libvcflib →
1.0.1+dfsg-2+b2 →
armhf → 2020-01-25 12:57:51
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-02
+==============================================================================+
| libvcflib 1.0.1+dfsg-2+b2 (armhf) Sat, 25 Jan 2020 11:05:31 +0000 |
+==============================================================================+
Package: libvcflib
Version: 1.0.1+dfsg-2+b2
Source Version: 1.0.1+dfsg-2
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bullseye-staging-armhf-sbuild-48d1451a-5116-4588-a79f-b51da8254fbb' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [11.5 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.8 MB]
Fetched 24.3 MB in 1min 48s (225 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: 'libvcflib' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/libvcflib.git
Please use:
git clone https://salsa.debian.org/med-team/libvcflib.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 7543 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main libvcflib 1.0.1+dfsg-2 (dsc) [2311 B]
Get:2 http://172.17.0.1/private bullseye-staging/main libvcflib 1.0.1+dfsg-2 (tar) [7528 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main libvcflib 1.0.1+dfsg-2 (diff) [12.4 kB]
Fetched 7543 kB in 2s (3681 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/libvcflib-4gx1Lo/libvcflib-1.0.1+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/libvcflib-4gx1Lo' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-erkXJB/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-erkXJB/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-erkXJB/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ Packages [432 B]
Fetched 2108 B in 11s (196 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
netbase
Use 'apt autoremove' to remove it.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 2 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 848 B in 3s (272 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12210 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), dh-exec, markdown, libtabixpp-dev, libbz2-dev, libdisorder-dev, libsmithwaterman-dev (>= 0.0+20160702-2), libssw-dev, libfastahack-dev (>= 0.0+git20160702.bbc645f+dfsg-5~), pkg-config, libipc-run3-perl
Filtered Build-Depends: debhelper-compat (= 12), dh-exec, markdown, libtabixpp-dev, libbz2-dev, libdisorder-dev, libsmithwaterman-dev (>= 0.0+20160702-2), libssw-dev, libfastahack-dev (>= 0.0+git20160702.bbc645f+dfsg-5~), pkg-config, libipc-run3-perl
dpkg-deb: building package 'sbuild-build-depends-libvcflib-dummy' in '/<<BUILDDIR>>/resolver-erkXJB/apt_archive/sbuild-build-depends-libvcflib-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-libvcflib-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ Sources [608 B]
Get:5 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ Packages [693 B]
Fetched 2634 B in 12s (215 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install libvcflib build dependencies (apt-based resolver)
---------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
netbase
Use 'apt autoremove' to remove it.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-exec dh-strip-nondeterminism dwz file gettext gettext-base
groff-base intltool-debian libarchive-zip-perl libbrotli1 libbsd0 libbz2-dev
libcroco3 libcurl3-gnutls libdebhelper-perl libdeflate0 libdisorder-dev
libdisorder0 libelf1 libfastahack-dev libfastahack0
libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libhts-dev
libhts3 libicu63 libipc-run3-perl libk5crypto3 libkeyutils1 libkrb5-3
libkrb5support0 liblzma-dev libmagic-mgc libmagic1 libnghttp2-14
libpipeline1 libpsl5 librtmp1 libsigsegv2 libsmithwaterman-dev
libsmithwaterman0 libssh2-1 libssl1.1 libssw-dev libssw0
libsub-override-perl libtabixpp-dev libtabixpp0 libtinfo5 libtool
libuchardet0 libxml2 m4 man-db markdown pkg-config po-debconf sensible-utils
zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff krb5-doc
krb5-user liblzma-doc libtool-doc gfortran | fortran95-compiler gcj-jdk
m4-doc apparmor less www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx bzip2-doc ca-certificates libarchive-cpio-perl
libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales publicsuffix
libltdl-dev libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-exec dh-strip-nondeterminism dwz file gettext gettext-base
groff-base intltool-debian libarchive-zip-perl libbrotli1 libbsd0 libbz2-dev
libcroco3 libcurl3-gnutls libdebhelper-perl libdeflate0 libdisorder-dev
libdisorder0 libelf1 libfastahack-dev libfastahack0
libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libhts-dev
libhts3 libicu63 libipc-run3-perl libk5crypto3 libkeyutils1 libkrb5-3
libkrb5support0 liblzma-dev libmagic-mgc libmagic1 libnghttp2-14
libpipeline1 libpsl5 librtmp1 libsigsegv2 libsmithwaterman-dev
libsmithwaterman0 libssh2-1 libssl1.1 libssw-dev libssw0
libsub-override-perl libtabixpp-dev libtabixpp0 libtinfo5 libtool
libuchardet0 libxml2 m4 man-db markdown pkg-config po-debconf
sbuild-build-depends-libvcflib-dummy sensible-utils zlib1g-dev
0 upgraded, 68 newly installed, 0 to remove and 2 not upgraded.
Need to get 27.4 MB of archives.
After this operation, 83.7 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-erkXJB/apt_archive ./ sbuild-build-depends-libvcflib-dummy 0.invalid.0 [976 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.1+20191019-1 [316 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-4 [783 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.2-2 [29.6 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.0-2 [1261 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-3 [262 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-3 [112 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-3 [66.8 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.1-4 [771 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-11 [547 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 12.7.3 [174 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.67-1 [104 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.6.3-2 [23.7 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.6.3-2 [14.7 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.62.4-1 [1138 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-2 [7974 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.4+dfsg1-8 [593 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 12.7.3 [1019 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf dh-exec armhf 0.23.2 [25.3 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.7-6 [261 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libbz2-dev armhf 1.0.8-2 [27.7 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libkeyutils1 armhf 1.6-6 [14.0 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf libkrb5support0 armhf 1.17-6+b1 [61.5 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf libk5crypto3 armhf 1.17-6+b1 [112 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1d-2 [1268 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libkrb5-3 armhf 1.17-6+b1 [316 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf libgssapi-krb5-2 armhf 1.17-6+b1 [134 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libnghttp2-14 armhf 1.40.0-1 [73.9 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf libpsl5 armhf 0.20.2-2 [52.6 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b1 [54.3 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libssh2-1 armhf 1.8.0-2.1 [126 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf libcurl3-gnutls armhf 7.67.0-2 [284 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libdeflate0 armhf 1.5-1 [78.0 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf libdisorder0 armhf 0.0.2+git20130809.8062ee1-1 [4568 B]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf libdisorder-dev armhf 0.0.2+git20130809.8062ee1-1 [4156 B]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf libfastahack0 armhf 1.0.0+dfsg-5 [20.1 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libfastahack-dev armhf 1.0.0+dfsg-5 [23.6 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf libhts3 armhf 1.10.2-2 [327 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf liblzma-dev armhf 5.2.4-1 [203 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [206 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf libhts-dev armhf 1.10.2-2 [4784 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf libipc-run3-perl all 0.048-1 [37.8 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf libsmithwaterman0 armhf 0.0+git20160702.2610e25-7 [30.5 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libsmithwaterman-dev armhf 0.0+git20160702.2610e25-7 [34.3 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libssw0 armhf 1.1-7 [19.8 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libssw-dev armhf 1.1-7 [23.3 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf libtabixpp0 armhf 1.1.0-1+b1 [8336 B]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf libtabixpp-dev armhf 1.1.0-1+b1 [7884 B]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf markdown all 1.0.1-10 [17.4 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf pkg-config armhf 0.29-6 [59.8 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Setting up libpipeline1:armhf (1.5.2-2) ...
Setting up libdisorder0:armhf (0.0.2+git20130809.8062ee1-1) ...
Setting up libkeyutils1:armhf (1.6-6) ...
Setting up libpsl5:armhf (0.20.2-2) ...
Setting up libmagic-mgc (1:5.38-3) ...
Setting up libarchive-zip-perl (1.67-1) ...
Setting up libglib2.0-0:armhf (2.62.4-1) ...
No schema files found: doing nothing.
Setting up libssl1.1:armhf (1.1.1d-2) ...
Setting up libdebhelper-perl (12.7.3) ...
Setting up libbrotli1:armhf (1.0.7-6) ...
Setting up libsmithwaterman0 (0.0+git20160702.2610e25-7) ...
Setting up libnghttp2-14:armhf (1.40.0-1) ...
Setting up libmagic1:armhf (1:5.38-3) ...
Setting up libdeflate0 (1.5-1) ...
Setting up gettext-base (0.19.8.1-10) ...
Setting up file (1:5.38-3) ...
Setting up libfastahack0 (1.0.0+dfsg-5) ...
Setting up libicu63:armhf (63.2-2) ...
Setting up libkrb5support0:armhf (1.17-6+b1) ...
Setting up libfastahack-dev (1.0.0+dfsg-5) ...
Setting up autotools-dev (20180224.1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b1) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up autopoint (0.19.8.1-10) ...
Setting up pkg-config (0.29-6) ...
Setting up libk5crypto3:armhf (1.17-6+b1) ...
Setting up libdisorder-dev:armhf (0.0.2+git20130809.8062ee1-1) ...
Setting up liblzma-dev:armhf (5.2.4-1) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1) ...
Setting up sensible-utils (0.0.12+nmu1) ...
Setting up libuchardet0:armhf (0.0.6-3) ...
Setting up libipc-run3-perl (0.048-1) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libssh2-1:armhf (1.8.0-2.1) ...
Setting up libkrb5-3:armhf (1.17-6+b1) ...
Setting up libbsd0:armhf (0.10.0-1) ...
Setting up libtinfo5:armhf (6.1+20191019-1) ...
