Build log for subread (2.0.1+dfsg-1) on armhf

subread → 2.0.1+dfsg-1 → armhf → 2020-05-28 12:00:37

sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01

+==============================================================================+
| subread 2.0.1+dfsg-1 (armhf)                 Thu, 28 May 2020 11:52:58 +0000 |
+==============================================================================+

Package: subread
Version: 2.0.1+dfsg-1
Source Version: 2.0.1+dfsg-1
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf

I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bullseye-staging-armhf-sbuild-344c85a0-ae67-4e92-9f83-6cc3cc2ab58b' with '<<CHROOT>>'

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

Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [11.7 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.8 MB]
Fetched 24.5 MB in 9s (2677 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges

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


Check APT
---------

Checking available source versions...

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

Reading package lists...
NOTICE: '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 13.7 MB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main subread 2.0.1+dfsg-1 (dsc) [2303 B]
Get:2 http://172.17.0.1/private bullseye-staging/main subread 2.0.1+dfsg-1 (tar) [13.7 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main subread 2.0.1+dfsg-1 (diff) [10.3 kB]
Fetched 13.7 MB in 6s (2119 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/subread-9A0uPl/subread-2.0.1+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/subread-9A0uPl' 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-Agbbhi/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-Agbbhi/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-Agbbhi/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg:               imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg:              unchanged: 1
gpg:       secret keys read: 1
gpg:   secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-Agbbhi/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-Agbbhi/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-Agbbhi/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-Agbbhi/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-Agbbhi/apt_archive ./ Packages [432 B]
Fetched 2108 B in 0s (9691 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...

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

Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
  libpam-cap netbase
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
  sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 17 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-Agbbhi/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 (65.5 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12233 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges

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

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

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


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

Merged Build-Depends: bc, debhelper-compat (= 12), help2man, python3, zlib1g-dev
Filtered Build-Depends: bc, debhelper-compat (= 12), help2man, python3, zlib1g-dev
dpkg-deb: building package 'sbuild-build-depends-subread-dummy' in '/<<BUILDDIR>>/resolver-Agbbhi/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-Agbbhi/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-Agbbhi/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-Agbbhi/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-Agbbhi/apt_archive ./ Sources [512 B]
Get:5 copy:/<<BUILDDIR>>/resolver-Agbbhi/apt_archive ./ Packages [594 B]
Fetched 2439 B in 0s (11.1 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...

Install 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:
  libpam-cap netbase
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
  libdebhelper-perl libelf1 libexpat1 libfile-stripnondeterminism-perl
  libglib2.0-0 libicu63 liblocale-gettext-perl libmagic-mgc libmagic1
  libmpdec2 libncurses6 libpipeline1 libpython3-stdlib libpython3.8-minimal
  libpython3.8-stdlib libsigsegv2 libssl1.1 libsub-override-perl libtinfo5
  libtool libuchardet0 libxml2 m4 man-db mime-support po-debconf python3
  python3-minimal python3.8 python3.8-minimal sensible-utils zlib1g-dev
Suggested packages:
  autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
  vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff
  libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less
  www-browser libmail-box-perl python3-doc python3-tk python3-venv
  python3.8-venv python3.8-doc binfmt-support
Recommended packages:
  curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
  xdg-user-dirs libgpm2 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
  libdebhelper-perl libelf1 libexpat1 libfile-stripnondeterminism-perl
  libglib2.0-0 libicu63 liblocale-gettext-perl libmagic-mgc libmagic1
  libmpdec2 libncurses6 libpipeline1 libpython3-stdlib libpython3.8-minimal
  libpython3.8-stdlib libsigsegv2 libssl1.1 libsub-override-perl libtinfo5
  libtool libuchardet0 libxml2 m4 man-db mime-support po-debconf python3
  python3-minimal python3.8 python3.8-minimal
  sbuild-build-depends-subread-dummy sensible-utils zlib1g-dev
0 upgraded, 52 newly installed, 0 to remove and 17 not upgraded.
Need to get 25.2 MB of archives.
After this operation, 91.0 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-Agbbhi/apt_archive ./ sbuild-build-depends-subread-dummy 0.invalid.0 [880 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf liblocale-gettext-perl armhf 1.07-4 [18.1 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.2-1 [318 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-5 [783 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.2-2 [29.6 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.1-1 [1262 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1g-1 [1272 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf libpython3.8-minimal armhf 3.8.3-1 [751 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.9-1 [71.5 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf python3.8-minimal armhf 3.8.3-1 [1629 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf python3-minimal armhf 3.8.2-3 [37.6 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf mime-support all 3.64 [37.8 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf libmpdec2 armhf 2.4.2-3 [68.1 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf libpython3.8-stdlib armhf 3.8.3-1 [1600 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf python3.8 armhf 3.8.3-1 [416 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf libpython3-stdlib armhf 3.8.2-3 [20.8 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf python3 armhf 3.8.2-3 [63.7 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libncurses6 armhf 6.2-1 [79.5 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf bc armhf 1.07.1-2+b1 [101 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-5 [262 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-5 [113 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-5 [67.0 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11.1 [341 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.2-1 [775 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-14 [513 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 13.1 [187 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.8.1-1 [25.2 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.8.1-1 [14.9 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.64.2-1 [1158 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-3 [7987 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-5 [592 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 13.1 [1012 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf help2man armhf 1.47.15 [181 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Setting up libpython3.8-minimal:armhf (3.8.3-1) ...
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Setting up python3.8-minimal (3.8.3-1) ...
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(Reading database ... 13209 files and directories currently installed.)
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Preparing to unpack .../33-sbuild-build-depends-subread-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-subread-dummy (0.invalid.0) ...
Setting up libpipeline1:armhf (1.5.2-2) ...
Setting up mime-support (3.64) ...
Setting up libmagic-mgc (1:5.38-5) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libglib2.0-0:armhf (2.64.2-1) ...
No schema files found: doing nothing.
Setting up libdebhelper-perl (13.1) ...
Setting up libmagic1:armhf (1:5.38-5) ...
Setting up gettext-base (0.19.8.1-10) ...
Setting up file (1:5.38-5) ...
Setting up libicu63:armhf (63.2-3) ...
Setting up autotools-dev (20180224.1) ...
Setting up libncurses6:armhf (6.2-1) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up autopoint (0.19.8.1-10) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Setting up sensible-utils (0.0.12+nmu1) ...
Setting up libuchardet0:armhf (0.0.6-3) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libmpdec2:armhf (2.4.2-3) ...
Setting up libpython3.8-stdlib:armhf (3.8.3-1) ...
Setting up python3.8 (3.8.3-1) ...
Setting up libbsd0:armhf (0.10.0-1) ...
Setting up libtinfo5:armhf (6.2-1) ...
Setting up libelf1:armhf (0.176-1.1) ...
Setting up libxml2:armhf (2.9.10+dfsg-5) ...
Setting up liblocale-gettext-perl (1.07-4) ...
Setting up libpython3-stdlib:armhf (3.8.2-3) ...
Setting up libfile-stripnondeterminism-perl (1.8.1-1) ...
Setting up libtool (2.4.6-14) ...
Setting up bc (1.07.1-2+b1) ...
Setting up m4 (1.4.18-4) ...
Setting up python3 (3.8.2-3) ...
Setting up help2man (1.47.15) ...
Setting up bsdmainutils (11.1.2) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up libcroco3:armhf (0.6.13-1) ...
Setting up autoconf (2.69-11.1) ...
Setting up dh-strip-nondeterminism (1.8.1-1) ...
Setting up dwz (0.13-5) ...
Setting up groff-base (1.22.4-5) ...
Setting up automake (1:1.16.2-1) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up gettext (0.19.8.1-10) ...
Setting up man-db (2.9.1-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up po-debconf (1.0.21) ...
Setting up dh-autoreconf (19) ...
Setting up debhelper (13.1) ...
Setting up sbuild-build-depends-subread-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.30-8+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges

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

Kernel: Linux 4.15.0-76-generic armhf (armv8l)
Toolchain package versions: binutils_2.34-8+rpi1 dpkg-dev_1.19.7 g++-9_9.3.0-12+rpi1 gcc-9_9.3.0-12+rpi1 libc6-dev_2.30-8+rpi1 libstdc++-9-dev_9.3.0-12+rpi1 libstdc++6_10.1.0-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2
Package versions: adduser_3.118 apt_2.1.4 autoconf_2.69-11.1 automake_1:1.16.2-1 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.47 bash_5.0-6 bc_1.07.1-2+b1 binutils_2.34-8+rpi1 binutils-arm-linux-gnueabihf_2.34-8+rpi1 binutils-common_2.34-8+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.35.1-5 build-essential_12.8 bzip2_1.0.8-2 coreutils_8.30-3 cpp_4:9.2.1-3.1+rpi1 cpp-9_9.3.0-12+rpi1 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13.1 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.8.1-1 diffutils_1:3.7-3 dirmngr_2.2.20-1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.24-1 fdisk_2.35.1-5 file_1:5.38-5 findutils_4.7.0-1 g++_4:9.2.1-3.1+rpi1 g++-9_9.3.0-12+rpi1 gcc_4:9.2.1-3.1+rpi1 gcc-10-base_10.1.0-1+rpi1 gcc-9_9.3.0-12+rpi1 gcc-9-base_9.3.0-12+rpi1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.20-1 gnupg-l10n_2.2.20-1 gnupg-utils_2.2.20-1 gpg_2.2.20-1 gpg-agent_2.2.20-1 gpg-wks-client_2.2.20-1 gpg-wks-server_2.2.20-1 gpgconf_2.2.20-1 gpgsm_2.2.20-1 gpgv_2.2.20-1 grep_3.4-1 groff-base_1.22.4-5 gzip_1.10-2 help2man_1.47.15 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20190709-3 libacl1_2.2.53-8 libapt-pkg6.0_2.1.4 libarchive-zip-perl_1.68-1 libasan5_9.3.0-12+rpi1 libassuan0_2.5.3-7 libatomic1_10.1.0-1+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3 libaudit1_1:2.8.5-3 libbinutils_2.34-8+rpi1 libblkid1_2.35.1-5 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.30-8+rpi1 libc-dev-bin_2.30-8+rpi1 libc6_2.30-8+rpi1 libc6-dev_2.30-8+rpi1 libcap-ng0_0.7.9-2.1+b1 libcap2_1:2.34-2 libcap2-bin_1:2.34-2 libcc1-0_10.1.0-1+rpi1 libcom-err2_1.45.6-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.16-1 libcrypt1_1:4.4.16-1 libctf-nobfd0_2.34-8+rpi1 libctf0_2.34-8+rpi1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.252 libdebhelper-perl_13.1 libdpkg-perl_1.19.7 libelf1_0.176-1.1 libexpat1_2.2.9-1 libext2fs2_1.45.6-1 libfakeroot_1.24-1 libfdisk1_2.35.1-5 libffi7_3.3-4 libfile-stripnondeterminism-perl_1.8.1-1 libgcc-9-dev_9.3.0-12+rpi1 libgcc-s1_10.1.0-1+rpi1 libgcc1_1:10.1.0-1+rpi1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.64.2-1 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.13-2 libgomp1_10.1.0-1+rpi1 libgpg-error0_1.37-1 libhogweed5_3.5.1+really3.5.1-2 libicu63_63.2-3 libidn2-0_2.3.0-1 libisl22_0.22.1-1 libksba8_1.3.5-2 libldap-2.4-2_2.4.50+dfsg-1 libldap-common_2.4.50+dfsg-1 liblocale-gettext-perl_1.07-4 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.38-5 libmagic1_1:5.38-5 libmount1_2.35.1-5 libmpc3_1.1.0-1 libmpdec2_2.4.2-3 libmpfr6_4.0.2-1 libncurses6_6.2-1 libncursesw6_6.2-1 libnettle7_3.5.1+really3.5.1-2 libnpth0_1.6-1 libp11-kit0_0.23.20-1 libpam-cap_1:2.34-2 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12 libperl5.30_5.30.0-10 libpipeline1_1.5.2-2 libpython3-stdlib_3.8.2-3 libpython3.8-minimal_3.8.3-1 libpython3.8-stdlib_3.8.3-1 libreadline7_7.0-5 libreadline8_8.0-4 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.3-1+rpi1 libselinux1_3.0-1+b1 libsemanage-common_3.0-1 libsemanage1_3.0-1+b1 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.35.1-5 libsqlite3-0_3.31.1-5 libss2_1.45.6-1 libssl1.1_1.1.1g-1 libstdc++-9-dev_9.3.0-12+rpi1 libstdc++6_10.1.0-1+rpi1 libsub-override-perl_0.09-2 libsystemd0_245.5-3+rpi1 libtasn1-6_4.16.0-2 libtinfo5_6.2-1 libtinfo6_6.2-1 libtool_2.4.6-14 libubsan1_10.1.0-1+rpi1 libuchardet0_0.0.6-3 libudev1_245.5-3+rpi1 libunistring2_0.9.10-2 libuuid1_2.35.1-5 libxml2_2.9.10+dfsg-5 libzstd1_1.4.4+dfsg-3+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-2 man-db_2.9.1-1 mawk_1.3.4.20200120-2 mime-support_3.64 mount_2.35.1-5 ncurses-base_6.2-1 ncurses-bin_6.2-1 netbase_6.1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.0-10 perl-base_5.30.0-10 perl-modules-5.30_5.30.0-10 pinentry-curses_1.1.0-4 po-debconf_1.0.21 python3_3.8.2-3 python3-minimal_3.8.2-3 python3.8_3.8.3-1 python3.8-minimal_3.8.3-1 raspbian-archive-keyring_20120528.2 readline-common_8.0-4 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+nmu1 sysvinit-utils_2.96-3 tar_1.30+dfsg-7 tzdata_2020a-1 util-linux_2.35.1-5 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2

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


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

gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Fri May 22 17:56:50 2020 UTC
gpgv:                using RSA key 84C1977A89E7EFED3E5CA62E2FD8BEDAC020EED1
gpgv:                issuer "moeller@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./subread_2.0.1+dfsg-1.dsc
dpkg-source: info: extracting subread in /<<BUILDDIR>>/subread-2.0.1+dfsg
dpkg-source: info: unpacking subread_2.0.1+dfsg.orig.tar.xz
dpkg-source: info: unpacking subread_2.0.1+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
dpkg-source: info: applying 2to3.patch
dpkg-source: info: applying gcc10.patch

Check disk space
----------------

Sufficient free space for build

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

APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-344c85a0-ae67-4e92-9f83-6cc3cc2ab58b
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd

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

dpkg-buildpackage: info: source package subread
dpkg-buildpackage: info: source version 2.0.1+dfsg-1
dpkg-buildpackage: info: source distribution unstable
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
 debian/rules clean
dh clean
   debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<BUILDDIR>>/subread-2.0.1+dfsg'
dh_auto_clean
rm -f test/subread-align/data/test-err-mut-r1.fq.gz test/subread-align/data/test-err-mut-r2.fq.gz
rm -rf bin src/longread-one/make.version
find . -name "*.o" -delete
make[1]: Leaving directory '/<<BUILDDIR>>/subread-2.0.1+dfsg'
   debian/rules override_dh_clean
make[1]: Entering directory '/<<BUILDDIR>>/subread-2.0.1+dfsg'
cd src; make -f Makefile.Linux clean
make[2]: Entering directory '/<<BUILDDIR>>/subread-2.0.1+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 input-blc.o
make[2]: Leaving directory '/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg'
 debian/rules binary-arch
dh binary-arch
   dh_update_autotools_config -a
   dh_autoreconf -a
   debian/rules override_dh_auto_build
make[1]: Entering directory '/<<BUILDDIR>>/subread-2.0.1+dfsg'
cd src; make -f Makefile.Linux
make[2]: Entering directory '/<<BUILDDIR>>/subread-2.0.1+dfsg/src'
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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:54:10: warning: implicit declaration of function 'fopen64'; did you mean 'gzopen64'? [-Wimplicit-function-declaration]
   54 |   return fopen64(fname, mode);
      |          ^~~~~~~
      |          gzopen64
input-files.c:54:10: warning: returning 'int' from a function with return type 'FILE *' {aka 'struct _IO_FILE *'} makes pointer from integer without a cast [-Wint-conversion]
   54 |   return fopen64(fname, mode);
      |          ^~~~~~~~~~~~~~~~~~~~
input-files.c: In function 'SAM_nosort_run_once':
input-files.c:5267:23: warning: argument 1 value '4294967295' exceeds maximum object size 2147483647 [-Walloc-size-larger-than=]
 5267 |   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
  539 | extern void *malloc (size_t __size) __THROW __attribute_malloc__
      |              ^~~~~~
input-files.c: In function 'is_SAM_unsorted':
input-files.c:6237:33: warning: 'read_name[0]' may be used uninitialized in this function [-Wmaybe-uninitialized]
 6237 |  for(field_cursor = 0; read_name[field_cursor] ; field_cursor++)
      |                        ~~~~~~~~~^~~~~~~~~~~~~~
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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:46:46: warning: conversion from 'long long unsigned int' to 'size_t' {aka 'unsigned int'} changes value from '8589934592' to '0' [-Woverflow]
   46 |   the_table -> key_repeated_numbers = malloc(sizeof(short) * 0x100000000llu);
      |                                              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c -o input-blc.o input-blc.c
In file included from input-blc.c:7:
input-blc.c: In function 'cacheBCL_quality_test':
input-blc.c:910:18: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
  910 |    SUBREADprintf("ERROR: the cell barcodes have different lengths (%d!=%ld at %d). The program cannot process the cell barcodes.\n", known_cell_barcode_length, strlen(bcbstr),xx1);
      |                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~                             ~~~~~~~~~~~~~~
      |                                                                                                                                                                 |
      |                                                                                                                                                                 size_t {aka unsigned int}
subread.h:132:44: note: in definition of macro 'SUBREADprintf'
  132 | #define SUBREADprintf(...) fprintf(stderr, __VA_ARGS__)
      |                                            ^~~~~~~~~~~
input-blc.c:910:74: note: format string is defined here
  910 |    SUBREADprintf("ERROR: the cell barcodes have different lengths (%d!=%ld at %d). The program cannot process the cell barcodes.\n", known_cell_barcode_length, strlen(bcbstr),xx1);
      |                                                                        ~~^
      |                                                                          |
      |                                                                          long int
      |                                                                        %d
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fmessage-length=0 -ggdb -o genRandomReads gen_rand_reads.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 input-blc.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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
echo " " > longread-one/make.version
rm -f longread-one/*.o
cd longread-one && make
make[3]: Entering directory '/<<BUILDDIR>>/subread-2.0.1+dfsg/src/longread-one'
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 -DSUBREAD_VERSION=\""2.0.1"\"   -fmessage-length=0  -ggdb -o LRMsorted-hashtable.o -c LRMsorted-hashtable.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 -DSUBREAD_VERSION=\""2.0.1"\"   -fmessage-length=0  -ggdb -o LRMbase-index.o -c LRMbase-index.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 -DSUBREAD_VERSION=\""2.0.1"\"   -fmessage-length=0  -ggdb -o LRMchro-event.o -c LRMchro-event.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 -DSUBREAD_VERSION=\""2.0.1"\"   -fmessage-length=0  -ggdb -o LRMhelper.o -c LRMhelper.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 -DSUBREAD_VERSION=\""2.0.1"\"   -fmessage-length=0  -ggdb -o LRMseek-zlib.o -c LRMseek-zlib.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 -DSUBREAD_VERSION=\""2.0.1"\"   -fmessage-length=0  -ggdb -o LRMfile-io.o -c LRMfile-io.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 -DSUBREAD_VERSION=\""2.0.1"\"   -fmessage-length=0  -ggdb -o LRMhashtable.o -c LRMhashtable.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 -DSUBREAD_VERSION=\""2.0.1"\"   -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-2.0.1+dfsg/src/longread-one'
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.o -Wl,-z,relro -Wl,-z,now  -pthread -lz -O3 -DMAKE_FOR_EXON -D MAKE_STANDALONE -lm
readSummary.c: In function 'fc_thread_start_threads':
readSummary.c:5194:28: warning: '%s' directive writing up to 1019 bytes into a region of size between 100 and 1099 [-Wformat-overflow=]
 5194 |    sprintf(tmp_fname2, "%s/%s", applied_detail_path, modified_fname);
      |                            ^~
In file included from /usr/include/stdio.h:867,
                 from readSummary.c:23:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 2 and 2020 bytes into a destination of size 1100
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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 1000 [-Wformat-overflow=]
   66 |  sprintf(tmp_fname, "%s.reads", context->config.index_prefix);
      |                        ^~~~~~
In file included from /usr/include/stdio.h:867,
                 from SUBindel.c:20:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 7 and 1006 bytes into a destination of size 1000
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __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 1000 [-Wformat-overflow=]
   77 |   sprintf(tmp_fname, "%s.00.b.tab", context->config.index_prefix);
      |                         ^~~~~~~~~
In file included from /usr/include/stdio.h:867,
                 from SUBindel.c:20:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 10 and 1009 bytes into a destination of size 1000
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __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 1000 [-Wformat-overflow=]
   75 |   sprintf(tmp_fname, "%s.00.c.tab", context->config.index_prefix);
      |                         ^~~~~~~~~
In file included from /usr/include/stdio.h:867,
                 from SUBindel.c:20:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 10 and 1009 bytes into a destination of size 1000
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __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 999 [-Wformat-overflow=]
   87 |   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:867,
                 from SUBindel.c:20:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 10 and 1018 bytes into a destination of size 1000
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SUBindel.c: In function 'load_indexes_forindel':
SUBindel.c:110:26: warning: '%02d' directive writing between 2 and 9 bytes into a region of size between 0 and 999 [-Wformat-overflow=]
  110 |   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, 134217728]
  110 |   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:867,
                 from SUBindel.c:20:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 12 and 1018 bytes into a destination of size 1000
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -O3 -fsigned-char -Wall  -DMAKE_FOR_EXON  -D MAKE_STANDALONE -D SUBREAD_VERSION=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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=\""2.0.1"\"  -D_FILE_OFFSET_BITS=64  -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/subread-2.0.1+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 input-blc.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 genRandomReads 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-2.0.1+dfsg/src'
dh_auto_build -- CC=arm-linux-gnueabihf-gcc
make[1]: Leaving directory '/<<BUILDDIR>>/subread-2.0.1+dfsg'
	rm -f debian/subread.debhelper.log
   debian/rules override_dh_auto_test
make[1]: Entering directory '/<<BUILDDIR>>/subread-2.0.1+dfsg'
debian/tests/subread-tests /<<BUILDDIR>>/subread-2.0.1+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
        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//================================= setting ==================================\\
||                                                                            ||
||                Index name : small1                                         ||
||               Index space : base space                                     ||
||               Index split : no-split                                       ||
||          Repeat threshold : 100 repeats                                    ||
||              Gapped index : no                                             ||
||                                                                            ||
||       Free / total memory : 2.7GB / 0.0GB                                  ||
||                                                                            ||
||               Input files : 1 file in total                                ||
||                             o chr901.fa                                    ||
||                                                                            ||
||                                                                            ||
||   WARNING: the free memory is lower than 3.0GB.                            ||
||            the program may run very slow or crash.                         ||
||                                                                            ||
\\============================================================================//

