Build log for subread (1.6.3+dfsg-1) on armhf

subread → 1.6.3+dfsg-1 → armhf → 2019-02-02 13:33:09

sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-01

+==============================================================================+
| subread 1.6.3+dfsg-1 (armhf)                 Sat, 02 Feb 2019 13:16:29 +0000 |
+==============================================================================+

Package: subread
Version: 1.6.3+dfsg-1
Source Version: 1.6.3+dfsg-1
Distribution: buster-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf

I: NOTICE: Log filtering will replace 'var/run/schroot/mount/buster-staging-armhf-sbuild-1a109994-9fe8-4737-89b5-cf022a7d4eed' with '<<CHROOT>>'

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

Get:1 http://172.17.0.1/private buster-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private buster-staging/main Sources [11.3 MB]
Get:3 http://172.17.0.1/private buster-staging/main armhf Packages [13.0 MB]
Fetched 24.3 MB in 27s (908 kB/s)
Reading package lists...

+------------------------------------------------------------------------------+
| Fetch source files                                                           |
+------------------------------------------------------------------------------+


Check APT
---------

Checking available source versions...

Download source files with APT
------------------------------

Reading package lists...
NOTICE: 'subread' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/subread.git
Please use:
git clone https://salsa.debian.org/med-team/subread.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 15.8 MB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main subread 1.6.3+dfsg-1 (dsc) [2254 B]
Get:2 http://172.17.0.1/private buster-staging/main subread 1.6.3+dfsg-1 (tar) [15.8 MB]
Get:3 http://172.17.0.1/private buster-staging/main subread 1.6.3+dfsg-1 (diff) [8792 B]
Fetched 15.8 MB in 2s (9845 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/subread-ntrl1d/subread-1.6.3+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/subread-ntrl1d' 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-IJtXSR/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-IJtXSR/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-IJtXSR/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-IJtXSR/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Packages [431 B]
Fetched 2107 B in 1s (3063 B/s)
Reading package lists...
W: copy:///<<BUILDDIR>>/resolver-IJtXSR/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 35506D9A48F77B2E
Reading package lists...

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

Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
  ca-certificates e2fsprogs-l10n krb5-locales libgpg-error-l10n
  libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
  libsasl2-modules libssl1.1 openssl
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
  sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 16 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 15658 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) ...

+------------------------------------------------------------------------------+
| Check architectures                                                          |
+------------------------------------------------------------------------------+

Arch check ok (armhf included in amd64 arm64 armel armhf i386 kfreebsd-amd64 kfreebsd-i386 ppc64el all)

+------------------------------------------------------------------------------+
| Install package build dependencies                                           |
+------------------------------------------------------------------------------+


Setup apt archive
-----------------

Merged Build-Depends: bc, debhelper (>= 12~), help2man, python, zlib1g-dev
Filtered Build-Depends: bc, debhelper (>= 12~), help2man, python, zlib1g-dev
dpkg-deb: building package 'sbuild-build-depends-subread-dummy' in '/<<BUILDDIR>>/resolver-IJtXSR/apt_archive/sbuild-build-depends-subread-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning:   sbuild-build-depends-core-dummy sbuild-build-depends-subread-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-IJtXSR/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Sources [512 B]
Get:5 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Packages [593 B]
Fetched 2438 B in 1s (3383 B/s)
Reading package lists...
W: copy:///<<BUILDDIR>>/resolver-IJtXSR/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 35506D9A48F77B2E
Reading package lists...

Install subread build dependencies (apt-based resolver)
-------------------------------------------------------

Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
  ca-certificates e2fsprogs-l10n krb5-locales libgpg-error-l10n
  libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
  libsasl2-modules openssl
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
  autoconf automake autopoint autotools-dev bc bsdmainutils debhelper
  dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
  groff-base help2man intltool-debian libarchive-zip-perl libbsd0 libcroco3
  libelf1 libexpat1 libfile-stripnondeterminism-perl libglib2.0-0 libicu63
  liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1 libpython-stdlib
  libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libsigsegv2
  libtool libuchardet0 libxml2 m4 man-db mime-support po-debconf python
  python-minimal python2 python2-minimal python2.7 python2.7-minimal
  zlib1g-dev
Suggested packages:
  autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
  vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff
  libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less
  www-browser libmail-box-perl python-doc python-tk python2-doc python2.7-doc
  binfmt-support
Recommended packages:
  curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
  xdg-user-dirs libltdl-dev libmail-sendmail-perl
The following NEW packages will be installed:
  autoconf automake autopoint autotools-dev bc bsdmainutils debhelper
  dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
  groff-base help2man intltool-debian libarchive-zip-perl libbsd0 libcroco3
  libelf1 libexpat1 libfile-stripnondeterminism-perl libglib2.0-0 libicu63
  liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1 libpython-stdlib
  libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libsigsegv2
  libtool libuchardet0 libxml2 m4 man-db mime-support po-debconf python
  python-minimal python2 python2-minimal python2.7 python2.7-minimal
  sbuild-build-depends-subread-dummy zlib1g-dev
0 upgraded, 48 newly installed, 0 to remove and 16 not upgraded.
Need to get 22.3 MB of archives.
After this operation, 82.9 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-IJtXSR/apt_archive ./ sbuild-build-depends-subread-dummy 0.invalid.0 [876 B]
Get:2 http://172.17.0.1/private buster-staging/main armhf liblocale-gettext-perl armhf 1.07-3+b3 [18.2 kB]
Get:3 http://172.17.0.1/private buster-staging/main armhf libbsd0 armhf 0.9.1-1 [104 kB]
Get:4 http://172.17.0.1/private buster-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private buster-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:6 http://172.17.0.1/private buster-staging/main armhf groff-base armhf 1.22.4-2 [782 kB]
Get:7 http://172.17.0.1/private buster-staging/main armhf libpipeline1 armhf 1.5.1-1 [26.6 kB]
Get:8 http://172.17.0.1/private buster-staging/main armhf man-db armhf 2.8.5-1 [1231 kB]
Get:9 http://172.17.0.1/private buster-staging/main armhf libpython2.7-minimal armhf 2.7.15-5 [394 kB]
Get:10 http://172.17.0.1/private buster-staging/main armhf python2.7-minimal armhf 2.7.15-5 [1089 kB]
Get:11 http://172.17.0.1/private buster-staging/main armhf python2-minimal armhf 2.7.15-4 [41.4 kB]
Get:12 http://172.17.0.1/private buster-staging/main armhf python-minimal armhf 2.7.15-4 [21.0 kB]
Get:13 http://172.17.0.1/private buster-staging/main armhf mime-support all 3.61 [37.1 kB]
Get:14 http://172.17.0.1/private buster-staging/main armhf libexpat1 armhf 2.2.6-1 [76.8 kB]
Get:15 http://172.17.0.1/private buster-staging/main armhf libpython2.7-stdlib armhf 2.7.15-5 [1844 kB]
Get:16 http://172.17.0.1/private buster-staging/main armhf python2.7 armhf 2.7.15-5 [299 kB]
Get:17 http://172.17.0.1/private buster-staging/main armhf libpython2-stdlib armhf 2.7.15-4 [20.8 kB]
Get:18 http://172.17.0.1/private buster-staging/main armhf libpython-stdlib armhf 2.7.15-4 [20.8 kB]
Get:19 http://172.17.0.1/private buster-staging/main armhf python2 armhf 2.7.15-4 [41.6 kB]
Get:20 http://172.17.0.1/private buster-staging/main armhf python armhf 2.7.15-4 [22.8 kB]
Get:21 http://172.17.0.1/private buster-staging/main armhf bc armhf 1.07.1-2 [101 kB]
Get:22 http://172.17.0.1/private buster-staging/main armhf libmagic-mgc armhf 1:5.35-2 [242 kB]
Get:23 http://172.17.0.1/private buster-staging/main armhf libmagic1 armhf 1:5.35-2 [109 kB]
Get:24 http://172.17.0.1/private buster-staging/main armhf file armhf 1:5.35-2 [65.1 kB]
Get:25 http://172.17.0.1/private buster-staging/main armhf gettext-base armhf 0.19.8.1-9 [117 kB]
Get:26 http://172.17.0.1/private buster-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:27 http://172.17.0.1/private buster-staging/main armhf m4 armhf 1.4.18-2 [185 kB]
Get:28 http://172.17.0.1/private buster-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:29 http://172.17.0.1/private buster-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:30 http://172.17.0.1/private buster-staging/main armhf automake all 1:1.16.1-4 [771 kB]
Get:31 http://172.17.0.1/private buster-staging/main armhf autopoint all 0.19.8.1-9 [434 kB]
Get:32 http://172.17.0.1/private buster-staging/main armhf libtool all 2.4.6-9 [547 kB]
Get:33 http://172.17.0.1/private buster-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:34 http://172.17.0.1/private buster-staging/main armhf libarchive-zip-perl all 1.64-1 [96.8 kB]
Get:35 http://172.17.0.1/private buster-staging/main armhf libfile-stripnondeterminism-perl all 1.1.0-1 [19.5 kB]
Get:36 http://172.17.0.1/private buster-staging/main armhf dh-strip-nondeterminism all 1.1.0-1 [12.6 kB]
Get:37 http://172.17.0.1/private buster-staging/main armhf libelf1 armhf 0.175-2 [157 kB]
Get:38 http://172.17.0.1/private buster-staging/main armhf dwz armhf 0.12-3 [66.0 kB]
Get:39 http://172.17.0.1/private buster-staging/main armhf libglib2.0-0 armhf 2.58.2-3 [1076 kB]
Get:40 http://172.17.0.1/private buster-staging/main armhf libicu63 armhf 63.1-6 [7973 kB]
Get:41 http://172.17.0.1/private buster-staging/main armhf libxml2 armhf 2.9.4+dfsg1-7+b1 [570 kB]
Get:42 http://172.17.0.1/private buster-staging/main armhf libcroco3 armhf 0.6.12-3 [132 kB]
Get:43 http://172.17.0.1/private buster-staging/main armhf gettext armhf 0.19.8.1-9 [1219 kB]
Get:44 http://172.17.0.1/private buster-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:45 http://172.17.0.1/private buster-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:46 http://172.17.0.1/private buster-staging/main armhf debhelper all 12 [1002 kB]
Get:47 http://172.17.0.1/private buster-staging/main armhf help2man armhf 1.47.8 [176 kB]
Get:48 http://172.17.0.1/private buster-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [206 kB]
debconf: delaying package configuration, since apt-utils is not installed
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(Reading database ... 15658 files and directories currently installed.)
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Preparing to unpack .../21-libxml2_2.9.4+dfsg1-7+b1_armhf.deb ...
Unpacking libxml2:armhf (2.9.4+dfsg1-7+b1) ...
Selecting previously unselected package libcroco3:armhf.
Preparing to unpack .../22-libcroco3_0.6.12-3_armhf.deb ...
Unpacking libcroco3:armhf (0.6.12-3) ...
Selecting previously unselected package gettext.
Preparing to unpack .../23-gettext_0.19.8.1-9_armhf.deb ...
Unpacking gettext (0.19.8.1-9) ...
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Preparing to unpack .../24-intltool-debian_0.35.0+20060710.5_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.5) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../25-po-debconf_1.0.21_all.deb ...
Unpacking po-debconf (1.0.21) ...
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Unpacking debhelper (12) ...
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Preparing to unpack .../27-help2man_1.47.8_armhf.deb ...
Unpacking help2man (1.47.8) ...
Selecting previously unselected package zlib1g-dev:armhf.
Preparing to unpack .../28-zlib1g-dev_1%3a1.2.11.dfsg-1_armhf.deb ...
Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-1) ...
Selecting previously unselected package sbuild-build-depends-subread-dummy.
Preparing to unpack .../29-sbuild-build-depends-subread-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-subread-dummy (0.invalid.0) ...
Setting up libexpat1:armhf (2.2.6-1) ...
Setting up libarchive-zip-perl (1.64-1) ...
Setting up mime-support (3.61) ...
Installing new version of config file /etc/mime.types ...
Setting up libicu63:armhf (63.1-6) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up libelf1:armhf (0.175-2) ...
Setting up libglib2.0-0:armhf (2.58.2-3) ...
No schema files found: doing nothing.
Setting up gettext-base (0.19.8.1-9) ...
Setting up libpipeline1:armhf (1.5.1-1) ...
Setting up m4 (1.4.18-2) ...
Setting up libbsd0:armhf (0.9.1-1) ...
Setting up libxml2:armhf (2.9.4+dfsg1-7+b1) ...
Setting up libuchardet0:armhf (0.0.6-3) ...
Setting up libmagic-mgc (1:5.35-2) ...
Setting up libmagic1:armhf (1:5.35-2) ...
Setting up libcroco3:armhf (0.6.12-3) ...
Processing triggers for libc-bin (2.28-5+rpi1) ...
Setting up dwz (0.12-3) ...
Setting up autotools-dev (20180224.1) ...
Setting up liblocale-gettext-perl (1.07-3+b3) ...
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 bc (1.07.1-2) ...
Setting up libpython2.7-stdlib:armhf (2.7.15-5) ...
Setting up autopoint (0.19.8.1-9) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1) ...
Setting up libfile-stripnondeterminism-perl (1.1.0-1) ...
Setting up gettext (0.19.8.1-9) ...
Setting up groff-base (1.22.4-2) ...
Setting up python2.7 (2.7.15-5) ...
Setting up autoconf (2.69-11) ...
Setting up file (1:5.35-2) ...
Setting up intltool-debian (0.35.0+20060710.5) ...
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 help2man (1.47.8) ...
Setting up man-db (2.8.5-1) ...
Not building database; man-db/auto-update is not 'true'.
Created symlink /etc/systemd/system/timers.target.wants/man-db.timer -> /lib/systemd/system/man-db.timer.
Setting up libpython2-stdlib:armhf (2.7.15-4) ...
Setting up libtool (2.4.6-9) ...
Setting up po-debconf (1.0.21) ...
Setting up python2 (2.7.15-4) ...
Setting up libpython-stdlib:armhf (2.7.15-4) ...
Setting up python (2.7.15-4) ...
Setting up dh-strip-nondeterminism (1.1.0-1) ...
Setting up debhelper (12) ...
Setting up dh-autoreconf (19) ...
Setting up sbuild-build-depends-subread-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.28-5+rpi1) ...