Setting up libelf1:armhf (0.176-1.1) ...
Setting up libssw0:armhf (1.1-7) ...
Setting up libxml2:armhf (2.9.4+dfsg1-8) ...
Setting up markdown (1.0.1-10) ...
Setting up libbz2-dev:armhf (1.0.8-2) ...
Setting up libfile-stripnondeterminism-perl (1.6.3-2) ...
Setting up libssw-dev:armhf (1.1-7) ...
Setting up libtool (2.4.6-11) ...
Setting up m4 (1.4.18-4) ...
Setting up bsdmainutils (11.1.2) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up libgssapi-krb5-2:armhf (1.17-6+b1) ...
Setting up libcroco3:armhf (0.6.13-1) ...
Setting up libsmithwaterman-dev (0.0+git20160702.2610e25-7) ...
Setting up autoconf (2.69-11) ...
Setting up dh-strip-nondeterminism (1.6.3-2) ...
Setting up dwz (0.13-5) ...
Setting up groff-base (1.22.4-4) ...
Setting up automake (1:1.16.1-4) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up gettext (0.19.8.1-10) ...
Setting up libcurl3-gnutls:armhf (7.67.0-2) ...
Setting up man-db (2.9.0-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libhts3:armhf (1.10.2-2) ...
Setting up po-debconf (1.0.21) ...
Setting up libhts-dev:armhf (1.10.2-2) ...
Setting up libtabixpp0:armhf (1.1.0-1+b1) ...
Setting up libtabixpp-dev:armhf (1.1.0-1+b1) ...
Setting up dh-autoreconf (19) ...
Setting up debhelper (12.7.3) ...
Setting up dh-exec (0.23.2) ...
Setting up sbuild-build-depends-libvcflib-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.29-7+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.6-armmp armhf (armv7l)
Toolchain package versions: binutils_2.33.1-6+rpi1 dpkg-dev_1.19.7 g++-9_9.2.1-22+rpi1 gcc-9_9.2.1-22+rpi1 libc6-dev_2.29-7+rpi1 libstdc++-9-dev_9.2.1-22+rpi1 libstdc++6_9.2.1-22+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2
Package versions: adduser_3.118 apt_1.8.4 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.47 bash_5.0-5 binutils_2.33.1-6+rpi1 binutils-arm-linux-gnueabihf_2.33.1-6+rpi1 binutils-common_2.33.1-6+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 coreutils_8.30-3 cpp_4:9.2.1-3.1+rpi1 cpp-9_9.2.1-22+rpi1 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.7.3 debianutils_4.9.1 dh-autoreconf_19 dh-exec_0.23.2 dh-strip-nondeterminism_1.6.3-2 diffutils_1:3.7-3 dirmngr_2.2.19-1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.5-2 fakeroot_1.24-1 fdisk_2.34-0.1 file_1:5.38-3 findutils_4.7.0-1 g++_4:9.2.1-3.1+rpi1 g++-9_9.2.1-22+rpi1 gcc_4:9.2.1-3.1+rpi1 gcc-6-base_6.5.0-1+rpi3 gcc-7-base_7.5.0-3+b1 gcc-8-base_8.3.0-26+rpi1 gcc-9_9.2.1-22+rpi1 gcc-9-base_9.2.1-22+rpi1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.19-1 gnupg-l10n_2.2.19-1 gnupg-utils_2.2.19-1 gpg_2.2.19-1 gpg-agent_2.2.19-1 gpg-wks-client_2.2.19-1 gpg-wks-server_2.2.19-1 gpgconf_2.2.19-1 gpgsm_2.2.19-1 gpgv_2.2.19-1 grep_3.3-1 groff-base_1.22.4-4 gzip_1.9-3 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-5 libapt-pkg5.0_1.8.4 libarchive-zip-perl_1.67-1 libasan5_9.2.1-22+rpi1 libassuan0_2.5.3-7 libatomic1_9.2.1-22+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2+b1 libbinutils_2.33.1-6+rpi1 libblkid1_2.34-0.1 libbrotli1_1.0.7-6 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libbz2-dev_1.0.8-2 libc-bin_2.29-7+rpi1 libc-dev-bin_2.29-7+rpi1 libc6_2.29-7+rpi1 libc6-dev_2.29-7+rpi1 libcap-ng0_0.7.9-2.1 libcc1-0_9.2.1-22+rpi1 libcom-err2_1.45.5-2 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.10-10+b5 libcrypt1_1:4.4.10-10+b5 libcurl3-gnutls_7.67.0-2 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.250 libdebhelper-perl_12.7.3 libdeflate0_1.5-1 libdisorder-dev_0.0.2+git20130809.8062ee1-1 libdisorder0_0.0.2+git20130809.8062ee1-1 libdpkg-perl_1.19.7 libelf1_0.176-1.1 libext2fs2_1.45.5-2 libfakeroot_1.24-1 libfastahack-dev_1.0.0+dfsg-5 libfastahack0_1.0.0+dfsg-5 libfdisk1_2.34-0.1 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.6.3-2 libgcc-9-dev_9.2.1-22+rpi1 libgcc1_1:9.2.1-22+rpi1 libgcrypt20_1.8.5-3 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.62.4-1 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.11.1-2 libgomp1_9.2.1-22+rpi1 libgpg-error0_1.36-7 libgssapi-krb5-2_1.17-6+b1 libhogweed5_3.5.1+really3.5.1-2 libhts-dev_1.10.2-2 libhts3_1.10.2-2 libicu63_63.2-2 libidn2-0_2.2.0-2 libipc-run3-perl_0.048-1 libisl22_0.22-2 libk5crypto3_1.17-6+b1 libkeyutils1_1.6-6 libkrb5-3_1.17-6+b1 libkrb5support0_1.17-6+b1 libksba8_1.3.5-2 libldap-2.4-2_2.4.48+dfsg-1+b2 libldap-common_2.4.48+dfsg-1 liblocale-gettext-perl_1.07-4 liblz4-1_1.9.2-2 liblzma-dev_5.2.4-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.38-3 libmagic1_1:5.38-3 libmount1_2.34-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncursesw6_6.1+20191019-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1 libnpth0_1.6-1 libp11-kit0_0.23.18.1-2 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12 libperl5.30_5.30.0-9 libpipeline1_1.5.2-2 libpsl5_0.20.2-2 libreadline8_8.0-3 librtmp1_2.4+20151223.gitfa8646d.1-2+b1 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.2-2+rpi1 libselinux1_3.0-1 libsemanage-common_3.0-1 libsemanage1_3.0-1 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1 libsmithwaterman-dev_0.0+git20160702.2610e25-7 libsmithwaterman0_0.0+git20160702.2610e25-7 libsqlite3-0_3.30.1+fossil191229-1 libss2_1.45.5-2 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1d-2 libssw-dev_1.1-7 libssw0_1.1-7 libstdc++-9-dev_9.2.1-22+rpi1 libstdc++6_9.2.1-22+rpi1 libsub-override-perl_0.09-2 libsystemd0_244-3+rpi1+b1 libtabixpp-dev_1.1.0-1+b1 libtabixpp0_1.1.0-1+b1 libtasn1-6_4.15.0-2 libtext-charwidth-perl_0.04-10 libtext-iconv-perl_1.7-7 libtinfo5_6.1+20191019-1 libtinfo6_6.1+20191019-1 libtool_2.4.6-11 libubsan1_9.2.1-22+rpi1 libuchardet0_0.0.6-3 libudev1_244-3+rpi1+b1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libxml2_2.9.4+dfsg1-8 libzstd1_1.4.4+dfsg-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.8-1 logsave_1.45.5-2 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-2 markdown_1.0.1-10 mawk_1.3.3-17 mount_2.34-0.1 ncurses-base_6.1+20191019-1 ncurses-bin_6.1+20191019-1 netbase_6.0 passwd_1:4.8-1 patch_2.7.6-6 perl_5.30.0-9 perl-base_5.30.0-9 perl-modules-5.30_5.30.0-9 pinentry-curses_1.1.0-3 pkg-config_0.29-6 po-debconf_1.0.21 raspbian-archive-keyring_20120528.2 readline-common_8.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-libvcflib-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-1 tar_1.30+dfsg-6 tzdata_2019c-3 util-linux_2.34-0.1 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Thu Dec 26 14:55:40 2019 UTC
gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./libvcflib_1.0.1+dfsg-2.dsc
dpkg-source: info: extracting libvcflib in /<<BUILDDIR>>/libvcflib-1.0.1+dfsg
dpkg-source: info: unpacking libvcflib_1.0.1+dfsg.orig.tar.xz
dpkg-source: info: unpacking libvcflib_1.0.1+dfsg-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying no_fsom
dpkg-source: info: applying use_debian_packaged_tabixpp.patch
dpkg-source: info: applying use_debian_packaged_smithwaterman.patch
dpkg-source: info: applying use_debian_packaged_fastahack.patch
dpkg-source: info: applying use_debian_packaged_libssw.patch
dpkg-source: info: applying shared_lib.patch
dpkg-source: info: applying pkg-config.patch
dpkg-source: info: applying fix_ssw_cpp_header_name.patch
dpkg-source: info: applying dont_link_pthread
dpkg-source: info: applying override_version
dpkg-source: info: applying hardening-flags
dpkg-source: info: applying no_libVCFH
dpkg-source: info: applying disorder_include
Check disc space
----------------
Sufficient free space for build
Hack binNMU version
-------------------
Created changelog entry for binNMU version 1.0.1+dfsg-2+b2
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-48d1451a-5116-4588-a79f-b51da8254fbb
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package libvcflib
dpkg-buildpackage: info: source version 1.0.1+dfsg-2+b2
dpkg-buildpackage: info: source distribution bullseye-staging
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_auto_clean
make -j4 clean
make[1]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
rm -f bin/vcfecho bin/vcfnormalizesvs bin/dumpContigsFromHeader bin/bFst bin/pVst bin/hapLrt bin/popStats bin/wcFst bin/iHS bin/segmentFst bin/segmentIhs bin/genotypeSummary bin/sequenceDiversity bin/pFst bin/smoother bin/vcfld bin/plotHaps bin/abba-baba bin/permuteGPAT++ bin/permuteSmooth bin/normalize-iHS bin/meltEHH bin/vcfaltcount bin/vcfhetcount bin/vcfhethomratio bin/vcffilter bin/vcf2tsv bin/vcfgenotypes bin/vcfannotategenotypes bin/vcfcommonsamples bin/vcfremovesamples bin/vcfkeepsamples bin/vcfsamplenames bin/vcfgenotypecompare bin/vcffixup bin/vcfclassify bin/vcfsamplediff bin/vcfremoveaberrantgenotypes bin/vcfrandom bin/vcfparsealts bin/vcfstats bin/vcfflatten bin/vcfprimers bin/vcfnumalt bin/vcfcleancomplex bin/vcfintersect bin/vcfannotate bin/vcfallelicprimitives bin/vcfoverlay bin/vcfaddinfo bin/vcfkeepinfo bin/vcfkeepgeno bin/vcfafpath bin/vcfcountalleles bin/vcflength bin/vcfdistance bin/vcfrandomsample bin/vcfentropy bin/vcfglxgt bin/vcfroc bin/vcfcheck bin/vcfstreamsort bin/vcfuniq bin/vcfuniqalleles bin/vcfremap bin/vcf2fasta bin/vcfsitesummarize bin/vcfbreakmulti bin/vcfcreatemulti bin/vcfevenregions bin/vcfcat bin/vcfgenosummarize bin/vcfgenosamplenames bin/vcfgeno2haplo bin/vcfleftalign bin/vcfcombine bin/vcfgeno2alleles bin/vcfindex bin/vcf2dag bin/vcfsample2info bin/vcfqual2info bin/vcfinfo2qual bin/vcfglbound bin/vcfunphase bin/vcfnull2ref bin/vcfinfosummarize src/Variant.o src/rnglib.o src/var.o src/pdflib.o src/cdflib.o src/split.o
rm -f libvcflib.so*
rm -f -r bin
rm -f -r lib
rm -f -r include
rm -f -r obj
make clean -C multichoose
make[2]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/multichoose'
rm -f cmultichoose
rm -f multichoose
rm -f multipermute
make[2]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/multichoose'
make clean -C test
make[2]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/test'
rm -f tests/main
make[2]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/test'
make clean -C filevercmp
make[2]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/filevercmp'
rm -f filevercmp
rm -f filevercmp.o
make[2]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/filevercmp'
make clean -C intervaltree
make[2]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/intervaltree'
rm -rf interval_tree_test stage
make[2]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/intervaltree'
make[1]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
debian/rules override_dh_clean
make[1]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
dh_clean
find . -name "*.o" -delete
make[1]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
debian/rules build-arch
dh build-arch
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
dh_auto_build
make -j4 "INSTALL=install --strip-program=true"
make[2]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
if [ ! -d bin ]; then mkdir -p bin; fi
if [ ! -d lib ]; then mkdir -p lib; fi
if [ ! -d include ]; then mkdir -p include; fi
if [ ! -d obj ]; then mkdir -p obj; fi
cd multichoose && LDFLAGS="-Wl,-z,relro -Wl,-z,now" make && cp -f *.h* /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/include/
cd filevercmp && LDFLAGS="-Wl,-z,relro -Wl,-z,now" make && cp -f *.h* /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/include/ && cp -f *.o /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/include/
cd intervaltree && LDFLAGS="-Wl,-z,relro -Wl,-z,now" make && cp -f *.h* /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/include/
make[3]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/multichoose'
g++ -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now multichoose.cpp -o multichoose
make[3]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/intervaltree'
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -Wall -Wl,-z,relro -Wl,-z,now -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm interval_tree_test.cpp -std=c++0x -o interval_tree_test
make[3]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/filevercmp'