//================================= 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 ...                     ||
subread-buildindex: hashtable.c:444: HashTablePutReplaceEx: Assertion `key != NULL' failed.
Aborted (core dumped)
md5sum: ../small1.00.b.array: No such file or directory
md5sum: ../small1.00.b.tab: No such file or directory

        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//================================= 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                                  ||
||                                                                            ||
\\============================================================================//

//================= Running (28-May-2020 11:59:58, pid=1171) =================\\
||                                                                            ||
|| Check the input reads.                                                     ||
|| The input file contains base space reads.                                  ||
|| Initialise the memory objects.                                             ||
|| Estimate the mean read length.                                             ||
|| The range of Phred scores observed in the data is [9,9]                    ||
|| Create the output SAM file.                                                ||
|| Check the index.                                                           ||
Unable top open index '../small1'. Please make sure that the correct prefix is specified and you have the permission to read these files. For example, if there are files '/opt/my_index.reads', '/opt/my_index.files' and etc, the index prefix should be specified as '/opt/my_index' without any suffix. 

Traceback (most recent call last):
  File "readname_ora_match.py", line 83, in <module>
    main()
  File "readname_ora_match.py", line 80, in main
    print("accuracy=",(matched*1.)/(matched+unmatched)," ;    sensitivity=",(matched+unmatched)*1./(line-NN))
ZeroDivisionError: float division by zero

        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//================================= 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                                  ||
||                                                                            ||
\\============================================================================//

//================= Running (28-May-2020 11:59:58, pid=1174) =================\\
||                                                                            ||
|| Check the input reads.                                                     ||
|| The input file contains base space reads.                                  ||
|| Initialise the memory objects.                                             ||
|| Estimate the mean read length.                                             ||
|| The range of Phred scores observed in the data is [9,9]                    ||
|| Create the output SAM file.                                                ||
|| Check the index.                                                           ||
Unable top open index '../small1'. Please make sure that the correct prefix is specified and you have the permission to read these files. For example, if there are files '/opt/my_index.reads', '/opt/my_index.files' and etc, the index prefix should be specified as '/opt/my_index' without any suffix. 

Traceback (most recent call last):
  File "readname_ora_match.py", line 83, in <module>
    main()
  File "readname_ora_match.py", line 80, in main
    print("accuracy=",(matched*1.)/(matched+unmatched)," ;    sensitivity=",(matched+unmatched)*1./(line-NN))
ZeroDivisionError: float division by zero

        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//================================= 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                                  ||
||                                                                            ||
\\============================================================================//

//================= Running (28-May-2020 11:59:58, pid=1177) =================\\
||                                                                            ||
|| Check the input reads.                                                     ||
|| The input file contains base space reads.                                  ||
|| Initialise the memory objects.                                             ||
|| Estimate the mean read length.                                             ||
|| The range of Phred scores observed in the data is [9,9]                    ||
|| Create the output SAM file.                                                ||
|| Check the index.                                                           ||
Unable top open index '../small1'. Please make sure that the correct prefix is specified and you have the permission to read these files. For example, if there are files '/opt/my_index.reads', '/opt/my_index.files' and etc, the index prefix should be specified as '/opt/my_index' without any suffix. 

Traceback (most recent call last):
  File "readname_ora_match.py", line 83, in <module>
    main()
  File "readname_ora_match.py", line 80, in main
    print("accuracy=",(matched*1.)/(matched+unmatched)," ;    sensitivity=",(matched+unmatched)*1./(line-NN))
ZeroDivisionError: float division by zero

        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//================================= 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                                  ||
||                                                                            ||
\\============================================================================//

//================= Running (28-May-2020 11:59:58, pid=1180) =================\\
||                                                                            ||
|| Check the input reads.                                                     ||
|| The input file contains base space reads.                                  ||
|| Initialise the memory objects.                                             ||
|| Estimate the mean read length.                                             ||
|| The range of Phred scores observed in the data is [9,9]                    ||
|| Create the output SAM file.                                                ||
|| Check the index.                                                           ||
Unable top open index '../small1'. Please make sure that the correct prefix is specified and you have the permission to read these files. For example, if there are files '/opt/my_index.reads', '/opt/my_index.files' and etc, the index prefix should be specified as '/opt/my_index' without any suffix. 

Traceback (most recent call last):
  File "readname_ora_match.py", line 83, in <module>
    main()
  File "readname_ora_match.py", line 80, in main
    print("accuracy=",(matched*1.)/(matched+unmatched)," ;    sensitivity=",(matched+unmatched)*1./(line-NN))
ZeroDivisionError: float division by zero

        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//================================= 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                                  ||
||                                                                            ||
\\============================================================================//

//================= Running (28-May-2020 11:59:58, pid=1183) =================\\
||                                                                            ||
|| Check the input reads.                                                     ||
|| The input file contains base space reads.                                  ||
|| Initialise the memory objects.                                             ||
|| Estimate the mean read length.                                             ||
|| The range of Phred scores observed in the data is [-14,-14]                ||
|| Create the output SAM file.                                                ||
|| Check the index.                                                           ||
Unable top open index '../small1'. Please make sure that the correct prefix is specified and you have the permission to read these files. For example, if there are files '/opt/my_index.reads', '/opt/my_index.files' and etc, the index prefix should be specified as '/opt/my_index' without any suffix. 

Traceback (most recent call last):
  File "readname_ora_match.py", line 83, in <module>
    main()
  File "readname_ora_match.py", line 80, in main
    print("accuracy=",(matched*1.)/(matched+unmatched)," ;    sensitivity=",(matched+unmatched)*1./(line-NN))
ZeroDivisionError: float division by zero

        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//================================= 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                        ||
||                                                                            ||
\\============================================================================//