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

Kernel: Linux 4.9.0-0.bpo.1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.31.1-11+rpi1 dpkg-dev_1.19.2 g++-8_8.2.0-14+rpi1 gcc-8_8.2.0-14+rpi1 libc6-dev_2.28-5+rpi1 libstdc++-8-dev_8.2.0-14+rpi1 libstdc++6_8.2.0-14+rpi1 linux-libc-dev_4.18.20-2+rpi1
Package versions: adduser_3.118 apt_1.8.0~beta1 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.1+rpi1 base-passwd_3.5.45 bash_5.0-2 bc_1.07.1-2 binutils_2.31.1-11+rpi1 binutils-arm-linux-gnueabihf_2.31.1-11+rpi1 binutils-common_2.31.1-11+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.33.1-0.1 build-essential_12.5 bzip2_1.0.6-9 ca-certificates_20170717 coreutils_8.30-1 cpio_2.12+dfsg-6 cpp_4:8.2.0-2+rpi1 cpp-8_8.2.0-14+rpi1 dash_0.5.10.2-5 debconf_1.5.70 debhelper_12 debianutils_4.8.6.1 dh-autoreconf_19 dh-strip-nondeterminism_1.1.0-1 diffutils_1:3.6-1 dirmngr_2.2.12-1+rpi1 dmsetup_2:1.02.155-1 dpkg_1.19.2 dpkg-dev_1.19.2 dwz_0.12-3 e2fslibs_1.44.5-1 e2fsprogs_1.44.5-1 e2fsprogs-l10n_1.44.5-1 fakeroot_1.23-1 fdisk_2.33.1-0.1 file_1:5.35-2 findutils_4.6.0+git+20190105-2 g++_4:8.2.0-2+rpi1 g++-8_8.2.0-14+rpi1 gcc_4:8.2.0-2+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.4-2+rpi1+b19 gcc-5-base_5.5.0-8 gcc-8_8.2.0-14+rpi1 gcc-8-base_8.2.0-14+rpi1 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gnupg_2.2.12-1+rpi1 gnupg-agent_2.2.12-1+rpi1 gnupg-l10n_2.2.12-1+rpi1 gnupg-utils_2.2.12-1+rpi1 gpg_2.2.12-1+rpi1 gpg-agent_2.2.12-1+rpi1 gpg-wks-client_2.2.12-1+rpi1 gpg-wks-server_2.2.12-1+rpi1 gpgconf_2.2.12-1+rpi1 gpgsm_2.2.12-1+rpi1 gpgv_2.2.12-1+rpi1 grep_3.3-1 groff-base_1.22.4-2 gzip_1.9-3 help2man_1.47.8 hostname_3.21 inetutils-ping_2:1.9.4-5 init-system-helpers_1.56+nmu1 initramfs-tools_0.132 initramfs-tools-core_0.132 intltool-debian_0.35.0+20060710.5 klibc-utils_2.0.4-15+rpi1 kmod_25-2 krb5-locales_1.17-1 libacl1_2.2.52-3 libapparmor1_2.13.2-3 libapt-pkg5.0_1.8.0~beta1 libarchive-zip-perl_1.64-1 libargon2-1_0~20171227-0.1 libasan5_8.2.0-14+rpi1 libassuan0_2.5.2-1 libatomic1_8.2.0-14+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.8.4-2 libaudit1_1:2.8.4-2+b1 libbinutils_2.31.1-11+rpi1 libblkid1_2.33.1-0.1 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-9 libc-bin_2.28-5+rpi1 libc-dev-bin_2.28-5+rpi1 libc6_2.28-5+rpi1 libc6-dev_2.28-5+rpi1 libcap-ng0_0.7.9-2 libcap2_1:2.25-1.2 libcc1-0_8.2.0-14+rpi1 libcom-err2_1.44.5-1 libcroco3_0.6.12-3 libcryptsetup12_2:2.0.6-1 libcryptsetup4_2:1.7.5-1 libdb5.3_5.3.28+dfsg1-0.2 libdbus-1-3_1.12.12-1 libdebconfclient0_0.246 libdevmapper1.02.1_2:1.02.155-1 libdpkg-perl_1.19.2 libdrm-common_2.4.95-1+rpi1 libdrm2_2.4.95-1+rpi1 libelf1_0.175-2 libexpat1_2.2.6-1 libext2fs2_1.44.5-1 libfakeroot_1.23-1 libfdisk1_2.33.1-0.1 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.1.0-1 libgcc-8-dev_8.2.0-14+rpi1 libgcc1_1:8.2.0-14+rpi1 libgcrypt20_1.8.4-4 libgdbm-compat4_1.18.1-2 libgdbm3_1.8.3-14 libgdbm6_1.18.1-2 libglib2.0-0_2.58.2-3 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.5-2+rpi1 libgomp1_8.2.0-14+rpi1 libgpg-error-l10n_1.33-3 libgpg-error0_1.33-3 libgssapi-krb5-2_1.17-1 libhogweed4_3.4.1~rc1-1 libicu63_63.1-6 libidn11_1.33-2.2 libidn2-0_2.0.5-1 libip4tc0_1.8.2-3 libisl19_0.20-2 libjson-c3_0.12.1-1.3 libk5crypto3_1.17-1 libkeyutils1_1.5.9-9.3 libklibc_2.0.4-15+rpi1 libkmod2_25-2 libkrb5-3_1.17-1 libkrb5support0_1.17-1 libksba8_1.3.5-2 libldap-2.4-2_2.4.47+dfsg-2 libldap-common_2.4.47+dfsg-2 liblocale-gettext-perl_1.07-3+b3 liblz4-1_1.8.3-1 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.35-2 libmagic1_1:5.35-2 libmount1_2.33.1-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2~rc1-1 libncurses5_6.1+20181013-1 libncurses6_6.1+20181013-1 libncursesw5_6.1+20181013-1 libncursesw6_6.1+20181013-1 libnettle6_3.4.1~rc1-1 libnpth0_1.6-1 libp11-kit0_0.23.14-2 libpam-modules_1.1.8-4 libpam-modules-bin_1.1.8-4 libpam-runtime_1.1.8-4 libpam0g_1.1.8-4 libpcre3_2:8.39-11+rpi1 libperl5.24_5.24.1-7 libperl5.28_5.28.1-3 libpipeline1_1.5.1-1 libplymouth4_0.9.4-1 libpng16-16_1.6.36-2 libprocps7_2:3.3.15-2 libpython-stdlib_2.7.15-4 libpython2-stdlib_2.7.15-4 libpython2.7-minimal_2.7.15-5 libpython2.7-stdlib_2.7.15-5 libreadline7_7.0-5 libsasl2-2_2.1.27+dfsg-1 libsasl2-modules_2.1.27+dfsg-1 libsasl2-modules-db_2.1.27+dfsg-1 libseccomp2_2.3.3-3+b1 libselinux1_2.8-1+b1 libsemanage-common_2.8-2 libsemanage1_2.8-2 libsepol1_2.8-1 libsigsegv2_2.12-2 libsmartcols1_2.33.1-0.1 libsqlite3-0_3.26.0+fossilbc891ac6b-1 libss2_1.44.5-1 libssl1.1_1.1.1a-1 libstdc++-8-dev_8.2.0-14+rpi1 libstdc++6_8.2.0-14+rpi1 libsystemd0_240-4+rpi1 libtasn1-6_4.13-3 libtinfo5_6.1+20181013-1 libtinfo6_6.1+20181013-1 libtool_2.4.6-9 libubsan1_8.2.0-14+rpi1 libuchardet0_0.0.6-3 libudev1_240-4+rpi1 libunistring2_0.9.10-1 libustr-1.0-1_1.0.4-6 libuuid1_2.33.1-0.1 libxml2_2.9.4+dfsg1-7+b1 libzstd1_1.3.8+dfsg-3+rpi1 linux-base_4.5 linux-libc-dev_4.18.20-2+rpi1 login_1:4.5-1.1 lsb-base_10.2018112800+rpi1 m4_1.4.18-2 make_4.2.1-1.2 makedev_2.3.1-94 man-db_2.8.5-1 mawk_1.3.3-17 mime-support_3.61 mount_2.33.1-0.1 multiarch-support_2.28-5+rpi1 nano_3.2-1 ncurses-base_6.1+20181013-1 ncurses-bin_6.1+20181013-1 netbase_5.5 openssl_1.1.1a-1 passwd_1:4.5-1.1 patch_2.7.6-3 perl_5.28.1-3 perl-base_5.28.1-3 perl-modules-5.24_5.24.1-7 perl-modules-5.28_5.28.1-3 pinentry-curses_1.1.0-1 plymouth_0.9.4-1 po-debconf_1.0.21 procps_2:3.3.15-2 python_2.7.15-4 python-minimal_2.7.15-4 python2_2.7.15-4 python2-minimal_2.7.15-4 python2.7_2.7.15-5 python2.7-minimal_2.7.15-5 raspbian-archive-keyring_20120528.2 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-subread-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 systemd_240-4+rpi1 sysvinit-utils_2.93-5 tar_1.30+dfsg-4 tzdata_2018i-1 udev_240-4+rpi1 util-linux_2.33.1-0.1 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1

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


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

gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Wed Jan 30 19:52:42 2019 UTC
gpgv:                using RSA key B1A51EB2779DD01743CC19BA1CF792111B5228B0
gpgv:                issuer "mestia@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./subread_1.6.3+dfsg-1.dsc
dpkg-source: info: extracting subread in /<<BUILDDIR>>/subread-1.6.3+dfsg
dpkg-source: info: unpacking subread_1.6.3+dfsg.orig.tar.xz
dpkg-source: info: unpacking subread_1.6.3+dfsg-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying typo.patch
dpkg-source: info: applying fix_ftbfs_kfreebsd.patch
dpkg-source: info: applying arch_specific_flags.patch

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

Sufficient free space for build

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

APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=buster-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=buster-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=buster-staging-armhf-sbuild-1a109994-9fe8-4737-89b5-cf022a7d4eed
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd

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

dpkg-buildpackage: info: source package subread
dpkg-buildpackage: info: source version 1.6.3+dfsg-1
dpkg-buildpackage: info: source distribution unstable
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
 fakeroot debian/rules clean
dh clean
   debian/rules override_dh_clean
make[1]: Entering directory '/<<BUILDDIR>>/subread-1.6.3+dfsg'
cd src; make -f Makefile.Linux clean
make[2]: Entering directory '/<<BUILDDIR>>/subread-1.6.3+dfsg/src'
rm -f core featureCounts exactSNP removeDup subread-buildindex core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o
make[2]: Leaving directory '/<<BUILDDIR>>/subread-1.6.3+dfsg/src'
dh_clean
	rm -f debian/debhelper-build-stamp
	rm -rf debian/.debhelper/
	rm -f -- debian/subread.substvars debian/subread-data.substvars debian/files
	rm -fr -- debian/subread/ debian/tmp/ debian/subread-data/
	find .  \( \( \
		\( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \
	        \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
		 -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
		 -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
		 -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
		\) -exec rm -f {} + \) -o \
		\( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \)
make[1]: Leaving directory '/<<BUILDDIR>>/subread-1.6.3+dfsg'
 debian/rules build-arch
dh build-arch
   dh_update_autotools_config -a
   dh_autoreconf -a
   debian/rules override_dh_auto_build
make[1]: Entering directory '/<<BUILDDIR>>/subread-1.6.3+dfsg'
cd src; make -f Makefile.Linux
make[2]: Entering directory '/<<BUILDDIR>>/subread-1.6.3+dfsg/src'
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o core.o core.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o core-junction.o core-junction.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o core-indel.o core-indel.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o sambam-file.o sambam-file.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o sublog.o sublog.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o gene-algorithms.o gene-algorithms.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o hashtable.o hashtable.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o input-files.o input-files.c
input-files.c: In function 'f_subr_open':
input-files.c:50:10: warning: implicit declaration of function 'fopen64'; did you mean 'gzopen64'? [-Wimplicit-function-declaration]
   return fopen64(fname, mode);
          ^~~~~~~
          gzopen64
input-files.c:50:10: warning: returning 'int' from a function with return type 'FILE *' {aka 'struct _IO_FILE *'} makes pointer from integer without a cast [-Wint-conversion]
   return fopen64(fname, mode);
          ^~~~~~~~~~~~~~~~~~~~
input-files.c: In function 'SAM_nosort_run_once':
input-files.c:5185:23: warning: argument 1 value '4294967295' exceeds maximum object size 2147483647 [-Walloc-size-larger-than=]
   char * header_txt = malloc(max(1000000,pairer->BAM_l_text));
                       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from input-files.c:24:
/usr/include/stdlib.h:539:14: note: in a call to allocation function 'malloc' declared here
 extern void *malloc (size_t __size) __THROW __attribute_malloc__ __wur;
              ^~~~~~
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o sorted-hashtable.o sorted-hashtable.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o gene-value-index.o gene-value-index.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o exon-algorithms.o exon-algorithms.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o HelperFunctions.o HelperFunctions.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o interval_merge.o interval_merge.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o long-hashtable.o long-hashtable.c
long-hashtable.c: In function 'lnhash_create':
long-hashtable.c:43:45: warning: conversion from 'long long unsigned int' to 'size_t' {aka 'unsigned int'} changes value from '8589934592' to '0' [-Woverflow]
  the_table -> key_repeated_numbers = malloc(sizeof(short) * 0x100000000llu);
                                             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o core-bigtable.o core-bigtable.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o seek-zlib.o seek-zlib.c
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o detectionCall detection-calls.c  core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
In file included from detection-calls.c:8:
detection-calls.c: In function 'DTCprint_lentab_items':
detection-calls.c:160:16: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'int' [-Wformat=]
  SUBREADprintf("%s => %ld\n", (char*)key, hashed_obj - NULL);
                ^~~~~~~~~~~~~
subread.h:125:44: note: in definition of macro 'SUBREADprintf'
 #define SUBREADprintf(...) fprintf(stderr, __VA_ARGS__)
                                            ^~~~~~~~~~~
echo " " > longread-one/make.version
rm -f longread-one/*.o
cd longread-one && make
make[3]: Entering directory '/<<BUILDDIR>>/subread-1.6.3+dfsg/src/longread-one'
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE  -D_FILE_OFFSET_BITS=64 -D SUBREAD_VERSION=\""1.6.3"\"  -fmessage-length=0  -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o LRMsorted-hashtable.o LRMsorted-hashtable.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE  -D_FILE_OFFSET_BITS=64 -D SUBREAD_VERSION=\""1.6.3"\"  -fmessage-length=0  -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o LRMbase-index.o LRMbase-index.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE  -D_FILE_OFFSET_BITS=64 -D SUBREAD_VERSION=\""1.6.3"\"  -fmessage-length=0  -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o LRMchro-event.o LRMchro-event.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE  -D_FILE_OFFSET_BITS=64 -D SUBREAD_VERSION=\""1.6.3"\"  -fmessage-length=0  -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o LRMhelper.o LRMhelper.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE  -D_FILE_OFFSET_BITS=64 -D SUBREAD_VERSION=\""1.6.3"\"  -fmessage-length=0  -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o LRMseek-zlib.o LRMseek-zlib.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE  -D_FILE_OFFSET_BITS=64 -D SUBREAD_VERSION=\""1.6.3"\"  -fmessage-length=0  -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o LRMfile-io.o LRMfile-io.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE  -D_FILE_OFFSET_BITS=64 -D SUBREAD_VERSION=\""1.6.3"\"  -fmessage-length=0  -ggdb -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o LRMhashtable.o LRMhashtable.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE  -D_FILE_OFFSET_BITS=64 -D SUBREAD_VERSION=\""1.6.3"\"  -fmessage-length=0  -ggdb -o LRM longread-mapping.c   LRMsorted-hashtable.o LRMbase-index.o LRMchro-event.o LRMhelper.o LRMseek-zlib.o LRMfile-io.o LRMhashtable.o  -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm -lpthread -lz -lm -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE 
make[3]: Leaving directory '/<<BUILDDIR>>/subread-1.6.3+dfsg/src/longread-one'
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o repair read-repair.c  core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o txUnique tx-unique.c  core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o featureCounts readSummary.c core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o  removeDup removeDupReads.c  core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb  -o exactSNP SNPCalling.c  core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
SNPCalling.c: In function 'main':
SNPCalling.c:1460:32: warning: '/temp-snps-' directive writing 11 bytes into a region of size between 1 and 300 [-Wformat-overflow=]
   sprintf(temp_file_prefix, "%s/temp-snps-%06u-%s-", temp_location, getpid(), mac_rand);
                                ^~~~~~~~~~~
SNPCalling.c:1460:29: note: using the range [0, 4294967295] for directive argument
   sprintf(temp_file_prefix, "%s/temp-snps-%06u-%s-", temp_location, getpid(), mac_rand);
                             ^~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:873,
                 from SNPCalling.c:26:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 20 and 335 bytes into a destination of size 300
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __bos (__s), __fmt, __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb  -o subread-buildindex  index-builder.c core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o subindel SUBindel.c core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
SUBindel.c: In function 'load_global_context_forindel':
SUBindel.c:66:24: warning: '.reads' directive writing 6 bytes into a region of size between 1 and 300 [-Wformat-overflow=]
  sprintf(tmp_fname, "%s.reads", context->config.index_prefix);
                        ^~~~~~
In file included from /usr/include/stdio.h:873,
                 from SUBindel.c:20:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 7 and 306 bytes into a destination of size 300
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __bos (__s), __fmt, __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SUBindel.c:77:25: warning: '.00.b.tab' directive writing 9 bytes into a region of size between 1 and 300 [-Wformat-overflow=]
   sprintf(tmp_fname, "%s.00.b.tab", context->config.index_prefix);
                         ^~~~~~~~~
In file included from /usr/include/stdio.h:873,
                 from SUBindel.c:20:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 10 and 309 bytes into a destination of size 300
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __bos (__s), __fmt, __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SUBindel.c:75:25: warning: '.00.c.tab' directive writing 9 bytes into a region of size between 1 and 300 [-Wformat-overflow=]
   sprintf(tmp_fname, "%s.00.c.tab", context->config.index_prefix);
                         ^~~~~~~~~
In file included from /usr/include/stdio.h:873,
                 from SUBindel.c:20:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 10 and 309 bytes into a destination of size 300
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __bos (__s), __fmt, __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SUBindel.c:87:26: warning: '%02d' directive writing between 2 and 11 bytes into a region of size between 0 and 299 [-Wformat-overflow=]
   sprintf(tmp_fname, "%s.%02d.%c.tab", context->config.index_prefix, context->index_block_number, context->config.space_type == GENE_SPACE_COLOR?'c':'b');
                          ^~~~
In file included from /usr/include/stdio.h:873,
                 from SUBindel.c:20:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 10 and 318 bytes into a destination of size 300
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __bos (__s), __fmt, __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SUBindel.c: In function 'load_indexes_forindel':
SUBindel.c:110:26: warning: '%02d' directive writing between 2 and 10 bytes into a region of size between 0 and 299 [-Wformat-overflow=]
   sprintf(tmp_fname, "%s.%02d.%c.array", global_context->config.index_prefix, block_no,  global_context->config.space_type == GENE_SPACE_COLOR?'c':'b');
                          ^~~~
SUBindel.c:110:22: note: directive argument in the range [0, 2147483647]
   sprintf(tmp_fname, "%s.%02d.%c.array", global_context->config.index_prefix, block_no,  global_context->config.space_type == GENE_SPACE_COLOR?'c':'b');
                      ^~~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:873,
                 from SUBindel.c:20:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 12 and 319 bytes into a destination of size 300
   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
       __bos (__s), __fmt, __va_arg_pack ());
       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o subread-align core-interface-aligner.c  core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm 
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o subjunc core-interface-subjunc.c  core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm 
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o qualityScores qualityScores.c  core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o  -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o subread-fullscan fullscan.c  core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o  -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o propmapped propmapped.c core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""1.6.3"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o flattenGTF flattenAnnotations.c  core.o core-junction.o core-indel.o sambam-file.o sublog.o gene-algorithms.o hashtable.o input-files.o sorted-hashtable.o gene-value-index.o exon-algorithms.o HelperFunctions.o interval_merge.o long-hashtable.o core-bigtable.o seek-zlib.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
mkdir -p ../bin/utilities
mv longread-one/LRM longread-one/sublong
mv longread-one/sublong subread-align subjunc featureCounts  subindel exactSNP subread-buildindex ../bin/
mv detectionCall repair propmapped qualityScores removeDup subread-fullscan txUnique flattenGTF ../bin/utilities

###########################################################
#                                                         #
#  Installation successfully completed.                   #
#                                                         #
#  Generated executables were copied to directory ../bin/ #
#                                                         #
###########################################################

make[2]: Leaving directory '/<<BUILDDIR>>/subread-1.6.3+dfsg/src'
dh_auto_build -- CC=arm-linux-gnueabihf-gcc
make[1]: Leaving directory '/<<BUILDDIR>>/subread-1.6.3+dfsg'
	rm -f debian/subread.debhelper.log
   debian/rules override_dh_auto_test
make[1]: Entering directory '/<<BUILDDIR>>/subread-1.6.3+dfsg'
debian/tests/subread-tests /<<BUILDDIR>>/subread-1.6.3+dfsg
[2J[0;0H[30;47m



  **************************************************   
  **************************************************   
  ***                                            ***   
  *** This script will test the major functions  ***   
  *** in our package, including the index build- ***   
  *** er, subread-align, subjunc, featureCounts  ***   
  *** and exactSNP.                              ***   
  ***                                            ***   
  *** Test will start in   seconds.              ***   
  ***                                            ***   
  **************************************************   
  **************************************************   

[13;26H[33;44m9[13;26H8[13;26H7[13;26H6[13;26H5[13;26H4[13;26H3[13;26H2[13;26H1[13;26H0[0m[2J[0,0H
        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//=========================== indexBuilder setting ===========================\\
||                                                                            ||
||                Index name : small1                                         ||
||               Index space : base-space                                     ||
||           One block index : yes                                            ||
||          Repeat threshold : 100 repeats                                    ||
||  Distance to next subread : 1                                              ||
||                                                                            ||
||               Input files : 1 file in total                                ||
||                             o chr901.fa                                    ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//================================= Running ==================================\\
||                                                                            ||
|| Check the integrity of provided reference sequences ...                    ||
|| There were 4 notes for reference sequences.                                ||
|| The notes can be found in the log file, '../small1.log'.                   ||
|| Scan uninformative subreads in reference sequences ...                     ||
||    8%,   0 mins elapsed, rate=104.0k bps/s, total=0m                       ||
||   16%,   0 mins elapsed, rate=124.4k bps/s, total=0m                       ||
||   24%,   0 mins elapsed, rate=154.0k bps/s, total=0m                       ||
||   33%,   0 mins elapsed, rate=177.4k bps/s, total=0m                       ||
||   41%,   0 mins elapsed, rate=200.1k bps/s, total=0m                       ||
||   49%,   0 mins elapsed, rate=220.5k bps/s, total=0m                       ||
||   58%,   0 mins elapsed, rate=228.2k bps/s, total=0m                       ||
||   66%,   0 mins elapsed, rate=244.0k bps/s, total=0m                       ||
||   74%,   0 mins elapsed, rate=260.5k bps/s, total=0m                       ||
||   83%,   0 mins elapsed, rate=274.8k bps/s, total=0m                       ||
||   91%,   0 mins elapsed, rate=291.6k bps/s, total=0m                       ||
||   99%,   0 mins elapsed, rate=302.6k bps/s, total=0m                       ||
|| 52 uninformative subreads were found.                                      ||
|| These subreads were excluded from index building.                          ||
|| Build the index...                                                         ||
||    8%,   0 mins elapsed, rate=304.1k bps/s, total=0m                       ||
||   16%,   0 mins elapsed, rate=301.3k bps/s, total=0m                       ||
||   24%,   0 mins elapsed, rate=304.1k bps/s, total=0m                       ||
||   33%,   0 mins elapsed, rate=296.5k bps/s, total=0m                       ||
||   41%,   0 mins elapsed, rate=283.0k bps/s, total=0m                       ||
||   49%,   0 mins elapsed, rate=286.3k bps/s, total=0m                       ||
||   58%,   0 mins elapsed, rate=288.4k bps/s, total=0m                       ||
||   66%,   0 mins elapsed, rate=291.1k bps/s, total=0m                       ||
||   74%,   0 mins elapsed, rate=295.2k bps/s, total=0m                       ||
||   83%,   0 mins elapsed, rate=294.9k bps/s, total=0m                       ||
||   91%,   0 mins elapsed, rate=301.9k bps/s, total=0m                       ||
||   99%,   0 mins elapsed, rate=301.2k bps/s, total=0m                       ||
|| Save current index block...                                                ||
||  [ 0.0% finished ]                                                         ||
||  [ 10.0% finished ]                                                        ||
||  [ 20.0% finished ]                                                        ||
||  [ 30.0% finished ]                                                        ||
||  [ 40.0% finished ]                                                        ||
||  [ 50.0% finished ]                                                        ||
||  [ 60.0% finished ]                                                        ||
||  [ 70.0% finished ]                                                        ||
||  [ 80.0% finished ]                                                        ||
||  [ 90.0% finished ]                                                        ||
||  [ 100.0% finished ]                                                       ||
||                                                                            ||
||                      Total running time: 0.6 minutes.                      ||
||                  Index ../small1 was successfully built!                   ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//


