Raspbian Package Auto-Building

Build log for anfo (0.98-4.1) on armhf

anfo → 0.98-4.1 → armhf → 2016-09-02 22:24:38 

sbuild (Debian sbuild) 0.66.0 (04 Oct 2015) on bm-wb-02

+==============================================================================+
| anfo 0.98-4.1 (armhf)                                      02 Sep 2016 21:56 |
+==============================================================================+

Package: anfo
Version: 0.98-4.1
Source Version: 0.98-4.1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf

I: NOTICE: Log filtering will replace 'build/anfo-HP_K3Q/anfo-0.98' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/anfo-HP_K3Q' with '<<BUILDDIR>>'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-33654b66-58d2-4502-b4a8-9f7c8d58be39' with '<<CHROOT>>'

+------------------------------------------------------------------------------+
| Update chroot                                                                |
+------------------------------------------------------------------------------+

Get:1 http://172.17.0.1/private stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private stretch-staging/main Sources [9259 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [11.2 MB]
Fetched 20.5 MB in 22s (895 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: 'anfo' packaging is maintained in the 'Svn' version control system at:
svn://anonscm.debian.org/debian-med/trunk/packages/anfo/trunk/
Need to get 472 kB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main anfo 0.98-4.1 (dsc) [2163 B]
Get:2 http://172.17.0.1/private stretch-staging/main anfo 0.98-4.1 (tar) [462 kB]
Get:3 http://172.17.0.1/private stretch-staging/main anfo 0.98-4.1 (diff) [7284 B]
Fetched 472 kB in 0s (4739 kB/s)
Download complete and in download only mode

Check architectures
-------------------


Check dependencies
------------------

Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-9dPkwW/apt_archive/sbuild-build-depends-core-dummy.deb'.
Warning: apt-key output should not be parsed (stdout is not a terminal)
OK
Get:1 file:/<<BUILDDIR>>/resolver-9dPkwW/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-9dPkwW/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-9dPkwW/apt_archive ./ Release [2119 B]
Get:2 file:/<<BUILDDIR>>/resolver-9dPkwW/apt_archive ./ Release [2119 B]
Get:3 file:/<<BUILDDIR>>/resolver-9dPkwW/apt_archive ./ Release.gpg [299 B]
Get:3 file:/<<BUILDDIR>>/resolver-9dPkwW/apt_archive ./ Release.gpg [299 B]
Get:4 file:/<<BUILDDIR>>/resolver-9dPkwW/apt_archive ./ Sources [194 B]
Get:5 file:/<<BUILDDIR>>/resolver-9dPkwW/apt_archive ./ Packages [509 B]
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
W: file:///<<BUILDDIR>>/resolver-9dPkwW/apt_archive/./Release.gpg: Signature by key 3493EC2B8E6DC280C121C60435506D9A48F77B2E uses weak digest algorithm (SHA1)
Reading package lists...

+------------------------------------------------------------------------------+
| Install core build dependencies (apt-based resolver)                         |
+------------------------------------------------------------------------------+

Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following NEW packages will be installed:
  sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 25 not upgraded.
Need to get 0 B/768 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-9dPkwW/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [768 B]
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package sbuild-build-depends-core-dummy.
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(Reading database ... 13715 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy.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
Merged Build-Depends: debhelper (>= 9), libpopt-dev, libprotobuf-dev, libelk0-dev, libelk0, zlib1g-dev, libbz2-dev, pkg-config, protobuf-compiler, dh-autoreconf, d-shlibs
Filtered Build-Depends: debhelper (>= 9), libpopt-dev, libprotobuf-dev, libelk0-dev, libelk0, zlib1g-dev, libbz2-dev, pkg-config, protobuf-compiler, dh-autoreconf, d-shlibs
dpkg-deb: building package 'sbuild-build-depends-anfo-dummy' in '/<<BUILDDIR>>/resolver-h0vYPR/apt_archive/sbuild-build-depends-anfo-dummy.deb'.
Warning: apt-key output should not be parsed (stdout is not a terminal)
OK
Get:1 file:/<<BUILDDIR>>/resolver-h0vYPR/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-h0vYPR/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-h0vYPR/apt_archive ./ Release [2119 B]
Get:2 file:/<<BUILDDIR>>/resolver-h0vYPR/apt_archive ./ Release [2119 B]
Get:3 file:/<<BUILDDIR>>/resolver-h0vYPR/apt_archive ./ Release.gpg [299 B]
Get:3 file:/<<BUILDDIR>>/resolver-h0vYPR/apt_archive ./ Release.gpg [299 B]
Get:4 file:/<<BUILDDIR>>/resolver-h0vYPR/apt_archive ./ Sources [253 B]
Get:5 file:/<<BUILDDIR>>/resolver-h0vYPR/apt_archive ./ Packages [570 B]
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
W: file:///<<BUILDDIR>>/resolver-h0vYPR/apt_archive/./Release.gpg: Signature by key 3493EC2B8E6DC280C121C60435506D9A48F77B2E uses weak digest algorithm (SHA1)
Reading package lists...

+------------------------------------------------------------------------------+
| Install anfo build dependencies (apt-based resolver)                         |
+------------------------------------------------------------------------------+

Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
  autoconf automake autopoint autotools-dev bsdmainutils d-shlibs debhelper
  dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base
  intltool-debian libarchive-zip-perl libbsd0 libbz2-dev libcroco3 libelfg0
  libelfg0-dev libelk0 libelk0-dev libffi6 libfile-stripnondeterminism-perl
  libglib2.0-0 libice-dev libice6 libicu57 libmagic-mgc libmagic1 libpipeline1
  libpopt-dev libpopt0 libprotobuf-dev libprotobuf-lite10 libprotobuf10
  libprotoc10 libpthread-stubs0-dev libsigsegv2 libsm-dev libsm6 libtool
  libunistring0 libx11-6 libx11-data libx11-dev libxau-dev libxau6 libxcb1
  libxcb1-dev libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxml2 libxmu-dev
  libxmu-headers libxmu6 libxt-dev libxt6 m4 man-db pkg-config po-debconf
  protobuf-compiler x11-common x11proto-core-dev x11proto-input-dev
  x11proto-kb-dev x11proto-xext-dev xorg-sgml-doctools xtrans-dev zlib1g-dev
Suggested packages:
  autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
  vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff
  libice-doc libsm-doc libtool-doc gfortran | fortran95-compiler gcj-jdk
  libxcb-doc libxext-doc libxt-doc less www-browser libmail-box-perl
Recommended packages:
  curl | wget | lynx-cur bzip2-doc libglib2.0-data shared-mime-info
  xdg-user-dirs libltdl-dev libx11-doc xml-core libmail-sendmail-perl
The following NEW packages will be installed:
  autoconf automake autopoint autotools-dev bsdmainutils d-shlibs debhelper
  dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base
  intltool-debian libarchive-zip-perl libbsd0 libbz2-dev libcroco3 libelfg0
  libelfg0-dev libelk0 libelk0-dev libffi6 libfile-stripnondeterminism-perl
  libglib2.0-0 libice-dev libice6 libicu57 libmagic-mgc libmagic1 libpipeline1
  libpopt-dev libpopt0 libprotobuf-dev libprotobuf-lite10 libprotobuf10
  libprotoc10 libpthread-stubs0-dev libsigsegv2 libsm-dev libsm6 libtool
  libunistring0 libx11-6 libx11-data libx11-dev libxau-dev libxau6 libxcb1
  libxcb1-dev libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxml2 libxmu-dev
  libxmu-headers libxmu6 libxt-dev libxt6 m4 man-db pkg-config po-debconf
  protobuf-compiler sbuild-build-depends-anfo-dummy x11-common
  x11proto-core-dev x11proto-input-dev x11proto-kb-dev x11proto-xext-dev
  xorg-sgml-doctools xtrans-dev zlib1g-dev
0 upgraded, 74 newly installed, 0 to remove and 25 not upgraded.
Need to get 26.6 MB/26.7 MB of archives.
After this operation, 92.6 MB of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-h0vYPR/apt_archive ./ sbuild-build-depends-anfo-dummy 0.invalid.0 [834 B]
Get:2 http://172.17.0.1/private stretch-staging/main armhf libpopt0 armhf 1.16-10 [46.2 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf groff-base armhf 1.22.3-8 [1087 kB]
Get:4 http://172.17.0.1/private stretch-staging/main armhf libbsd0 armhf 0.8.3-1 [89.0 kB]
Get:5 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.10 [177 kB]
Get:6 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:7 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-1 [975 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf libelfg0 armhf 0.8.13-5 [55.7 kB]
Get:9 http://172.17.0.1/private stretch-staging/main armhf libxau6 armhf 1:1.0.8-1 [19.9 kB]
Get:10 http://172.17.0.1/private stretch-staging/main armhf libxdmcp6 armhf 1:1.1.2-1.1 [24.9 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf libxcb1 armhf 1.11.1-1.1 [41.3 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf libx11-data all 2:1.6.3-1 [128 kB]
Get:13 http://172.17.0.1/private stretch-staging/main armhf libx11-6 armhf 2:1.6.3-1 [678 kB]
Get:14 http://172.17.0.1/private stretch-staging/main armhf libxext6 armhf 2:1.3.3-1 [48.1 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf libmagic-mgc armhf 1:5.28-4 [210 kB]
Get:16 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.28-4 [104 kB]
Get:17 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.28-4 [62.7 kB]
Get:18 http://172.17.0.1/private stretch-staging/main armhf gettext-base armhf 0.19.8.1-1 [117 kB]
Get:19 http://172.17.0.1/private stretch-staging/main armhf libicu57 armhf 57.1-3 [7408 kB]
Get:20 http://172.17.0.1/private stretch-staging/main armhf libxml2 armhf 2.9.4+dfsg1-1+b1 [803 kB]
Get:21 http://172.17.0.1/private stretch-staging/main armhf libsigsegv2 armhf 2.10-5 [28.4 kB]
Get:22 http://172.17.0.1/private stretch-staging/main armhf m4 armhf 1.4.17-5 [239 kB]
Get:23 http://172.17.0.1/private stretch-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:24 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20160430.1 [72.6 kB]
Get:25 http://172.17.0.1/private stretch-staging/main armhf automake all 1:1.15-4 [735 kB]
Get:26 http://172.17.0.1/private stretch-staging/main armhf autopoint all 0.19.8.1-1 [433 kB]
Get:27 http://172.17.0.1/private stretch-staging/main armhf d-shlibs all 0.75 [18.0 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.48.1-3 [2547 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-1 [131 kB]
Get:30 http://172.17.0.1/private stretch-staging/main armhf libunistring0 armhf 0.9.6+really0.9.3-0.1 [252 kB]
Get:31 http://172.17.0.1/private stretch-staging/main armhf gettext armhf 0.19.8.1-1 [1433 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.19 [249 kB]
Get:34 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.59-1 [95.5 kB]
Get:35 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.023-2 [13.4 kB]
Get:36 http://172.17.0.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.023-2 [8202 B]
Get:37 http://172.17.0.1/private stretch-staging/main armhf libtool all 2.4.6-2 [545 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf dh-autoreconf all 12 [15.8 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf debhelper all 9.20160814 [800 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf libbz2-dev armhf 1.0.6-8 [27.8 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf libelfg0-dev armhf 0.8.13-5 [63.2 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf x11-common all 1:7.7+16 [251 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf libice6 armhf 2:1.0.9-1+b1 [51.9 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf libsm6 armhf 2:1.2.2-1+b1 [31.2 kB]
Get:45 http://172.17.0.1/private stretch-staging/main armhf libxt6 armhf 1:1.1.5-1 [155 kB]
Get:46 http://172.17.0.1/private stretch-staging/main armhf libxmu6 armhf 2:1.1.2-2 [52.0 kB]
Get:47 http://172.17.0.1/private stretch-staging/main armhf libelk0 armhf 3.99.8-2.1 [194 kB]
Get:48 http://172.17.0.1/private stretch-staging/main armhf xorg-sgml-doctools all 1:1.11-1 [21.9 kB]
Get:49 http://172.17.0.1/private stretch-staging/main armhf x11proto-core-dev all 7.0.29-1 [728 kB]
Get:50 http://172.17.0.1/private stretch-staging/main armhf libxau-dev armhf 1:1.0.8-1 [23.0 kB]
Get:51 http://172.17.0.1/private stretch-staging/main armhf libxdmcp-dev armhf 1:1.1.2-1.1 [40.8 kB]
Get:52 http://172.17.0.1/private stretch-staging/main armhf x11proto-input-dev all 2.3.2-1 [158 kB]
Get:53 http://172.17.0.1/private stretch-staging/main armhf x11proto-kb-dev all 1.0.7-1 [233 kB]
Get:54 http://172.17.0.1/private stretch-staging/main armhf xtrans-dev all 1.3.5-1 [100 kB]
Get:55 http://172.17.0.1/private stretch-staging/main armhf libpthread-stubs0-dev armhf 0.3-4 [4042 B]
Get:56 http://172.17.0.1/private stretch-staging/main armhf libxcb1-dev armhf 1.11.1-1.1 [76.2 kB]
Get:57 http://172.17.0.1/private stretch-staging/main armhf libx11-dev armhf 2:1.6.3-1 [749 kB]
Get:58 http://172.17.0.1/private stretch-staging/main armhf x11proto-xext-dev all 7.3.0-1 [212 kB]
Get:59 http://172.17.0.1/private stretch-staging/main armhf libxext-dev armhf 2:1.3.3-1 [102 kB]
Get:60 http://172.17.0.1/private stretch-staging/main armhf libice-dev armhf 2:1.0.9-1+b1 [59.0 kB]
Get:61 http://172.17.0.1/private stretch-staging/main armhf libsm-dev armhf 2:1.2.2-1+b1 [33.5 kB]
Get:62 http://172.17.0.1/private stretch-staging/main armhf libxt-dev armhf 1:1.1.5-1 [390 kB]
Get:63 http://172.17.0.1/private stretch-staging/main armhf libxmu-headers all 2:1.1.2-2 [51.9 kB]
Get:64 http://172.17.0.1/private stretch-staging/main armhf libxmu-dev armhf 2:1.1.2-2 [56.2 kB]
Get:65 http://172.17.0.1/private stretch-staging/main armhf libelk0-dev armhf 3.99.8-2.1 [234 kB]
Get:66 http://172.17.0.1/private stretch-staging/main armhf libpopt-dev armhf 1.16-10 [47.0 kB]
Get:67 http://172.17.0.1/private stretch-staging/main armhf zlib1g-dev armhf 1:1.2.8.dfsg-2+b1 [197 kB]
Get:68 http://172.17.0.1/private stretch-staging/main armhf libprotobuf10 armhf 3.0.0-6 [585 kB]
Get:69 http://172.17.0.1/private stretch-staging/main armhf libprotobuf-lite10 armhf 3.0.0-6 [114 kB]
Get:70 http://172.17.0.1/private stretch-staging/main armhf libprotobuf-dev armhf 3.0.0-6 [893 kB]
Get:71 http://172.17.0.1/private stretch-staging/main armhf libprotoc10 armhf 3.0.0-6 [516 kB]
Get:72 http://172.17.0.1/private stretch-staging/main armhf protobuf-compiler armhf 3.0.0-6 [52.1 kB]
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+------------------------------------------------------------------------------+
| Build environment                                                            |
+------------------------------------------------------------------------------+