cc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c filevercmp.c
g++ -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now multipermute.cpp -o multipermute
cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o filevercmp main.c filevercmp.o
make[3]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/filevercmp'
make[3]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/multichoose'
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -c -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/Variant.o src/Variant.cpp -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm && cp -f src/*.h* /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/include/
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -c -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/rnglib.o src/rnglib.cpp -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm && cp -f src/*.h* /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/include/
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -c -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/var.o src/var.cpp -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm && cp -f src/*.h* /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/include/
In file included from /usr/include/c++/9/vector:72,
from src/var.hpp:8,
from src/var.cpp:2:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -c -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/pdflib.o src/pdflib.cpp -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm && cp -f src/*.h* /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/include/
/usr/include/c++/9/bits/vector.tcc: In member function 'virtual void genotype::loadPop(std::vector<std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > > >&, std::string, long int)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/var.hpp:8,
from src/var.cpp:2:
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from src/var.hpp:8,
from src/var.cpp:2:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/var.hpp:8,
from src/var.cpp:2:
/usr/include/c++/9/bits/stl_vector.h: In member function 'virtual void pooled::loadPop(std::vector<std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > > >&, std::string, long int)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from src/var.hpp:8,
from src/var.cpp:2:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -c -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/cdflib.o src/cdflib.cpp -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm && cp -f src/*.h* /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/include/
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -c -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/split.o src/split.cpp -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm && cp -f src/*.h* /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/include/
In file included from /usr/include/c++/9/vector:72,
from /usr/include/c++/9/bits/random.h:34,
from /usr/include/c++/9/random:49,
from interval_tree_test.cpp:4:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Catch::SectionEndInfo&}; _Tp = Catch::SectionEndInfo; _Alloc = std::allocator<Catch::SectionEndInfo>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<Catch::SectionEndInfo>::iterator' {aka '__gnu_cxx::__normal_iterator<Catch::SectionEndInfo*, std::vector<Catch::SectionEndInfo> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /usr/include/c++/9/bits/random.h:34,
from /usr/include/c++/9/random:49,
from interval_tree_test.cpp:4:
/usr/include/c++/9/bits/stl_vector.h: In member function 'virtual void Catch::RunContext::sectionEndedEarly(const Catch::SectionEndInfo&)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Catch::SectionEndInfo*, std::vector<Catch::SectionEndInfo> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h: In destructor 'Catch::Section::~Section()':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Catch::SectionEndInfo*, std::vector<Catch::SectionEndInfo> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /usr/include/c++/9/bits/random.h:34,
from /usr/include/c++/9/random:49,
from interval_tree_test.cpp:4:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Interval<unsigned int, double>&}; _Tp = Interval<unsigned int, double>; _Alloc = std::allocator<Interval<unsigned int, double> >]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > >::iterator' {aka '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void IntervalTree<Scalar, Value>::visit_near(const Scalar&, const Scalar&, UnaryFunction) const [with UnaryFunction = IntervalTree<Scalar, Value>::visit_overlapping(const Scalar&, const Scalar&, UnaryFunction) const [with UnaryFunction = IntervalTree<Scalar, Value>::findOverlapping(const Scalar&, const Scalar&) const [with Scalar = unsigned int; Value = double]::<lambda(const interval&)>; Scalar = unsigned int; Value = double]::<lambda(const interval&)>; Scalar = unsigned int; Value = double]':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'IntervalTree<Scalar, Value>::interval_vector IntervalTree<Scalar, Value>::findOverlapping(const Scalar&, const Scalar&) const [with Scalar = unsigned int; Value = double]':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Interval<double, unsigned int>&}; _Tp = Interval<double, unsigned int>; _Alloc = std::allocator<Interval<double, unsigned int> >]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > >::iterator' {aka '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void IntervalTree<Scalar, Value>::visit_near(const Scalar&, const Scalar&, UnaryFunction) const [with UnaryFunction = IntervalTree<Scalar, Value>::visit_overlapping(const Scalar&, const Scalar&, UnaryFunction) const [with UnaryFunction = IntervalTree<Scalar, Value>::findOverlapping(const Scalar&, const Scalar&) const [with Scalar = double; Value = unsigned int]::<lambda(const interval&)>; Scalar = double; Value = unsigned int]::<lambda(const interval&)>; Scalar = double; Value = unsigned int]':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'IntervalTree<Scalar, Value>::interval_vector IntervalTree<Scalar, Value>::findOverlapping(const Scalar&, const Scalar&) const [with Scalar = double; Value = unsigned int]':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
cc -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname -Wl,libvcflib.so.1 -o libvcflib.so.1 src/Variant.o src/rnglib.o src/var.o src/pdflib.o src/cdflib.o src/split.o filevercmp/filevercmp.o -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
ln -s libvcflib.so.1 libvcflib.so
cp -f -a libvcflib.so* lib
In file included from /usr/include/c++/9/algorithm:62,
from IntervalTree.h:5,
from interval_tree_test.cpp:7:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<IntervalTree<unsigned int, double>::IntervalStartCmp>]':
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1839 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter<IntervalTree<unsigned int, double>::IntervalStartCmp>]':
/usr/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1820 | __unguarded_linear_insert(_RandomAccessIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter<IntervalTree<double, unsigned int>::IntervalStartCmp>]':
/usr/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<IntervalTree<double, unsigned int>::IntervalStartCmp>]':
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1839 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
In file included from /usr/include/c++/9/bits/stl_algo.h:61,
from /usr/include/c++/9/algorithm:62,
from IntervalTree.h:5,
from interval_tree_test.cpp:7:
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >; _Distance = int; _Tp = Interval<unsigned int, double>; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<IntervalTree<unsigned int, double>::IntervalStartCmp>]':
/usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from IntervalTree.h:5,
from interval_tree_test.cpp:7:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<IntervalTree<unsigned int, double>::IntervalStartCmp>]':
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1939 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h: In constructor 'IntervalTree<Scalar, Value>::IntervalTree(IntervalTree<Scalar, Value>::interval_vector&&, std::size_t, std::size_t, std::size_t, Scalar, Scalar) [with Scalar = unsigned int; Value = double]':
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /usr/include/c++/9/bits/random.h:34,
from /usr/include/c++/9/random:49,
from interval_tree_test.cpp:4:
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from IntervalTree.h:5,
from interval_tree_test.cpp:7:
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<unsigned int, double>*, std::vector<Interval<unsigned int, double>, std::allocator<Interval<unsigned int, double> > > >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
In file included from /usr/include/c++/9/bits/stl_algo.h:61,
from /usr/include/c++/9/algorithm:62,
from IntervalTree.h:5,
from interval_tree_test.cpp:7:
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >; _Distance = int; _Tp = Interval<double, unsigned int>; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<IntervalTree<double, unsigned int>::IntervalStartCmp>]':
/usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from IntervalTree.h:5,
from interval_tree_test.cpp:7:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<IntervalTree<double, unsigned int>::IntervalStartCmp>]':
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1939 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h: In constructor 'IntervalTree<Scalar, Value>::IntervalTree(IntervalTree<Scalar, Value>::interval_vector&&, std::size_t, std::size_t, std::size_t, Scalar, Scalar) [with Scalar = double; Value = unsigned int]':
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /usr/include/c++/9/bits/random.h:34,
from /usr/include/c++/9/random:49,
from interval_tree_test.cpp:4:
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from IntervalTree.h:5,
from interval_tree_test.cpp:7:
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Interval<double, unsigned int>*, std::vector<Interval<double, unsigned int>, std::allocator<Interval<double, unsigned int> > > >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
make[3]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/intervaltree'
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfecho.cpp -o bin/vcfecho -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfnormalizesvs.cpp -o bin/vcfnormalizesvs -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/dumpContigsFromHeader.cpp -o bin/dumpContigsFromHeader -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/bFst.cpp -o bin/bFst -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/bFst.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/bFst.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h: In function 'void phardy(std::vector<double>&, double, double)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/bFst.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In function 'void loadPop(std::vector<std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > > >&, pop&)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/pVst.cpp -o bin/pVst -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/hapLrt.cpp -o bin/hapLrt -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/popStats.cpp -o bin/popStats -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