        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//========================== subread-align setting ===========================\\
||                                                                            ||
|| Function      : Read alignment (RNA-Seq)                                   ||
|| Input file    : test-noerror-r1.fq                                         ||
|| Output file   : test-tmp.sam (SAM)                                         ||
|| Index name    : small1                                                     ||
||                                                                            ||
||                    ------------------------------------                    ||
||                                                                            ||
||                               Threads : 1                                  ||
||                          Phred offset : 64                                 ||
||                             Min votes : 3 / 10                             ||
||                        Max mismatches : 3                                  ||
||                      Max indel length : 5                                  ||
||            Report multi-mapping reads : no                                 ||
|| Max alignments per multi-mapping read : 1                                  ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//================ Running (02-Feb-2019 13:29:23, pid=30633) =================\\
||                                                                            ||
|| The input file contains base space reads.                                  ||
|| The range of Phred scores observed in the data is [9,9]                    ||
|| Load the 1-th index block...                                               ||
||   33% completed, 0.1 mins elapsed, rate=10.8k reads per second             ||
||   39% completed, 0.1 mins elapsed, rate=10.8k reads per second             ||
||   46% completed, 0.1 mins elapsed, rate=10.8k reads per second             ||
||   53% completed, 0.1 mins elapsed, rate=10.8k reads per second             ||
||   60% completed, 0.1 mins elapsed, rate=10.8k reads per second             ||
||   74% completed, 0.1 mins elapsed, rate=2.2k reads per second              ||
||   83% completed, 0.1 mins elapsed, rate=2.3k reads per second              ||
||   91% completed, 0.1 mins elapsed, rate=2.4k reads per second              ||
||                                                                            ||
||                          Completed successfully.                           ||
||                                                                            ||
\\============================================================================//

//================================= Summary ==================================\\
||                                                                            ||
||         Total reads : 19998                                                ||
||              Mapped : 18757 (93.8%)                                        ||
||     Uniquely mapped : 18757                                                ||
||       Multi-mapping : 0                                                    ||
||                                                                            ||
||            Unmapped : 1241                                                 ||
||                                                                            ||
||              Indels : 3                                                    ||
||                                                                            ||
||        Running time : 0.1 minutes                                          ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//


        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//========================== subread-align setting ===========================\\
||                                                                            ||
|| Function      : Read alignment (RNA-Seq)                                   ||
|| Input file    : test-noerror-r1.fq                                         ||
|| Output file   : test-tmp.sam (SAM)                                         ||
|| Index name    : small1                                                     ||
||                                                                            ||
||                    ------------------------------------                    ||
||                                                                            ||
||                               Threads : 1                                  ||
||                          Phred offset : 64                                 ||
||                             Min votes : 3 / 10                             ||
||                        Max mismatches : 3                                  ||
||                      Max indel length : 5                                  ||
||            Report multi-mapping reads : no                                 ||
|| Max alignments per multi-mapping read : 1                                  ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//================ Running (02-Feb-2019 13:29:33, pid=30637) =================\\
||                                                                            ||
|| The input file contains base space reads.                                  ||
|| The range of Phred scores observed in the data is [9,9]                    ||
|| Load the 1-th index block...                                               ||
||   33% completed, 0.1 mins elapsed, rate=11.0k reads per second             ||
||   39% completed, 0.1 mins elapsed, rate=11.0k reads per second             ||
||   46% completed, 0.1 mins elapsed, rate=11.0k reads per second             ||
||   53% completed, 0.1 mins elapsed, rate=11.0k reads per second             ||
||   60% completed, 0.1 mins elapsed, rate=11.0k reads per second             ||
||   74% completed, 0.1 mins elapsed, rate=2.2k reads per second              ||
||   83% completed, 0.1 mins elapsed, rate=2.3k reads per second              ||
||   91% completed, 0.1 mins elapsed, rate=2.4k reads per second              ||
||                                                                            ||
||                          Completed successfully.                           ||
||                                                                            ||
\\============================================================================//

//================================= Summary ==================================\\
||                                                                            ||
||         Total reads : 19998                                                ||
||              Mapped : 18757 (93.8%)                                        ||
||     Uniquely mapped : 18757                                                ||
||       Multi-mapping : 0                                                    ||
||                                                                            ||
||            Unmapped : 1241                                                 ||
||                                                                            ||
||              Indels : 3                                                    ||
||                                                                            ||
||        Running time : 0.1 minutes                                          ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//


        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//========================== subread-align setting ===========================\\
||                                                                            ||
|| Function      : Read alignment (RNA-Seq)                                   ||
|| Input file 1  : test-noerror-r1.fq                                         ||
|| Input file 2  : test-noerror-r2.fq                                         ||
|| Output file   : test-tmp.sam (SAM)                                         ||
|| Index name    : small1                                                     ||
||                                                                            ||
||                    ------------------------------------                    ||
||                                                                            ||
||                               Threads : 1                                  ||
||                          Phred offset : 64                                 ||
||               # of extracted subreads : 10                                 ||
||                        Min read1 vote : 3                                  ||
||                        Min read2 vote : 1                                  ||
||                     Max fragment size : 600                                ||
||                     Min fragment size : 50                                 ||
||                        Max mismatches : 3                                  ||
||                      Max indel length : 5                                  ||
||            Report multi-mapping reads : no                                 ||
|| Max alignments per multi-mapping read : 1                                  ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//================ Running (02-Feb-2019 13:29:43, pid=30641) =================\\
||                                                                            ||
|| The input file contains base space reads.                                  ||
|| The range of Phred scores observed in the data is [9,9]                    ||
|| Load the 1-th index block...                                               ||
||   33% completed, 0.1 mins elapsed, rate=5.1k fragments per second          ||
||   39% completed, 0.1 mins elapsed, rate=5.1k fragments per second          ||
||   46% completed, 0.1 mins elapsed, rate=5.1k fragments per second          ||
||   53% completed, 0.1 mins elapsed, rate=5.1k fragments per second          ||
||   60% completed, 0.1 mins elapsed, rate=5.1k fragments per second          ||
||   74% completed, 0.1 mins elapsed, rate=1.8k fragments per second          ||
||   83% completed, 0.2 mins elapsed, rate=1.8k fragments per second          ||
||   91% completed, 0.2 mins elapsed, rate=1.8k fragments per second          ||
||                                                                            ||
||                          Completed successfully.                           ||
||                                                                            ||
\\============================================================================//

//================================= Summary ==================================\\
||                                                                            ||
||     Total fragments : 19998                                                ||
||              Mapped : 19216 (96.1%)                                        ||
||     Uniquely mapped : 19216                                                ||
||       Multi-mapping : 0                                                    ||
||                                                                            ||
||            Unmapped : 782                                                  ||
||                                                                            ||
||    Correctly paired : 18827                                                ||
|| Not mapped in pairs : 389                                                  ||
|| Only one end mapped : 4                                                    ||
||   Multi-chromosomes : 0                                                    ||
||   Different strands : 0                                                    ||
||  Not in PE distance : 385                                                  ||
||      Abnormal order : 0                                                    ||
||                                                                            ||
||              Indels : 14                                                   ||
||                                                                            ||
||        Running time : 0.2 minutes                                          ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//


        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//========================== subread-align setting ===========================\\
||                                                                            ||
|| Function      : Read alignment (RNA-Seq)                                   ||
|| Input file 1  : test-noerror-r1.fq                                         ||
|| Input file 2  : test-noerror-r2.fq                                         ||
|| Output file   : test-tmp.sam (SAM)                                         ||
|| Index name    : small1                                                     ||
||                                                                            ||
||                    ------------------------------------                    ||
||                                                                            ||
||                               Threads : 1                                  ||
||                          Phred offset : 64                                 ||
||               # of extracted subreads : 10                                 ||
||                        Min read1 vote : 3                                  ||
||                        Min read2 vote : 1                                  ||
||                     Max fragment size : 600                                ||
||                     Min fragment size : 50                                 ||
||                        Max mismatches : 3                                  ||
||                      Max indel length : 5                                  ||
||            Report multi-mapping reads : no                                 ||
|| Max alignments per multi-mapping read : 1                                  ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//================ Running (02-Feb-2019 13:29:57, pid=30645) =================\\
||                                                                            ||
|| The input file contains base space reads.                                  ||
|| The range of Phred scores observed in the data is [9,9]                    ||
|| Load the 1-th index block...                                               ||
||   33% completed, 0.1 mins elapsed, rate=4.9k fragments per second          ||
||   39% completed, 0.1 mins elapsed, rate=4.9k fragments per second          ||
||   46% completed, 0.1 mins elapsed, rate=4.9k fragments per second          ||
||   53% completed, 0.1 mins elapsed, rate=4.9k fragments per second          ||
||   60% completed, 0.1 mins elapsed, rate=4.9k fragments per second          ||
||   74% completed, 0.1 mins elapsed, rate=1.7k fragments per second          ||
||   83% completed, 0.2 mins elapsed, rate=1.7k fragments per second          ||
||   91% completed, 0.2 mins elapsed, rate=1.7k fragments per second          ||
||                                                                            ||
||                          Completed successfully.                           ||
||                                                                            ||
\\============================================================================//

//================================= Summary ==================================\\
||                                                                            ||
||     Total fragments : 19998                                                ||
||              Mapped : 19216 (96.1%)                                        ||
||     Uniquely mapped : 19216                                                ||
||       Multi-mapping : 0                                                    ||
||                                                                            ||
||            Unmapped : 782                                                  ||
||                                                                            ||
||    Correctly paired : 18827                                                ||
|| Not mapped in pairs : 389                                                  ||
|| Only one end mapped : 4                                                    ||
||   Multi-chromosomes : 0                                                    ||
||   Different strands : 0                                                    ||
||  Not in PE distance : 385                                                  ||
||      Abnormal order : 0                                                    ||
||                                                                            ||
||              Indels : 14                                                   ||
||                                                                            ||
||        Running time : 0.2 minutes                                          ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//


        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//========================== subread-align setting ===========================\\
||                                                                            ||
|| Function      : Read alignment (RNA-Seq)                                   ||
|| Input file 1  : test-error-r1.fq                                           ||
|| Input file 2  : test-error-r2.fq                                           ||
|| Output file   : test-tmp.sam (SAM)                                         ||
|| Index name    : small1                                                     ||
||                                                                            ||
||                    ------------------------------------                    ||
||                                                                            ||
||                               Threads : 1                                  ||
||                          Phred offset : 64                                 ||
||               # of extracted subreads : 10                                 ||
||                        Min read1 vote : 3                                  ||
||                        Min read2 vote : 1                                  ||
||                     Max fragment size : 600                                ||
||                     Min fragment size : 50                                 ||
||                        Max mismatches : 3                                  ||
||                      Max indel length : 5                                  ||
||            Report multi-mapping reads : no                                 ||
|| Max alignments per multi-mapping read : 1                                  ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//================ Running (02-Feb-2019 13:30:12, pid=30864) =================\\
||                                                                            ||
|| The input file contains base space reads.                                  ||
|| The range of Phred scores observed in the data is [-14,-14]                ||
|| Load the 1-th index block...                                               ||
||   33% completed, 0.1 mins elapsed, rate=5.4k fragments per second          ||
||   39% completed, 0.1 mins elapsed, rate=5.4k fragments per second          ||
||   46% completed, 0.1 mins elapsed, rate=5.5k fragments per second          ||
||   53% completed, 0.1 mins elapsed, rate=5.5k fragments per second          ||
||   60% completed, 0.1 mins elapsed, rate=5.4k fragments per second          ||
||   74% completed, 0.1 mins elapsed, rate=1.7k fragments per second          ||
||   83% completed, 0.2 mins elapsed, rate=1.7k fragments per second          ||
||   91% completed, 0.2 mins elapsed, rate=1.7k fragments per second          ||
||                                                                            ||
||                          Completed successfully.                           ||
||                                                                            ||
\\============================================================================//

//================================= Summary ==================================\\
||                                                                            ||
||     Total fragments : 20000                                                ||
||              Mapped : 18697 (93.5%)                                        ||
||     Uniquely mapped : 18697                                                ||
||       Multi-mapping : 0                                                    ||
||                                                                            ||
||            Unmapped : 1303                                                 ||
||                                                                            ||
||    Correctly paired : 13917                                                ||
|| Not mapped in pairs : 4780                                                 ||
|| Only one end mapped : 4502                                                 ||
||   Multi-chromosomes : 0                                                    ||
||   Different strands : 0                                                    ||
||  Not in PE distance : 273                                                  ||
||      Abnormal order : 5                                                    ||
||                                                                            ||
||              Indels : 31                                                   ||
||                                                                            ||
||        Running time : 0.2 minutes                                          ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//