Kernel: Linux 3.19.0-trunk-armmp armhf (armv7l)
Toolchain package versions: binutils_2.26.1-1 dpkg-dev_1.18.10 g++-6_6.1.1-11+rpi1 gcc-6_6.1.1-11+rpi1 libc6-dev_2.23-4 libstdc++-4.9-dev_4.9.3-14 libstdc++-6-dev_6.1.1-11+rpi1 libstdc++6_6.1.1-11+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: acl_2.2.52-3 adduser_3.115 apt_1.3~pre3 autoconf_2.69-10 automake_1:1.15-4 autopoint_0.19.8.1-1 autotools-dev_20160430.1 base-files_9.6+rpi1 base-passwd_3.5.39 bash_4.3-15 binutils_2.26.1-1 bsdmainutils_9.0.10 bsdutils_1:2.28-6 build-essential_12.2 bzip2_1.0.6-8 coreutils_8.25-2 cpio_2.11+dfsg-5 cpp_4:6.1.1-1 cpp-6_6.1.1-11+rpi1 d-shlibs_0.75 dash_0.5.8-2.3 debconf_1.5.59 debfoster_2.7-2.1 debhelper_9.20160814 debianutils_4.8 dh-autoreconf_12 dh-strip-nondeterminism_0.023-2 diffutils_1:3.3-3 dmsetup_2:1.02.130-1 dpkg_1.18.10 dpkg-dev_1.18.10 e2fslibs_1.43.1-1 e2fsprogs_1.43.1-1 fakeroot_1.21-1 file_1:5.28-4 findutils_4.6.0+git+20160703-2 fuse2fs_1.43.1-1 g++_4:6.1.1-1 g++-6_6.1.1-11+rpi1 gcc_4:6.1.1-1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.3-14 gcc-5-base_5.4.0-4 gcc-6_6.1.1-11+rpi1 gcc-6-base_6.1.1-11+rpi1 gettext_0.19.8.1-1 gettext-base_0.19.8.1-1 gnupg_1.4.20-6 gpgv_1.4.20-6 grep_2.25-6 groff-base_1.22.3-8 gzip_1.6-5 hostname_3.18 init_1.42 init-system-helpers_1.42 initscripts_2.88dsf-59.8 insserv_1.14.0-5.4 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-9+rpi1 kmod_22-1.1 libacl1_2.2.52-3 libapparmor1_2.10.95-4 libapt-pkg4.12_1.0.9.10 libapt-pkg5.0_1.3~pre3 libarchive-zip-perl_1.59-1 libasan1_4.9.3-14 libasan3_6.1.1-11+rpi1 libatomic1_6.1.1-11+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.6.5-1 libaudit1_1:2.6.5-1 libblkid1_2.28-6 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8 libbz2-dev_1.0.6-8 libc-bin_2.23-4 libc-dev-bin_2.23-4 libc6_2.23-4 libc6-dev_2.23-4 libcap-ng0_0.7.7-3 libcap2_1:2.25-1 libcap2-bin_1:2.25-1 libcc1-0_6.1.1-11+rpi1 libcomerr2_1.43.1-1 libcroco3_0.6.11-1 libcryptsetup4_2:1.7.0-2 libdb5.3_5.3.28-12 libdbus-1-3_1.10.8-1 libdebconfclient0_0.215 libdevmapper1.02.1_2:1.02.130-1 libdpkg-perl_1.18.10 libdrm2_2.4.70-1 libelfg0_0.8.13-5 libelfg0-dev_0.8.13-5 libelk0_3.99.8-2.1 libelk0-dev_3.99.8-2.1 libfakeroot_1.21-1 libfdisk1_2.28-6 libffi6_3.2.1-4 libfile-stripnondeterminism-perl_0.023-2 libfuse2_2.9.7-1 libgc1c2_1:7.4.2-8 libgcc-4.9-dev_4.9.3-14 libgcc-6-dev_6.1.1-11+rpi1 libgcc1_1:6.1.1-11+rpi1 libgcrypt20_1.7.2-2 libgdbm3_1.8.3-14 libglib2.0-0_2.48.1-3 libgmp10_2:6.1.1+dfsg-1 libgomp1_6.1.1-11+rpi1 libgpg-error0_1.24-1 libice-dev_2:1.0.9-1+b1 libice6_2:1.0.9-1+b1 libicu57_57.1-3 libidn11_1.33-1 libisl15_0.17.1-1 libklibc_2.0.4-9+rpi1 libkmod2_22-1.1 liblz4-1_0.0~r131-2 liblzma5_5.1.1alpha+20120614-2.1 libmagic-mgc_1:5.28-4 libmagic1_1:5.28-4 libmount1_2.28-6 libmpc3_1.0.3-1 libmpfr4_3.1.4-2 libncurses5_6.0+20160625-1 libncursesw5_6.0+20160625-1 libpam-modules_1.1.8-3.3 libpam-modules-bin_1.1.8-3.3 libpam-runtime_1.1.8-3.3 libpam0g_1.1.8-3.3 libpcre3_2:8.39-1 libperl5.22_5.22.2-3 libpipeline1_1.4.1-2 libpng12-0_1.2.54-6 libpopt-dev_1.16-10 libpopt0_1.16-10 libprocps3_2:3.3.9-9 libprocps6_2:3.3.12-2 libprotobuf-dev_3.0.0-6 libprotobuf-lite10_3.0.0-6 libprotobuf10_3.0.0-6 libprotoc10_3.0.0-6 libpthread-stubs0-dev_0.3-4 libreadline6_6.3-8+b3 libseccomp2_2.3.1-2 libselinux1_2.5-3 libsemanage-common_2.5-1 libsemanage1_2.5-1 libsepol1_2.5-1 libsigsegv2_2.10-5 libslang2_2.3.0-3 libsm-dev_2:1.2.2-1+b1 libsm6_2:1.2.2-1+b1 libsmartcols1_2.28-6 libss2_1.43.1-1 libstdc++-4.9-dev_4.9.3-14 libstdc++-6-dev_6.1.1-11+rpi1 libstdc++6_6.1.1-11+rpi1 libsystemd0_230-7+b1 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160625-1 libtool_2.4.6-2 libubsan0_6.1.1-11+rpi1 libudev1_230-7+b1 libunistring0_0.9.6+really0.9.3-0.1 libusb-0.1-4_2:0.1.12-30 libustr-1.0-1_1.0.4-5 libuuid1_2.28-6 libx11-6_2:1.6.3-1 libx11-data_2:1.6.3-1 libx11-dev_2:1.6.3-1 libxau-dev_1:1.0.8-1 libxau6_1:1.0.8-1 libxcb1_1.11.1-1.1 libxcb1-dev_1.11.1-1.1 libxdmcp-dev_1:1.1.2-1.1 libxdmcp6_1:1.1.2-1.1 libxext-dev_2:1.3.3-1 libxext6_2:1.3.3-1 libxml2_2.9.4+dfsg1-1+b1 libxmu-dev_2:1.1.2-2 libxmu-headers_2:1.1.2-2 libxmu6_2:1.1.2-2 libxt-dev_1:1.1.5-1 libxt6_1:1.1.5-1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch login_1:4.2-3.1 lsb-base_9.20160629+rpi1 m4_1.4.17-5 make_4.1-9 makedev_2.3.1-93 man-db_2.7.5-1 manpages_4.07-1 mawk_1.3.3-17 mount_2.28-6 multiarch-support_2.23-4 nano_2.6.2-1 ncurses-base_6.0+20160625-1 ncurses-bin_6.0+20160625-1 passwd_1:4.2-3.1 patch_2.7.5-1 perl_5.22.2-3 perl-base_5.22.2-3 perl-modules-5.22_5.22.2-3 pkg-config_0.29-4 po-debconf_1.0.19 procps_2:3.3.12-2 protobuf-compiler_3.0.0-6 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-anfo-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.2.2-7.1 sensible-utils_0.0.9 startpar_0.59-3.1 systemd_230-7+b1 systemd-sysv_230-7+b1 sysv-rc_2.88dsf-59.8 sysvinit-utils_2.88dsf-59.8 tar_1.29b-1 tzdata_2016f-1 udev_230-7+b1 util-linux_2.28-6 x11-common_1:7.7+16 x11proto-core-dev_7.0.29-1 x11proto-input-dev_2.3.2-1 x11proto-kb-dev_1.0.7-1 x11proto-xext-dev_7.3.0-1 xorg-sgml-doctools_1:1.11-1 xtrans-dev_1.3.5-1 xz-utils_5.1.1alpha+20120614-2.1 zlib1g_1:1.2.8.dfsg-2+b1 zlib1g-dev_1:1.2.8.dfsg-2+b1

+------------------------------------------------------------------------------+
| Build                                                                        |
+------------------------------------------------------------------------------+


Unpack source
-------------

gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Fri Sep  2 13:01:44 2016 UTC using RSA key ID 4E9F5DD9
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./anfo_0.98-4.1.dsc
dpkg-source: info: extracting anfo in anfo-0.98
dpkg-source: info: unpacking anfo_0.98.orig.tar.gz
dpkg-source: info: unpacking anfo_0.98-4.1.debian.tar.xz
dpkg-source: info: applying 01-silence-narrowing-conversion.patch
dpkg-source: info: applying 02-correct-minscore-self-initialization.patch
dpkg-source: info: applying 03-include-unistd-forF_OK.patch
dpkg-source: info: applying 04-reorder-template-for-new-scope-rules.patch
dpkg-source: info: applying 05-autoreconf.patch

Check disc space
----------------

Sufficient free space for build

User Environment
----------------

DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=stretch-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=stretch-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=stretch-staging-armhf-sbuild-33654b66-58d2-4502-b4a8-9f7c8d58be39
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd

dpkg-buildpackage
-----------------

dpkg-buildpackage: info: source package anfo
dpkg-buildpackage: info: source version 0.98-4.1
dpkg-buildpackage: info: source distribution unstable
 dpkg-source --before-build anfo-0.98
dpkg-buildpackage: info: host architecture armhf
 fakeroot debian/rules clean
dh  clean --with autoreconf
   dh_testdir
   dh_auto_clean
   dh_autoreconf_clean
   dh_clean
 debian/rules build-arch
dh  build-arch --with autoreconf
   dh_testdir -a
   dh_update_autotools_config -a
   dh_autoreconf -a
configure.ac:77: warning: LT_INIT was called before AM_PROG_AR
/usr/share/aclocal-1.15/ar-lib.m4:13: AM_PROG_AR is expanded from...
configure.ac:77: the top level
configure.ac:77: warning: LT_INIT was called before AM_PROG_AR
/usr/share/aclocal-1.15/ar-lib.m4:13: AM_PROG_AR is expanded from...
configure.ac:77: the top level
aclocal: overwriting 'm4/libtool.m4' with '/usr/share/aclocal/libtool.m4'
aclocal: overwriting 'm4/ltoptions.m4' with '/usr/share/aclocal/ltoptions.m4'
aclocal: overwriting 'm4/ltversion.m4' with '/usr/share/aclocal/ltversion.m4'
aclocal: overwriting 'm4/lt~obsolete.m4' with '/usr/share/aclocal/lt~obsolete.m4'
configure.ac:77: warning: LT_INIT was called before AM_PROG_AR
/usr/share/aclocal-1.15/ar-lib.m4:13: AM_PROG_AR is expanded from...
configure.ac:77: the top level
configure.ac:77: warning: LT_INIT was called before AM_PROG_AR
aclocal.m4:70: AM_PROG_AR is expanded from...
configure.ac:77: the top level
libtoolize: putting auxiliary files in '.'.
libtoolize: copying file './ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'.
libtoolize: copying file 'm4/libtool.m4'
libtoolize: copying file 'm4/ltoptions.m4'
libtoolize: copying file 'm4/ltsugar.m4'
libtoolize: copying file 'm4/ltversion.m4'
libtoolize: copying file 'm4/lt~obsolete.m4'
configure.ac:77: warning: LT_INIT was called before AM_PROG_AR
/usr/share/aclocal-1.15/ar-lib.m4:13: AM_PROG_AR is expanded from...
configure.ac:77: the top level
configure.ac:77: warning: LT_INIT was called before AM_PROG_AR
/usr/share/aclocal-1.15/ar-lib.m4:13: AM_PROG_AR is expanded from...
configure.ac:77: the top level
configure.ac:77: warning: LT_INIT was called before AM_PROG_AR
aclocal.m4:70: AM_PROG_AR is expanded from...
configure.ac:77: the top level
configure.ac:77: warning: LT_INIT was called before AM_PROG_AR
aclocal.m4:70: AM_PROG_AR is expanded from...
configure.ac:77: the top level
configure.ac:77: warning: LT_INIT was called before AM_PROG_AR
aclocal.m4:70: AM_PROG_AR is expanded from...
configure.ac:77: the top level
configure.ac:77: installing './ar-lib'
configure.ac:12: installing './compile'
configure.ac:6: installing './missing'
src/Makefile.am: installing './depcomp'
   dh_auto_configure -a
	./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --libexecdir=\${prefix}/lib/arm-linux-gnueabihf --disable-maintainer-mode --disable-dependency-tracking
configure: WARNING: unrecognized options: --disable-maintainer-mode
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking build system type... arm-unknown-linux-gnueabihf
checking host system type... arm-unknown-linux-gnueabihf
checking how to print strings... printf
checking for style of include used by make... GNU
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... none
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking how to convert arm-unknown-linux-gnueabihf file names to arm-unknown-linux-gnueabihf format... func_convert_file_noop
checking how to convert arm-unknown-linux-gnueabihf file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for a working dd... /bin/dd
checking how to truncate binary pipes... /bin/dd bs=4096 count=1
checking for mt... mt
checking if mt is a manifest tool... no
checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... none
checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for protoc... /usr/bin/protoc
checking for library containing exp... none required
checking for library containing log1p... none required
checking for poptGetContext in -lpopt... yes
checking for deflate in -lz... yes
checking for BZ2_bzCompress in -lbz2... yes
checking for Elk_Init in -lelk... yes
checking popt.h usability... yes
checking popt.h presence... yes
checking for popt.h... yes
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking bzlib.h usability... yes
checking bzlib.h presence... yes
checking for bzlib.h... yes
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for protobuf... yes
checking google/protobuf/message.h usability... yes
checking google/protobuf/message.h presence... yes
checking for google/protobuf/message.h... yes
checking elk/scheme.h usability... yes
checking elk/scheme.h presence... yes
checking for elk/scheme.h... yes
checking for ANSI C header files... (cached) yes
checking fcntl.h usability... yes
checking fcntl.h presence... yes
checking for fcntl.h... yes
checking for stdint.h... (cached) yes
checking for stdlib.h... (cached) yes
checking for unistd.h... (cached) yes
checking for an ANSI C-conforming const... yes
checking for inline... inline
checking for working volatile... yes
checking for stdbool.h that conforms to C99... no
checking for _Bool... no
checking for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... 64
checking for int32_t... yes
checking for int64_t... yes
checking for size_t... yes
checking for ssize_t... yes
checking for uint16_t... yes
checking for uint32_t... yes
checking for uint64_t... yes
checking for uint8_t... yes
checking for memset... yes
checking for munmap... yes
checking for pow... yes
checking for strerror... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating man/Makefile
config.status: creating src/Makefile
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
configure: WARNING: unrecognized options: --disable-maintainer-mode
checking the archiver (ar) interface... ar
   dh_auto_build -a
	make -j1
make[1]: Entering directory '/<<PKGBUILDDIR>>'
make  all-recursive
make[2]: Entering directory '/<<PKGBUILDDIR>>'
Making all in src
make[3]: Entering directory '/<<PKGBUILDDIR>>/src'
protoc -I. -I/usr/include --cpp_out=. config.proto
[libprotobuf WARNING google/protobuf/compiler/parser.cc:547] No syntax specified for the proto file: config.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.)
protoc -I. -I/usr/include --cpp_out=. output.proto
[libprotobuf WARNING google/protobuf/compiler/parser.cc:547] No syntax specified for the proto file: output.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.)
[libprotobuf WARNING google/protobuf/compiler/parser.cc:547] No syntax specified for the proto file: config.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.)
make  all-am
make[4]: Entering directory '/<<PKGBUILDDIR>>/src'
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o align.lo align.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c align.cc  -fPIC -DPIC -o .libs/align.o
In file included from stream.h:20:0,
                 from align.h:22,
                 from align.cc:21:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from align.cc:21:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from align.cc:21:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from stream.h:20:0,
                 from align.h:22,
                 from align.cc:21:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from align.cc:21:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from align.cc:21:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from align.cc:21:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from align.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c align.cc -o align.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o anfo_common.lo anfo_common.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c anfo_common.cc  -fPIC -DPIC -o .libs/anfo_common.o
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo_common.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c anfo_common.cc -o anfo_common.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o concurrent_stream.lo concurrent_stream.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c concurrent_stream.cc  -fPIC -DPIC -o .libs/concurrent_stream.o
In file included from stream.h:20:0,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from concurrent_stream.h:23:0,
                 from concurrent_stream.cc:1:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
concurrent_stream.cc: In member function 'virtual output::Result streams::ConcurrentStream::fetch_result()':
concurrent_stream.cc:178:2: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  auto_ptr< Result > r( outgoing_[ next_out_++ ] ) ;
  ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
concurrent_stream.cc: In member function 'void streams::ConcurrentStream::dequeue(streams::Stream*)':
concurrent_stream.cc:212:2: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  auto_ptr< Result > r( incoming_[ next_in_ ] ) ;
  ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from concurrent_stream.h:23,
                 from concurrent_stream.cc:1:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c concurrent_stream.cc -o concurrent_stream.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ducttape.lo ducttape.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c ducttape.cc  -fPIC -DPIC -o .libs/ducttape.o
In file included from stream.h:20:0,
                 from ducttape.h:21,
                 from ducttape.cc:21:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from ducttape.h:21,
                 from ducttape.cc:21:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from ducttape.h:21,
                 from ducttape.cc:21:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from stream.h:20:0,
                 from ducttape.h:21,
                 from ducttape.cc:21:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from ducttape.h:21,
                 from ducttape.cc:21:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from ducttape.h:21,
                 from ducttape.cc:21:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from ducttape.cc:21:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.cc:21:0:
ducttape.h:139:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from ducttape.h:20,
                 from ducttape.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c ducttape.cc -o ducttape.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o index.lo index.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c index.cc  -fPIC -DPIC -o .libs/index.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c index.cc -o index.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o misc_streams.lo misc_streams.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c misc_streams.cc  -fPIC -DPIC -o .libs/misc_streams.o
In file included from stream.h:20:0,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from stream.h:20:0,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from misc_streams.cc:5:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
misc_streams.cc: In constructor 'streams::RegionFilter::RegionFilter(const std::pair<std::basic_istream<char>*, std::__cxx11::basic_string<char> >&)':
misc_streams.cc:489:2: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  auto_ptr< istream > deffile( p.first ) ;
  ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.h:20,
                 from misc_streams.h:4,
                 from misc_streams.cc:5:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c misc_streams.cc -o misc_streams.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o output_streams.lo output_streams.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c output_streams.cc  -fPIC -DPIC -o .libs/output_streams.o
In file included from stream.h:20:0,
                 from output_streams.h:21,
                 from output_streams.cc:21:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from output_streams.h:21,
                 from output_streams.cc:21:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from output_streams.h:21,
                 from output_streams.cc:21:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from stream.h:20:0,
                 from output_streams.h:21,
                 from output_streams.cc:21:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from output_streams.h:21,
                 from output_streams.cc:21:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from output_streams.h:21,
                 from output_streams.cc:21:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.h:21:0,
                 from output_streams.cc:21:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.cc:21:0:
output_streams.h:45:3: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   auto_ptr< std::ostream > out_ ;
   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.cc:21:0:
output_streams.h:72:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.cc:21:0:
output_streams.h:123:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.cc:21:0:
output_streams.h:138:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.cc:21:0:
output_streams.h:149:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from output_streams.cc:21:0:
output_streams.h:176:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from config.pb.h:26,
                 from index.h:20,
                 from output_streams.h:20,
                 from output_streams.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c output_streams.cc -o output_streams.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sequence.lo sequence.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c sequence.cc  -fPIC -DPIC -o .libs/sequence.o
In file included from stream.h:20:0,
                 from sequence.cc:23:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from sequence.cc:23:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from sequence.cc:23:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from stream.h:20:0,
