tnseq-transit →
3.2.0-1 →
armhf → 2020-11-02 12:11:37
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-02
+==============================================================================+
| tnseq-transit 3.2.0-1 (armhf) Mon, 02 Nov 2020 11:07:39 +0000 |
+==============================================================================+
Package: tnseq-transit
Version: 3.2.0-1
Source Version: 3.2.0-1
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-504b84d4-819b-4925-b0ba-a15d58931c94' 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 [11.8 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.8 MB]
Fetched 24.6 MB in 26s (958 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: 'tnseq-transit' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/tnseq-transit.git
Please use:
git clone https://salsa.debian.org/med-team/tnseq-transit.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 26.8 MB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main tnseq-transit 3.2.0-1 (dsc) [2183 B]
Get:2 http://172.17.0.1/private bullseye-staging/main tnseq-transit 3.2.0-1 (tar) [26.8 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main tnseq-transit 3.2.0-1 (diff) [5768 B]
Fetched 26.8 MB in 2s (11.9 MB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/tnseq-transit-PdarsS/tnseq-transit-3.2.0' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/tnseq-transit-PdarsS' 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-TFylfJ/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-TFylfJ/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-TFylfJ/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-TFylfJ/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-TFylfJ/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-TFylfJ/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-TFylfJ/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-TFylfJ/apt_archive ./ Packages [432 B]
Fetched 2108 B in 1s (2813 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:
bsdextrautils krb5-locales libpam-cap netbase sensible-utils
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 19 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-TFylfJ/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 848 B in 0s (22.8 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12766 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), dh-python, python3-dev, python3-setuptools, python3-numpy, python3-scipy, python3-pil, python3-matplotlib, python3-statsmodels, python3-pubsub, bwa
Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3-dev, python3-setuptools, python3-numpy, python3-scipy, python3-pil, python3-matplotlib, python3-statsmodels, python3-pubsub, bwa
dpkg-deb: building package 'sbuild-build-depends-tnseq-transit-dummy' in '/<<BUILDDIR>>/resolver-TFylfJ/apt_archive/sbuild-build-depends-tnseq-transit-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-tnseq-transit-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-TFylfJ/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-TFylfJ/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-TFylfJ/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-TFylfJ/apt_archive ./ Sources [556 B]
Get:5 copy:/<<BUILDDIR>>/resolver-TFylfJ/apt_archive ./ Packages [639 B]
Fetched 2528 B in 1s (3293 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install tnseq-transit 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:
krb5-locales libpam-cap netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bwa ca-certificates cpp-10
debhelper dh-autoreconf dh-python dh-strip-nondeterminism dwz file fonts-lyx
g++-10 gcc-10 gcc-10-base gettext gettext-base groff-base intltool-debian
libarchive-zip-perl libasan6 libatomic1 libblas3 libbrotli1 libbsd0 libcc1-0
libcroco3 libdebhelper-perl libelf1 libexpat1 libexpat1-dev
libfile-stripnondeterminism-perl libfreetype6 libgcc-10-dev libgcc-s1
libgfortran5 libglib2.0-0 libgomp1 libicu67 libimagequant0 libjbig0
libjpeg62-turbo libjs-jquery libjs-jquery-ui liblapack3 liblbfgsb0
liblcms2-2 libmagic-mgc libmagic1 libpipeline1 libpng16-16 libpython3-dev
libpython3-stdlib libpython3.8 libpython3.8-dev libpython3.8-minimal
libpython3.8-stdlib libsigsegv2 libstdc++-10-dev libstdc++6
libsub-override-perl libtiff5 libtool libubsan1 libuchardet0 libwebp6
libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 libxml2 m4 man-db
mime-support node-jquery openssl po-debconf python-matplotlib-data python3
python3-certifi python3-cycler python3-dateutil python3-decorator
python3-dev python3-distutils python3-kiwisolver python3-lib2to3
python3-matplotlib python3-minimal python3-numpy python3-pandas
python3-pandas-lib python3-patsy python3-pil python3-pkg-resources
python3-pubsub python3-pyparsing python3-scipy python3-setuptools
python3-six python3-statsmodels python3-statsmodels-lib python3-tz python3.8
python3.8-dev python3.8-minimal ttf-bitstream-vera zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc samtools gcc-10-locales dh-make
gcc-10-doc gettext-doc libasprintf-dev libgettextpo-dev groff
libjs-jquery-ui-docs liblcms2-utils libstdc++-10-doc libtool-doc gfortran
| fortran95-compiler gcj-jdk m4-doc apparmor less www-browser
libmail-box-perl python3-doc python3-tk python3-venv python-cycler-doc
dvipng ffmpeg ghostscript gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common
python-matplotlib-doc python3-cairocffi python3-gi python3-gi-cairo
python3-gobject python3-nose python3-pyqt5 python3-sip python3-tornado
texlive-extra-utils texlive-latex-extra ttf-staypuft gfortran
python-numpy-doc python3-pytest python3-numpy-dbg python-pandas-doc
python-patsy-doc python-pil-doc python3-pil-dbg python-pyparsing-doc
python-scipy-doc python-setuptools-doc python-statsmodels-doc 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 javascript-common libltdl-dev libmail-sendmail-perl python3-tk
python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-xlrd
python3-xlwt python3-bs4 python3-html5lib python3-lxml python3-tables
python3-jinja2 python3-olefile python3-joblib python3-colorama
python3-cvxopt
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bwa ca-certificates debhelper
dh-autoreconf dh-python dh-strip-nondeterminism dwz file fonts-lyx gettext
gettext-base groff-base intltool-debian libarchive-zip-perl libblas3
libbrotli1 libbsd0 libcroco3 libdebhelper-perl libelf1 libexpat1
libexpat1-dev libfile-stripnondeterminism-perl libfreetype6 libgfortran5
libglib2.0-0 libicu67 libimagequant0 libjbig0 libjpeg62-turbo libjs-jquery
libjs-jquery-ui liblapack3 liblbfgsb0 liblcms2-2 libmagic-mgc libmagic1
libpipeline1 libpng16-16 libpython3-dev libpython3-stdlib libpython3.8
libpython3.8-dev libpython3.8-minimal libpython3.8-stdlib libsigsegv2
libsub-override-perl libtiff5 libtool libuchardet0 libwebp6 libwebpdemux2
libwebpmux3 libxau6 libxcb1 libxdmcp6 libxml2 m4 man-db mime-support
node-jquery openssl po-debconf python-matplotlib-data python3
python3-certifi python3-cycler python3-dateutil python3-decorator
python3-dev python3-distutils python3-kiwisolver python3-lib2to3
python3-matplotlib python3-minimal python3-numpy python3-pandas
python3-pandas-lib python3-patsy python3-pil python3-pkg-resources
python3-pubsub python3-pyparsing python3-scipy python3-setuptools
python3-six python3-statsmodels python3-statsmodels-lib python3-tz python3.8
python3.8-dev python3.8-minimal sbuild-build-depends-tnseq-transit-dummy
ttf-bitstream-vera zlib1g-dev
The following packages will be upgraded:
cpp-10 g++-10 gcc-10 gcc-10-base libasan6 libatomic1 libcc1-0 libgcc-10-dev
libgcc-s1 libgomp1 libstdc++-10-dev libstdc++6 libubsan1
13 upgraded, 99 newly installed, 0 to remove and 6 not upgraded.