//================= Running (28-May-2020 11:59:58, pid=1186) =================\\
||                                                                            ||
ERROR: unable to open file 'data/test-err-mut-r1.fq.gz'. File name might be incorrect, or you do not have the permission to read the file.
ERROR: unable to open file 'data/test-err-mut-r2.fq.gz'. File name might be incorrect, or you do not have the permission to read the file.
Traceback (most recent call last):
  File "readname_ora_match.py", line 83, in <module>
    main()
  File "readname_ora_match.py", line 80, in main
    print("accuracy=",(matched*1.)/(matched+unmatched)," ;    sensitivity=",(matched+unmatched)*1./(line-NN))
ZeroDivisionError: float division by zero
*************************************************
*** SINGLE-END READS NO ERROR              ******
*************************************************

unmatched= 0 ;   matched= 0 ;     unmapped= 0 ;     reads= 0     ;NN= 0
*************************************************
*** SINGLE-END READS NO ERROR NO DUP       ******
*************************************************

unmatched= 0 ;   matched= 0 ;     unmapped= 0 ;     reads= 0     ;NN= 0

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

unmatched= 0 ;   matched= 0 ;     unmapped= 0 ;     reads= 0     ;NN= 0

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

unmatched= 0 ;   matched= 0 ;     unmapped= 0 ;     reads= 0     ;NN= 0

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

unmatched= 0 ;   matched= 0 ;     unmapped= 0 ;     reads= 0     ;NN= 0

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

unmatched= 0 ;   matched= 0 ;     unmapped= 0 ;     reads= 0     ;NN= 0

        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//================================= setting ==================================\\
||                                                                            ||
||                Index name : small1                                         ||
||               Index space : base space                                     ||
||                    Memory : 3000 Mbytes                                    ||
||          Repeat threshold : 100 repeats                                    ||
||              Gapped index : yes                                            ||
||                                                                            ||
||       Free / total memory : 2.7GB / 0.0GB                                  ||
||                                                                            ||
||               Input files : 1 file in total                                ||
||                             o chr901.fa                                    ||
||                                                                            ||
||                                                                            ||
||   WARNING: the free memory is lower than 3.0GB.                            ||
||            the program may run very slow or crash.                         ||
||                                                                            ||
\\============================================================================//

//================================= 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 ...                     ||
subread-buildindex: hashtable.c:444: HashTablePutReplaceEx: Assertion `key != NULL' failed.
Aborted (core dumped)

        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//================================= 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                                  ||
||                                                                            ||
\\============================================================================//

//================= Running (28-May-2020 12:00:00, pid=1193) =================\\
||                                                                            ||
|| Check the input reads.                                                     ||
|| The input file contains base space reads.                                  ||
|| Initialise the memory objects.                                             ||
|| Estimate the mean read length.                                             ||
|| The range of Phred scores observed in the data is [2,41]                   ||
|| Create the output SAM file.                                                ||
|| Check the index.                                                           ||
Unable top open index '../small1'. Please make sure that the correct prefix is specified and you have the permission to read these files. For example, if there are files '/opt/my_index.reads', '/opt/my_index.files' and etc, the index prefix should be specified as '/opt/my_index' without any suffix. 


        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//================================= 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                                  ||
||                                                                            ||
\\============================================================================//

//================= Running (28-May-2020 12:00:00, pid=1194) =================\\
||                                                                            ||
|| Check the input reads.                                                     ||
|| The input file contains base space reads.                                  ||
|| Initialise the memory objects.                                             ||
|| Estimate the mean read length.                                             ||
|| The range of Phred scores observed in the data is [2,41]                   ||
|| Create the output BAM file.                                                ||
|| Check the index.                                                           ||
Unable top open index '../small1'. Please make sure that the correct prefix is specified and you have the permission to read these files. For example, if there are files '/opt/my_index.reads', '/opt/my_index.files' and etc, the index prefix should be specified as '/opt/my_index' without any suffix. 


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


        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//========================== featureCounts setting ===========================\\
||                                                                            ||
||             Input files : 1 SAM file                                       ||
||                           o 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                                                ||
||                                                                            ||
\\============================================================================//

//================================= Running ==================================\\
||                                                                            ||
|| Load annotation file test-minimum.GTF ...                                  ||
||    Features : 23                                                           ||
||    Meta-features : 7                                                       ||
||    Chromosomes/contigs : 3                                                 ||
||                                                                            ||
|| Process SAM file test-minimum.sam...                                       ||
||    WARNING: Paired-end reads were found.                                   ||
||    Total alignments : 998                                                  ||
||    Successfully assigned alignments : 389 (39.0%)                          ||
||    Running time : 0.00 minutes                                             ||
||                                                                            ||
|| Write the final count table.                                               ||
|| Write the read assignment summary.                                         ||
||                                                                            ||
|| Summary of counting results can be found in file "result/test-minimum.FC.  ||
|| summary"                                                                   ||
||                                                                            ||
\\============================================================================//

================================================================================
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

        ==========     _____ _    _ ____  _____  ______          _____  
        =====         / ____| |  | |  _ \|  __ \|  ____|   /\   |  __ \ 
          =====      | (___ | |  | | |_) | |__) | |__     /  \  | |  | |
            ====      \___ \| |  | |  _ <|  _  /|  __|   / /\ \ | |  | |
              ====    ____) | |__| | |_) | | \ \| |____ / ____ \| |__| |
        ==========   |_____/ \____/|____/|_|  \_\______/_/    \_\_____/
	  v2.0.1

//============================= exactSNP setting =============================\\
||                                                                            ||
||                   Input file : test-in.BAM (BAM)                           ||
||                  Output file : test-out.VCF                                ||
||             Reference genome : chr901.fa                                   ||
||                    Temp path :                                             ||
||                                                                            ||
||                      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                                           ||
||                                                                            ||
\\============================================================================//

//====================== Running (28-May-2020 12:00:01) ======================\\
||                                                                            ||
|| Split BAM file into result/temp-snps-001733-00163E555AE0-* ...             ||
|| processed block chr901@999950 by thread 1/1 [block number=1/1]             ||
||                                                                            ||
||                          Completed successfully.                           ||
||                                                                            ||
\\============================================================================//

//================================= Summary ==================================\\
||                                                                            ||
||              Processed reads : 50204                                       ||
||                Reported SNPs : 416                                         ||
||              Reported indels : 22                                          ||
||                                                                            ||
||                 Running time : 0.1 minutes                                 ||
||                                                                            ||
\\============================================================================//