                 from sequence.cc:23:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from sequence.cc:23:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from sequence.cc:23:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from sequence.cc:23:0:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from sequence.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c sequence.cc -o sequence.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o stream.lo stream.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c stream.cc  -fPIC -DPIC -o .libs/stream.o
In file included from stream.cc:21:0:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.cc:21:0:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.cc:21:0:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from stream.cc:21:0:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.cc:21:0:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.cc:21:0:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from misc_streams.h:4:0,
                 from stream.cc:22:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
stream.cc:81:30: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 AnfoReader::AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) : is_( is ), name_( name )
                              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
stream.cc:421:36: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 ChunkedReader::ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) : is_( is ), name_( name )
                                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
stream.cc:1093:9: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
    std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
         ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
stream.cc:1114:29: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
    StreamWithProgress( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, int64_t total )
                             ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
stream.cc:1149:40: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  StreamHolder make_input_stream_( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, bool solexa_scores, char origin, const string& genome )
                                        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
stream.cc: In function 'streams::StreamHolder streams::{anonymous}::make_input_stream_(std::auto_ptr<google::protobuf::io::ZeroCopyInputStream>, const string&, bool, char, const string&)':
stream.cc:1179:9: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
    std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > bs( new BunzipStream( is ) ) ;
         ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
stream.cc:1189:9: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
    std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > zs( new InflateStream( is ) ) ;
         ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
stream.cc: In member function 'virtual output::Header streams::UniversalReader::fetch_header()':
stream.cc:1233:9: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
    std::auto_ptr< google::protobuf::io::FileInputStream > s( new google::protobuf::io::FileInputStream( fd ) ) ;
         ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
stream.cc:1238:12: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
       std::auto_ptr<google::protobuf::io::ZeroCopyInputStream>(s), name_, st.st_size ) ) ;
            ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
stream.cc: At global scope:
stream.cc:1378:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
 BamReader::BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) :
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from stream.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c stream.cc -o stream.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o util.lo util.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c util.cc  -fPIC -DPIC -o .libs/util.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c util.cc -o util.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o anfo-elk.lo anfo-elk.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c anfo-elk.cc  -fPIC -DPIC -o .libs/anfo-elk.o
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-elk.cc:28:0:
ducttape.h:139:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-elk.cc:31:0:
output_streams.h:45:3: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   auto_ptr< std::ostream > out_ ;
   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-elk.cc:31:0:
output_streams.h:72:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-elk.cc:31:0:
output_streams.h:123:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-elk.cc:31:0:
output_streams.h:138:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-elk.cc:31:0:
output_streams.h:149:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-elk.cc:31:0:
output_streams.h:176:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo-elk.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c anfo-elk.cc -o anfo-elk.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fastlz.lo fastlz.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c fastlz.c  -fPIC -DPIC -o .libs/fastlz.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c fastlz.c -o fastlz.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o config.pb.lo config.pb.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c config.pb.cc  -fPIC -DPIC -o .libs/config.pb.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c config.pb.cc -o config.pb.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o output.pb.lo output.pb.cc
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c output.pb.cc  -fPIC -DPIC -o .libs/output.pb.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c output.pb.cc -o output.pb.o >/dev/null 2>&1
/bin/bash ../libtool  --tag=CXX   --mode=link g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -version-info 0:0:0 -Wl,-z,relro -o libanfo.la -rpath /usr/lib/arm-linux-gnueabihf align.lo anfo_common.lo concurrent_stream.lo ducttape.lo index.lo misc_streams.lo output_streams.lo sequence.lo stream.lo util.lo anfo-elk.lo fastlz.lo config.pb.lo output.pb.lo -lprotobuf -pthread -lpthread -lpthread -lelk -lbz2 -lz -lpopt 
libtool: link: g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/6/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/6/crtbeginS.o  .libs/align.o .libs/anfo_common.o .libs/concurrent_stream.o .libs/ducttape.o .libs/index.o .libs/misc_streams.o .libs/output_streams.o .libs/sequence.o .libs/stream.o .libs/util.o .libs/anfo-elk.o .libs/fastlz.o .libs/config.pb.o .libs/output.pb.o   -lprotobuf -lpthread -lelk -lbz2 -lz /usr/lib/arm-linux-gnueabihf/libpopt.so -L/usr/lib/gcc/arm-linux-gnueabihf/6 -L/usr/lib/gcc/arm-linux-gnueabihf/6/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/6/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/6/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/6/../../../arm-linux-gnueabihf/crtn.o  -pthread -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -pthread   -pthread -Wl,-soname -Wl,libanfo.so.0 -o .libs/libanfo.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libanfo.so.0" && ln -s "libanfo.so.0.0.0" "libanfo.so.0")
libtool: link: (cd ".libs" && rm -f "libanfo.so" && ln -s "libanfo.so.0.0.0" "libanfo.so")
libtool: link: ar cru .libs/libanfo.a  align.o anfo_common.o concurrent_stream.o ducttape.o index.o misc_streams.o output_streams.o sequence.o stream.o util.o anfo-elk.o fastlz.o config.pb.o output.pb.o
ar: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/libanfo.a
libtool: link: ( cd ".libs" && rm -f "libanfo.la" && ln -s "../libanfo.la" "libanfo.la" )
g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fa2dna.o fa2dna.cc
/bin/bash ../libtool  --tag=CXX   --mode=link g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security  -Wl,-z,relro -o fa2dna fa2dna.o libanfo.la -lprotobuf -pthread -lpthread -lelk -lbz2 -lz -lpopt 
libtool: link: g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -o .libs/fa2dna fa2dna.o -pthread  ./.libs/libanfo.so -lprotobuf -lpthread -lelk -lbz2 -lz /usr/lib/arm-linux-gnueabihf/libpopt.so -pthread
g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o dnaindex.o dnaindex.cc
/bin/bash ../libtool  --tag=CXX   --mode=link g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security  -Wl,-z,relro -o dnaindex dnaindex.o libanfo.la -lprotobuf -pthread -lpthread -lelk -lbz2 -lz -lpopt 
libtool: link: g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -o .libs/dnaindex dnaindex.o -pthread  ./.libs/libanfo.so -lprotobuf -lpthread -lelk -lbz2 -lz /usr/lib/arm-linux-gnueabihf/libpopt.so -pthread
g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o anfo-tool.o anfo-tool.cc
In file included from anfo-tool.cc:21:0:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-tool.cc:21:0:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-tool.cc:21:0:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from anfo-tool.cc:21:0:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-tool.cc:21:0:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-tool.cc:21:0:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from ducttape.h:21:0,
                 from anfo-tool.cc:22:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-tool.cc:22:0:
ducttape.h:139:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-tool.cc:24:0:
output_streams.h:45:3: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   auto_ptr< std::ostream > out_ ;
   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-tool.cc:24:0:
output_streams.h:72:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-tool.cc:24:0:
output_streams.h:123:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-tool.cc:24:0:
output_streams.h:138:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-tool.cc:24:0:
output_streams.h:149:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from anfo-tool.cc:24:0:
output_streams.h:176:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< std::ostream > out_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from anfo-tool.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
/bin/bash ../libtool  --tag=CXX   --mode=link g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security  -Wl,-z,relro -o anfo-tool anfo-tool.o libanfo.la -lprotobuf -pthread -lpthread -lelk -lbz2 -lz -lpopt 
libtool: link: g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -o .libs/anfo-tool anfo-tool.o -pthread  ./.libs/libanfo.so -lprotobuf -lpthread -lelk -lbz2 -lz /usr/lib/arm-linux-gnueabihf/libpopt.so -pthread
g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o anfo.o anfo.cc
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo.cc:21:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo.cc:21:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo.cc:21:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo.cc:21:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo.cc:21:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from align.h:22,
                 from anfo_common.h:22,
                 from anfo.cc:21:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from align.h:22:0,
                 from anfo_common.h:22,
                 from anfo.cc:21:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from align.h:20,
                 from anfo_common.h:22,
                 from anfo.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
/bin/bash ../libtool  --tag=CXX   --mode=link g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security  -Wl,-z,relro -o anfo anfo.o libanfo.la -lprotobuf -pthread -lpthread -lelk -lbz2 -lz -lpopt 
libtool: link: g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -o .libs/anfo anfo.o -pthread  ./.libs/libanfo.so -lprotobuf -lpthread -lelk -lbz2 -lz /usr/lib/arm-linux-gnueabihf/libpopt.so -pthread
g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o index-test.o index-test.cc
In file included from index-test.cc:27:0:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:27:0:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:27:0:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from index-test.cc:27:0:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:27:0:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:27:0:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from index-test.cc:30:0:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl_lite.h:47,
                 from /usr/include/google/protobuf/io/zero_copy_stream_impl.h:46,
                 from compress_stream.h:23,
                 from index-test.cc:27:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
/bin/bash ../libtool  --tag=CXX   --mode=link g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security  -Wl,-z,relro -o index-test index-test.o libanfo.la -lprotobuf -pthread -lpthread -lelk -lbz2 -lz -lpopt 
libtool: link: g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -o .libs/index-test index-test.o -pthread  ./.libs/libanfo.so -lprotobuf -lpthread -lelk -lbz2 -lz /usr/lib/arm-linux-gnueabihf/libpopt.so -pthread
g++ -DHAVE_CONFIG_H -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o file-info.o file-info.cc
In file included from stream.h:20:0,
                 from file-info.cc:25:
compress_stream.h:34:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from file-info.cc:25:
compress_stream.h:97:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   InflateStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is ), total_( 0 )
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from file-info.cc:25:
compress_stream.h: In destructor 'virtual DeflateStream::~DeflateStream()':
compress_stream.h:198:36: warning: throw will always call terminate() [-Wterminate]
     else if( r != Z_OK ) throw zs_.msg ;
                                    ^~~
compress_stream.h:198:36: note: in C++11 destructors default to noexcept
In file included from stream.h:20:0,
                 from file-info.cc:25:
compress_stream.h: At global scope:
compress_stream.h:225:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from file-info.cc:25:
compress_stream.h:278:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BunzipStream( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is ) : is_( is )