Need to get 251 MB of archives.
After this operation, 864 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-TFylfJ/apt_archive ./ sbuild-build-depends-tnseq-transit-dummy 0.invalid.0 [924 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libubsan1 armhf 10.2.0-15+rpi1 [115 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf gcc-10-base armhf 10.2.0-15+rpi1 [200 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf libgcc-s1 armhf 10.2.0-15+rpi1 [36.0 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libgomp1 armhf 10.2.0-15+rpi1 [83.7 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf libatomic1 armhf 10.2.0-15+rpi1 [8172 B]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libasan6 armhf 10.2.0-15+rpi1 [300 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf cpp-10 armhf 10.2.0-15+rpi1 [55.6 MB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf libcc1-0 armhf 10.2.0-15+rpi1 [31.7 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf g++-10 armhf 10.2.0-15+rpi1 [61.2 MB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf gcc-10 armhf 10.2.0-15+rpi1 [62.0 MB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf libgcc-10-dev armhf 10.2.0-15+rpi1 [682 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf libstdc++-10-dev armhf 10.2.0-15+rpi1 [1746 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf libstdc++6 armhf 10.2.0-15+rpi1 [409 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-5 [783 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.3-1 [29.9 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.3-2 [1269 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf libpython3.8-minimal armhf 3.8.6-1 [752 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.10-1 [73.3 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf python3.8-minimal armhf 3.8.6-1 [1552 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf python3-minimal armhf 3.8.2-3 [37.6 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf mime-support all 3.64 [37.8 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libpython3.8-stdlib armhf 3.8.6-1 [1654 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf python3.8 armhf 3.8.6-1 [422 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libpython3-stdlib armhf 3.8.2-3 [20.8 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf python3 armhf 3.8.2-3 [63.7 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-5 [262 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-5 [113 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-5 [67.0 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11.1 [341 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.2-4 [801 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf bwa armhf 0.7.17-5+b2 [200 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf openssl armhf 1.1.1g-1 [811 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf ca-certificates all 20200601 [158 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-14 [513 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 13.2.1 [188 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.9.0-1 [25.5 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.9.0-1 [15.2 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.181-1 [161 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.66.1-2 [1174 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libicu67 armhf 67.1-4 [8289 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-6.1 [578 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 13.2.1 [1007 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf python3-lib2to3 all 3.8.6-1 [78.4 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf python3-distutils all 3.8.6-1 [145 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf dh-python all 4.20200925 [98.3 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf fonts-lyx all 2.3.5.2-1 [200 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libblas3 armhf 3.9.0-3 [108 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.9-2 [259 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf libexpat1-dev armhf 2.2.10-1 [121 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf libpng16-16 armhf 1.6.37-3 [276 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf libfreetype6 armhf 2.10.2+dfsg-4 [345 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf libgfortran5 armhf 10.2.0-15+rpi1 [232 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf libimagequant0 armhf 2.12.2-1.1 [27.2 kB]
Get:70 http://172.17.0.1/private bullseye-staging/main armhf libjbig0 armhf 2.1-3.1+b2 [27.6 kB]
Get:71 http://172.17.0.1/private bullseye-staging/main armhf libjpeg62-turbo armhf 1:2.0.5-1.1 [121 kB]
Get:72 http://172.17.0.1/private bullseye-staging/main armhf node-jquery all 3.5.1+dfsg-4 [309 kB]
Get:73 http://172.17.0.1/private bullseye-staging/main armhf libjs-jquery all 3.5.1+dfsg-4 [3612 B]
Get:74 http://172.17.0.1/private bullseye-staging/main armhf libjs-jquery-ui all 1.12.1+dfsg-7 [232 kB]
Get:75 http://172.17.0.1/private bullseye-staging/main armhf liblapack3 armhf 3.9.0-3 [1597 kB]
Get:76 http://172.17.0.1/private bullseye-staging/main armhf liblbfgsb0 armhf 3.0+dfsg.3-9 [24.6 kB]
Get:77 http://172.17.0.1/private bullseye-staging/main armhf liblcms2-2 armhf 2.9-4 [119 kB]