[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-2.0.1+dfsg'
   create-stamp debian/debhelper-build-stamp
   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-2.0.1+dfsg'
find /<<BUILDDIR>>/subread-2.0.1+dfsg -name "*.gz" -exec bash -c 'name="{}"; gzip -d "{}"; gzip -n "${name%.*}"' \;
mkdir -p /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/subread-align | debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/subread-buildindex | debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/subjunc | debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/featureCounts | debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/exactSNP | debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/subindel | debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/sublong| debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/utilities/subread-fullscan | debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/utilities/propmapped | debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/utilities/qualityScores| debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/utilities/repair| debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+dfsg/debian/subread/usr/share/man/man1/repair.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='Remove duplicated reads' \
/<<BUILDDIR>>/subread-2.0.1+dfsg/bin/utilities/removeDup| debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+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-2.0.1+dfsg/bin/utilities/flattenGTF| debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+dfsg/debian/subread/usr/share/man/man1/flattenGTF.1;
help2man --no-info --help-option="''" --no-discard-stderr --name='helper tool from subread suite' \
/<<BUILDDIR>>/subread-2.0.1+dfsg/bin/utilities/genRandomReads| debian/filter.pl > /<<BUILDDIR>>/subread-2.0.1+dfsg/debian/subread/usr/share/man/man1/genRandomReads.1;
dh_auto_install
	install -d /<<BUILDDIR>>/subread-2.0.1\+dfsg/debian/tmp
make[1]: Leaving directory '/<<BUILDDIR>>/subread-2.0.1+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/genRandomReads ./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
	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-recode --to-code UTF-8 --suffix .dh-new debian/subread/usr/share/man/man1/exactSNP.1 debian/subread/usr/share/man/man1/featureCounts.1 debian/subread/usr/share/man/man1/flattenGTF.1 debian/subread/usr/share/man/man1/genRandomReads.1
	man-recode --to-code UTF-8 --suffix .dh-new debian/subread/usr/share/man/man1/propmapped.1 debian/subread/usr/share/man/man1/qualityScores.1 debian/subread/usr/share/man/man1/removeDup.1 debian/subread/usr/share/man/man1/repair.1
	man-recode --to-code UTF-8 --suffix .dh-new debian/subread/usr/share/man/man1/subindel.1 debian/subread/usr/share/man/man1/subjunc.1 debian/subread/usr/share/man/man1/sublong.1 debian/subread/usr/share/man/man1/subread-align.1
	man-recode --to-code UTF-8 --suffix .dh-new debian/subread/usr/share/man/man1/subread-buildindex.1 debian/subread/usr/share/man/man1/subread-fullscan.1
	mv debian/subread/usr/share/man/man1/subread-buildindex.1.dh-new debian/subread/usr/share/man/man1/subread-buildindex.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/subread-buildindex.1 debian/subread/usr/share/man/man1/subread-fullscan.1
	mv debian/subread/usr/share/man/man1/propmapped.1.dh-new debian/subread/usr/share/man/man1/propmapped.1
	mv debian/subread/usr/share/man/man1/qualityScores.1.dh-new debian/subread/usr/share/man/man1/qualityScores.1
	mv debian/subread/usr/share/man/man1/removeDup.1.dh-new debian/subread/usr/share/man/man1/removeDup.1
	mv debian/subread/usr/share/man/man1/repair.1.dh-new debian/subread/usr/share/man/man1/repair.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/removeDup.1 debian/subread/usr/share/man/man1/repair.1
	mv debian/subread/usr/share/man/man1/exactSNP.1.dh-new debian/subread/usr/share/man/man1/exactSNP.1
	mv debian/subread/usr/share/man/man1/featureCounts.1.dh-new debian/subread/usr/share/man/man1/featureCounts.1
	mv debian/subread/usr/share/man/man1/flattenGTF.1.dh-new debian/subread/usr/share/man/man1/flattenGTF.1
	mv debian/subread/usr/share/man/man1/genRandomReads.1.dh-new debian/subread/usr/share/man/man1/genRandomReads.1
	chmod 0644 -- debian/subread/usr/share/man/man1/exactSNP.1 debian/subread/usr/share/man/man1/featureCounts.1 debian/subread/usr/share/man/man1/flattenGTF.1 debian/subread/usr/share/man/man1/genRandomReads.1
	mv debian/subread/usr/share/man/man1/subindel.1.dh-new debian/subread/usr/share/man/man1/subindel.1
	mv debian/subread/usr/share/man/man1/subjunc.1.dh-new debian/subread/usr/share/man/man1/subjunc.1
	mv debian/subread/usr/share/man/man1/sublong.1.dh-new debian/subread/usr/share/man/man1/sublong.1
	mv debian/subread/usr/share/man/man1/subread-align.1.dh-new debian/subread/usr/share/man/man1/subread-align.1
	chmod 0644 -- debian/subread/usr/share/man/man1/subindel.1 debian/subread/usr/share/man/man1/subjunc.1 debian/subread/usr/share/man/man1/sublong.1 debian/subread/usr/share/man/man1/subread-align.1
   dh_perl -a
   dh_link -a
   dh_strip_nondeterminism -a
   dh_compress -a
	cd debian/subread
	chmod a-x usr/share/doc/subread/README.txt 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/genRandomReads.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/README.txt 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/genRandomReads.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-2.0.1+dfsg'
   dh_fixperms -a
	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 \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -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 -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/genRandomReads 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/e2
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/exactSNP debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/e2/a1f4e2f8a4c530a6d9b9f8aa87b004c0ff946e.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/e2/a1f4e2f8a4c530a6d9b9f8aa87b004c0ff946e.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/e2/a1f4e2f8a4c530a6d9b9f8aa87b004c0ff946e.debug debian/subread/usr/bin/exactSNP
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/10
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/featureCounts debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/10/3a071348f75a3e3361589c03c41d4efe8ed209.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/10/3a071348f75a3e3361589c03c41d4efe8ed209.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/10/3a071348f75a3e3361589c03c41d4efe8ed209.debug debian/subread/usr/bin/featureCounts
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/4f
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subindel debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/4f/ba664c025f1d6eafa0a32b91b64ea1d9163c9b.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/4f/ba664c025f1d6eafa0a32b91b64ea1d9163c9b.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/4f/ba664c025f1d6eafa0a32b91b64ea1d9163c9b.debug debian/subread/usr/bin/subindel
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/21
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subjunc debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/21/34f913e31de01f5db9fa273da8214588c5a447.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/21/34f913e31de01f5db9fa273da8214588c5a447.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/21/34f913e31de01f5db9fa273da8214588c5a447.debug debian/subread/usr/bin/subjunc
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/1a
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/sublong debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/1a/42e7a10d9cb213bee9d69d39f10b422bee1fa7.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/1a/42e7a10d9cb213bee9d69d39f10b422bee1fa7.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/1a/42e7a10d9cb213bee9d69d39f10b422bee1fa7.debug debian/subread/usr/bin/sublong
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/86
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subread-align debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/86/8f8e1d518ac0ca7862703547133ca3da1e5a0d.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/86/8f8e1d518ac0ca7862703547133ca3da1e5a0d.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/86/8f8e1d518ac0ca7862703547133ca3da1e5a0d.debug debian/subread/usr/bin/subread-align
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/0c
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/bin/subread-buildindex debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/0c/b98f830447e1da0d4d126710a8c5e21d94b16a.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/0c/b98f830447e1da0d4d126710a8c5e21d94b16a.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/0c/b98f830447e1da0d4d126710a8c5e21d94b16a.debug debian/subread/usr/bin/subread-buildindex
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/24
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/flattenGTF debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/24/6955ccd4e6b3d24d0a2edff04e412f5472d12b.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/24/6955ccd4e6b3d24d0a2edff04e412f5472d12b.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/24/6955ccd4e6b3d24d0a2edff04e412f5472d12b.debug debian/subread/usr/lib/subread/flattenGTF
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d1
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/genRandomReads debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d1/fc2035d56e72a38107169f07e23253df9ab8ee.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d1/fc2035d56e72a38107169f07e23253df9ab8ee.debug
	strip --remove-section=.comment --remove-section=.note debian/subread/usr/lib/subread/genRandomReads
	objcopy --add-gnu-debuglink debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/d1/fc2035d56e72a38107169f07e23253df9ab8ee.debug debian/subread/usr/lib/subread/genRandomReads
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/20
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/propmapped debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/20/3d83a9a7ac00e6c00ef9eeeba89bd1a0a99707.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/20/3d83a9a7ac00e6c00ef9eeeba89bd1a0a99707.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/20/3d83a9a7ac00e6c00ef9eeeba89bd1a0a99707.debug debian/subread/usr/lib/subread/propmapped
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/c6
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/qualityScores debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/c6/755609d679cd51090fc9ba8a77c88743c08973.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/c6/755609d679cd51090fc9ba8a77c88743c08973.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/c6/755609d679cd51090fc9ba8a77c88743c08973.debug debian/subread/usr/lib/subread/qualityScores
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/removeDup debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/20/204abffd30fe178e6d5234b30f7dab82bdc131.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/20/204abffd30fe178e6d5234b30f7dab82bdc131.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/20/204abffd30fe178e6d5234b30f7dab82bdc131.debug debian/subread/usr/lib/subread/removeDup
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/repair debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/c6/5c501aa2c8aaba4ab9e3fdf977128c467116c6.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/c6/5c501aa2c8aaba4ab9e3fdf977128c467116c6.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/c6/5c501aa2c8aaba4ab9e3fdf977128c467116c6.debug debian/subread/usr/lib/subread/repair
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/7b
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/subread-fullscan debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/7b/6bae1c216889bcff03e3ef0febedc63afce4be.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/7b/6bae1c216889bcff03e3ef0febedc63afce4be.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/7b/6bae1c216889bcff03e3ef0febedc63afce4be.debug debian/subread/usr/lib/subread/subread-fullscan
	install -d debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/94
	objcopy --only-keep-debug --compress-debug-sections debian/subread/usr/lib/subread/txUnique debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/94/0a0ff6611656e52e698a38db89e01dbbecfe38.debug
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/usr/lib/debug/.build-id/94/0a0ff6611656e52e698a38db89e01dbbecfe38.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/94/0a0ff6611656e52e698a38db89e01dbbecfe38.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/genRandomReads 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/bin/sublong debian/subread/usr/bin/subread-buildindex debian/subread/usr/lib/subread/repair debian/subread/usr/lib/subread/txUnique debian/subread/usr/bin/subindel debian/subread/usr/lib/subread/genRandomReads debian/subread/usr/bin/subread-align debian/subread/usr/bin/exactSNP debian/subread/usr/lib/subread/qualityScores debian/subread/usr/lib/subread/propmapped debian/subread/usr/bin/featureCounts debian/subread/usr/lib/subread/flattenGTF debian/subread/usr/lib/subread/removeDup debian/subread/usr/lib/subread/subread-fullscan debian/subread/usr/bin/subjunc 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 -UBuilt-Using -DAuto-Built-Package=debug-symbols -DPackage=subread-dbgsym "-DDepends=subread (= \${binary:Version})" "-DDescription=debug symbols for subread" "-DBuild-Ids=0cb98f830447e1da0d4d126710a8c5e21d94b16a 103a071348f75a3e3361589c03c41d4efe8ed209 1a42e7a10d9cb213bee9d69d39f10b422bee1fa7 20204abffd30fe178e6d5234b30f7dab82bdc131 203d83a9a7ac00e6c00ef9eeeba89bd1a0a99707 2134f913e31de01f5db9fa273da8214588c5a447 246955ccd4e6b3d24d0a2edff04e412f5472d12b 4fba664c025f1d6eafa0a32b91b64ea1d9163c9b 7b6bae1c216889bcff03e3ef0febedc63afce4be 868f8e1d518ac0ca7862703547133ca3da1e5a0d 940a0ff6611656e52e698a38db89e01dbbecfe38 c65c501aa2c8aaba4ab9e3fdf977128c467116c6 c6755609d679cd51090fc9ba8a77c88743c08973 d1fc2035d56e72a38107169f07e23253df9ab8ee e2a1f4e2f8a4c530a6d9b9f8aa87b004c0ff946e" -DSection=debug -UMulti-Arch -UReplaces -UBreaks
	chmod 0644 -- debian/.debhelper/subread/dbgsym-root/DEBIAN/control
	dpkg-gencontrol -psubread -ldebian/changelog -Tdebian/subread.substvars -Pdebian/subread
	chmod 0644 -- 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
	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
   dh_builddeb -a
	dpkg-deb --root-owner-group --build debian/subread ..
	dpkg-deb --root-owner-group --build debian/.debhelper/subread/dbgsym-root ..
dpkg-deb: building package 'subread' in '../subread_2.0.1+dfsg-1_armhf.deb'.
dpkg-deb: building package 'subread-dbgsym' in '../subread-dbgsym_2.0.1+dfsg-1_armhf.deb'.
 dpkg-genbuildinfo --build=any
 dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../subread_2.0.1+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 2020-05-28T12:00:33Z