                      ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from stream.h:20:0,
                 from file-info.cc:25:
compress_stream.h: In destructor 'virtual BzipStream::~BzipStream()':
compress_stream.h:379:45: warning: throw will always call terminate() [-Wterminate]
     else if( r < BZ_OK ) throw BzipError( r ) ;
                                             ^
compress_stream.h:379:45: note: in C++11 destructors default to noexcept
compress_stream.h: In function 'google::protobuf::io::FileOutputStream* make_output_stream(const char*)':
compress_stream.h:395:7: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
  std::auto_ptr< google::protobuf::io::FileOutputStream > fos(
       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h: At global scope:
stream.h:319:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:323:20: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   AnfoReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                    ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:345:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:385:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > zos_ ; // final output
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:387:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayOutputStream > aos_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:414:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:416:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ArrayInputStream > ais_ ;  // output to buffer
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:422:23: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   ChunkedReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const std::string& name ) ;
                       ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:747:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:762:21: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   FastqReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, bool solexa_scores, char origin ) :
                     ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:772:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:795:19: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SamReader( std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& n, const string& g ) :
                   ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:806:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:821:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   SffReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name ) :
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:832:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyInputStream > is_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:846:14: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   BamReader( auto_ptr< google::protobuf::io::ZeroCopyInputStream > is, const string& name, const string& genome ) ;
              ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
In file included from file-info.cc:25:0:
stream.h:880:8: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
   std::auto_ptr< google::protobuf::io::ZeroCopyOutputStream > os_ ;
        ^~~~~~~~
In file included from /usr/include/c++/6/memory:81:0,
                 from /usr/include/google/protobuf/descriptor.h:57,
                 from /usr/include/google/protobuf/message.h:122,
                 from output.pb.h:26,
                 from sequence.h:32,
                 from align_fwd.h:5,
                 from file-info.cc:21:
/usr/include/c++/6/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^~~~~~~~
/bin/bash ../libtool  --tag=CXX   --mode=link g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security  -Wl,-z,relro -o file-info file-info.o libanfo.la -lprotobuf -pthread -lpthread -lelk -lbz2 -lz -lpopt 
libtool: link: g++ -pthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -o .libs/file-info file-info.o -pthread  ./.libs/libanfo.so -lprotobuf -lpthread -lelk -lbz2 -lz /usr/lib/arm-linux-gnueabihf/libpopt.so -pthread
echo "; DO NOT EDIT THIS FILE!  EDIT anfo.scm.in AND RUN MAKE INSTEAD!" > anfo.scm
sed -e "s#__LIBDIR__#/usr/lib/arm-linux-gnueabihf#g" < ./anfo.scm.in >> anfo.scm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src'
Making all in man
make[3]: Entering directory '/<<PKGBUILDDIR>>/man'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/man'
make[3]: Entering directory '/<<PKGBUILDDIR>>'
make[3]: Leaving directory '/<<PKGBUILDDIR>>'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   dh_auto_test -a
	make -j1 check VERBOSE=1
make[1]: Entering directory '/<<PKGBUILDDIR>>'
Making check in src
make[2]: Entering directory '/<<PKGBUILDDIR>>/src'
make  check-am
make[3]: Entering directory '/<<PKGBUILDDIR>>/src'
make[3]: Nothing to be done for 'check-am'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
Making check in man
make[2]: Entering directory '/<<PKGBUILDDIR>>/man'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/man'
make[2]: Entering directory '/<<PKGBUILDDIR>>'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
 fakeroot debian/rules binary-arch
dh  binary-arch --with autoreconf
   dh_testroot -a
   dh_prep -a
   dh_auto_install -a
	make -j1 install DESTDIR=/<<PKGBUILDDIR>>/debian/tmp AM_UPDATE_INFO_DIR=no
make[1]: Entering directory '/<<PKGBUILDDIR>>'
Making install in src
make[2]: Entering directory '/<<PKGBUILDDIR>>/src'
make  install-am
make[3]: Entering directory '/<<PKGBUILDDIR>>/src'
make[4]: Entering directory '/<<PKGBUILDDIR>>/src'
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf'
 /bin/bash ../libtool   --mode=install /usr/bin/install -c   libanfo.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/libanfo.so.0.0.0 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libanfo.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libanfo.so.0.0.0 libanfo.so.0 || { rm -f libanfo.so.0 && ln -s libanfo.so.0.0.0 libanfo.so.0; }; })
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libanfo.so.0.0.0 libanfo.so || { rm -f libanfo.so && ln -s libanfo.so.0.0.0 libanfo.so; }; })
libtool: install: /usr/bin/install -c .libs/libanfo.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libanfo.la
libtool: install: /usr/bin/install -c .libs/libanfo.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libanfo.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libanfo.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libanfo.a
libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabihf'
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
  /bin/bash ../libtool   --mode=install /usr/bin/install -c fa2dna dnaindex anfo-tool anfo '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/fa2dna /<<PKGBUILDDIR>>/debian/tmp/usr/bin/fa2dna
libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/dnaindex /<<PKGBUILDDIR>>/debian/tmp/usr/bin/dnaindex
libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/anfo-tool /<<PKGBUILDDIR>>/debian/tmp/usr/bin/anfo-tool
libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/anfo /<<PKGBUILDDIR>>/debian/tmp/usr/bin/anfo
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf'
  /bin/bash ../libtool   --mode=install /usr/bin/install -c index-test file-info '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf'
libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/index-test /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/index-test
libtool: warning: 'libanfo.la' has not been installed in '/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/file-info /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/file-info
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/anfo'
 /usr/bin/install -c -m 644 config.proto output.proto '/<<PKGBUILDDIR>>/debian/tmp/usr/share/anfo'
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/elk'
 /usr/bin/install -c srfi-88.scm srfi-89.scm '/<<PKGBUILDDIR>>/debian/tmp/usr/share/elk'
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/include/anfo'
 /usr/bin/install -c -m 644 align.h align_fwd.h anfo_common.h compress_stream.h concurrent_stream.h conffile.h ducttape.h index.h logdom.h misc_streams.h output_streams.h sequence.h stream.h trim.h util.h '/<<PKGBUILDDIR>>/debian/tmp/usr/include/anfo'
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/elk'
 /usr/bin/install -c anfo.scm '/<<PKGBUILDDIR>>/debian/tmp/usr/share/elk'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
Making install in man
make[2]: Entering directory '/<<PKGBUILDDIR>>/man'
make[3]: Entering directory '/<<PKGBUILDDIR>>/man'
make[3]: Nothing to be done for 'install-exec-am'.
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/man/man1'
 /usr/bin/install -c -m 644 fa2dna.1 dnaindex.1 anfo-sge.1 anfo-tool.1 file-info.1 '/<<PKGBUILDDIR>>/debian/tmp/usr/share/man/man1'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/man'
make[2]: Leaving directory '/<<PKGBUILDDIR>>/man'
make[2]: Entering directory '/<<PKGBUILDDIR>>'
make[3]: Entering directory '/<<PKGBUILDDIR>>'
make[3]: Nothing to be done for 'install-exec-am'.
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/doc/anfo'
 /usr/bin/install -c -m 644  README '/<<PKGBUILDDIR>>/debian/tmp/usr/share/doc/anfo/.'
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/doc/anfo/example'
 /usr/bin/install -c -m 644  example/ancient.cfg example/default.cfg example/split-anfo.scm example/threebam.scm '/<<PKGBUILDDIR>>/debian/tmp/usr/share/doc/anfo/example'
make[3]: Leaving directory '/<<PKGBUILDDIR>>'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   debian/rules override_dh_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
rm `find debian/tmp -name '*.la'`
d-shlibmove --commit \
	    --multiarch \
	    --override s/libpopt0-dev/libpopt-dev/ \
	    --override s/libprotobuf7-dev/libprotobuf-dev/ \
	    --override s/libprotobuf8-dev/libprotobuf-dev/ \
	    --override s/libprotobuf10-dev/libprotobuf-dev/ \
	    --override s/libbz2-1.0-dev/libbz2-dev/ \
	    --movedev debian/tmp/usr/include/* usr/include \
	    debian/tmp/usr/lib/*/libanfo.so
Library package automatic movement utility
 --> libbz2-dev package exists.
 --> libelk0-dev package exists.
 --> libpopt-dev package exists.
 --> libprotobuf-dev package exists.
 --> zlib1g-dev package exists.
set -e
install -d -m 755 debian/libanfo0-dev/usr/lib/arm-linux-gnueabihf
install -d -m 755 debian/libanfo0/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libanfo.a debian/libanfo0-dev/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libanfo.la debian/libanfo0-dev/usr/lib/arm-linux-gnueabihf || true
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libanfo.so debian/libanfo0-dev/usr/lib/arm-linux-gnueabihf
mv /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libanfo.so.0 debian/libanfo0/usr/lib/arm-linux-gnueabihf
mv /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libanfo.so.0.0.0 debian/libanfo0/usr/lib/arm-linux-gnueabihf
PKGDEV=libanfo0-dev
PKGSHL=libanfo0
install -d -m 755 debian/libanfo0-dev/usr/include
mv debian/tmp/usr/include/anfo debian/libanfo0-dev/usr/include
mv: cannot stat 'debian/tmp/usr/lib/arm-linux-gnueabihf/libanfo.la': No such file or directory
dh_install
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   dh_installdocs -a
   dh_installchangelogs -a
   debian/rules override_dh_installman
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_installman
# delete unused manpage
find debian/anfo -name anfo-sge.1 -delete
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   dh_perl -a
   dh_link -a
   dh_strip_nondeterminism -a
   dh_compress -a
   debian/rules override_dh_fixperms
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_fixperms
find debian/anfo -perm -5 -type f \( -name '*.scm' \)  -print0 2>/dev/null | xargs -0r chmod 644	
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   dh_strip -a
   dh_makeshlibs -a
   dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/anfo/usr/bin/anfo contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/anfo/usr/bin/dnaindex contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/anfo/usr/lib/arm-linux-gnueabihf/index-test found in none of the libraries
dpkg-shlibdeps: warning: debian/anfo/usr/bin/anfo-tool contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/anfo/usr/bin/fa2dna contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/anfo/usr/lib/arm-linux-gnueabihf/file-info found in none of the libraries
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/anfo/usr/bin/anfo debian/anfo/usr/bin/dnaindex debian/anfo/usr/lib/arm-linux-gnueabihf/index-test debian/anfo/usr/bin/anfo-tool debian/anfo/usr/bin/fa2dna debian/anfo/usr/lib/arm-linux-gnueabihf/file-info were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/anfo/usr/bin/anfo debian/anfo/usr/bin/dnaindex debian/anfo/usr/lib/arm-linux-gnueabihf/index-test debian/anfo/usr/bin/anfo-tool debian/anfo/usr/bin/fa2dna debian/anfo/usr/lib/arm-linux-gnueabihf/file-info were not linked against libbz2.so.1.0 (they use none of the library's symbols)
dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libanfo0/usr/lib/arm-linux-gnueabihf/libanfo.so.0.0.0 found in none of the libraries
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libanfo0/usr/lib/arm-linux-gnueabihf/libanfo.so.0.0.0 was not linked against libpopt.so.0 (it uses none of the library's symbols)
   dh_installdeb -a
   dh_gencontrol -a
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
   dh_md5sums -a
   dh_builddeb -a
dpkg-deb: building package 'anfo-dbgsym' in '../anfo-dbgsym_0.98-4.1_armhf.deb'.
dpkg-deb: building package 'libanfo0-dbgsym' in '../libanfo0-dbgsym_0.98-4.1_armhf.deb'.
dpkg-deb: building package 'libanfo0-dev' in '../libanfo0-dev_0.98-4.1_armhf.deb'.
dpkg-deb: building package 'anfo' in '../anfo_0.98-4.1_armhf.deb'.
dpkg-deb: building package 'libanfo0' in '../libanfo0_0.98-4.1_armhf.deb'.
 dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../anfo_0.98-4.1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
 dpkg-source --after-build anfo-0.98
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 20160902-2223