Get:78 http://172.17.0.1/private bullseye-staging/main armhf libpython3.8 armhf 3.8.6-1 [1343 kB]
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Get:85 http://172.17.0.1/private bullseye-staging/main armhf libxau6 armhf 1:1.0.8-1+b2 [19.1 kB]
Get:86 http://172.17.0.1/private bullseye-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:87 http://172.17.0.1/private bullseye-staging/main armhf libxcb1 armhf 1.14-2 [135 kB]
Get:88 http://172.17.0.1/private bullseye-staging/main armhf ttf-bitstream-vera all 1.10-8 [352 kB]
Get:89 http://172.17.0.1/private bullseye-staging/main armhf python-matplotlib-data all 3.3.2-2 [4153 kB]
Get:90 http://172.17.0.1/private bullseye-staging/main armhf python3-certifi all 2020.6.20-1 [151 kB]
Get:91 http://172.17.0.1/private bullseye-staging/main armhf python3-six all 1.15.0-1 [16.8 kB]
Get:92 http://172.17.0.1/private bullseye-staging/main armhf python3-cycler all 0.10.0-3 [8084 B]
Get:93 http://172.17.0.1/private bullseye-staging/main armhf python3-dateutil all 2.8.1-4 [81.6 kB]
Get:94 http://172.17.0.1/private bullseye-staging/main armhf python3-decorator all 4.4.2-2 [15.8 kB]
Get:95 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:96 http://172.17.0.1/private bullseye-staging/main armhf python3.8-dev armhf 3.8.6-1 [519 kB]
Get:97 http://172.17.0.1/private bullseye-staging/main armhf python3-dev armhf 3.8.2-3 [1164 B]
Get:98 http://172.17.0.1/private bullseye-staging/main armhf python3-kiwisolver armhf 1.2.0-1 [45.5 kB]
Get:99 http://172.17.0.1/private bullseye-staging/main armhf python3-pyparsing all 2.4.7-1 [109 kB]
Get:100 http://172.17.0.1/private bullseye-staging/main armhf python3-pkg-resources all 50.3.0-1 [187 kB]
Get:101 http://172.17.0.1/private bullseye-staging/main armhf python3-numpy armhf 1:1.19.3-1 [2960 kB]
Get:102 http://172.17.0.1/private bullseye-staging/main armhf python3-pil armhf 8.0.1-1 [405 kB]
Get:103 http://172.17.0.1/private bullseye-staging/main armhf python3-matplotlib armhf 3.3.2-2 [4103 kB]
Get:104 http://172.17.0.1/private bullseye-staging/main armhf python3-tz all 2020.1-2 [34.6 kB]
Get:105 http://172.17.0.1/private bullseye-staging/main armhf python3-pandas-lib armhf 1.1.3+dfsg-2 [2966 kB]
Get:106 http://172.17.0.1/private bullseye-staging/main armhf python3-pandas all 1.1.3+dfsg-2 [2090 kB]
Get:107 http://172.17.0.1/private bullseye-staging/main armhf python3-patsy all 0.5.1-2 [172 kB]
Get:108 http://172.17.0.1/private bullseye-staging/main armhf python3-pubsub all 4.0.3-4 [46.6 kB]
Get:109 http://172.17.0.1/private bullseye-staging/main armhf python3-scipy armhf 1.5.2-2 [10.2 MB]
Get:110 http://172.17.0.1/private bullseye-staging/main armhf python3-setuptools all 50.3.0-1 [511 kB]
Get:111 http://172.17.0.1/private bullseye-staging/main armhf python3-statsmodels-lib armhf 0.12.0-2+rpi1 [1166 kB]
Get:112 http://172.17.0.1/private bullseye-staging/main armhf python3-statsmodels all 0.12.0-2+rpi1 [4451 kB]
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Unpacking python3-pil:armhf (8.0.1-1) ...
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Unpacking python3-pubsub (4.0.3-4) ...
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Unpacking python3-scipy (1.5.2-2) ...
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Unpacking python3-setuptools (50.3.0-1) ...
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Unpacking sbuild-build-depends-tnseq-transit-dummy (0.invalid.0) ...
Setting up libpipeline1:armhf (1.5.3-1) ...
Setting up liblcms2-2:armhf (2.9-4) ...
Setting up libxau6:armhf (1:1.0.8-1+b2) ...
Setting up ttf-bitstream-vera (1.10-8) ...
Setting up mime-support (3.64) ...
Setting up libicu67:armhf (67.1-4) ...
Setting up libmagic-mgc (1:5.38-5) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libglib2.0-0:armhf (2.66.1-2) ...
No schema files found: doing nothing.
Setting up bwa (0.7.17-5+b2) ...
Setting up fonts-lyx (2.3.5.2-1) ...
Setting up libdebhelper-perl (13.2.1) ...
Setting up libbrotli1:armhf (1.0.9-2) ...
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 libgomp1:armhf (10.2.0-15+rpi1) ...
Setting up libjbig0:armhf (2.1-3.1+b2) ...
Setting up libasan6:armhf (10.2.0-15+rpi1) ...
Setting up autotools-dev (20180224.1) ...
Setting up libblas3:armhf (3.9.0-3) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode
Setting up libexpat1-dev:armhf (2.2.10-1) ...
Setting up libjpeg62-turbo:armhf (1:2.0.5-1.1) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up libimagequant0:armhf (2.12.2-1.1) ...
Setting up libpng16-16:armhf (1.6.37-3) ...
Setting up libatomic1:armhf (10.2.0-15+rpi1) ...
Setting up autopoint (0.19.8.1-10) ...
Setting up libwebp6:armhf (0.6.1-2) ...
Setting up libgfortran5:armhf (10.2.0-15+rpi1) ...
Setting up libubsan1:armhf (10.2.0-15+rpi1) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Setting up libuchardet0:armhf (0.0.7-1) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libtiff5:armhf (4.1.0+git191117-2) ...
Setting up libpython3.8-stdlib:armhf (3.8.6-1) ...
Setting up python3.8 (3.8.6-1) ...
Setting up python-matplotlib-data (3.3.2-2) ...
Setting up openssl (1.1.1g-1) ...
Setting up libwebpmux3:armhf (0.6.1-2) ...
Setting up libbsd0:armhf (0.10.0-1) ...
Setting up libelf1:armhf (0.181-1) ...
Setting up libxml2:armhf (2.9.10+dfsg-6.1) ...
Setting up libcc1-0:armhf (10.2.0-15+rpi1) ...
Setting up cpp-10 (10.2.0-15+rpi1) ...