        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//========================== subread-align setting ===========================\\
||                                                                            ||
|| Function      : Read alignment (RNA-Seq)                                   ||
|| Input file 1  : test-err-mut-r1.fq.gz                                      ||
|| Input file 2  : test-err-mut-r2.fq.gz                                      ||
|| Output file   : test-tmp.sam (SAM)                                         ||
|| Index name    : small1                                                     ||
||                                                                            ||
||                    ------------------------------------                    ||
||                                                                            ||
||                               Threads : 1                                  ||
||                          Phred offset : 64                                 ||
||               # of extracted subreads : 10                                 ||
||                        Min read1 vote : 3                                  ||
||                        Min read2 vote : 1                                  ||
||                     Max fragment size : 600                                ||
||                     Min fragment size : 50                                 ||
||                        Max mismatches : 3                                  ||
||                      Max indel length : 5                                  ||
||            Report multi-mapping reads : no                                 ||
|| Max alignments per multi-mapping read : 1                                  ||
||                       Read group name : MyTestGroup                        ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//================ Running (02-Feb-2019 13:30:26, pid=30979) =================\\
||                                                                            ||
|| The input file contains base space reads.                                  ||
|| The range of Phred scores observed in the data is [-14,-14]                ||
|| Load the 1-th index block...                                               ||
||   34% completed, 0.1 mins elapsed, rate=5.2k fragments per second          ||
||   40% completed, 0.1 mins elapsed, rate=5.4k fragments per second          ||
||   48% completed, 0.1 mins elapsed, rate=5.5k fragments per second          ||
||   53% completed, 0.1 mins elapsed, rate=5.5k fragments per second          ||
||   59% completed, 0.1 mins elapsed, rate=5.6k fragments per second          ||
||   67% completed, 0.1 mins elapsed, rate=5.6k fragments per second          ||
||   75% completed, 0.1 mins elapsed, rate=1.7k fragments per second          ||
||   83% completed, 0.1 mins elapsed, rate=1.8k fragments per second          ||
||   92% completed, 0.2 mins elapsed, rate=1.9k fragments per second          ||
||                                                                            ||
||                          Completed successfully.                           ||
||                                                                            ||
\\============================================================================//

//================================= Summary ==================================\\
||                                                                            ||
||     Total fragments : 20001                                                ||
||              Mapped : 18660 (93.3%)                                        ||
||     Uniquely mapped : 18660                                                ||
||       Multi-mapping : 0                                                    ||
||                                                                            ||
||            Unmapped : 1341                                                 ||
||                                                                            ||
||    Correctly paired : 13560                                                ||
|| Not mapped in pairs : 5100                                                 ||
|| Only one end mapped : 4786                                                 ||
||   Multi-chromosomes : 0                                                    ||
||   Different strands : 0                                                    ||
||  Not in PE distance : 309                                                  ||
||      Abnormal order : 5                                                    ||
||                                                                            ||
||              Indels : 161                                                  ||
||                                                                            ||
||        Running time : 0.2 minutes                                          ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

76f6c2a84c5097b13435bbeac4a8acd8  ../small1.00.b.array
25531897eb452b012b95ae4b1ca08fd7  ../small1.00.b.tab
*************************************************
*** SINGLE-END READS NO ERROR              ******
*************************************************

unmatched= 0 ;   matched= 18757 ;     unmapped= 1241 ;     reads= 19998     ;NN= 0
accuracy= 1.0  ;    sensitivity= 0.937943794379
paired_match= 0   ;     paired= 0.0
*************************************************
*** SINGLE-END READS NO ERROR NO DUP       ******
*************************************************

unmatched= 0 ;   matched= 18757 ;     unmapped= 1241 ;     reads= 19998     ;NN= 0
accuracy= 1.0  ;    sensitivity= 0.937943794379
paired_match= 0   ;     paired= 0.0

*************************************************
***  READS WITH NO ERROR                   ******
*************************************************

unmatched= 0 ;   matched= 38428 ;     unmapped= 1568 ;     reads= 39996     ;NN= 0
accuracy= 1.0  ;    sensitivity= 0.960796079608
paired_match= 38424   ;     paired= 0.999895909233

*************************************************
***  READS NO ERROR, NO DUPLICATED REPORT  ******
*************************************************

unmatched= 0 ;   matched= 38428 ;     unmapped= 1568 ;     reads= 39996     ;NN= 0
accuracy= 1.0  ;    sensitivity= 0.960796079608
paired_match= 38424   ;     paired= 0.999895909233

*************************************************
***  READS WITH ONLY SEQUENCING ERROR      ******
*************************************************

unmatched= 10 ;   matched= 32882 ;     unmapped= 7108 ;     reads= 40000     ;NN= 0
accuracy= 0.999695974705  ;    sensitivity= 0.8223
paired_match= 28380   ;     paired= 0.863086186972

*************************************************
***  READS WITH SEQUENCING ERROR AND MUTATION ***
***  SUBREAD IS RUN WITH LONG INDEL DETECTION ***
*************************************************

unmatched= 13 ;   matched= 32519 ;     unmapped= 7468 ;     reads= 40002     ;NN= 0
accuracy= 0.999600393459  ;    sensitivity= 0.813259337033
paired_match= 27736   ;     paired= 0.852916756358

        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//=========================== indexBuilder setting ===========================\\
||                                                                            ||
||                Index name : small1                                         ||
||               Index space : base-space                                     ||
||                    Memory : 3000 Mbytes                                    ||
||          Repeat threshold : 100 repeats                                    ||
||  Distance to next subread : 3                                              ||
||                                                                            ||
||               Input files : 1 file in total                                ||
||                             o chr901.fa                                    ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//================================= Running ==================================\\
||                                                                            ||
|| Check the integrity of provided reference sequences ...                    ||
|| There were 4 notes for reference sequences.                                ||
|| The notes can be found in the log file, '../small1.log'.                   ||
|| Scan uninformative subreads in reference sequences ...                     ||
||    8%,   0 mins elapsed, rate=228.3k bps/s, total=0m                       ||
||   16%,   0 mins elapsed, rate=275.4k bps/s, total=0m                       ||
||   24%,   0 mins elapsed, rate=317.2k bps/s, total=0m                       ||
||   33%,   0 mins elapsed, rate=347.2k bps/s, total=0m                       ||
||   41%,   0 mins elapsed, rate=375.6k bps/s, total=0m                       ||
||   49%,   0 mins elapsed, rate=400.9k bps/s, total=0m                       ||
||   58%,   0 mins elapsed, rate=421.4k bps/s, total=0m                       ||
||   66%,   0 mins elapsed, rate=444.4k bps/s, total=0m                       ||
||   74%,   0 mins elapsed, rate=464.3k bps/s, total=0m                       ||
||   83%,   0 mins elapsed, rate=482.4k bps/s, total=0m                       ||
||   91%,   0 mins elapsed, rate=502.5k bps/s, total=0m                       ||
||   99%,   0 mins elapsed, rate=515.9k bps/s, total=0m                       ||
|| 2 uninformative subreads were found.                                       ||
|| These subreads were excluded from index building.                          ||
|| Build the index...                                                         ||
||    8%,   0 mins elapsed, rate=841.6k bps/s, total=0m                       ||
||   16%,   0 mins elapsed, rate=812.8k bps/s, total=0m                       ||
||   24%,   0 mins elapsed, rate=811.5k bps/s, total=0m                       ||
||   33%,   0 mins elapsed, rate=803.1k bps/s, total=0m                       ||
||   41%,   0 mins elapsed, rate=801.1k bps/s, total=0m                       ||
||   49%,   0 mins elapsed, rate=798.6k bps/s, total=0m                       ||
||   58%,   0 mins elapsed, rate=796.7k bps/s, total=0m                       ||
||   66%,   0 mins elapsed, rate=796.3k bps/s, total=0m                       ||
||   74%,   0 mins elapsed, rate=800.3k bps/s, total=0m                       ||
||   83%,   0 mins elapsed, rate=801.1k bps/s, total=0m                       ||
||   91%,   0 mins elapsed, rate=808.2k bps/s, total=0m                       ||
||   99%,   0 mins elapsed, rate=808.2k bps/s, total=0m                       ||
|| Save current index block...                                                ||
||  [ 0.0% finished ]                                                         ||
||  [ 10.0% finished ]                                                        ||
||  [ 20.0% finished ]                                                        ||
||  [ 30.0% finished ]                                                        ||
||  [ 40.0% finished ]                                                        ||
||  [ 50.0% finished ]                                                        ||
||  [ 60.0% finished ]                                                        ||
||  [ 70.0% finished ]                                                        ||
||  [ 80.0% finished ]                                                        ||
||  [ 90.0% finished ]                                                        ||
||  [ 100.0% finished ]                                                       ||
||                                                                            ||
||                      Total running time: 0.1 minutes.                      ||
||                  Index ../small1 was successfully built!                   ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//


        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//============================= subjunc setting ==============================\\
||                                                                            ||
|| Function      : Read alignment + Junction detection (RNA-Seq)              ||
|| Input file 1  : junction-reads-A.fq                                        ||
|| Input file 2  : junction-reads-B.fq                                        ||
|| Output file   : junctions.sam (SAM)                                        ||
|| Index name    : small1                                                     ||
||                                                                            ||
||                    ------------------------------------                    ||
||                                                                            ||
||                               Threads : 1                                  ||
||                          Phred offset : 33                                 ||
||               # of extracted subreads : 14                                 ||
||                        Min read1 vote : 1                                  ||
||                        Min read2 vote : 1                                  ||
||                     Max fragment size : 600                                ||
||                     Min fragment size : 50                                 ||
||                        Max mismatches : 3                                  ||
||                      Max indel length : 5                                  ||
||            Report multi-mapping reads : no                                 ||
|| Max alignments per multi-mapping read : 1                                  ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//================ Running (02-Feb-2019 13:30:48, pid=30987) =================\\
||                                                                            ||
|| The input file contains base space reads.                                  ||
|| The range of Phred scores observed in the data is [2,41]                   ||
|| Load the 1-th index block...                                               ||
||   41% completed, 0.1 mins elapsed, rate=2.8k fragments per second          ||
||   48% completed, 0.1 mins elapsed, rate=2.7k fragments per second          ||
||   54% completed, 0.1 mins elapsed, rate=2.8k fragments per second          ||
||   61% completed, 0.1 mins elapsed, rate=2.8k fragments per second          ||
||   77% completed, 0.2 mins elapsed, rate=1.3k fragments per second          ||
||   87% completed, 0.2 mins elapsed, rate=1.4k fragments per second          ||
||   97% completed, 0.2 mins elapsed, rate=1.4k fragments per second          ||
||                                                                            ||
||                          Completed successfully.                           ||
||                                                                            ||
\\============================================================================//

//================================= Summary ==================================\\
||                                                                            ||
||     Total fragments : 16052                                                ||
||              Mapped : 15251 (95.0%)                                        ||
||     Uniquely mapped : 15251                                                ||
||       Multi-mapping : 0                                                    ||
||                                                                            ||
||            Unmapped : 801                                                  ||
||                                                                            ||
||    Correctly paired : 13854                                                ||
|| Not mapped in pairs : 1397                                                 ||
|| Only one end mapped : 966                                                  ||
||   Multi-chromosomes : 0                                                    ||
||   Different strands : 37                                                   ||
||  Not in PE distance : 332                                                  ||
||      Abnormal order : 62                                                   ||
||                                                                            ||
||           Junctions : 416                                                  ||
||              Indels : 182                                                  ||
||                                                                            ||
||        Running time : 0.2 minutes                                          ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//


        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//============================= subjunc setting ==============================\\
||                                                                            ||
|| Function      : Read alignment + Junction/Fusion detection (RNA-Seq)       ||
|| Input file 1  : junction-reads-A.fq                                        ||
|| Input file 2  : junction-reads-B.fq                                        ||
|| Output file   : junctionsNfusions.bam (BAM)                                ||
|| Index name    : small1                                                     ||
||                                                                            ||
||                    ------------------------------------                    ||
||                                                                            ||
||                               Threads : 1                                  ||
||                          Phred offset : 33                                 ||
||               # of extracted subreads : 28                                 ||
||                        Min read1 vote : 1                                  ||
||                        Min read2 vote : 1                                  ||
||                     Max fragment size : 600                                ||
||                     Min fragment size : 50                                 ||
||                        Max mismatches : 3                                  ||
||                      Max indel length : 5                                  ||
||            Report multi-mapping reads : no                                 ||
|| Max alignments per multi-mapping read : 1                                  ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//================ Running (02-Feb-2019 13:31:00, pid=30989) =================\\
||                                                                            ||
|| The input file contains base space reads.                                  ||
|| The range of Phred scores observed in the data is [2,41]                   ||
|| Load the 1-th index block...                                               ||
||   41% completed, 0.1 mins elapsed, rate=1.7k fragments per second          ||
||   48% completed, 0.1 mins elapsed, rate=1.7k fragments per second          ||
||   54% completed, 0.1 mins elapsed, rate=1.7k fragments per second          ||
||   61% completed, 0.1 mins elapsed, rate=1.7k fragments per second          ||
||   77% completed, 0.2 mins elapsed, rate=1.2k fragments per second          ||
||   87% completed, 0.2 mins elapsed, rate=1.2k fragments per second          ||
||   97% completed, 0.2 mins elapsed, rate=1.2k fragments per second          ||
||                                                                            ||
||                          Completed successfully.                           ||
||                                                                            ||
\\============================================================================//

//================================= Summary ==================================\\
||                                                                            ||
||     Total fragments : 16052                                                ||
||              Mapped : 15241 (94.9%)                                        ||
||     Uniquely mapped : 15241                                                ||
||       Multi-mapping : 0                                                    ||
||                                                                            ||
||            Unmapped : 811                                                  ||
||                                                                            ||
||    Correctly paired : 13759                                                ||
|| Not mapped in pairs : 1482                                                 ||
|| Only one end mapped : 1017                                                 ||
||   Multi-chromosomes : 0                                                    ||
||   Different strands : 37                                                   ||
||  Not in PE distance : 366                                                  ||
||      Abnormal order : 62                                                   ||
||                                                                            ||
||           Junctions : 434                                                  ||
||             Fusions : 32                                                   ||
||              Indels : 182                                                  ||
||                                                                            ||
||        Running time : 0.2 minutes                                          ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//