/usr/include/c++/9/bits/vector.tcc: In function 'int main(int, char**)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/wcFst.cpp -o bin/wcFst -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/pVst.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/pVst.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'void calc(copyNcounts*)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/pVst.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/hapLrt.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In function 'void loadDat(copyNcounts*, std::string&, std::vector<std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > > >&, std::vector<std::map<std::__cxx11::basic_string<char>, std::vector<std::__cxx11::basic_string<char> > > >&)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/hapLrt.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/iHS.cpp -o bin/iHS -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/segmentFst.cpp -o bin/segmentFst -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/segmentIhs.cpp -o bin/segmentIhs -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/genotypeSummary.cpp -o bin/genotypeSummary -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/split.h:6,
from src/segmentFst.cpp:50:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In function 'int main(int, char**)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from src/split.h:6,
from src/segmentIhs.cpp:50:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In function 'int main(int, char**)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/sequenceDiversity.cpp -o bin/sequenceDiversity -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/map:60,
from src/Variant.h:6,
from src/iHS.cpp:1:
/usr/include/c++/9/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const int&>, std::tuple<>}; _Key = int; _Val = std::pair<const int, double>; _KeyOfValue = std::_Select1st<std::pair<const int, double> >; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:61,
from src/Variant.h:6,
from src/iHS.cpp:1:
/usr/include/c++/9/bits/stl_map.h: In function 'void loadGeneticMap(int, int)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/pFst.cpp -o bin/pFst -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
/usr/include/c++/9/bits/stl_map.h: In function 'bool gDist(int, int, double*)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/iHS.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/iHS.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/sequenceDiversity.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/smoother.cpp -o bin/smoother -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfld.cpp -o bin/vcfld -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/sequenceDiversity.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:60,
from src/smoother.cpp:4:
/usr/include/c++/9/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&>, std::tuple<>}; _Key = std::__cxx11::basic_string<char>; _Val = std::pair<const std::__cxx11::basic_string<char>, std::fpos<__mbstate_t> >; _KeyOfValue = std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, std::fpos<__mbstate_t> > >; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, std::fpos<__mbstate_t> > >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, std::fpos<__mbstate_t> >, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, std::fpos<__mbstate_t> > >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, std::fpos<__mbstate_t> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const std::__cxx11::basic_string<char>, std::fpos<__mbstate_t> > >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:61,
from src/smoother.cpp:4:
/usr/include/c++/9/bits/stl_map.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, std::fpos<__mbstate_t> >, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, std::fpos<__mbstate_t> > >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, std::fpos<__mbstate_t> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const std::__cxx11::basic_string<char>, std::fpos<__mbstate_t> > >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/plotHaps.cpp -o bin/plotHaps -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/abba-baba.cpp -o bin/abba-baba -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/permuteGPAT++.cpp -o bin/permuteGPAT++ -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/vcfld.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from src/split.h:6,
from src/permuteGPAT++.cpp:39:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/split.h:6,
from src/permuteGPAT++.cpp:39:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
src/abba-baba.cpp: In function 'int sample_het(int&)':
src/abba-baba.cpp:74:1: warning: no return statement in function returning non-void [-Wreturn-type]
74 | }
| ^
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/permuteSmooth.cpp -o bin/permuteSmooth -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/plotHaps.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/vcfld.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from src/split.h:6,
from src/permuteSmooth.cpp:39:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/split.h:6,
from src/permuteSmooth.cpp:39:
/usr/include/c++/9/bits/stl_vector.h: In function 'bool getContiguousWindow(std::vector<score*>&, std::vector<double>&, int, int*)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h: In function 'bool permute(double, int, std::vector<score*>&, double*, double*, double*)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/plotHaps.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/normalize-iHS.cpp -o bin/normalize-iHS -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/meltEHH.cpp -o bin/meltEHH -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfaltcount.cpp -o bin/vcfaltcount -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfhetcount.cpp -o bin/vcfhetcount -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/split.h:6,
from src/normalize-iHS.cpp:50:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/split.h:6,
from src/normalize-iHS.cpp:50:
/usr/include/c++/9/bits/stl_vector.h: In function 'void normalize(std::vector<iHSdat*>&, int*)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfhethomratio.cpp -o bin/vcfhethomratio -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/map:60,
from src/Variant.h:6,
from src/meltEHH.cpp:1:
/usr/include/c++/9/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const int&>, std::tuple<>}; _Key = int; _Val = std::pair<const int, double>; _KeyOfValue = std::_Select1st<std::pair<const int, double> >; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, double> >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:61,
from src/Variant.h:6,
from src/meltEHH.cpp:1:
/usr/include/c++/9/bits/stl_map.h: In function 'void loadGeneticMap(int, int)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcffilter.cpp -o bin/vcffilter -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
/usr/include/c++/9/bits/stl_map.h: In function 'bool gDist(int, int, double*)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, double>, std::_Select1st<std::pair<const int, double> >, std::less<int>, std::allocator<std::pair<const int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/meltEHH.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcf2tsv.cpp -o bin/vcf2tsv -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/meltEHH.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfgenotypes.cpp -o bin/vcfgenotypes -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfannotategenotypes.cpp -o bin/vcfannotategenotypes -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfcommonsamples.cpp -o bin/vcfcommonsamples -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfremovesamples.cpp -o bin/vcfremovesamples -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfkeepsamples.cpp -o bin/vcfkeepsamples -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfsamplenames.cpp -o bin/vcfsamplenames -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfgenotypecompare.cpp -o bin/vcfgenotypecompare -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/map:60,
from src/Variant.h:6,
from src/vcfannotategenotypes.cpp:1:
/usr/include/c++/9/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > >&&>, std::tuple<>}; _Key = std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >; _Val = std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant>; _KeyOfValue = std::_Select1st<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >; _Compare = std::less<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> > >; _Alloc = std::allocator<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant>, std::_Select1st<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >, std::less<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> > >, std::allocator<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant>, std::_Select1st<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >, std::less<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> > >, std::allocator<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >'} changed in GCC 7.1
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcffixup.cpp -o bin/vcffixup -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfclassify.cpp -o bin/vcfclassify -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/vcfannotategenotypes.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const vcflib::Variant&}; _Tp = vcflib::Variant; _Alloc = std::allocator<vcflib::Variant>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<vcflib::Variant>::iterator' {aka '__gnu_cxx::__normal_iterator<vcflib::Variant*, std::vector<vcflib::Variant> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/vcfannotategenotypes.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<vcflib::Variant*, std::vector<vcflib::Variant> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<vcflib::Variant*, std::vector<vcflib::Variant> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:61,
from src/Variant.h:6,
from src/vcfannotategenotypes.cpp:1:
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant>, std::_Select1st<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >, std::less<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> > >, std::allocator<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant>, std::_Select1st<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >, std::less<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> > >, std::allocator<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant>, std::_Select1st<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >, std::less<std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> > >, std::allocator<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const std::pair<std::__cxx11::basic_string<char>, std::__cxx11::basic_string<char> >, vcflib::Variant> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfsamplediff.cpp -o bin/vcfsamplediff -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfremoveaberrantgenotypes.cpp -o bin/vcfremoveaberrantgenotypes -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfrandom.cpp -o bin/vcfrandom -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfparsealts.cpp -o bin/vcfparsealts -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfstats.cpp -o bin/vcfstats -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfflatten.cpp -o bin/vcfflatten -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfprimers.cpp -o bin/vcfprimers -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfnumalt.cpp -o bin/vcfnumalt -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfcleancomplex.cpp -o bin/vcfcleancomplex -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfintersect.cpp -o bin/vcfintersect -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfannotate.cpp -o bin/vcfannotate -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfallelicprimitives.cpp -o bin/vcfallelicprimitives -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfoverlay.cpp -o bin/vcfoverlay -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/map:60,
from src/Variant.h:6,
from src/vcfoverlay.cpp:1:
/usr/include/c++/9/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const int&>, std::tuple<>}; _Key = int; _Val = std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> >; _KeyOfValue = std::_Select1st<std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> > >; _Compare = std::less<int>; _Alloc = std::allocator<std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> > >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> >, std::_Select1st<std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> > >, std::less<int>, std::allocator<std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> > >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/map:61,