Setting up node-jquery (3.5.1+dfsg-4) ...
Setting up libpython3-stdlib:armhf (3.8.2-3) ...
Setting up libfile-stripnondeterminism-perl (1.9.0-1) ...
Setting up libxdmcp6:armhf (1:1.1.2-3) ...
Setting up liblapack3:armhf (3.9.0-3) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode
Setting up libxcb1:armhf (1.14-2) ...
Setting up libtool (2.4.6-14) ...
Setting up libwebpdemux2:armhf (0.6.1-2) ...
Setting up libgcc-10-dev:armhf (10.2.0-15+rpi1) ...
Setting up m4 (1.4.18-4) ...
Setting up python3 (3.8.2-3) ...
Setting up python3-tz (2020.1-2) ...
Setting up python3-six (1.15.0-1) ...
Setting up ca-certificates (20200601) ...
Updating certificates in /etc/ssl/certs...
126 added, 0 removed; done.
Setting up python3-decorator (4.4.2-2) ...
Setting up python3-pyparsing (2.4.7-1) ...
Setting up libfreetype6:armhf (2.10.2+dfsg-4) ...
Setting up python3-certifi (2020.6.20-1) ...
Setting up libpython3.8:armhf (3.8.6-1) ...
Setting up python3-cycler (0.10.0-3) ...
Setting up python3-kiwisolver (1.2.0-1) ...
Setting up libcroco3:armhf (0.6.13-1) ...
Setting up gcc-10 (10.2.0-15+rpi1) ...
Setting up autoconf (2.69-11.1) ...
Setting up dh-strip-nondeterminism (1.9.0-1) ...
Setting up python3-pubsub (4.0.3-4) ...
Setting up dwz (0.13-5) ...
Setting up groff-base (1.22.4-5) ...
Setting up python3-dateutil (2.8.1-4) ...
Setting up libjs-jquery (3.5.1+dfsg-4) ...
Setting up python3-lib2to3 (3.8.6-1) ...
Setting up liblbfgsb0:armhf (3.0+dfsg.3-9) ...
Setting up python3-pkg-resources (50.3.0-1) ...
Setting up automake (1:1.16.2-4) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up python3-distutils (3.8.6-1) ...
Setting up dh-python (4.20200925) ...
Setting up gettext (0.19.8.1-10) ...
Setting up libstdc++-10-dev:armhf (10.2.0-15+rpi1) ...
Setting up g++-10 (10.2.0-15+rpi1) ...
Setting up python3-setuptools (50.3.0-1) ...
Setting up man-db (2.9.3-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up python3-pil:armhf (8.0.1-1) ...
Setting up libjs-jquery-ui (1.12.1+dfsg-7) ...
Setting up libpython3.8-dev:armhf (3.8.6-1) ...
Setting up python3-numpy (1:1.19.3-1) ...
Setting up python3.8-dev (3.8.6-1) ...
Setting up python3-statsmodels-lib:armhf (0.12.0-2+rpi1) ...
Setting up python3-matplotlib (3.3.2-2) ...
Setting up python3-scipy (1.5.2-2) ...
Setting up libpython3-dev:armhf (3.8.2-3) ...
Setting up po-debconf (1.0.21) ...
Setting up python3-pandas-lib:armhf (1.1.3+dfsg-2) ...
Setting up python3-patsy (0.5.1-2) ...
Setting up python3-pandas (1.1.3+dfsg-2) ...
Setting up python3-dev (3.8.2-3) ...
Setting up python3-statsmodels (0.12.0-2+rpi1) ...
Setting up dh-autoreconf (19) ...
Setting up debhelper (13.2.1) ...
Setting up sbuild-build-depends-tnseq-transit-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.31-4+rpi1) ...
Processing triggers for ca-certificates (20200601) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.6-armmp armhf (armv7l)
Toolchain package versions: binutils_2.35.1-2+rpi1 dpkg-dev_1.20.5+rpi1 g++-10_10.2.0-15+rpi1 gcc-10_10.2.0-15+rpi1 libc6-dev_2.31-4+rpi1 libstdc++-10-dev_10.2.0-15+rpi1 libstdc++6_10.2.0-15+rpi1 linux-libc-dev_5.7.10-1+rpi1
Package versions: adduser_3.118 apt_2.1.10 aptitude_0.8.13-2 aptitude-common_0.8.13-2 autoconf_2.69-11.1 automake_1:1.16.2-4 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.48 bash_5.1~rc1-2 binutils_2.35.1-2+rpi1 binutils-arm-linux-gnueabihf_2.35.1-2+rpi1 binutils-common_2.35.1-2+rpi1 bsdextrautils_2.36-3 bsdutils_1:2.36-3 build-essential_12.8 bwa_0.7.17-5+b2 bzip2_1.0.8-4 ca-certificates_20200601 coreutils_8.32-4 cpp_4:10.2.0-1+rpi1 cpp-10_10.2.0-15+rpi1 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13.2.1 debianutils_4.11.2 dh-autoreconf_19 dh-python_4.20200925 dh-strip-nondeterminism_1.9.0-1 diffutils_1:3.7-3 dirmngr_2.2.20-1 dpkg_1.20.5+rpi1 dpkg-dev_1.20.5+rpi1 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.25.3-1 fdisk_2.36-3 file_1:5.38-5 findutils_4.7.0-1 fonts-lyx_2.3.5.2-1 g++_4:10.2.0-1+rpi1 g++-10_10.2.0-15+rpi1 gcc_4:10.2.0-1+rpi1 gcc-10_10.2.0-15+rpi1 gcc-10-base_10.2.0-15+rpi1 gcc-6-base_6.5.0-1+rpi3 gcc-7-base_7.5.0-6+rpi1+b1 gcc-8-base_8.4.0-4+rpi1+b1 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 hostname_3.23 init-system-helpers_1.58 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20200821-2 krb5-locales_1.17-10 libacl1_2.2.53-8 libapt-pkg6.0_2.1.10 libarchive-zip-perl_1.68-1 libasan6_10.2.0-15+rpi1 libassuan0_2.5.3-7.1 libatomic1_10.2.0-15+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3.1 libaudit1_1:2.8.5-3.1 libbinutils_2.35.1-2+rpi1 libblas3_3.9.0-3 libblkid1_2.36-3 libboost-iostreams1.71.0_1.71.0-7 libbrotli1_1.0.9-2 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-4 libc-bin_2.31-4+rpi1 libc-dev-bin_2.31-4+rpi1 libc6_2.31-4+rpi1 libc6-dev_2.31-4+rpi1 libcap-ng0_0.7.9-2.2 libcap2_1:2.44-1 libcap2-bin_1:2.44-1 libcc1-0_10.2.0-15+rpi1 libcom-err2_1.45.6-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.17-1 libcrypt1_1:4.4.17-1 libctf-nobfd0_2.35.1-2+rpi1 libctf0_2.35.1-2+rpi1 libcwidget4_0.5.18-5 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.254 libdebhelper-perl_13.2.1 libdpkg-perl_1.20.5+rpi1 libelf1_0.181-1 libexpat1_2.2.10-1 libexpat1-dev_2.2.10-1 libext2fs2_1.45.6-1 libfakeroot_1.25.3-1 libfdisk1_2.36-3 libffi7_3.3-4 libfile-stripnondeterminism-perl_1.9.0-1 libfreetype6_2.10.2+dfsg-4 libgcc-10-dev_10.2.0-15+rpi1 libgcc-s1_10.2.0-15+rpi1 libgcrypt20_1.8.6-2 libgdbm-compat4_1.18.1-5.1 libgdbm6_1.18.1-5.1 libgfortran5_10.2.0-15+rpi1 libglib2.0-0_2.66.1-2 libgmp10_2:6.2.0+dfsg-6 libgnutls30_3.6.15-4 libgomp1_10.2.0-15+rpi1 libgpg-error0_1.38-2 libgssapi-krb5-2_1.17-10+b3 libhogweed6_3.6-2 libicu67_67.1-4 libidn2-0_2.3.0-1 libimagequant0_2.12.2-1.1 libisl22_0.22.1-1 libjbig0_2.1-3.1+b2 libjpeg62-turbo_1:2.0.5-1.1 libjs-jquery_3.5.1+dfsg-4 libjs-jquery-ui_1.12.1+dfsg-7 libk5crypto3_1.17-10+b3 libkeyutils1_1.6.1-2 libkrb5-3_1.17-10+b3 libkrb5support0_1.17-10+b3 libksba8_1.4.0-2 liblapack3_3.9.0-3 liblbfgsb0_3.0+dfsg.3-9 liblcms2-2_2.9-4 libldap-2.4-2_2.4.53+dfsg-1+rpi1 libldap-common_2.4.53+dfsg-1+rpi1 