fc7d01b57ab750f25485546dd651e18 b38a3bf2b1ef9780f772a5ea336bceeabd3d558a caf6c055cfb6a8a0cdfac43cc84222229362954c cb47739fde682a9b6c9aa636b4402370057a931f e4b6a45bfa554b7cf7898f2027b39556e1b5e0dd e63cf4a4d4e6ef429bf5eae57609d8ee56601b2d
drwxr-xr-x root/root 0 2019-12-11 13:49 ./
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/45/
-rw-r--r-- root/root 141316 2019-12-11 13:49 ./usr/lib/debug/.build-id/45/6bf2c3e0c5e3980de3c8fffd6b8d55ccdb48ba.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/85/
-rw-r--r-- root/root 69084 2019-12-11 13:49 ./usr/lib/debug/.build-id/85/3bd3e33ee98e98911e77c93e04d54771d9f827.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/8e/
-rw-r--r-- root/root 8355840 2019-12-11 13:49 ./usr/lib/debug/.build-id/8e/0f08e34d83d150c25b5759ea082384c8b2a1dd.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/a3/
-rw-r--r-- root/root 31384 2019-12-11 13:49 ./usr/lib/debug/.build-id/a3/f85d099767838470836988d244416ae9450540.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/af/
-rw-r--r-- root/root 101392 2019-12-11 13:49 ./usr/lib/debug/.build-id/af/62c76cbaf2f98bd32c8192c4c28a82811a3bdc.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/b1/
-rw-r--r-- root/root 57724 2019-12-11 13:49 ./usr/lib/debug/.build-id/b1/dd4b397fc7d01b57ab750f25485546dd651e18.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/b3/
-rw-r--r-- root/root 44536 2019-12-11 13:49 ./usr/lib/debug/.build-id/b3/8a3bf2b1ef9780f772a5ea336bceeabd3d558a.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/ca/
-rw-r--r-- root/root 36600 2019-12-11 13:49 ./usr/lib/debug/.build-id/ca/f6c055cfb6a8a0cdfac43cc84222229362954c.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/cb/
-rw-r--r-- root/root 272004 2019-12-11 13:49 ./usr/lib/debug/.build-id/cb/47739fde682a9b6c9aa636b4402370057a931f.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/e4/
-rw-r--r-- root/root 38048 2019-12-11 13:49 ./usr/lib/debug/.build-id/e4/b6a45bfa554b7cf7898f2027b39556e1b5e0dd.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.build-id/e6/
-rw-r--r-- root/root 247340 2019-12-11 13:49 ./usr/lib/debug/.build-id/e6/3cf4a4d4e6ef429bf5eae57609d8ee56601b2d.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root 142512 2019-12-11 13:49 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/prime-phylo.debug
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/share/
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/share/doc/
lrwxrwxrwx root/root 0 2019-12-11 13:49 ./usr/share/doc/prime-phylo-dbgsym -> prime-phylo
prime-phylo_1.0.11-8_armhf.deb
------------------------------
new Debian package, version 2.0.
size 668468 bytes: control archive=1592 bytes.
1061 bytes, 19 lines control
1579 bytes, 25 lines md5sums
Package: prime-phylo
Version: 1.0.11-8
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2397
Depends: perl:any, libblas3 | libblas.so.3, libboost-mpi1.67.0, libboost-serialization1.67.0, libc6 (>= 2.29), libgcc1 (>= 1:3.5), liblapack3 | liblapack.so.3, libopenmpi3 (>= 4.0.2), libstdc++6 (>= 9), libxml2 (>= 2.7.4)
Suggests: njplot, treeviewx, muscle, probalign, mafft, python3-biopython, mrbayes, phyml, raxml
Section: science
Priority: optional
Homepage: http://prime.sbc.su.se
Description: bayesian estimation of gene trees taking the species tree into account
PrIME (Probabilistic Integrated Models of Evolution) is a package
supporting inference of evolutionary parameters in a Bayesian framework
using Markov chain Monte Carlo simulation. A distinguishing feature of
PrIME is that the species tree is taken into account when analyzing gene
trees.