from src/Variant.h:6,
from src/vcfoverlay.cpp:1:
/usr/include/c++/9/bits/stl_map.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> >, std::_Select1st<std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> > >, std::less<int>, std::allocator<std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> > >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<int, std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> >, std::_Select1st<std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> > >, std::less<int>, std::allocator<std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const int, std::pair<vcflib::VariantCallFile*, vcflib::Variant> > >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
In file included from /usr/include/c++/9/map:60,
from src/Variant.h:6,
from src/vcfallelicprimitives.cpp:1:
/usr/include/c++/9/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<long unsigned int&&>, std::tuple<>}; _Key = long unsigned int; _Val = std::pair<const long unsigned int, vcflib::Variant>; _KeyOfValue = std::_Select1st<std::pair<const long unsigned int, vcflib::Variant> >; _Compare = std::less<long unsigned int>; _Alloc = std::allocator<std::pair<const long unsigned int, vcflib::Variant> >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<long unsigned int, std::pair<const long unsigned int, vcflib::Variant>, std::_Select1st<std::pair<const long unsigned int, vcflib::Variant> >, std::less<long unsigned int>, std::allocator<std::pair<const long unsigned int, vcflib::Variant> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long unsigned int, vcflib::Variant> >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfaddinfo.cpp -o bin/vcfaddinfo -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
/usr/include/c++/9/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const vcflib::VariantAllele&>, std::tuple<>}; _Key = vcflib::VariantAllele; _Val = std::pair<const vcflib::VariantAllele, double>; _KeyOfValue = std::_Select1st<std::pair<const vcflib::VariantAllele, double> >; _Compare = std::less<vcflib::VariantAllele>; _Alloc = std::allocator<std::pair<const vcflib::VariantAllele, double> >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<vcflib::VariantAllele, std::pair<const vcflib::VariantAllele, double>, std::_Select1st<std::pair<const vcflib::VariantAllele, double> >, std::less<vcflib::VariantAllele>, std::allocator<std::pair<const vcflib::VariantAllele, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const vcflib::VariantAllele, double> >'} changed in GCC 7.1
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfkeepinfo.cpp -o bin/vcfkeepinfo -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfkeepgeno.cpp -o bin/vcfkeepgeno -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/map:61,
from src/Variant.h:6,
from src/vcfallelicprimitives.cpp:1:
/usr/include/c++/9/bits/stl_map.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<vcflib::VariantAllele, std::pair<const vcflib::VariantAllele, double>, std::_Select1st<std::pair<const vcflib::VariantAllele, double> >, std::less<vcflib::VariantAllele>, std::allocator<std::pair<const vcflib::VariantAllele, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const vcflib::VariantAllele, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<long unsigned int, std::pair<const long unsigned int, vcflib::Variant>, std::_Select1st<std::pair<const long unsigned int, vcflib::Variant> >, std::less<long unsigned int>, std::allocator<std::pair<const long unsigned int, vcflib::Variant> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long unsigned int, vcflib::Variant> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<long unsigned int, std::pair<const long unsigned int, vcflib::Variant>, std::_Select1st<std::pair<const long unsigned int, vcflib::Variant> >, std::less<long unsigned int>, std::allocator<std::pair<const long unsigned int, vcflib::Variant> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long unsigned int, vcflib::Variant> >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<vcflib::VariantAllele, std::pair<const vcflib::VariantAllele, double>, std::_Select1st<std::pair<const vcflib::VariantAllele, double> >, std::less<vcflib::VariantAllele>, std::allocator<std::pair<const vcflib::VariantAllele, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const vcflib::VariantAllele, double> >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfafpath.cpp -o bin/vcfafpath -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfcountalleles.cpp -o bin/vcfcountalleles -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcflength.cpp -o bin/vcflength -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfdistance.cpp -o bin/vcfdistance -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/vcfafpath.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/vcfafpath.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfrandomsample.cpp -o bin/vcfrandomsample -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfentropy.cpp -o bin/vcfentropy -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfglxgt.cpp -o bin/vcfglxgt -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfroc.cpp -o bin/vcfroc -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfcheck.cpp -o bin/vcfcheck -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfstreamsort.cpp -o bin/vcfstreamsort -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfuniq.cpp -o bin/vcfuniq -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/map:60,
from src/Variant.h:6,
from src/vcfroc.cpp:1:
/usr/include/c++/9/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const long double&>, std::tuple<>}; _Key = long double; _Val = std::pair<const long double, std::vector<vcflib::VariantAllele*> >; _KeyOfValue = std::_Select1st<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >; _Compare = std::less<long double>; _Alloc = std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<long double, std::pair<const long double, std::vector<vcflib::VariantAllele*> >, std::_Select1st<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >, std::less<long double>, std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >'} changed in GCC 7.1
2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<long double&&>, std::tuple<>}; _Key = long double; _Val = std::pair<const long double, std::vector<vcflib::VariantAllele*> >; _KeyOfValue = std::_Select1st<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >; _Compare = std::less<long double>; _Alloc = std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >]':
/usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type 'std::_Rb_tree<long double, std::pair<const long double, std::vector<vcflib::VariantAllele*> >, std::_Select1st<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >, std::less<long double>, std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >'} changed in GCC 7.1
In file included from /usr/include/c++/9/map:61,
from src/Variant.h:6,
from src/vcfroc.cpp:1:
/usr/include/c++/9/bits/stl_map.h: In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = long double; _Tp = std::vector<vcflib::VariantAllele*>; _Compare = std::less<long double>; _Alloc = std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >]':
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<long double, std::pair<const long double, std::vector<vcflib::VariantAllele*> >, std::_Select1st<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >, std::less<long double>, std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfuniqalleles.cpp -o bin/vcfuniqalleles -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfremap.cpp -o bin/vcfremap -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/vcfstreamsort.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const vcflib::Variant&}; _Tp = vcflib::Variant; _Alloc = std::allocator<vcflib::Variant>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<vcflib::Variant>::iterator' {aka '__gnu_cxx::__normal_iterator<vcflib::Variant*, std::vector<vcflib::Variant> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcf2fasta.cpp -o bin/vcf2fasta -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/vcfstreamsort.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<vcflib::Variant*, std::vector<vcflib::Variant> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfsitesummarize.cpp -o bin/vcfsitesummarize -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
/usr/include/c++/9/bits/stl_map.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<long double, std::pair<const long double, std::vector<vcflib::VariantAllele*> >, std::_Select1st<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >, std::less<long double>, std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<long double, std::pair<const long double, std::vector<vcflib::VariantAllele*> >, std::_Select1st<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >, std::less<long double>, std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<long double, std::pair<const long double, std::vector<vcflib::VariantAllele*> >, std::_Select1st<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >, std::less<long double>, std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<long double, std::pair<const long double, std::vector<vcflib::VariantAllele*> >, std::_Select1st<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >, std::less<long double>, std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type 'std::_Rb_tree<long double, std::pair<const long double, std::vector<vcflib::VariantAllele*> >, std::_Select1st<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >, std::less<long double>, std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >'} changed in GCC 7.1
499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<long double, std::pair<const long double, std::vector<vcflib::VariantAllele*> >, std::_Select1st<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >, std::less<long double>, std::allocator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long double, std::vector<vcflib::VariantAllele*> > >'} changed in GCC 7.1