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_2.36-3 libmpc3_1.2.0-1 libmpfr6_4.1.0-3 libncursesw6_6.2+20200918-1 libnettle8_3.6-2 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libnss-nis_3.1-4 libnss-nisplus_1.3-4 libp11-kit0_0.23.21-2 libpam-cap_1:2.44-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-13 libperl5.30_5.30.3-4 libpipeline1_1.5.3-1 libpng16-16_1.6.37-3 libpython3-dev_3.8.2-3 libpython3-stdlib_3.8.2-3 libpython3.8_3.8.6-1 libpython3.8-dev_3.8.6-1 libpython3.8-minimal_3.8.6-1 libpython3.8-stdlib_3.8.6-1 libreadline8_8.0-4 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.4-1+rpi1 libselinux1_3.1-2 libsemanage-common_3.1-1 libsemanage1_3.1-1 libsepol1_3.1-1 libsigc++-2.0-0v5_2.10.4-2 libsigsegv2_2.12-2 libsmartcols1_2.36-3 libsqlite3-0_3.33.0-1 libss2_1.45.6-1 libssl1.1_1.1.1g-1 libstdc++-10-dev_10.2.0-15+rpi1 libstdc++6_10.2.0-15+rpi1 libsub-override-perl_0.09-2 libsystemd0_246.4-1+rpi1 libtasn1-6_4.16.0-2 libtext-charwidth-perl_0.04-10 libtext-iconv-perl_1.7-7 libtiff5_4.1.0+git191117-2 libtinfo6_6.2+20200918-1 libtirpc-common_1.2.6-3 libtirpc-dev_1.2.6-3 libtirpc3_1.2.6-3 libtool_2.4.6-14 libubsan1_10.2.0-15+rpi1 libuchardet0_0.0.7-1 libudev1_246.4-1+rpi1 libunistring2_0.9.10-4 libuuid1_2.36-3 libwebp6_0.6.1-2 libwebpdemux2_0.6.1-2 libwebpmux3_0.6.1-2 libxapian30_1.4.17-1 libxau6_1:1.0.8-1+b2 libxcb1_1.14-2 libxdmcp6_1:1.1.2-3 libxml2_2.9.10+dfsg-6.1 libzstd1_1.4.5+dfsg-4+rpi1 linux-libc-dev_5.7.10-1+rpi1 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.3-4 man-db_2.9.3-2 mawk_1.3.4.20200120-2 mime-support_3.64 mount_2.36-3 ncurses-base_6.2+20200918-1 ncurses-bin_6.2+20200918-1 netbase_6.2 node-jquery_3.5.1+dfsg-4 openssl_1.1.1g-1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.3-4 perl-base_5.30.3-4 perl-modules-5.30_5.30.3-4 pinentry-curses_1.1.0-4 po-debconf_1.0.21 python-matplotlib-data_3.3.2-2 python3_3.8.2-3 python3-certifi_2020.6.20-1 python3-cycler_0.10.0-3 python3-dateutil_2.8.1-4 python3-decorator_4.4.2-2 python3-dev_3.8.2-3 python3-distutils_3.8.6-1 python3-kiwisolver_1.2.0-1 python3-lib2to3_3.8.6-1 python3-matplotlib_3.3.2-2 python3-minimal_3.8.2-3 python3-numpy_1:1.19.3-1 python3-pandas_1.1.3+dfsg-2 python3-pandas-lib_1.1.3+dfsg-2 python3-patsy_0.5.1-2 python3-pil_8.0.1-1 python3-pkg-resources_50.3.0-1 python3-pubsub_4.0.3-4 python3-pyparsing_2.4.7-1 python3-scipy_1.5.2-2 python3-setuptools_50.3.0-1 python3-six_1.15.0-1 python3-statsmodels_0.12.0-2+rpi1 python3-statsmodels-lib_0.12.0-2+rpi1 python3-tz_2020.1-2 python3.8_3.8.6-1 python3.8-dev_3.8.6-1 python3.8-minimal_3.8.6-1 raspbian-archive-keyring_20120528.2 readline-common_8.0-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-tnseq-transit-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-5 tar_1.30+dfsg-7 ttf-bitstream-vera_1.10-8 tzdata_2020d-1 util-linux_2.36-3 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 '/tmp/dpkg-verify-sig.BJepG9Yt/trustedkeys.kbx': General error
gpgv: Signature made Wed Oct 28 21:32:28 2020 UTC
gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1
gpgv: issuer "npatra974@gmail.com"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./tnseq-transit_3.2.0-1.dsc
dpkg-source: info: extracting tnseq-transit in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking tnseq-transit_3.2.0.orig.tar.gz
dpkg-source: info: unpacking tnseq-transit_3.2.0-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying skip_test_requiring_non_existing_input_data.patch
Check disc space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-504b84d4-819b-4925-b0ba-a15d58931c94
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package tnseq-transit
dpkg-buildpackage: info: source version 3.2.0-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --with python3 --buildsystem=pybuild
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_clean
I: pybuild base:217: python3.8 setup.py clean
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build' (and everything under it)
'build/bdist.linux-armhf' does not exist -- can't clean it
'build/scripts-3.8' does not exist -- can't clean it
rm -rf tests_invalid_data
rm -rf tnseq_transit.egg-info
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_autoreconf_clean -O--buildsystem=pybuild
dh_clean -O--buildsystem=pybuild
debian/rules binary-arch
dh binary-arch --with python3 --buildsystem=pybuild
dh_update_autotools_config -a -O--buildsystem=pybuild
dh_autoreconf -a -O--buildsystem=pybuild
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<PKGBUILDDIR>>'
mkdir -p tests_invalid_data
mv tests/H37Rv.fna tests_invalid_data
dh_auto_configure
I: pybuild base:217: python3.8 setup.py config
running config
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_build -a -O--buildsystem=pybuild
I: pybuild base:217: /usr/bin/python3 setup.py build
running build
running build_py
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytpp
copying src/pytpp/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytpp
copying src/pytpp/__main__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytpp
copying src/pytpp/tpp_gui.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytpp
copying src/pytpp/tpp_tools.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytpp
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/__main__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/draw_trash.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/fileDisplay.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/images.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/norm_tools.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/qcDisplay.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/stat_tools.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/tnseq_tools.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/transit_gui.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/transit_tools.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/trash.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