================================================================================
 FeatureCounts Basic Test
 http://subread.sourceforge.net/
================================================================================


        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//========================== featureCounts setting ===========================\\
||                                                                            ||
||             Input files : 1 SAM file                                       ||
||                           P test-minimum.sam                               ||
||                                                                            ||
||             Output file : test-minimum.FC                                  ||
||                 Summary : test-minimum.FC.summary                          ||
||              Annotation : test-minimum.GTF (GTF)                           ||
||      Dir for temp files : result                                           ||
||                                                                            ||
||                 Threads : 1                                                ||
||                   Level : meta-feature level                               ||
||              Paired-end : no                                               ||
||      Multimapping reads : not counted                                      ||
|| Multi-overlapping reads : not counted                                      ||
||   Min overlapping bases : 1                                                ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//================================= Running ==================================\\
||                                                                            ||
|| Load annotation file test-minimum.GTF ...                                  ||
||    Features : 23                                                           ||
||    Meta-features : 7                                                       ||
||    Chromosomes/contigs : 3                                                 ||
||                                                                            ||
|| Process SAM file test-minimum.sam...                                       ||
||    Paired-end reads are included.                                          ||
||    Assign alignments to features...                                        ||
||    Total alignments : 998                                                  ||
||    Successfully assigned alignments : 389 (39.0%)                          ||
||    Running time : 0.00 minutes                                             ||
||                                                                            ||
||                                                                            ||
|| Summary of counting results can be found in file "result/test-minimum.FC.  ||
|| summary"                                                                   ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

================================================================================
Basic Test finished.
The results are in result/test-minimum.FC
================================================================================




================================================================================
 FeatureCounts Chromosome Name Aliases Tests
 http://subread.sourceforge.net/
================================================================================

Testing chromosome aliases ...                                       [[32mPASS[0m]


================================================================================
 FeatureCounts Chromosome Name Inference Tests
 http://subread.sourceforge.net/
================================================================================

Testing automatic inference of chromosome names ...                  [[32mPASS[0m]


================================================================================
 FeatureCounts Corner Case Tests
 http://subread.sourceforge.net/
================================================================================

Testing indel reads ...                                              [[32mPASS[0m]
Testing junction reads ...                                           [[32mPASS[0m]
Testing paired-end reads (fragment counting) ...                     [[32mPASS[0m]
Testing paired-end reads (fragment counting, both ends mapped) ...   [[32mPASS[0m]
Testing multi-overlapping reads ...                                  [[32mPASS[0m]
Testing feature-level summarization ...                              [[32mPASS[0m]
Testing gene-level summarization ...                                 [[32mPASS[0m]
Testing multi-mapping reads ...                                      [[32mPASS[0m]
Testing multi-mapping reads (primary only) ...                       [[32mPASS[0m]
Testing both ends mapped ...                                         [[32mPASS[0m]
Testing disallowing chimeric fragments ...                           [[32mPASS[0m]
Testing Allowing multi-mapped reads ...                              [[32mPASS[0m]
Testing not sorting input file ...                                   [[32mPASS[0m]
Testing minimum overlapping length ...                               [[32mPASS[0m]
Testing minimum overlapping fraction ...                             [[32mPASS[0m]
Testing Largest Overlapping ...                                      [[32mPASS[0m]
Testing paired-end distance ...                                      [[32mPASS[0m]
Testing Read to position (5' end) ...                                [[32mPASS[0m]
Testing Read to position (3' end) ...                                [[32mPASS[0m]
Testing Read extension to the 3' end ...                             [[32mPASS[0m]
Testing Read extension to the 5' end ...                             [[32mPASS[0m]
Testing Low maxOPs value ...                                         [[32mPASS[0m]
Testing minimum mapping quality ...                                  [[32mPASS[0m]
Testing Ignoring duplicated reads ...                                [[32mPASS[0m]
Testing Fraction counting ...                                        [[32mPASS[0m]
Testing Advanced fractions ...                                       [[32mPASS[0m]
Testing Junction counting ...                                        [[32mPASS[0m,[32mPASS[0m]
Skipping Junction counting (with genome).
Testing GTF format annotations ...                                   [[32mPASS[0m]
Testing SAF format annotations ...                                   [[32mPASS[0m]
Testing SAM format input ...                                         [[32mPASS[0m]
Testing BAM format input ...                                         [[32mPASS[0m]
Testing unstranded read summarization ...                            [[32mPASS[0m]
Testing stranded read summarization ...                              [[32mPASS[0m]
Testing reversely stranded read summarization ...                    [[32mPASS[0m]
Testing Ignoring duplicate fragments ...                             [[32mPASS[0m]
Testing Junction reads only ...                                      [[32mPASS[0m]
Testing Exonic reads only ...                                        [[32mPASS[0m]

Testing intron_between ...                                           [[32mPASS[0m]
Testing intron_between ...                                           [[32mPASS[0m]
Testing intron_between ...                                           [[32mPASS[0m]
Testing intron_between ...                                           [[32mPASS[0m]
Testing across_genes ...                                             [[32mPASS[0m]
Testing across_genes ...                                             [[32mPASS[0m]
Testing across_genes ...                                             [[32mPASS[0m]
Testing across_genes ...                                             [[32mPASS[0m]
Testing across_intron ...                                            [[32mPASS[0m]
Testing across_intron ...                                            [[32mPASS[0m]
Testing across_intron ...                                            [[32mPASS[0m]
Testing across_intron ...                                            [[32mPASS[0m]
../../bin/exactSNP -g ../chr901.fa -o result/test-out.VCF -i data/test-in.BAM -b

        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v1.6.3

//============================= exactSNP setting =============================\\
||                                                                            ||
||                   Input file : test-in.BAM (BAM)                           ||
||                  Output file : test-out.VCF                                ||
||             Reference genome : chr901.fa                                   ||
||                                                                            ||
||                      Threads : 1                                           ||
||         Min supporting reads : 1                                           ||
|| Min pct. of supporting reads : 0.0%                                        ||
||       Min base quality score : 13                                          ||
||      Number of trimmed bases : 3                                           ||
||                                                                            ||
||               Q value cutoff : 10E-12.0                                    ||
||          P value upper bound : 0.00500                                     ||
||        Flanking windows size : 5                                           ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

//====================== Running (02-Feb-2019 13:31:19) ======================\\
||                                                                            ||
|| Split BAM file into result/temp-snps-031528-001F7BB4051A-* ...             ||
|| processed block chr901@999950 by thread 1/1 [block number=1/1]             ||
||                                                                            ||
||                          Completed successfully.                           ||
||                                                                            ||
\\============================================================================//

//================================= Summary ==================================\\
||                                                                            ||
||              Processed reads : 50204                                       ||
||                Reported SNPs : 415                                         ||
||              Reported indels : 21                                          ||
||                                                                            ||
||                 Running time : 0.1 minutes                                 ||
||                                                                            ||
\\===================== http://subread.sourceforge.net/ ======================//

[30;47m

  **************************************************   
  **************************************************   
  ***                                            ***   
  *** Test finished.                             ***   
  ***                                            ***   
  *** Should there be any error, please visit    ***   
  *** [34mhttp://subread.sourceforge.net/[0;30;47m for more   ***   
  *** information.                               ***   
  ***                                            ***   
  **************************************************   
  **************************************************   