518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfbreakmulti.cpp -o bin/vcfbreakmulti -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfcreatemulti.cpp -o bin/vcfcreatemulti -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfevenregions.cpp -o bin/vcfevenregions -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfcat.cpp -o bin/vcfcat -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/vcfbreakmulti.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const vcflib::Variant&}; _Tp = vcflib::Variant; _Alloc = std::allocator<vcflib::Variant>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<vcflib::Variant>::iterator' {aka '__gnu_cxx::__normal_iterator<vcflib::Variant*, std::vector<vcflib::Variant> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfgenosummarize.cpp -o bin/vcfgenosummarize -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/vcfcreatemulti.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const vcflib::Variant&}; _Tp = vcflib::Variant; _Alloc = std::allocator<vcflib::Variant>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<vcflib::Variant>::iterator' {aka '__gnu_cxx::__normal_iterator<vcflib::Variant*, std::vector<vcflib::Variant> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/vcfbreakmulti.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<vcflib::Variant*, std::vector<vcflib::Variant> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfgenosamplenames.cpp -o bin/vcfgenosamplenames -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/vcfcreatemulti.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = vcflib::Variant; _Alloc = std::allocator<vcflib::Variant>]':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<vcflib::Variant*, std::vector<vcflib::Variant> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfgeno2haplo.cpp -o bin/vcfgeno2haplo -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfleftalign.cpp -o bin/vcfleftalign -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfcombine.cpp -o bin/vcfcombine -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfgeno2alleles.cpp -o bin/vcfgeno2alleles -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/vcfleftalign.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In function 'double entropy(const string&)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfindex.cpp -o bin/vcfindex -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/vcfgeno2haplo.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const vcflib::Variant&}; _Tp = vcflib::Variant; _Alloc = std::allocator<vcflib::Variant>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<vcflib::Variant>::iterator' {aka '__gnu_cxx::__normal_iterator<vcflib::Variant*, std::vector<vcflib::Variant> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/vcfgeno2haplo.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = vcflib::Variant; _Alloc = std::allocator<vcflib::Variant>]':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<vcflib::Variant*, std::vector<vcflib::Variant> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcf2dag.cpp -o bin/vcf2dag -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfsample2info.cpp -o bin/vcfsample2info -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfqual2info.cpp -o bin/vcfqual2info -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfinfo2qual.cpp -o bin/vcfinfo2qual -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/vcfsample2info.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/queue:62,
from src/Variant.h:14,
from src/vcfsample2info.cpp:1:
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/smithwaterman/SmithWatermanGotoh.h:4,
from src/Variant.h:21,
from src/vcfsample2info.cpp:1:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__introselect(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1976:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1976 | __introselect(_RandomAccessIterator __first, _RandomAccessIterator __nth,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1976:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1976:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1976:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h: In function 'double median(std::vector<double>&)':
/usr/include/c++/9/bits/stl_algo.h:4794:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
4794 | std::__introselect(__first, __nth, __last,
| ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
4795 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
4796 | __gnu_cxx::__ops::__iter_less_iter());
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/vcfsample2info.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfglbound.cpp -o bin/vcfglbound -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfunphase.cpp -o bin/vcfunphase -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfnull2ref.cpp -o bin/vcfnull2ref -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
g++ -Wdate-time -D_FORTIFY_SOURCE=2 src/vcfinfosummarize.cpp -o bin/vcfinfosummarize -I/usr/include/smithwaterman -I/usr/include/fastahack -Iinclude -Llib -lvcflib -Wl,-z,relro -Wl,-z,now -lz -lm -llzma -lbz2 -lssw -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Ofast -D_FILE_OFFSET_BITS=64 -std=c++0x -DVERSION=\"1.0.1+dfsg-2+b2\" -ltabixpp -lhts -lsmithwaterman -ldisorder -lfastahack -lstdc++ -lm
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/vcfglbound.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/vcfglbound.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from src/Variant.h:4,
from src/vcfinfosummarize.cpp:1:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/queue:62,
from src/Variant.h:14,
from src/vcfinfosummarize.cpp:1:
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from /usr/include/smithwaterman/SmithWatermanGotoh.h:4,
from src/Variant.h:21,
from src/vcfinfosummarize.cpp:1:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__introselect(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1976:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1976 | __introselect(_RandomAccessIterator __first, _RandomAccessIterator __nth,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1976:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1976:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1976:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h: In function 'double median(std::vector<double>&)':
/usr/include/c++/9/bits/stl_algo.h:4794:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
4794 | std::__introselect(__first, __nth, __last,
| ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
4795 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
4796 | __gnu_cxx::__ops::__iter_less_iter());
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/Variant.h:4,
from src/vcfinfosummarize.cpp:1:
/usr/include/c++/9/bits/stl_vector.h: In function 'int main(int, char**)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
cp -f scripts/* bin
make[2]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
markdown README.md > README.html
make[1]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
export LD_LIBRARY_PATH=/<<BUILDDIR>>/libvcflib-1.0.1+dfsg/lib/:D_LIBRARY_PATH dh_auto_test
make[1]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
dh_auto_install -a
debian/rules override_dh_install
make[1]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
dh_install
find debian -name filevercmp.h -delete
cp -a filevercmp/filevercmp.h debian/libvcflib-dev/usr/include/vcflib/
mkdir -p debian/libvcflib-dev/usr/include/intervaltree
mv debian/libvcflib-dev/usr/include/vcflib/IntervalTree.h debian/libvcflib-dev/usr/include/intervaltree
# install pkg-config file
mkdir -p /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/debian/libvcflib-dev/usr/lib/arm-linux-gnueabihf/pkgconfig
mv libvcflib.pc /<<BUILDDIR>>/libvcflib-1.0.1+dfsg/debian/libvcflib-dev/usr/lib/arm-linux-gnueabihf/pkgconfig
rm -rf debian/*/usr/lib/vcflib/bin/*.R
for pl in `grep -Rl '#!/usr/bin/env' debian/*/usr/*` ; do \
sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \
done
grep: debian/libvcflib-dev/usr/lib/arm-linux-gnueabihf/libvcflib.so: No such file or directory
make[1]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
dh_installdocs -a
dh_installchangelogs -a
dh_installman -a
dh_lintian -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
debian/rules override_dh_fixperms
make[1]: Entering directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
dh_fixperms
chmod -x debian/*/usr/lib/R/site-library/*/*.R
make[1]: Leaving directory '/<<BUILDDIR>>/libvcflib-1.0.1+dfsg'
dh_missing -a
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfunphase contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcat contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcheck contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcffixup contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfhetcount contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfparsealts 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/libvcflib1/usr/lib/arm-linux-gnueabihf/libvcflib.so.1 found in none of the libraries
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenotypes contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libvcflib1/usr/lib/arm-linux-gnueabihf/libvcflib.so.1 was not linked against libdisorder.so.0 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgeno2haplo contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/bin/vcf2tsv contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/iHS contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/genotypeSummary contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfhethomratio contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/segmentFst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcf2fasta contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/bFst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfremoveaberrantgenotypes contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfuniq contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfaddinfo contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfdistance contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcf2tsv contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfrandomsample contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfstreamsort contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfroc contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcreatemulti contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfecho contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfflatten contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfannotate contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfoverlay contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/sequenceDiversity contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/bin/vcffilter contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/permuteSmooth contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfnull2ref contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgeno2alleles contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcleancomplex contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/dumpContigsFromHeader contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsample2info contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfinfo2qual contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfevenregions contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfuniqalleles contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfallelicprimitives contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenosummarize contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/smoother contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/abba-baba contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfclassify contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfremap contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/popStats contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfintersect contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfld contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/meltEHH contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfbreakmulti contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfentropy contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsamplediff contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfstats contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfkeepsamples contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsitesummarize contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfremovesamples contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenotypecompare contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfglxgt contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsamplenames contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcountalleles contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfqual2info contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfannotategenotypes contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/plotHaps contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/normalize-iHS contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfglbound contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfaltcount contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/wcFst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcflength contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfrandom contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfnormalizesvs contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/permuteGPAT++ contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfindex contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/hapLrt contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfprimers contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfkeepinfo contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfafpath contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfleftalign contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/pVst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/pFst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcffilter contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcf2dag contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenosamplenames contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfkeepgeno contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfinfosummarize contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcombine contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/segmentIhs contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/bin/vcfkeepinfo contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfnumalt contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcommonsamples contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libvcflib-tools/usr/lib/vcflib/bin/vcfunphase debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcat debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcheck debian/libvcflib-tools/usr/lib/vcflib/bin/vcffixup debian/libvcflib-tools/usr/lib/vcflib/bin/vcfhetcount debian/libvcflib-tools/usr/lib/vcflib/bin/vcfparsealts debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenotypes debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgeno2haplo debian/libvcflib-tools/usr/bin/vcf2tsv debian/libvcflib-tools/usr/lib/vcflib/bin/iHS debian/libvcflib-tools/usr/lib/vcflib/bin/genotypeSummary debian/libvcflib-tools/usr/lib/vcflib/bin/vcfhethomratio debian/libvcflib-tools/usr/lib/vcflib/bin/segmentFst debian/libvcflib-tools/usr/lib/vcflib/bin/vcf2fasta debian/libvcflib-tools/usr/lib/vcflib/bin/bFst debian/libvcflib-tools/usr/lib/vcflib/bin/vcfremoveaberrantgenotypes debian/libvcflib-tools/usr/lib/vcflib/bin/vcfuniq debian/libvcflib-tools/usr/lib/vcflib/bin/vcfaddinfo debian/libvcflib-tools/usr/lib/vcflib/bin/vcfdistance debian/libvcflib-tools/usr/lib/vcflib/bin/vcf2tsv debian/libvcflib-tools/usr/lib/vcflib/bin/vcfrandomsample debian/libvcflib-tools/usr/lib/vcflib/bin/vcfstreamsort debian/libvcflib-tools/usr/lib/vcflib/bin/vcfroc debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcreatemulti debian/libvcflib-tools/usr/lib/vcflib/bin/vcfecho debian/libvcflib-tools/usr/lib/vcflib/bin/vcfflatten debian/libvcflib-tools/usr/lib/vcflib/bin/vcfannotate debian/libvcflib-tools/usr/lib/vcflib/bin/vcfoverlay debian/libvcflib-tools/usr/lib/vcflib/bin/sequenceDiversity debian/libvcflib-tools/usr/bin/vcffilter debian/libvcflib-tools/usr/lib/vcflib/bin/permuteSmooth debian/libvcflib-tools/usr/lib/vcflib/bin/vcfnull2ref debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgeno2alleles debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcleancomplex debian/libvcflib-tools/usr/lib/vcflib/bin/dumpContigsFromHeader debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsample2info debian/libvcflib-tools/usr/lib/vcflib/bin/vcfinfo2qual debian/libvcflib-tools/usr/lib/vcflib/bin/vcfevenregions debian/libvcflib-tools/usr/lib/vcflib/bin/vcfuniqalleles debian/libvcflib-tools/usr/lib/vcflib/bin/vcfallelicprimitives debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenosummarize debian/libvcflib-tools/usr/lib/vcflib/bin/smoother debian/libvcflib-tools/usr/lib/vcflib/bin/abba-baba debian/libvcflib-tools/usr/lib/vcflib/bin/vcfclassify debian/libvcflib-tools/usr/lib/vcflib/bin/vcfremap debian/libvcflib-tools/usr/lib/vcflib/bin/popStats debian/libvcflib-tools/usr/lib/vcflib/bin/vcfintersect debian/libvcflib-tools/usr/lib/vcflib/bin/vcfld debian/libvcflib-tools/usr/lib/vcflib/bin/meltEHH debian/libvcflib-tools/usr/lib/vcflib/bin/vcfbreakmulti debian/libvcflib-tools/usr/lib/vcflib/bin/vcfentropy debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsamplediff debian/libvcflib-tools/usr/lib/vcflib/bin/vcfstats debian/libvcflib-tools/usr/lib/vcflib/bin/vcfkeepsamples debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsitesummarize debian/libvcflib-tools/usr/lib/vcflib/bin/vcfremovesamples debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenotypecompare debian/libvcflib-tools/usr/lib/vcflib/bin/vcfglxgt debian/libvcflib-tools/usr/lib/vcflib/bin/vcfsamplenames debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcountalleles debian/libvcflib-tools/usr/lib/vcflib/bin/vcfqual2info debian/libvcflib-tools/usr/lib/vcflib/bin/vcfannotategenotypes debian/libvcflib-tools/usr/lib/vcflib/bin/plotHaps debian/libvcflib-tools/usr/lib/vcflib/bin/normalize-iHS debian/libvcflib-tools/usr/lib/vcflib/bin/vcfglbound debian/libvcflib-tools/usr/lib/vcflib/bin/vcfaltcount debian/libvcflib-tools/usr/lib/vcflib/bin/wcFst debian/libvcflib-tools/usr/lib/vcflib/bin/vcflength debian/libvcflib-tools/usr/lib/vcflib/bin/vcfrandom debian/libvcflib-tools/usr/lib/vcflib/bin/vcfnormalizesvs debian/libvcflib-tools/usr/lib/vcflib/bin/permuteGPAT++ debian/libvcflib-tools/usr/lib/vcflib/bin/vcfindex debian/libvcflib-tools/usr/lib/vcflib/bin/hapLrt debian/libvcflib-tools/usr/lib/vcflib/bin/vcfprimers debian/libvcflib-tools/usr/lib/vcflib/bin/vcfkeepinfo debian/libvcflib-tools/usr/lib/vcflib/bin/vcfafpath debian/libvcflib-tools/usr/lib/vcflib/bin/vcfleftalign debian/libvcflib-tools/usr/lib/vcflib/bin/pVst debian/libvcflib-tools/usr/lib/vcflib/bin/pFst debian/libvcflib-tools/usr/lib/vcflib/bin/vcffilter debian/libvcflib-tools/usr/lib/vcflib/bin/vcf2dag debian/libvcflib-tools/usr/lib/vcflib/bin/vcfgenosamplenames debian/libvcflib-tools/usr/lib/vcflib/bin/vcfkeepgeno debian/libvcflib-tools/usr/lib/vcflib/bin/vcfinfosummarize debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcombine debian/libvcflib-tools/usr/lib/vcflib/bin/segmentIhs debian/libvcflib-tools/usr/bin/vcfkeepinfo debian/libvcflib-tools/usr/lib/vcflib/bin/vcfnumalt debian/libvcflib-tools/usr/lib/vcflib/bin/vcfcommonsamples were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'libvcflib1' in '../libvcflib1_1.0.1+dfsg-2+b2_armhf.deb'.
dpkg-deb: building package 'libvcflib-tools-dbgsym' in '../libvcflib-tools-dbgsym_1.0.1+dfsg-2+b2_armhf.deb'.
dpkg-deb: building package 'libvcflib-dev' in '../libvcflib-dev_1.0.1+dfsg-2+b2_armhf.deb'.
dpkg-deb: building package 'libvcflib-tools' in '../libvcflib-tools_1.0.1+dfsg-2+b2_armhf.deb'.
dpkg-deb: building package 'libvcflib1-dbgsym' in '../libvcflib1-dbgsym_1.0.1+dfsg-2+b2_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../libvcflib_1.0.1+dfsg-2+b2_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2020-01-25T12:53:38Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
libvcflib_1.0.1+dfsg-2+b2_armhf.changes:
----------------------------------------
Format: 1.8
Date: Thu, 26 Dec 2019 15:54:27 +0100
Source: libvcflib (1.0.1+dfsg-2)
Binary: libvcflib-dev libvcflib-tools libvcflib-tools-dbgsym libvcflib1 libvcflib1-dbgsym
Binary-Only: yes
Architecture: armhf
Version: 1.0.1+dfsg-2+b2
Distribution: bullseye-staging
Urgency: low
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Raspbian wandboard test autobuilder <root@raspbian.org>
Description:
libvcflib-dev - C++ library for parsing and manipulating VCF files (development)
libvcflib-tools - C++ library for parsing and manipulating VCF files (tools)
libvcflib1 - C++ library for parsing and manipulating VCF files
Changes:
libvcflib (1.0.1+dfsg-2+b2) bullseye-staging; urgency=low, binary-only=yes
.
* Binary-only non-maintainer upload for armhf; no source changes.
* rebuild due to debcheck failure
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Files:
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41c06fcab0370b2a5cb7981d163be062 7206 science optional libvcflib_1.0.1+dfsg-2+b2_armhf.buildinfo
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
libvcflib-dev_1.0.1+dfsg-2+b2_armhf.deb
---------------------------------------
new Debian package, version 2.0.
size 28880 bytes: control archive=1512 bytes.
1289 bytes, 27 lines control
1188 bytes, 17 lines md5sums
Package: libvcflib-dev
Source: libvcflib (1.0.1+dfsg-2)
Version: 1.0.1+dfsg-2+b2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 171
Depends: libvcflib1 (= 1.0.1+dfsg-2+b2), libdisorder-dev, libfastahack-dev, libtabixpp-dev, libsmithwaterman-dev, libssw-dev
Section: libdevel
Priority: optional
Multi-Arch: same
Homepage: https://github.com/vcflib/vcflib
Description: C++ library for parsing and manipulating VCF files (development)
The Variant Call Format (VCF) is a flat-file, tab-delimited textual format
intended to concisely describe reference-indexed variations between
individuals. VCF provides a common interchange format for the description of
variation in individuals and populations of samples, and has become the defacto
standard reporting format for a wide array of genomic variant detectors.
.
vcflib provides methods to manipulate and interpret sequence variation as it
can be described by VCF. It is both:
.
* an API for parsing and operating on records of genomic variation as it can
be described by the VCF format,
* and a collection of command-line utilities for executing complex
manipulations on VCF files.
.
This package contains the static library and the header files.
drwxr-xr-x root/root 0 2019-12-26 14:54 ./
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/include/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/include/intervaltree/
-rw-r--r-- root/root 11699 2019-12-26 14:54 ./usr/include/intervaltree/IntervalTree.h
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/include/vcflib/
-rw-r--r-- root/root 5601 2019-12-26 14:54 ./usr/include/vcflib/BedReader.h
-rw-r--r-- root/root 22615 2019-12-26 14:54 ./usr/include/vcflib/Variant.h
-rw-r--r-- root/root 470 2019-12-26 14:54 ./usr/include/vcflib/convert.h
-rw-r--r-- root/root 1777 2019-10-01 07:06 ./usr/include/vcflib/filevercmp.h
-rw-r--r-- root/root 1011 2019-12-26 14:54 ./usr/include/vcflib/join.h
-rw-r--r-- root/root 6353 2019-12-26 14:54 ./usr/include/vcflib/mt19937ar.h
-rw-r--r-- root/root 2155 2019-12-26 14:54 ./usr/include/vcflib/multichoose.h
-rw-r--r-- root/root 3446 2019-12-26 14:54 ./usr/include/vcflib/multipermute.h
-rw-r--r-- root/root 1598 2019-12-26 14:54 ./usr/include/vcflib/split.h
-rw-r--r-- root/root 75369 2019-12-26 14:54 ./usr/include/vcflib/vec128int.h
-rw-r--r-- root/root 13921 2019-12-26 14:54 ./usr/include/vcflib/veclib_types.h
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/lib/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/lib/arm-linux-gnueabihf/
lrwxrwxrwx root/root 0 2019-12-26 14:54 ./usr/lib/arm-linux-gnueabihf/libvcflib.so -> libvcflib.so.1
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/lib/arm-linux-gnueabihf/pkgconfig/
-rw-r--r-- root/root 283 2019-12-26 14:54 ./usr/lib/arm-linux-gnueabihf/pkgconfig/libvcflib.pc
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/doc/libvcflib-dev/
-rw-r--r-- root/root 228 2019-12-26 14:54 ./usr/share/doc/libvcflib-dev/changelog.Debian.armhf.gz
-rw-r--r-- root/root 1535 2019-12-26 14:54 ./usr/share/doc/libvcflib-dev/changelog.Debian.gz
-rw-r--r-- root/root 2042 2019-12-10 11:44 ./usr/share/doc/libvcflib-dev/copyright
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/lintian/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/lintian/overrides/
-rw-r--r-- root/root 91 2019-12-10 11:34 ./usr/share/lintian/overrides/libvcflib-dev
libvcflib-tools-dbgsym_1.0.1+dfsg-2+b2_armhf.deb
------------------------------------------------
new Debian package, version 2.0.
size 13881580 bytes: control archive=4428 bytes.