copying src/pytransit/view_trash.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/anova.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/base.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/binomial.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/corrplot.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/example.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/gi.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/griffin.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/gumbel.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/heatmap.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/hmm.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/norm.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/normalize.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/pathway_enrichment.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/rankproduct.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/resampling.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/tn5gaps.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/tnseq_stats.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/utest.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
copying src/pytransit/analysis/zinb.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/convert
copying src/pytransit/convert/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/convert
copying src/pytransit/convert/base.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/convert
copying src/pytransit/convert/gff_to_prot_table.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/convert
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export
copying src/pytransit/export/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export
copying src/pytransit/export/base.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export
copying src/pytransit/export/combined_wig.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export
copying src/pytransit/export/igv.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export
copying src/pytransit/export/mean_counts.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export
copying src/pytransit/export/prot_table.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export
running egg_info
creating tnseq_transit.egg-info
writing tnseq_transit.egg-info/PKG-INFO
writing dependency_links to tnseq_transit.egg-info/dependency_links.txt
writing entry points to tnseq_transit.egg-info/entry_points.txt
writing requirements to tnseq_transit.egg-info/requires.txt
writing top-level names to tnseq_transit.egg-info/top_level.txt
writing manifest file 'tnseq_transit.egg-info/SOURCES.txt'
reading manifest file 'tnseq_transit.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching 'VERSION'
warning: no files found matching '*.html' under directory 'src/pytransit/doc/build/html'
warning: no files found matching '*.png' under directory 'src/pytransit/doc/build/html/_images'
warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_modules'
warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_static'
writing manifest file 'tnseq_transit.egg-info/SOURCES.txt'
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/COG_roles.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/GO_associated_Rvs-3-11-18.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/GO_associated_Rvs.csv -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/GO_term_names.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/H37Rv.sanger_associated_RVS.csv -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/H37Rv_COG_roles.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/H37Rv_GO_terms.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/H37Rv_sanger_roles.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/cholesterol_H37Rv_merged.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/cholesterol_H37Rv_rep1.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/cholesterol_H37Rv_rep2.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/cholesterol_H37Rv_rep3.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/cholesterol_glycerol_combined.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/gene_ontology.1_2.3-11-18.obo -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/glycerol_H37Rv_merged.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/glycerol_H37Rv_rep1.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/glycerol_H37Rv_rep2.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/samples_metadata_cg.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/samples_metadata_cg_covar.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/samples_metadata_cg_interactions.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
copying src/pytransit/data/sanger_roles.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/BCG.fna -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/BCG.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/H37Rv.fna -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/H37Rv.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/H37RvBD.fna -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/H37RvBD.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/H37RvBD_mod3.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/H37RvMA2.fna -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/H37RvMA2.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/genomes.html -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/mc2_155_tamu.fna -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
copying src/pytransit/genomes/mc2_155_tamu.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_test -- --system=custom --test-args="PYTHONPATH=tests {interpreter} -m unittest -v tests/*.py"
I: pybuild base:217: PYTHONPATH=tests python3.8 -m unittest -v tests/*.py
/<<PKGBUILDDIR>>/tests/../src/pytpp/tpp_tools.py:648: SyntaxWarning: "is" with a literal. Did you mean "=="?
if vars.num_replicons is 1:
/<<PKGBUILDDIR>>/tests/../src/pytpp/tpp_tools.py:651: SyntaxWarning: "is" with a literal. Did you mean "=="?
elif len(vars.replicon_ids) is 1 and vars.replicon_ids[0].strip() == 'auto':
test_Binomial (tests.test_analysis_methods.TestMethods) ...