[0m

make[1]: Leaving directory '/<<BUILDDIR>>/subread-1.6.3+dfsg'
   create-stamp debian/debhelper-build-stamp
 fakeroot debian/rules binary-arch
dh binary-arch
   dh_testroot -a
   dh_prep -a
	rm -f -- debian/subread.substvars
	rm -fr -- debian/.debhelper/generated/subread/ debian/subread/ debian/tmp/
   debian/rules override_dh_auto_install
make[1]: Entering directory '/<<BUILDDIR>>/subread-1.6.3+dfsg'
find /<<BUILDDIR>>/subread-1.6.3+dfsg -name "*.gz" -exec bash -c 'name="{}"; gzip -d "{}"; gzip -n "${name%.*}"' \;
mkdir -p /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1
help2man --no-info --help-option="''" --no-discard-stderr --name='an accurate and efficient aligner for mapping both genomic \
DNA-seq reads and RNA-seq reads (for the purpose of expression analysis)' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/subread-align | debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/subread-align.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='builds an base-space or color-space index using the reference sequences' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/subread-buildindex | debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/subread-buildindex.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='an RNA-seq aligner suitable for all purposes of RNA-seq analyses' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/subjunc | debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/subjunc.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='a highly efficient and accurate read summarization program' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/featureCounts | debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/featureCounts.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='a SNP caller that discovers SNPs by testing signals against local background noises' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/exactSNP | debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/exactSNP.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='detect short and long indels' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/subindel | debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/subindel.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='long-read aligner that is designed based on seed-and-vote' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/sublong| debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/sublong.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='scans the entire genome and reports all matches of a specified sequence' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/utilities/subread-fullscan | debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/subread-fullscan.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='calculate the proportion of mapped reads/fragments' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/utilities/propmapped | debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/propmapped.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='retrieve Phred score for read bases' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/utilities/qualityScores| debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/qualityScores.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='Find reads that are from the same pair in the input and then place them next \
to each other in the output. A dummy read is added for each singleton read that does not have a pair. \
The output file is compatible with featureCounts program' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/utilities/repair| debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/repair.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='Remove duplicated reads' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/utilities/removeDup| debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/removeDup.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='Flatten features included in a GTF annotation and save the modified annotation \
to a SAF format file.' \
/<<BUILDDIR>>/subread-1.6.3+dfsg/bin/utilities/flattenGTF| debian/filter.pl > /<<BUILDDIR>>/subread-1.6.3+dfsg/debian/subread/usr/share/man/man1/flattenGTF.1;
dh_auto_install
	install -d /<<BUILDDIR>>/subread-1.6.3\+dfsg/debian/tmp
make[1]: Leaving directory '/<<BUILDDIR>>/subread-1.6.3+dfsg'
   dh_install -a
	install -d debian/subread/usr/bin
	cp --reflink=auto -a ./bin/exactSNP ./bin/featureCounts ./bin/subindel ./bin/subjunc ./bin/sublong ./bin/subread-align ./bin/subread-buildindex debian/subread/usr/bin/
	install -d debian/subread/usr/lib/subread
	cp --reflink=auto -a ./bin/utilities/flattenGTF ./bin/utilities/propmapped ./bin/utilities/qualityScores ./bin/utilities/removeDup ./bin/utilities/repair ./bin/utilities/subread-fullscan ./bin/utilities/txUnique debian/subread/usr/lib/subread/
	install -d debian/.debhelper/generated/subread
	install -d debian/.debhelper/generated/subread-data
   dh_installdocs -a
	install -d debian/subread/usr/share/doc/subread
	cp --reflink=auto -a ./README.txt debian/subread/usr/share/doc/subread
	chown -R 0:0 debian/subread/usr/share/doc
	chmod -R u\+rw,go=rX debian/subread/usr/share/doc
	install -p -m0644 debian/README.Debian debian/subread/usr/share/doc/subread/README.Debian
	install -p -m0644 debian/copyright debian/subread/usr/share/doc/subread/copyright
   dh_installchangelogs -a
	install -p -m0644 debian/changelog debian/subread/usr/share/doc/subread/changelog.Debian
   dh_installman -a
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subread-align.1 > debian/subread/usr/share/man/man1/subread-align.1.dh-new
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/exactSNP.1 > debian/subread/usr/share/man/man1/exactSNP.1.dh-new
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/propmapped.1 > debian/subread/usr/share/man/man1/propmapped.1.dh-new
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/flattenGTF.1 > debian/subread/usr/share/man/man1/flattenGTF.1.dh-new
	mv debian/subread/usr/share/man/man1/exactSNP.1.dh-new debian/subread/usr/share/man/man1/exactSNP.1
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subindel.1 > debian/subread/usr/share/man/man1/subindel.1.dh-new
	mv debian/subread/usr/share/man/man1/flattenGTF.1.dh-new debian/subread/usr/share/man/man1/flattenGTF.1
	chmod 0644 -- debian/subread/usr/share/man/man1/flattenGTF.1
	mv debian/subread/usr/share/man/man1/propmapped.1.dh-new debian/subread/usr/share/man/man1/propmapped.1
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/qualityScores.1 > debian/subread/usr/share/man/man1/qualityScores.1.dh-new
	mv debian/subread/usr/share/man/man1/subread-align.1.dh-new debian/subread/usr/share/man/man1/subread-align.1
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subread-buildindex.1 > debian/subread/usr/share/man/man1/subread-buildindex.1.dh-new
	mv debian/subread/usr/share/man/man1/qualityScores.1.dh-new debian/subread/usr/share/man/man1/qualityScores.1
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/repair.1 > debian/subread/usr/share/man/man1/repair.1.dh-new
	mv debian/subread/usr/share/man/man1/subindel.1.dh-new debian/subread/usr/share/man/man1/subindel.1
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/sublong.1 > debian/subread/usr/share/man/man1/sublong.1.dh-new
	mv debian/subread/usr/share/man/man1/subread-buildindex.1.dh-new debian/subread/usr/share/man/man1/subread-buildindex.1
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subjunc.1 > debian/subread/usr/share/man/man1/subjunc.1.dh-new
	mv debian/subread/usr/share/man/man1/repair.1.dh-new debian/subread/usr/share/man/man1/repair.1
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/removeDup.1 > debian/subread/usr/share/man/man1/removeDup.1.dh-new
	mv debian/subread/usr/share/man/man1/sublong.1.dh-new debian/subread/usr/share/man/man1/sublong.1
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/subread-fullscan.1 > debian/subread/usr/share/man/man1/subread-fullscan.1.dh-new
	mv debian/subread/usr/share/man/man1/subjunc.1.dh-new debian/subread/usr/share/man/man1/subjunc.1
	man -l --recode UTF-8 ./debian/subread/usr/share/man/man1/featureCounts.1 > debian/subread/usr/share/man/man1/featureCounts.1.dh-new
	mv debian/subread/usr/share/man/man1/removeDup.1.dh-new debian/subread/usr/share/man/man1/removeDup.1
	chmod 0644 -- debian/subread/usr/share/man/man1/propmapped.1 debian/subread/usr/share/man/man1/qualityScores.1 debian/subread/usr/share/man/man1/repair.1 debian/subread/usr/share/man/man1/removeDup.1
	mv debian/subread/usr/share/man/man1/subread-fullscan.1.dh-new debian/subread/usr/share/man/man1/subread-fullscan.1
	chmod 0644 -- debian/subread/usr/share/man/man1/exactSNP.1 debian/subread/usr/share/man/man1/subindel.1 debian/subread/usr/share/man/man1/sublong.1 debian/subread/usr/share/man/man1/subread-fullscan.1
	mv debian/subread/usr/share/man/man1/featureCounts.1.dh-new debian/subread/usr/share/man/man1/featureCounts.1
	chmod 0644 -- debian/subread/usr/share/man/man1/subread-align.1 debian/subread/usr/share/man/man1/subread-buildindex.1 debian/subread/usr/share/man/man1/subjunc.1 debian/subread/usr/share/man/man1/featureCounts.1
   dh_perl -a
   dh_link -a
   dh_strip_nondeterminism -a
   dh_compress -a
	cd debian/subread
	chmod a-x usr/share/doc/subread/changelog.Debian usr/share/man/man1/exactSNP.1 usr/share/man/man1/featureCounts.1 usr/share/man/man1/flattenGTF.1 usr/share/man/man1/propmapped.1 usr/share/man/man1/qualityScores.1 usr/share/man/man1/removeDup.1 usr/share/man/man1/repair.1 usr/share/man/man1/subindel.1 usr/share/man/man1/subjunc.1 usr/share/man/man1/sublong.1 usr/share/man/man1/subread-align.1 usr/share/man/man1/subread-buildindex.1 usr/share/man/man1/subread-fullscan.1
	gzip -9nf usr/share/doc/subread/changelog.Debian usr/share/man/man1/exactSNP.1 usr/share/man/man1/featureCounts.1 usr/share/man/man1/flattenGTF.1 usr/share/man/man1/propmapped.1 usr/share/man/man1/qualityScores.1 usr/share/man/man1/removeDup.1 usr/share/man/man1/repair.1 usr/share/man/man1/subindel.1 usr/share/man/man1/subjunc.1 usr/share/man/man1/sublong.1 usr/share/man/man1/subread-align.1 usr/share/man/man1/subread-buildindex.1 usr/share/man/man1/subread-fullscan.1
	cd '/<<BUILDDIR>>/subread-1.6.3+dfsg'
   dh_fixperms -a
	find debian/subread -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0
	find debian/subread ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
	find debian/subread/usr/share/doc -type f -a -true -a ! -regex 'debian/subread/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/subread/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755
	find debian/subread/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/subread -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/subread/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x
	find debian/subread/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w
   dh_missing -a
   dh_dwz -a
	install -d debian/subread/usr/lib/debug/.dwz/arm-linux-gnueabihf
	dwz -q -mdebian/subread/usr/lib/debug/.dwz/arm-linux-gnueabihf/subread.debug -M/usr/lib/debug/.dwz/arm-linux-gnueabihf/subread.debug -- debian/subread/usr/bin/exactSNP debian/subread/usr/bin/featureCounts debian/subread/usr/bin/subindel debian/subread/usr/bin/subjunc debian/subread/usr/bin/sublong debian/subread/usr/bin/subread-align debian/subread/usr/bin/subread-buildindex debian/subread/usr/lib/subread/flattenGTF debian/subread/usr/lib/subread/propmapped debian/subread/usr/lib/subread/qualityScores debian/subread/usr/lib/subread/removeDup debian/subread/usr/lib/subread/repair debian/subread/usr/lib/subread/subread-fullscan debian/subread/usr/lib/subread/txUnique
	objcopy --compress-debug-sections debian/subread/usr/lib/debug/.dwz/arm-linux-gnueabihf/subread.debug
   dh_strip -a
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/exactSNP debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/33a2722cbfbd61cfe72cb7ccfdfd8f4849b214.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/33a2722cbfbd61cfe72cb7ccfdfd8f4849b214.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/33a2722cbfbd61cfe72cb7ccfdfd8f4849b214.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/exactSNP
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/64/33a2722cbfbd61cfe72cb7ccfdfd8f4849b214.debug debian/subread/usr/bin/exactSNP
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ac
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/featureCounts debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ac/dad8ba0371f206943ec95a4d376457ae1a063d.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ac/dad8ba0371f206943ec95a4d376457ae1a063d.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ac/dad8ba0371f206943ec95a4d376457ae1a063d.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/featureCounts
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ac/dad8ba0371f206943ec95a4d376457ae1a063d.debug debian/subread/usr/bin/featureCounts
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/7a
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subindel debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/7a/e1e9e1bbe482feee04acf9ec81118063ceb0dc.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/7a/e1e9e1bbe482feee04acf9ec81118063ceb0dc.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/7a/e1e9e1bbe482feee04acf9ec81118063ceb0dc.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/subindel
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/7a/e1e9e1bbe482feee04acf9ec81118063ceb0dc.debug debian/subread/usr/bin/subindel
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/27
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subjunc debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/27/a509b848041d99759b51ba6c1c2298394d400f.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/27/a509b848041d99759b51ba6c1c2298394d400f.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/27/a509b848041d99759b51ba6c1c2298394d400f.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/subjunc
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/27/a509b848041d99759b51ba6c1c2298394d400f.debug debian/subread/usr/bin/subjunc
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/84
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/sublong debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/84/4245aef709971070a3a6c0070cf29381bcaec3.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/84/4245aef709971070a3a6c0070cf29381bcaec3.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/84/4245aef709971070a3a6c0070cf29381bcaec3.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/sublong
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/84/4245aef709971070a3a6c0070cf29381bcaec3.debug debian/subread/usr/bin/sublong
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/70
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subread-align debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/70/bb02960f95768cd6b332075e9ac2f9257d8676.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/70/bb02960f95768cd6b332075e9ac2f9257d8676.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/70/bb02960f95768cd6b332075e9ac2f9257d8676.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/subread-align
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/70/bb02960f95768cd6b332075e9ac2f9257d8676.debug debian/subread/usr/bin/subread-align
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/93
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subread-buildindex debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/93/7f422d17d015ec050626a3d19c48ef710b7ed6.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/93/7f422d17d015ec050626a3d19c48ef710b7ed6.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/93/7f422d17d015ec050626a3d19c48ef710b7ed6.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/bin/subread-buildindex
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/93/7f422d17d015ec050626a3d19c48ef710b7ed6.debug debian/subread/usr/bin/subread-buildindex
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/47
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/flattenGTF debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/47/3afa5f56fd326c969d47b2ca9d3c08433fa105.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/47/3afa5f56fd326c969d47b2ca9d3c08433fa105.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/47/3afa5f56fd326c969d47b2ca9d3c08433fa105.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/flattenGTF
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/47/3afa5f56fd326c969d47b2ca9d3c08433fa105.debug debian/subread/usr/lib/subread/flattenGTF
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/55
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/propmapped debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/55/2f0710045e7bdafec52789b22b58a613ef0fe7.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/55/2f0710045e7bdafec52789b22b58a613ef0fe7.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/55/2f0710045e7bdafec52789b22b58a613ef0fe7.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/propmapped
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/55/2f0710045e7bdafec52789b22b58a613ef0fe7.debug debian/subread/usr/lib/subread/propmapped
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/4a
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/qualityScores debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/4a/53782ae0e547b2d849f4eb51003a533423301b.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/4a/53782ae0e547b2d849f4eb51003a533423301b.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/4a/53782ae0e547b2d849f4eb51003a533423301b.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/qualityScores
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/4a/53782ae0e547b2d849f4eb51003a533423301b.debug debian/subread/usr/lib/subread/qualityScores
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ad
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/removeDup debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ad/350a373f173e270a146075aca64a14b681f52e.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ad/350a373f173e270a146075aca64a14b681f52e.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ad/350a373f173e270a146075aca64a14b681f52e.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/removeDup
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ad/350a373f173e270a146075aca64a14b681f52e.debug debian/subread/usr/lib/subread/removeDup
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ef
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/repair debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ef/2d4069ffefb2b820be30dc49a397eccafdae7f.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ef/2d4069ffefb2b820be30dc49a397eccafdae7f.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ef/2d4069ffefb2b820be30dc49a397eccafdae7f.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/repair
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/ef/2d4069ffefb2b820be30dc49a397eccafdae7f.debug debian/subread/usr/lib/subread/repair
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/e1
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/subread-fullscan debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/e1/1128bc69d10e90a58439fb76c8ab921ea827a8.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/e1/1128bc69d10e90a58439fb76c8ab921ea827a8.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/e1/1128bc69d10e90a58439fb76c8ab921ea827a8.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/subread-fullscan
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/e1/1128bc69d10e90a58439fb76c8ab921ea827a8.debug debian/subread/usr/lib/subread/subread-fullscan
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/45
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/txUnique debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/45/01c67e82295f542b452bed05e66e124570d5d3.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/45/01c67e82295f542b452bed05e66e124570d5d3.debug
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/45/01c67e82295f542b452bed05e66e124570d5d3.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/txUnique
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/45/01c67e82295f542b452bed05e66e124570d5d3.debug debian/subread/usr/lib/subread/txUnique
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.dwz
	cp --reflink=auto -a debian/subread/usr/lib/debug/.dwz/arm-linux-gnueabihf debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.dwz
	rm -fr debian/subread/usr/lib/debug/.dwz
	rmdir -p --ignore-fail-on-non-empty debian/subread/usr/lib/debug
	install -d debian/.debhelper/subread/dbgsym-root/usr/share/doc
	ln -s subread debian/.debhelper/subread/dbgsym-root/usr/share/doc/subread-dbgsym
   dh_makeshlibs -a
	rm -f debian/subread/DEBIAN/shlibs
   dh_shlibdeps -a
	install -d debian/subread/DEBIAN
	dpkg-shlibdeps -Tdebian/subread.substvars debian/subread/usr/bin/exactSNP debian/subread/usr/bin/featureCounts debian/subread/usr/bin/subindel debian/subread/usr/bin/subjunc debian/subread/usr/bin/sublong debian/subread/usr/bin/subread-align debian/subread/usr/bin/subread-buildindex debian/subread/usr/lib/subread/flattenGTF debian/subread/usr/lib/subread/propmapped debian/subread/usr/lib/subread/qualityScores debian/subread/usr/lib/subread/removeDup debian/subread/usr/lib/subread/repair debian/subread/usr/lib/subread/subread-fullscan debian/subread/usr/lib/subread/txUnique
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/subread/usr/lib/subread/txUnique debian/subread/usr/bin/subjunc debian/subread/usr/bin/exactSNP debian/subread/usr/lib/subread/propmapped debian/subread/usr/lib/subread/flattenGTF debian/subread/usr/bin/sublong debian/subread/usr/lib/subread/repair debian/subread/usr/bin/subread-buildindex debian/subread/usr/bin/subindel debian/subread/usr/lib/subread/removeDup debian/subread/usr/bin/subread-align debian/subread/usr/bin/featureCounts debian/subread/usr/lib/subread/subread-fullscan debian/subread/usr/lib/subread/qualityScores were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
   dh_installdeb -a
   dh_gencontrol -a
	echo misc:Depends= >> debian/subread.substvars
	echo misc:Pre-Depends= >> debian/subread.substvars
	install -d debian/.debhelper/subread/dbgsym-root/DEBIAN
	dpkg-gencontrol -psubread -ldebian/changelog -Tdebian/subread.substvars -Pdebian/.debhelper/subread/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -DPackage=subread-dbgsym "-DDepends=subread (= \${binary:Version})" "-DDescription=debug symbols for subread" "-DBuild-Ids=27a509b848041d99759b51ba6c1c2298394d400f 4501c67e82295f542b452bed05e66e124570d5d3 473afa5f56fd326c969d47b2ca9d3c08433fa105 4a53782ae0e547b2d849f4eb51003a533423301b 552f0710045e7bdafec52789b22b58a613ef0fe7 6433a2722cbfbd61cfe72cb7ccfdfd8f4849b214 70bb02960f95768cd6b332075e9ac2f9257d8676 7ae1e9e1bbe482feee04acf9ec81118063ceb0dc 844245aef709971070a3a6c0070cf29381bcaec3 937f422d17d015ec050626a3d19c48ef710b7ed6 acdad8ba0371f206943ec95a4d376457ae1a063d ad350a373f173e270a146075aca64a14b681f52e e11128bc69d10e90a58439fb76c8ab921ea827a8 ef2d4069ffefb2b820be30dc49a397eccafdae7f" -DSection=debug -UMulti-Arch -UReplaces -UBreaks
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/DEBIAN/control
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/DEBIAN/control
	dpkg-gencontrol -psubread -ldebian/changelog -Tdebian/subread.substvars -Pdebian/subread -UMulti-Arch
	chmod 0644 -- debian/subread/DEBIAN/control
	chown 0:0 -- debian/subread/DEBIAN/control
   dh_md5sums -a
	cd debian/subread >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	chmod 0644 -- debian/subread/DEBIAN/md5sums
	chown 0:0 -- debian/subread/DEBIAN/md5sums
	cd debian/.debhelper/subread/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/DEBIAN/md5sums
	chown 0:0 -- debian/.debhelper/subread/dbgsym-root/DEBIAN/md5sums
   dh_builddeb -a
	dpkg-deb --build debian/subread ..
	dpkg-deb --build debian/.debhelper/subread/dbgsym-root ..
dpkg-deb: building package 'subread' in '../subread_1.6.3+dfsg-1_armhf.deb'.
dpkg-deb: building package 'subread-dbgsym' in '../subread-dbgsym_1.6.3+dfsg-1_armhf.deb'.
 dpkg-genbuildinfo --build=any
 dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../subread_1.6.3+dfsg-1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
 dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2019-02-02T13:32:58Z