Finished
--------

I: Built successfully

+------------------------------------------------------------------------------+
| Post Build Chroot                                                            |
+------------------------------------------------------------------------------+


+------------------------------------------------------------------------------+
| Changes                                                                      |
+------------------------------------------------------------------------------+


anfo_0.98-4.1_armhf.changes:
----------------------------

Format: 1.8
Date: Fri, 02 Sep 2016 15:00:43 +0200
Source: anfo
Binary: anfo libanfo0 libanfo0-dev
Architecture: armhf
Version: 0.98-4.1
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Gianfranco Costamagna <locutusofborg@debian.org>
Description:
 anfo       - Short Read Aligner/Mapper from MPG
 libanfo0   - Library for Short Read Aligner/Mapper from MPG
 libanfo0-dev - Development files for Short Read Aligner/Mapper from MPG
Closes: 835425
Changes:
 anfo (0.98-4.1) unstable; urgency=medium
 .
   * Non-maintainer upload.
   [ Bas Couwenberg ]
   * Fix build with new protobuf (Closes: #835425)
Checksums-Sha1:
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 8642569e7cccb0c55b540d0b4ac5d16f74725cd2 2402376 libanfo0-dbgsym_0.98-4.1_armhf.deb
 9998b58a43a902462d5ddd12efdd47a0e38081c6 310526 libanfo0-dev_0.98-4.1_armhf.deb
 769bda021cfc725fbda9af709ce5b38afe9b3d26 234584 libanfo0_0.98-4.1_armhf.deb
Checksums-Sha256:
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 44f309421d2efb4953884aacb7542ab0c268f1973577b56c0b9137e4f1cd760d 104206 anfo_0.98-4.1_armhf.deb
 4355dff9faf7e1f8068d2071d55ac1de80ee9ef3eedf34de7842fd08e6acb3c4 2402376 libanfo0-dbgsym_0.98-4.1_armhf.deb
 6b0ef9a629e63df1123fa8f6de73fc66634590f5c7ab7143d323a08b6111ac6d 310526 libanfo0-dev_0.98-4.1_armhf.deb
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Files:
 041f8a105e4db6ffa44c0eaf6bbceadc 1017342 debug extra anfo-dbgsym_0.98-4.1_armhf.deb
 a16b60f105d417f4ed7e750dec72fe06 104206 science optional anfo_0.98-4.1_armhf.deb
 73fc315d7135abc66d51241a1bf4cf78 2402376 debug extra libanfo0-dbgsym_0.98-4.1_armhf.deb
 59c4f8dbb448122118d504da467a4126 310526 libdevel optional libanfo0-dev_0.98-4.1_armhf.deb
 9073e557675c524748532113b88f0abd 234584 libs optional libanfo0_0.98-4.1_armhf.deb

+------------------------------------------------------------------------------+
| Package contents                                                             |
+------------------------------------------------------------------------------+


anfo-dbgsym_0.98-4.1_armhf.deb
------------------------------

 new debian package, version 2.0.
 size 1017342 bytes: control archive=766 bytes.
     604 bytes,    13 lines      control              
     636 bytes,     6 lines      md5sums              
 Package: anfo-dbgsym
 Source: anfo
 Version: 0.98-4.1
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 1096
 Depends: anfo (= 0.98-4.1)
 Section: debug
 Priority: extra
 Homepage: http://bioinf.eva.mpg.de/anfo/
 Description: Debug symbols for anfo
 Auto-Built-Package: debug-symbols
 Build-Ids: 0b8ea1a39f04bb8f3710367ddfb0e9abec34c0ea 1cac9c52ece6bc4ad83d1119d3bd81d7e48456d2 773c01eb3b16f48e01fd8574c5799f03928b1d7d 9b822d8e4b9729de1677d9dfb1cc511b7038c6fb b86a714ae9163295181e2d8f31e22d32de697e58 c0f9aa89a24b57708cb7d6727b8003385b560952

drwxr-xr-x root/root         0 2016-09-02 13:00 ./
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/debug/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/debug/.build-id/0b/
-rw-r--r-- root/root    212612 2016-09-02 13:00 ./usr/lib/debug/.build-id/0b/8ea1a39f04bb8f3710367ddfb0e9abec34c0ea.debug
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/debug/.build-id/1c/
-rw-r--r-- root/root    143708 2016-09-02 13:00 ./usr/lib/debug/.build-id/1c/ac9c52ece6bc4ad83d1119d3bd81d7e48456d2.debug
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/debug/.build-id/77/
-rw-r--r-- root/root    130208 2016-09-02 13:00 ./usr/lib/debug/.build-id/77/3c01eb3b16f48e01fd8574c5799f03928b1d7d.debug
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/debug/.build-id/9b/
-rw-r--r-- root/root     88684 2016-09-02 13:00 ./usr/lib/debug/.build-id/9b/822d8e4b9729de1677d9dfb1cc511b7038c6fb.debug
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/debug/.build-id/b8/
-rw-r--r-- root/root    127548 2016-09-02 13:00 ./usr/lib/debug/.build-id/b8/6a714ae9163295181e2d8f31e22d32de697e58.debug
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/debug/.build-id/c0/
-rw-r--r-- root/root    401256 2016-09-02 13:00 ./usr/lib/debug/.build-id/c0/f9aa89a24b57708cb7d6727b8003385b560952.debug
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/doc/
lrwxrwxrwx root/root         0 2016-09-02 13:00 ./usr/share/doc/anfo-dbgsym -> anfo


anfo_0.98-4.1_armhf.deb
-----------------------

 new debian package, version 2.0.
 size 104206 bytes: control archive=1457 bytes.
     869 bytes,    16 lines      control              
    1538 bytes,    24 lines      md5sums              
 Package: anfo
 Version: 0.98-4.1
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 340
 Depends: libanfo0, libbz2-1.0, libc6 (>= 2.4), libelk0, libgcc1 (>= 1:3.5), libpopt0 (>= 1.14), libprotobuf10, libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4)
 Section: science
 Priority: optional
 Homepage: http://bioinf.eva.mpg.de/anfo/
 Description: Short Read Aligner/Mapper from MPG
  Anfo is a mapper in the spirit of Soap/Maq/Bowtie, but its implementation takes
  more after BLAST/BLAT. It's most useful for the alignment of sequencing reads
  where the DNA sequence is somehow modified (think ancient DNA or bisulphite
  treatment) and/or there is more divergence between sample and reference than
  what fast mappers will handle gracefully (say the reference genome is missing
  and a related species is used instead).