####################
tests.test_analysis_methods.TestMethods.test_Binomial
####################
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[binomial] Running Binomial Method... 19.4%
[binomial] Running Binomial Method... 19.5%
[binomial] Running Binomial Method... 19.5%
[binomial] Running Binomial Method... 19.6%
[binomial] Running Binomial Method... 19.7%
[binomial] Running Binomial Method... 19.8%
[binomial] Running Binomial Method... 19.9%
[binomial] Running Binomial Method... 20.0%
[binomial] Running Binomial Method... 20.1%
[binomial] Running Binomial Method... 20.2%
[binomial] Running Binomial Method... 20.3%
[binomial] Running Binomial Method... 20.4%
[binomial] Running Binomial Method... 20.5%
[binomial] Running Binomial Method... 20.5%
[binomial] Running Binomial Method... 20.6%
[binomial] Running Binomial Method... 20.7%
[binomial] Running Binomial Method... 20.8%
[binomial] Running Binomial Method... 20.9%
[binomial] Running Binomial Method... 21.0%
[binomial] Running Binomial Method... 21.1%
[binomial] Running Binomial Method... 21.2%
[binomial] Running Binomial Method... 21.3%
[binomial] Running Binomial Method... 21.4%
[binomial] Running Binomial Method... 21.5%
[binomial] Running Binomial Method... 21.5%
[binomial] Running Binomial Method... 21.6%
[binomial] Running Binomial Method... 21.7%
[binomial] Running Binomial Method... 21.8%
[binomial] Running Binomial Method... 21.9%
[binomial] Running Binomial Method... 22.0%
[binomial] Running Binomial Method... 22.1%
[binomial] Running Binomial Method... 22.2%
[binomial] Running Binomial Method... 22.3%
[binomial] Running Binomial Method... 22.4%
[binomial] Running Binomial Method... 22.5%
[binomial] Running Binomial Method... 22.5%
[binomial] Running Binomial Method... 22.6%
[binomial] Running Binomial Method... 22.7%
[binomial] Running Binomial Method... 22.8%
[binomial] Running Binomial Method... 22.9%
[binomial] Running Binomial Method... 23.0%
[binomial] Running Binomial Method... 23.1%
[binomial] Running Binomial Method... 23.2%
[binomial] Running Binomial Method... 23.3%
[binomial] Running Binomial Method... 23.4%
[binomial] Running Binomial Method... 23.5%
[binomial] Running Binomial Method... 23.5%
[binomial] Running Binomial Method... 23.6%
[binomial] Running Binomial Method... 23.7%
[binomial] Running Binomial Method... 23.8%
[binomial] Running Binomial Method... 23.9%
[binomial] Running Binomial Method... 24.0%
[binomial] Running Binomial Method... 24.1%
[binomial] Running Binomial Method... 24.2%
[binomial] Running Binomial Method... 24.3%
[binomial] Running Binomial Method... 24.4%
[binomial] Running Binomial Method... 24.5%
[binomial] Running Binomial Method... 24.5%
[binomial] Running Binomial Method... 24.6%
[binomial] Running Binomial Method... 24.7%
[binomial] Running Binomial Method... 24.8%
[binomial] Running Binomial Method... 24.9%
[binomial] Running Binomial Method... 25.0%
[binomial] Running Binomial Method... 25.1%
[binomial] Running Binomial Method... 25.2%
[binomial] Running Binomial Method... 25.3%
[binomial] Running Binomial Method... 25.4%
[binomial] Running Binomial Method... 25.5%
[binomial] Running Binomial Method... 25.5%
[binomial] Running Binomial Method... 25.6%
[binomial] Running Binomial Method... 25.7%
[binomial] Running Binomial Method... 25.8%
[binomial] Running Binomial Method... 25.9%
[binomial] Running Binomial Method... 26.0%
[binomial] Running Binomial Method... 26.1%
[binomial] Running Binomial Method... 26.2%
[binomial] Running Binomial Method... 26.3%
[binomial] Running Binomial Method... 26.4%
[binomial] Running Binomial Method... 26.5%
[binomial] Running Binomial Method... 26.5%
[binomial] Running Binomial Method... 26.6%
[binomial] Running Binomial Method... 26.7%
[binomial] Running Binomial Method... 26.8%
[binomial] Running Binomial Method... 26.9%
[binomial] Running Binomial Method... 27.0%
[binomial] Running Binomial Method... 27.1%
[binomial] Running Binomial Method... 27.2%
[binomial] Running Binomial Method... 27.3%
[binomial] Running Binomial Method... 27.4%
[binomial] Running Binomial Method... 27.5%
[binomial] Running Binomial Method... 27.5%
[binomial] Running Binomial Method... 27.6%
[binomial] Running Binomial Method... 27.7%
[binomial] Running Binomial Method... 27.8%
[binomial] Running Binomial Method... 27.9%
[binomial] Running Binomial Method... 28.0%
[binomial] Running Binomial Method... 28.1%
[binomial] Running Binomial Method... 28.2%
[binomial] Running Binomial Method... 28.3%
[binomial] Running Binomial Method... 28.4%
[binomial] Running Binomial Method... 28.5%
[binomial] Running Binomial Method... 28.5%
[binomial] Running Binomial Method... 28.6%
[binomial] Running Binomial Method... 28.7%
[binomial] Running Binomial Method... 28.8%
[binomial] Running Binomial Method... 28.9%
[binomial] Running Binomial Method... 29.0%
[binomial] Running Binomial Method... 29.1%
[binomial] Running Binomial Method... 29.2%
[binomial] Running Binomial Method... 29.3%