Finished
--------

I: Built successfully

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


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


subread_1.6.3+dfsg-1_armhf.changes:
-----------------------------------

Format: 1.8
Date: Wed, 30 Jan 2019 20:19:47 +0100
Source: subread
Binary: subread subread-data
Architecture: armhf
Version: 1.6.3+dfsg-1
Distribution: buster-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Alexandre Mestiashvili <mestia@debian.org>
Description:
 subread    - toolkit for processing next-gen sequencing data
 subread-data - data files for subread package
Changes:
 subread (1.6.3+dfsg-1) unstable; urgency=medium
 .
   [ Alexandre Mestiashvili ]
   * New upstream version 1.6.3+dfsg
   * DH_VERBOSE=1, check for nocheck in DEB_BUILD_OPTIONS
   * Bump Policy to 4.3.0
   * Refresh patches
   * Don't install buggy detectionCall binary
   * Update d/README.Debian
 .
   [ Andreas Tille ]
   * debhelper 12
Checksums-Sha1:
 a8d4035506107ea04117cd7fe266166899c9e30c 6465132 subread-dbgsym_1.6.3+dfsg-1_armhf.deb
 c19137d0f344db200a7937be07d57fcd83083f18 5100 subread_1.6.3+dfsg-1_armhf.buildinfo
 b5e0dc5828f7c2da2520c9041ee105f5b1620623 410420 subread_1.6.3+dfsg-1_armhf.deb
Checksums-Sha256:
 4856febeb69d8a25c62cc8d9302b5812561a14b798167124de7c112157cfba93 6465132 subread-dbgsym_1.6.3+dfsg-1_armhf.deb
 a39f70aa5c1b73a1ec1ae4454babbc449cb00af9cb81625af15bb30575fd06c6 5100 subread_1.6.3+dfsg-1_armhf.buildinfo
 76f81daa384f2e5a8d331bf32f49d7be0ed82534e672cd196d2c0d9a7243932f 410420 subread_1.6.3+dfsg-1_armhf.deb
Files:
 c5b67c767659b2653b925997c3a9d286 6465132 debug optional subread-dbgsym_1.6.3+dfsg-1_armhf.deb
 03b2f5268b53f790a7f32f3f83c3f8a3 5100 science optional subread_1.6.3+dfsg-1_armhf.buildinfo
 ca5c5cba1fd136ddd7a51096763ce564 410420 science optional subread_1.6.3+dfsg-1_armhf.deb

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


subread-dbgsym_1.6.3+dfsg-1_armhf.deb
-------------------------------------

 new Debian package, version 2.0.
 size 6465132 bytes: control archive=1240 bytes.
     914 bytes,    12 lines      control              
    1571 bytes,    15 lines      md5sums              
 Package: subread-dbgsym
 Source: subread
 Version: 1.6.3+dfsg-1
 Auto-Built-Package: debug-symbols
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 7695
 Depends: subread (= 1.6.3+dfsg-1)
 Section: debug
 Priority: optional
 Description: debug symbols for subread
 Build-Ids: 27a509b848041d99759b51ba6c1c2298394d400f 4501c67e82295f542b452bed05e66e124570d5d3 473afa5f56fd326c969d47b2ca9d3c08433fa105 4a53782ae0e547b2d849f4eb51003a533423301b 552f0710045e7bdafec52789b22b58a613ef0fe7 6433a2722cbfbd61cfe72cb7ccfdfd8f4849b214 70bb02960f95768cd6b332075e9ac2f9257d8676 7ae1e9e1bbe482feee04acf9ec81118063ceb0dc 844245aef709971070a3a6c0070cf29381bcaec3 937f422d17d015ec050626a3d19c48ef710b7ed6 acdad8ba0371f206943ec95a4d376457ae1a063d ad350a373f173e270a146075aca64a14b681f52e e11128bc69d10e90a58439fb76c8ab921ea827a8 ef2d4069ffefb2b820be30dc49a397eccafdae7f

drwxr-xr-x root/root         0 2019-01-30 19:19 ./
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/27/
-rw-r--r-- root/root    579520 2019-01-30 19:19 ./usr/lib/debug/.build-id/27/a509b848041d99759b51ba6c1c2298394d400f.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/45/
-rw-r--r-- root/root    579328 2019-01-30 19:19 ./usr/lib/debug/.build-id/45/01c67e82295f542b452bed05e66e124570d5d3.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/47/
-rw-r--r-- root/root    573904 2019-01-30 19:19 ./usr/lib/debug/.build-id/47/3afa5f56fd326c969d47b2ca9d3c08433fa105.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/4a/
-rw-r--r-- root/root    575988 2019-01-30 19:19 ./usr/lib/debug/.build-id/4a/53782ae0e547b2d849f4eb51003a533423301b.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/55/
-rw-r--r-- root/root    577312 2019-01-30 19:19 ./usr/lib/debug/.build-id/55/2f0710045e7bdafec52789b22b58a613ef0fe7.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/64/
-rw-r--r-- root/root    615864 2019-01-30 19:19 ./usr/lib/debug/.build-id/64/33a2722cbfbd61cfe72cb7ccfdfd8f4849b214.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/70/
-rw-r--r-- root/root    579360 2019-01-30 19:19 ./usr/lib/debug/.build-id/70/bb02960f95768cd6b332075e9ac2f9257d8676.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/7a/
-rw-r--r-- root/root    573712 2019-01-30 19:19 ./usr/lib/debug/.build-id/7a/e1e9e1bbe482feee04acf9ec81118063ceb0dc.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/84/
-rw-r--r-- root/root    106644 2019-01-30 19:19 ./usr/lib/debug/.build-id/84/4245aef709971070a3a6c0070cf29381bcaec3.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/93/
-rw-r--r-- root/root    600380 2019-01-30 19:19 ./usr/lib/debug/.build-id/93/7f422d17d015ec050626a3d19c48ef710b7ed6.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/ac/
-rw-r--r-- root/root    720528 2019-01-30 19:19 ./usr/lib/debug/.build-id/ac/dad8ba0371f206943ec95a4d376457ae1a063d.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/ad/
-rw-r--r-- root/root    576176 2019-01-30 19:19 ./usr/lib/debug/.build-id/ad/350a373f173e270a146075aca64a14b681f52e.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/e1/
-rw-r--r-- root/root    572924 2019-01-30 19:19 ./usr/lib/debug/.build-id/e1/1128bc69d10e90a58439fb76c8ab921ea827a8.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.build-id/ef/
-rw-r--r-- root/root    572268 2019-01-30 19:19 ./usr/lib/debug/.build-id/ef/2d4069ffefb2b820be30dc49a397eccafdae7f.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root     43960 2019-01-30 19:19 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/subread.debug
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/share/
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/share/doc/
lrwxrwxrwx root/root         0 2019-01-30 19:19 ./usr/share/doc/subread-dbgsym -> subread


subread_1.6.3+dfsg-1_armhf.deb
------------------------------

 new Debian package, version 2.0.
 size 410420 bytes: control archive=1512 bytes.
     622 bytes,    14 lines      control              
    1988 bytes,    31 lines      md5sums              
 Package: subread
 Version: 1.6.3+dfsg-1
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 4805
 Depends: libc6 (>= 2.7), zlib1g (>= 1:1.2.3.3)
 Section: science
 Priority: optional
 Homepage: http://sourceforge.net/projects/subread/
 Description: toolkit for processing next-gen sequencing data
  Subread aligner can be used to align both gDNA-seq and RNA-seq reads.
  Subjunc aligner was specified designed for the detection of exon-exon
  junction. For the mapping of RNA-seq reads, Subread performs local
  alignments and Subjunc performs global alignments.

drwxr-xr-x root/root         0 2019-01-30 19:19 ./
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/bin/
-rwxr-xr-x root/root    387500 2019-01-30 19:19 ./usr/bin/exactSNP
-rwxr-xr-x root/root    457532 2019-01-30 19:19 ./usr/bin/featureCounts
-rwxr-xr-x root/root    354748 2019-01-30 19:19 ./usr/bin/subindel
-rwxr-xr-x root/root    367948 2019-01-30 19:19 ./usr/bin/subjunc
-rwxr-xr-x root/root     63104 2019-01-30 19:19 ./usr/bin/sublong
-rwxr-xr-x root/root    367900 2019-01-30 19:19 ./usr/bin/subread-align
-rwxr-xr-x root/root    375188 2019-01-30 19:19 ./usr/bin/subread-buildindex
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/lib/subread/
-rwxr-xr-x root/root    354700 2019-01-30 19:19 ./usr/lib/subread/flattenGTF
-rwxr-xr-x root/root    358844 2019-01-30 19:19 ./usr/lib/subread/propmapped
-rwxr-xr-x root/root    358956 2019-01-30 19:19 ./usr/lib/subread/qualityScores
-rwxr-xr-x root/root    354700 2019-01-30 19:19 ./usr/lib/subread/removeDup
-rwxr-xr-x root/root    354700 2019-01-30 19:19 ./usr/lib/subread/repair
-rwxr-xr-x root/root    354700 2019-01-30 19:19 ./usr/lib/subread/subread-fullscan
-rwxr-xr-x root/root    358796 2019-01-30 19:19 ./usr/lib/subread/txUnique
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/share/
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/share/doc/
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/share/doc/subread/
-rw-r--r-- root/root       692 2019-01-30 19:19 ./usr/share/doc/subread/README.Debian
-rw-r--r-- root/root      3850 2018-10-08 04:32 ./usr/share/doc/subread/README.txt
-rw-r--r-- root/root      2746 2019-01-30 19:19 ./usr/share/doc/subread/changelog.Debian.gz
-rw-r--r-- root/root      1130 2019-01-30 19:19 ./usr/share/doc/subread/copyright
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/share/man/
drwxr-xr-x root/root         0 2019-01-30 19:19 ./usr/share/man/man1/
-rw-r--r-- root/root      1165 2019-01-30 19:19 ./usr/share/man/man1/exactSNP.1.gz
-rw-r--r-- root/root      3411 2019-01-30 19:19 ./usr/share/man/man1/featureCounts.1.gz
-rw-r--r-- root/root       459 2019-01-30 19:19 ./usr/share/man/man1/flattenGTF.1.gz
-rw-r--r-- root/root       475 2019-01-30 19:19 ./usr/share/man/man1/propmapped.1.gz
-rw-r--r-- root/root       578 2019-01-30 19:19 ./usr/share/man/man1/qualityScores.1.gz
-rw-r--r-- root/root       481 2019-01-30 19:19 ./usr/share/man/man1/removeDup.1.gz
-rw-r--r-- root/root       604 2019-01-30 19:19 ./usr/share/man/man1/repair.1.gz
-rw-r--r-- root/root       369 2019-01-30 19:19 ./usr/share/man/man1/subindel.1.gz
-rw-r--r-- root/root      2304 2019-01-30 19:19 ./usr/share/man/man1/subjunc.1.gz
-rw-r--r-- root/root       578 2019-01-30 19:19 ./usr/share/man/man1/sublong.1.gz
-rw-r--r-- root/root      2381 2019-01-30 19:19 ./usr/share/man/man1/subread-align.1.gz
-rw-r--r-- root/root       706 2019-01-30 19:19 ./usr/share/man/man1/subread-buildindex.1.gz
-rw-r--r-- root/root       367 2019-01-30 19:19 ./usr/share/man/man1/subread-fullscan.1.gz


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| Post Build                                                                   |
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| Cleanup                                                                      |
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Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use

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| Summary                                                                      |
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Build Architecture: armhf
Build-Space: 123024
Build-Time: 543
Distribution: buster-staging
Host Architecture: armhf
Install-Time: 384
Job: subread_1.6.3+dfsg-1
Machine Architecture: armhf
Package: subread
Package-Time: 989
Source-Version: 1.6.3+dfsg-1
Space: 123024
Status: successful
Version: 1.6.3+dfsg-1
--------------------------------------------------------------------------------
Finished at 2019-02-02T13:32:58Z
Build needed 00:16:29, 123024k disc space
Raspbian Package Auto-Building

Build log for subread (1.6.3+dfsg-1) on armhf