.
The input data to PrIME is a multiple sequence alignment in FASTA format
and the output data contains trees in Newick format.
drwxr-xr-x root/root 0 2019-12-11 13:49 ./
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/bin/
-rwxr-xr-x root/root 26444 2019-12-11 13:49 ./usr/bin/chainsaw
-rwxr-xr-x root/root 33128 2012-12-17 15:52 ./usr/bin/mcmc_analysis
-rwxr-xr-x root/root 79508 2019-12-11 13:49 ./usr/bin/primeDLRS
-rwxr-xr-x root/root 83604 2019-12-11 13:49 ./usr/bin/primeDTLSR
-rwxr-xr-x root/root 34932 2019-12-11 13:49 ./usr/bin/primeGEM
lrwxrwxrwx root/root 0 2019-12-11 13:49 ./usr/bin/primeGSRf -> primeDLRS
-rwxr-xr-x root/root 34584 2019-12-11 13:49 ./usr/bin/reconcile
-rwxr-xr-x root/root 46968 2019-12-11 13:49 ./usr/bin/reroot
-rwxr-xr-x root/root 26580 2019-12-11 13:49 ./usr/bin/showtree
-rwxr-xr-x root/root 18176 2019-12-11 13:49 ./usr/bin/tree2leafnames
-rwxr-xr-x root/root 18196 2019-12-11 13:49 ./usr/bin/treesize
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/lib/prime-phylo/
-rw-r--r-- root/root 42540 2019-12-11 13:49 ./usr/lib/prime-phylo/libprime-phylo-sfile.so
-rw-r--r-- root/root 1967752 2019-12-11 13:49 ./usr/lib/prime-phylo/libprime-phylo.so
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/share/
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/share/doc/prime-phylo/
-rw-r--r-- root/root 932 2019-12-11 13:49 ./usr/share/doc/prime-phylo/changelog.Debian.gz
-rw-r--r-- root/root 505 2012-12-17 15:52 ./usr/share/doc/prime-phylo/changelog.gz
-rw-r--r-- root/root 7287 2019-12-11 13:49 ./usr/share/doc/prime-phylo/copyright
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/share/man/
drwxr-xr-x root/root 0 2019-12-11 13:49 ./usr/share/man/man1/
-rw-r--r-- root/root 653 2019-12-11 13:49 ./usr/share/man/man1/chainsaw.1.gz
-rw-r--r-- root/root 1284 2019-12-11 13:49 ./usr/share/man/man1/mcmc_analysis.1.gz
-rw-r--r-- root/root 2154 2019-12-11 13:49 ./usr/share/man/man1/primeDLRS.1.gz
-rw-r--r-- root/root 1992 2019-12-11 13:49 ./usr/share/man/man1/primeDTLSR.1.gz
-rw-r--r-- root/root 987 2019-12-11 13:49 ./usr/share/man/man1/primeGEM.1.gz
lrwxrwxrwx root/root 0 2019-12-11 13:49 ./usr/share/man/man1/primeGSRf.1.gz -> primeDLRS.1.gz
-rw-r--r-- root/root 654 2019-12-11 13:49 ./usr/share/man/man1/reconcile.1.gz
-rw-r--r-- root/root 886 2019-12-11 13:49 ./usr/share/man/man1/reroot.1.gz
-rw-r--r-- root/root 904 2019-12-11 13:49 ./usr/share/man/man1/showtree.1.gz
-rw-r--r-- root/root 494 2019-12-11 13:49 ./usr/share/man/man1/tree2leafnames.1.gz
-rw-r--r-- root/root 608 2019-12-11 13:49 ./usr/share/man/man1/treesize.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 143092
Build-Time: 290
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 597
Job: prime-phylo_1.0.11-8
Machine Architecture: armhf
Package: prime-phylo
Package-Time: 918
Source-Version: 1.0.11-8
Space: 143092
Status: successful
Version: 1.0.11-8
--------------------------------------------------------------------------------
Finished at 2019-12-17T06:43:40Z
Build needed 00:15:18, 143092k disk space