Finished
--------

I: Built successfully

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


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


subread_2.0.1+dfsg-1_armhf.changes:
-----------------------------------

Format: 1.8
Date: Fri, 22 May 2020 19:31:20 +0200
Source: subread
Binary: subread subread-dbgsym
Architecture: armhf
Version: 2.0.1+dfsg-1
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Steffen Moeller <moeller@debian.org>
Description:
 subread    - toolkit for processing next-gen sequencing data
Changes:
 subread (2.0.1+dfsg-1) unstable; urgency=medium
 .
   * Team upload.
   * New upstream version
   * Standards-Version: 4.5.0 (routine-update)
   * Add salsa-ci file (routine-update)
   * Rules-Requires-Root: no (routine-update)
   * Set upstream metadata fields: Archive. (routine-update)
   * Rely on pre-initialized dpkg-architecture variables. (routine-update)
   * d/rules: extended clean to allow consecutive builds
   * d/copyright: excluded changing test/*gz files from source tree
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 9a9ee08654105e3985b814e6d3f19bf231870e17 5153 subread_2.0.1+dfsg-1_armhf.buildinfo
 656e3b4ad89109add1bb551515b11d6f6e976fb3 486376 subread_2.0.1+dfsg-1_armhf.deb
Checksums-Sha256:
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 5f4a1813112c4202e5dd5967df05364849366ee1b0e26e6777d9e8169ef6612b 5153 subread_2.0.1+dfsg-1_armhf.buildinfo
 7d6e8759c396118bfcce29f3971c9a66591a63f2c868bcb9ebc641c8f6c45958 486376 subread_2.0.1+dfsg-1_armhf.deb
Files:
 008524247442cb648810278637a0231c 7481632 debug optional subread-dbgsym_2.0.1+dfsg-1_armhf.deb
 0f19a013110b83f17e1a040433c7166f 5153 science optional subread_2.0.1+dfsg-1_armhf.buildinfo
 d66053b3da13e6270623eb6628b22834 486376 science optional subread_2.0.1+dfsg-1_armhf.deb

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


subread-dbgsym_2.0.1+dfsg-1_armhf.deb
-------------------------------------

 new Debian package, version 2.0.
 size 7481632 bytes: control archive=1288 bytes.
     955 bytes,    12 lines      control              
    1677 bytes,    16 lines      md5sums              
 Package: subread-dbgsym
 Source: subread
 Version: 2.0.1+dfsg-1
 Auto-Built-Package: debug-symbols
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 9063
 Depends: subread (= 2.0.1+dfsg-1)
 Section: debug
 Priority: optional
 Description: debug symbols for subread
 Build-Ids: 0cb98f830447e1da0d4d126710a8c5e21d94b16a 103a071348f75a3e3361589c03c41d4efe8ed209 1a42e7a10d9cb213bee9d69d39f10b422bee1fa7 20204abffd30fe178e6d5234b30f7dab82bdc131 203d83a9a7ac00e6c00ef9eeeba89bd1a0a99707 2134f913e31de01f5db9fa273da8214588c5a447 246955ccd4e6b3d24d0a2edff04e412f5472d12b 4fba664c025f1d6eafa0a32b91b64ea1d9163c9b 7b6bae1c216889bcff03e3ef0febedc63afce4be 868f8e1d518ac0ca7862703547133ca3da1e5a0d 940a0ff6611656e52e698a38db89e01dbbecfe38 c65c501aa2c8aaba4ab9e3fdf977128c467116c6 c6755609d679cd51090fc9ba8a77c88743c08973 d1fc2035d56e72a38107169f07e23253df9ab8ee e2a1f4e2f8a4c530a6d9b9f8aa87b004c0ff946e