3914 bytes, 12 lines control
9211 bytes, 87 lines md5sums
Package: libvcflib-tools-dbgsym
Source: libvcflib (1.0.1+dfsg-2)
Version: 1.0.1+dfsg-2+b2
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 14954
Depends: libvcflib-tools (= 1.0.1+dfsg-2+b2)
Section: debug
Priority: optional
Description: debug symbols for libvcflib-tools
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libvcflib-tools_1.0.1+dfsg-2+b2_armhf.deb
-----------------------------------------
new Debian package, version 2.0.
size 512308 bytes: control archive=4640 bytes.
1541 bytes, 29 lines control
9310 bytes, 139 lines md5sums
Package: libvcflib-tools
Source: libvcflib (1.0.1+dfsg-2)
Version: 1.0.1+dfsg-2+b2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 3138
Depends: libc6 (>= 2.15), libdisorder0 (>= 0.0.2), libfastahack0 (>= 1.0.0+dfsg), libgcc1 (>= 1:3.5), libsmithwaterman0 (>= 0.0+git20160702.2610e25), libstdc++6 (>= 9), libtabixpp0 (>= 1.0.0), libvcflib1 (>= 1.0.1+dfsg), perl:any, python3, r-base-core, r-cran-plyr, r-cran-ggplot2, r-cran-gridbase
Suggests: r-cran-pracma
Breaks: libvcflib1 (<= 1.0.0~rc2+dfsg-3)
Replaces: libvcflib1 (<= 1.0.0~rc2+dfsg-3)
Section: science
Priority: optional
Homepage: https://github.com/vcflib/vcflib
Description: C++ library for parsing and manipulating VCF files (tools)
The Variant Call Format (VCF) is a flat-file, tab-delimited textual format
intended to concisely describe reference-indexed variations between
individuals. VCF provides a common interchange format for the description of
variation in individuals and populations of samples, and has become the defacto
standard reporting format for a wide array of genomic variant detectors.
.
vcflib provides methods to manipulate and interpret sequence variation as it
can be described by VCF. It is both:
.
* an API for parsing and operating on records of genomic variation as it can
be described by the VCF format,
* and a collection of command-line utilities for executing complex
manipulations on VCF files.
.
This package contains several tools using the library.
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-rwxr-xr-x root/root 13976 2019-12-26 14:54 ./usr/lib/vcflib/bin/vcfsamplenames
-rwxr-xr-x root/root 22168 2019-12-26 14:54 ./usr/lib/vcflib/bin/vcfsitesummarize
-rwxr-xr-x root/root 521 2019-12-26 14:54 ./usr/lib/vcflib/bin/vcfsnps
-rwxr-xr-x root/root 83 2019-12-26 14:54 ./usr/lib/vcflib/bin/vcfsort
-rwxr-xr-x root/root 59192 2019-12-26 14:54 ./usr/lib/vcflib/bin/vcfstats
-rwxr-xr-x root/root 46808 2019-12-26 14:54 ./usr/lib/vcflib/bin/vcfstreamsort
-rwxr-xr-x root/root 18072 2019-12-26 14:54 ./usr/lib/vcflib/bin/vcfuniq
-rwxr-xr-x root/root 22168 2019-12-26 14:54 ./usr/lib/vcflib/bin/vcfuniqalleles
-rwxr-xr-x root/root 22168 2019-12-26 14:54 ./usr/lib/vcflib/bin/vcfunphase
-rwxr-xr-x root/root 5459 2019-12-26 14:54 ./usr/lib/vcflib/bin/vcfvarstats
-rwxr-xr-x root/root 42648 2019-12-26 14:54 ./usr/lib/vcflib/bin/wcFst
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/doc/libvcflib-tools/
-rw-r--r-- root/root 228 2019-12-26 14:54 ./usr/share/doc/libvcflib-tools/changelog.Debian.armhf.gz
-rw-r--r-- root/root 1535 2019-12-26 14:54 ./usr/share/doc/libvcflib-tools/changelog.Debian.gz
-rw-r--r-- root/root 2042 2019-12-10 11:44 ./usr/share/doc/libvcflib-tools/copyright
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/lintian/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/lintian/overrides/
-rw-r--r-- root/root 93 2019-12-10 11:34 ./usr/share/lintian/overrides/libvcflib-tools
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/man/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/man/man1/
-rw-r--r-- root/root 505 2019-12-26 14:54 ./usr/share/man/man1/vcflib.1.gz
libvcflib1-dbgsym_1.0.1+dfsg-2+b2_armhf.deb
-------------------------------------------
new Debian package, version 2.0.
size 1417096 bytes: control archive=564 bytes.
430 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: libvcflib1-dbgsym
Source: libvcflib (1.0.1+dfsg-2)
Version: 1.0.1+dfsg-2+b2
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1473
Depends: libvcflib1 (= 1.0.1+dfsg-2+b2)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for libvcflib1
Build-Ids: f42ab6bb1514636c205a39cbfef9230cf4c0d31c
drwxr-xr-x root/root 0 2019-12-26 14:54 ./
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/lib/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/lib/debug/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/lib/debug/.build-id/f4/
-rw-r--r-- root/root 1497596 2019-12-26 14:54 ./usr/lib/debug/.build-id/f4/2ab6bb1514636c205a39cbfef9230cf4c0d31c.debug
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/doc/
lrwxrwxrwx root/root 0 2019-12-26 14:54 ./usr/share/doc/libvcflib1-dbgsym -> libvcflib1
libvcflib1_1.0.1+dfsg-2+b2_armhf.deb
------------------------------------
new Debian package, version 2.0.
size 127180 bytes: control archive=1252 bytes.
1268 bytes, 25 lines control
383 bytes, 5 lines md5sums
39 bytes, 1 lines shlibs
67 bytes, 2 lines triggers
Package: libvcflib1
Source: libvcflib (1.0.1+dfsg-2)
Version: 1.0.1+dfsg-2+b2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 341
Depends: libc6 (>= 2.15), libdisorder0 (>= 0.0.2), libfastahack0 (>= 1.0.0+dfsg), libgcc1 (>= 1:3.5), libsmithwaterman0 (>= 0.0+git20160702.2610e25), libstdc++6 (>= 9), libtabixpp0 (>= 1.0.0)
Section: libs
Priority: optional
Multi-Arch: same
Homepage: https://github.com/vcflib/vcflib
Description: C++ library for parsing and manipulating VCF files
The Variant Call Format (VCF) is a flat-file, tab-delimited textual format
intended to concisely describe reference-indexed variations between
individuals. VCF provides a common interchange format for the description of
variation in individuals and populations of samples, and has become the defacto
standard reporting format for a wide array of genomic variant detectors.
.
vcflib provides methods to manipulate and interpret sequence variation as it
can be described by VCF. It is both:
.
* an API for parsing and operating on records of genomic variation as it can
be described by the VCF format,
* and a collection of command-line utilities for executing complex
manipulations on VCF files.
drwxr-xr-x root/root 0 2019-12-26 14:54 ./
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/lib/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 329924 2019-12-26 14:54 ./usr/lib/arm-linux-gnueabihf/libvcflib.so.1
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/doc/libvcflib1/
-rw-r--r-- root/root 228 2019-12-26 14:54 ./usr/share/doc/libvcflib1/changelog.Debian.armhf.gz
-rw-r--r-- root/root 1535 2019-12-26 14:54 ./usr/share/doc/libvcflib1/changelog.Debian.gz
-rw-r--r-- root/root 2042 2019-12-10 11:44 ./usr/share/doc/libvcflib1/copyright
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/lintian/
drwxr-xr-x root/root 0 2019-12-26 14:54 ./usr/share/lintian/overrides/
-rw-r--r-- root/root 88 2019-12-10 11:34 ./usr/share/lintian/overrides/libvcflib1
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 200500
Build-Time: 2418
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 3553
Job: libvcflib_1.0.1+dfsg-2
Machine Architecture: armhf
Package: libvcflib
Package-Time: 6487
Source-Version: 1.0.1+dfsg-2
Space: 200500
Status: successful
Version: 1.0.1+dfsg-2+b2
--------------------------------------------------------------------------------
Finished at 2020-01-25T12:53:38Z
Build needed 01:48:07, 200500k disc space