drwxr-xr-x root/root         0 2016-09-02 13:00 ./
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/bin/
-rwxr-xr-x root/root     34700 2016-09-02 13:00 ./usr/bin/anfo
-rwxr-xr-x root/root    104460 2016-09-02 13:00 ./usr/bin/anfo-tool
-rwxr-xr-x root/root     42840 2016-09-02 13:00 ./usr/bin/dnaindex
-rwxr-xr-x root/root     30532 2016-09-02 13:00 ./usr/bin/fa2dna
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/arm-linux-gnueabihf/
-rwxr-xr-x root/root     18200 2016-09-02 13:00 ./usr/lib/arm-linux-gnueabihf/file-info
-rwxr-xr-x root/root     26424 2016-09-02 13:00 ./usr/lib/arm-linux-gnueabihf/index-test
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/anfo/
-rw-r--r-- root/root      6784 2016-09-02 13:00 ./usr/share/anfo/config.proto
-rw-r--r-- root/root     14546 2016-09-02 13:00 ./usr/share/anfo/output.proto
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/doc/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/doc/anfo/
-rw-r--r-- root/root       911 2014-01-16 14:46 ./usr/share/doc/anfo/README.Debian
-rw-r--r-- root/root      2441 2016-09-02 13:00 ./usr/share/doc/anfo/README.gz
-rw-r--r-- root/root       803 2016-09-02 13:00 ./usr/share/doc/anfo/changelog.Debian.gz
-rw-r--r-- root/root      2544 2014-01-09 12:50 ./usr/share/doc/anfo/copyright
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/doc/anfo/example/
-rw-r--r-- root/root      1807 2016-09-02 13:00 ./usr/share/doc/anfo/example/ancient.cfg
-rw-r--r-- root/root      2056 2016-09-02 13:00 ./usr/share/doc/anfo/example/default.cfg
-rw-r--r-- root/root       521 2016-09-02 13:00 ./usr/share/doc/anfo/example/split-anfo.scm
-rw-r--r-- root/root       567 2016-09-02 13:00 ./usr/share/doc/anfo/example/threebam.scm
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/elk/
-rw-r--r-- root/root      9717 2016-09-02 13:00 ./usr/share/elk/anfo.scm
-rw-r--r-- root/root      2593 2016-09-02 13:00 ./usr/share/elk/srfi-88.scm
-rw-r--r-- root/root     12138 2016-09-02 13:00 ./usr/share/elk/srfi-89.scm
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/man/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/man/man1/
-rw-r--r-- root/root      4029 2016-09-02 13:00 ./usr/share/man/man1/anfo-tool.1.gz
-rw-r--r-- root/root      1616 2016-09-02 13:00 ./usr/share/man/man1/anfo.1.gz
-rw-r--r-- root/root      1684 2016-09-02 13:00 ./usr/share/man/man1/dnaindex.1.gz
-rw-r--r-- root/root      1202 2016-09-02 13:00 ./usr/share/man/man1/fa2dna.1.gz
-rw-r--r-- root/root       634 2016-09-02 13:00 ./usr/share/man/man1/file-info.1.gz


libanfo0-dbgsym_0.98-4.1_armhf.deb
----------------------------------

 new debian package, version 2.0.
 size 2402376 bytes: control archive=488 bytes.
     411 bytes,    13 lines      control              
     106 bytes,     1 lines      md5sums              
 Package: libanfo0-dbgsym
 Source: anfo
 Version: 0.98-4.1
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 2524
 Depends: libanfo0 (= 0.98-4.1)
 Section: debug
 Priority: extra
 Homepage: http://bioinf.eva.mpg.de/anfo/
 Description: Debug symbols for libanfo0
 Auto-Built-Package: debug-symbols
 Build-Ids: c9d42787c3b03d0ed2bf60e872613877d5187848

drwxr-xr-x root/root         0 2016-09-02 13:00 ./
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/debug/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/debug/.build-id/c9/
-rw-r--r-- root/root   2574208 2016-09-02 13:00 ./usr/lib/debug/.build-id/c9/d42787c3b03d0ed2bf60e872613877d5187848.debug
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/doc/
lrwxrwxrwx root/root         0 2016-09-02 13:00 ./usr/share/doc/libanfo0-dbgsym -> libanfo0


libanfo0-dev_0.98-4.1_armhf.deb
-------------------------------

 new debian package, version 2.0.
 size 310526 bytes: control archive=1346 bytes.
    1011 bytes,    22 lines      control              
    1166 bytes,    18 lines      md5sums              
 Package: libanfo0-dev
 Source: anfo
 Version: 0.98-4.1
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 1718
 Depends: libanfo0 (= 0.98-4.1), libbz2-dev, libelk0-dev, libpopt-dev, libprotobuf-dev, zlib1g-dev
 Conflicts: libanfo-dev
 Provides: libanfo-dev
 Section: libdevel
 Priority: optional
 Homepage: http://bioinf.eva.mpg.de/anfo/
 Description: Development files for Short Read Aligner/Mapper from MPG
  Anfo is a mapper in the spirit of Soap/Maq/Bowtie, but its implementation takes
  more after BLAST/BLAT. It's most useful for the alignment of sequencing reads
  where the DNA sequence is somehow modified (think ancient DNA or bisulphite
  treatment) and/or there is more divergence between sample and reference than
  what fast mappers will handle gracefully (say the reference genome is missing
  and a related species is used instead).
  .
  This package contains the development files that might be used in connection
  with the anfo binaries.

drwxr-xr-x root/root         0 2016-09-02 13:00 ./
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/include/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/include/anfo/
-rw-r--r-- root/root     14361 2016-09-02 13:00 ./usr/include/anfo/align.h
-rw-r--r-- root/root      2595 2016-09-02 13:00 ./usr/include/anfo/align_fwd.h
-rw-r--r-- root/root      3399 2016-09-02 13:00 ./usr/include/anfo/anfo_common.h
-rw-r--r-- root/root     11973 2016-09-02 13:00 ./usr/include/anfo/compress_stream.h
-rw-r--r-- root/root      4906 2016-09-02 13:00 ./usr/include/anfo/concurrent_stream.h
-rw-r--r-- root/root      2979 2016-09-02 13:00 ./usr/include/anfo/conffile.h
-rw-r--r-- root/root      5051 2016-09-02 13:00 ./usr/include/anfo/ducttape.h
-rw-r--r-- root/root     17630 2016-09-02 13:00 ./usr/include/anfo/index.h
-rw-r--r-- root/root      5881 2016-09-02 13:00 ./usr/include/anfo/logdom.h
-rw-r--r-- root/root     22028 2016-09-02 13:00 ./usr/include/anfo/misc_streams.h
-rw-r--r-- root/root      5942 2016-09-02 13:00 ./usr/include/anfo/output_streams.h
-rw-r--r-- root/root     14774 2016-09-02 13:00 ./usr/include/anfo/sequence.h
-rw-r--r-- root/root     30889 2016-09-02 13:00 ./usr/include/anfo/stream.h
-rw-r--r-- root/root      5292 2016-09-02 13:00 ./usr/include/anfo/trim.h
-rw-r--r-- root/root      9473 2016-09-02 13:00 ./usr/include/anfo/util.h
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root   1578496 2016-09-02 13:00 ./usr/lib/arm-linux-gnueabihf/libanfo.a
lrwxrwxrwx root/root         0 2016-09-02 13:00 ./usr/lib/arm-linux-gnueabihf/libanfo.so -> libanfo.so.0.0.0
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/doc/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/doc/libanfo0-dev/
-rw-r--r-- root/root       803 2016-09-02 13:00 ./usr/share/doc/libanfo0-dev/changelog.Debian.gz
-rw-r--r-- root/root      2544 2014-01-09 12:50 ./usr/share/doc/libanfo0-dev/copyright


libanfo0_0.98-4.1_armhf.deb
---------------------------

 new debian package, version 2.0.
 size 234584 bytes: control archive=988 bytes.
     954 bytes,    19 lines      control              
     223 bytes,     3 lines      md5sums              
      19 bytes,     1 lines      shlibs               
      60 bytes,     2 lines      triggers             
 Package: libanfo0
 Source: anfo
 Version: 0.98-4.1
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 781
 Depends: libbz2-1.0, libc6 (>= 2.4), libelk0, libgcc1 (>= 1:3.5), libpopt0 (>= 1.14), libprotobuf10, libstdc++6 (>= 5.2), zlib1g (>= 1:1.2.0)
 Section: libs
 Priority: optional
 Homepage: http://bioinf.eva.mpg.de/anfo/
 Description: Library for Short Read Aligner/Mapper from MPG
  Anfo is a mapper in the spirit of Soap/Maq/Bowtie, but its implementation takes
  more after BLAST/BLAT. It's most useful for the alignment of sequencing reads
  where the DNA sequence is somehow modified (think ancient DNA or bisulphite
  treatment) and/or there is more divergence between sample and reference than
  what fast mappers will handle gracefully (say the reference genome is missing
  and a related species is used instead).
  .
  This package contains the dynamic library for the anfo binaries.

drwxr-xr-x root/root         0 2016-09-02 13:00 ./
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/lib/arm-linux-gnueabihf/
lrwxrwxrwx root/root         0 2016-09-02 13:00 ./usr/lib/arm-linux-gnueabihf/libanfo.so.0 -> libanfo.so.0.0.0
-rw-r--r-- root/root    784340 2016-09-02 13:00 ./usr/lib/arm-linux-gnueabihf/libanfo.so.0.0.0
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/doc/
drwxr-xr-x root/root         0 2016-09-02 13:00 ./usr/share/doc/libanfo0/
-rw-r--r-- root/root       803 2016-09-02 13:00 ./usr/share/doc/libanfo0/changelog.Debian.gz
-rw-r--r-- root/root      2544 2014-01-09 12:50 ./usr/share/doc/libanfo0/copyright


+------------------------------------------------------------------------------+
| Post Build                                                                   |
+------------------------------------------------------------------------------+


+------------------------------------------------------------------------------+
| Cleanup                                                                      |
+------------------------------------------------------------------------------+

Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use

+------------------------------------------------------------------------------+
| Summary                                                                      |
+------------------------------------------------------------------------------+

Build Architecture: armhf
Build-Space: 79624
Build-Time: 1295
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 331
Job: anfo_0.98-4.1
Machine Architecture: armhf
Package: anfo
Package-Time: 1670
Source-Version: 0.98-4.1
Space: 79624
Status: successful
Version: 0.98-4.1
--------------------------------------------------------------------------------
Finished at 20160902-2223
Build needed 00:27:50, 79624k disc space