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drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/0c/
-rw-r--r-- root/root    648584 2020-05-22 17:31 ./usr/lib/debug/.build-id/0c/b98f830447e1da0d4d126710a8c5e21d94b16a.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/10/
-rw-r--r-- root/root    801500 2020-05-22 17:31 ./usr/lib/debug/.build-id/10/3a071348f75a3e3361589c03c41d4efe8ed209.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/1a/
-rw-r--r-- root/root    123296 2020-05-22 17:31 ./usr/lib/debug/.build-id/1a/42e7a10d9cb213bee9d69d39f10b422bee1fa7.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/20/
-rw-r--r-- root/root    631988 2020-05-22 17:31 ./usr/lib/debug/.build-id/20/204abffd30fe178e6d5234b30f7dab82bdc131.debug
-rw-r--r-- root/root    632544 2020-05-22 17:31 ./usr/lib/debug/.build-id/20/3d83a9a7ac00e6c00ef9eeeba89bd1a0a99707.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/21/
-rw-r--r-- root/root    635024 2020-05-22 17:31 ./usr/lib/debug/.build-id/21/34f913e31de01f5db9fa273da8214588c5a447.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/24/
-rw-r--r-- root/root    631500 2020-05-22 17:31 ./usr/lib/debug/.build-id/24/6955ccd4e6b3d24d0a2edff04e412f5472d12b.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/4f/
-rw-r--r-- root/root    629420 2020-05-22 17:31 ./usr/lib/debug/.build-id/4f/ba664c025f1d6eafa0a32b91b64ea1d9163c9b.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/7b/
-rw-r--r-- root/root    628568 2020-05-22 17:31 ./usr/lib/debug/.build-id/7b/6bae1c216889bcff03e3ef0febedc63afce4be.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/86/
-rw-r--r-- root/root    634968 2020-05-22 17:31 ./usr/lib/debug/.build-id/86/8f8e1d518ac0ca7862703547133ca3da1e5a0d.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/94/
-rw-r--r-- root/root    635112 2020-05-22 17:31 ./usr/lib/debug/.build-id/94/0a0ff6611656e52e698a38db89e01dbbecfe38.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/c6/
-rw-r--r-- root/root    626664 2020-05-22 17:31 ./usr/lib/debug/.build-id/c6/5c501aa2c8aaba4ab9e3fdf977128c467116c6.debug
-rw-r--r-- root/root    632204 2020-05-22 17:31 ./usr/lib/debug/.build-id/c6/755609d679cd51090fc9ba8a77c88743c08973.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/d1/
-rw-r--r-- root/root    647660 2020-05-22 17:31 ./usr/lib/debug/.build-id/d1/fc2035d56e72a38107169f07e23253df9ab8ee.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.build-id/e2/
-rw-r--r-- root/root    661348 2020-05-22 17:31 ./usr/lib/debug/.build-id/e2/a1f4e2f8a4c530a6d9b9f8aa87b004c0ff946e.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root     47892 2020-05-22 17:31 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/subread.debug
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/share/
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/share/doc/
lrwxrwxrwx root/root         0 2020-05-22 17:31 ./usr/share/doc/subread-dbgsym -> subread


subread_2.0.1+dfsg-1_armhf.deb
------------------------------

 new Debian package, version 2.0.
 size 486376 bytes: control archive=1572 bytes.
     623 bytes,    14 lines      control              
    2129 bytes,    33 lines      md5sums              
 Package: subread
 Version: 2.0.1+dfsg-1
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 5796
 Depends: libc6 (>= 2.29), 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.

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drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/bin/
-rwxr-xr-x root/root    424364 2020-05-22 17:31 ./usr/bin/exactSNP
-rwxr-xr-x root/root    523148 2020-05-22 17:31 ./usr/bin/featureCounts
-rwxr-xr-x root/root    399804 2020-05-22 17:31 ./usr/bin/subindel
-rwxr-xr-x root/root    413020 2020-05-22 17:31 ./usr/bin/subjunc
-rwxr-xr-x root/root     71296 2020-05-22 17:31 ./usr/bin/sublong
-rwxr-xr-x root/root    412988 2020-05-22 17:31 ./usr/bin/subread-align
-rwxr-xr-x root/root    416140 2020-05-22 17:31 ./usr/bin/subread-buildindex
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/lib/subread/
-rwxr-xr-x root/root    399756 2020-05-22 17:31 ./usr/lib/subread/flattenGTF
-rwxr-xr-x root/root    412348 2020-05-22 17:31 ./usr/lib/subread/genRandomReads
-rwxr-xr-x root/root    403900 2020-05-22 17:31 ./usr/lib/subread/propmapped
-rwxr-xr-x root/root    404012 2020-05-22 17:31 ./usr/lib/subread/qualityScores
-rwxr-xr-x root/root    399756 2020-05-22 17:31 ./usr/lib/subread/removeDup
-rwxr-xr-x root/root    399756 2020-05-22 17:31 ./usr/lib/subread/repair
-rwxr-xr-x root/root    399756 2020-05-22 17:31 ./usr/lib/subread/subread-fullscan
-rwxr-xr-x root/root    403852 2020-05-22 17:31 ./usr/lib/subread/txUnique
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/share/
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/share/doc/
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/share/doc/subread/
-rw-r--r-- root/root       692 2020-05-22 17:25 ./usr/share/doc/subread/README.Debian
-rw-r--r-- root/root      1855 2019-09-04 04:22 ./usr/share/doc/subread/README.txt.gz
-rw-r--r-- root/root      3160 2020-05-22 17:31 ./usr/share/doc/subread/changelog.Debian.gz
-rw-r--r-- root/root      1224 2020-05-22 17:31 ./usr/share/doc/subread/copyright
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/share/man/
drwxr-xr-x root/root         0 2020-05-22 17:31 ./usr/share/man/man1/
-rw-r--r-- root/root      1187 2020-05-22 17:31 ./usr/share/man/man1/exactSNP.1.gz
-rw-r--r-- root/root      3502 2020-05-22 17:31 ./usr/share/man/man1/featureCounts.1.gz
-rw-r--r-- root/root       503 2020-05-22 17:31 ./usr/share/man/man1/flattenGTF.1.gz
-rw-r--r-- root/root      1018 2020-05-22 17:31 ./usr/share/man/man1/genRandomReads.1.gz
-rw-r--r-- root/root       471 2020-05-22 17:31 ./usr/share/man/man1/propmapped.1.gz
-rw-r--r-- root/root       576 2020-05-22 17:31 ./usr/share/man/man1/qualityScores.1.gz
-rw-r--r-- root/root       517 2020-05-22 17:31 ./usr/share/man/man1/removeDup.1.gz
-rw-r--r-- root/root       601 2020-05-22 17:31 ./usr/share/man/man1/repair.1.gz
-rw-r--r-- root/root       366 2020-05-22 17:31 ./usr/share/man/man1/subindel.1.gz
-rw-r--r-- root/root      2307 2020-05-22 17:31 ./usr/share/man/man1/subjunc.1.gz
-rw-r--r-- root/root       576 2020-05-22 17:31 ./usr/share/man/man1/sublong.1.gz
-rw-r--r-- root/root      2384 2020-05-22 17:31 ./usr/share/man/man1/subread-align.1.gz
-rw-r--r-- root/root       716 2020-05-22 17:31 ./usr/share/man/man1/subread-buildindex.1.gz
-rw-r--r-- root/root       367 2020-05-22 17:31 ./usr/share/man/man1/subread-fullscan.1.gz


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


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

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

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

Build Architecture: armhf
Build-Space: 130896
Build-Time: 137
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 290
Job: subread_2.0.1+dfsg-1
Machine Architecture: armhf
Package: subread
Package-Time: 455
Source-Version: 2.0.1+dfsg-1
Space: 130896
Status: successful
Version: 2.0.1+dfsg-1
--------------------------------------------------------------------------------
Finished at 2020-05-28T12:00:33Z
Build needed 00:07:35, 130896k disk space
Raspbian Package Auto-Building

Build log for subread (2.0.1+dfsg-1) on armhf