[binomial] Running Binomial Method... 29.4%
[binomial] Running Binomial Method... 29.5%
[binomial] Running Binomial Method... 29.5%
[binomial] Running Binomial Method... 29.6%
[binomial] Running Binomial Method... 29.7%
[binomial] Running Binomial Method... 29.8%
[binomial] Running Binomial Method... 29.9%
[binomial] Running Binomial Method... 30.0%
[binomial] Running Binomial Method... 30.1%
[binomial] Running Binomial Method... 30.2%
[binomial] Running Binomial Method... 30.3%
[binomial] Running Binomial Method... 30.4%
[binomial] Running Binomial Method... 30.5%
[binomial] Running Binomial Method... 30.5%
[binomial] Running Binomial Method... 30.6%
[binomial] Running Binomial Method... 30.7%
[binomial] Running Binomial Method... 30.8%
[binomial] Running Binomial Method... 30.9%
[binomial] Running Binomial Method... 31.0%
[binomial] Running Binomial Method... 31.1%
[binomial] Running Binomial Method... 31.2%
[binomial] Running Binomial Method... 31.3%
[binomial] Running Binomial Method... 31.4%
[binomial] Running Binomial Method... 31.5%
[binomial] Running Binomial Method... 31.5%
[binomial] Running Binomial Method... 31.6%
[binomial] Running Binomial Method... 31.7%
[binomial] Running Binomial Method... 31.8%
[binomial] Running Binomial Method... 31.9%
[binomial] Running Binomial Method... 32.0%
[binomial] Running Binomial Method... 32.1%
[binomial] Running Binomial Method... 32.2%
[binomial] Running Binomial Method... 32.3%
[binomial] Running Binomial Method... 32.4%
[binomial] Running Binomial Method... 32.5%
[binomial] Running Binomial Method... 32.5%
[binomial] Running Binomial Method... 32.6%
[binomial] Running Binomial Method... 32.7%
[binomial] Running Binomial Method... 32.8%
[binomial] Running Binomial Method... 32.9%
[binomial] Running Binomial Method... 33.0%
[binomial] Running Binomial Method... 33.1%
[binomial] Running Binomial Method... 33.2%
[binomial] Running Binomial Method... 33.3%
[binomial] Running Binomial Method... 33.4%
[binomial] Running Binomial Method... 33.5%
[binomial] Running Binomial Method... 33.5%
[binomial] Running Binomial Method... 33.6%
[binomial] Running Binomial Method... 33.7%
[binomial] Running Binomial Method... 33.8%
[binomial] Running Binomial Method... 33.9%
[binomial] Running Binomial Method... 34.0%
[binomial] Running Binomial Method... 34.1%
[binomial] Running Binomial Method... 34.2%
[binomial] Running Binomial Method... 34.3%
[binomial] Running Binomial Method... 34.4%
[binomial] Running Binomial Method... 34.5%
[binomial] Running Binomial Method... 34.5%
[binomial] Running Binomial Method... 34.6%
[binomial] Running Binomial Method... 34.7%
[binomial] Running Binomial Method... 34.8%
[binomial] Running Binomial Method... 34.9%
[binomial] Running Binomial Method... 35.0%
[binomial] Running Binomial Method... 35.1%
[binomial] Running Binomial Method... 35.2%
[binomial] Running Binomial Method... 35.3%
[binomial] Running Binomial Method... 35.4%
[binomial] Running Binomial Method... 35.5%
[binomial] Running Binomial Method... 35.5%
[binomial] Running Binomial Method... 35.6%
[binomial] Running Binomial Method... 35.7%
[binomial] Running Binomial Method... 35.8%
[binomial] Running Binomial Method... 35.9%
[binomial] Running Binomial Method... 36.0%
[binomial] Running Binomial Method... 36.1%
[binomial] Running Binomial Method... 36.2%
[binomial] Running Binomial Method... 36.3%
[binomial] Running Binomial Method... 36.4%
[binomial] Running Binomial Method... 36.5%
[binomial] Running Binomial Method... 36.5%
[binomial] Running Binomial Method... 36.6%
[binomial] Running Binomial Method... 36.7%
[binomial] Running Binomial Method... 36.8%
[binomial] Running Binomial Method... 36.9%
[binomial] Running Binomial Method... 37.0%
[binomial] Running Binomial Method... 37.1%
[binomial] Running Binomial Method... 37.2%
[binomial] Running Binomial Method... 37.3%
[binomial] Running Binomial Method... 37.4%
[binomial] Running Binomial Method... 37.5%
[binomial] Running Binomial Method... 37.5%
[binomial] Running Binomial Method... 37.6%
[binomial] Running Binomial Method... 37.7%
[binomial] Running Binomial Method... 37.8%
[binomial] Running Binomial Method... 37.9%
[binomial] Running Binomial Method... 38.0%
[binomial] Running Binomial Method... 38.1%
[binomial] Running Binomial Method... 38.2%
[binomial] Running Binomial Method... 38.3%
[binomial] Running Binomial Method... 38.4%
[binomial] Running Binomial Method... 38.5%
[binomial] Running Binomial Method... 38.5%
[binomial] Running Binomial Method... 38.6%
[binomial] Running Binomial Method... 38.7%
[binomial] Running Binomial Method... 38.8%
[binomial] Running Binomial Method... 38.9%
[binomial] Running Binomial Method... 39.0%
[binomial] Running Binomial Method... 39.1%
[binomial] Running Binomial Method... 39.2%
[binomial] Running Binomial Method... 39.3%
[binomial] Running Binomial Method... 39.4%
[binomial] Running Binomial Method... 39.5%
[binomial] Running Binomial Method... 39.5%
[binomial] Running Binomial Method... 39.6%
[binomial] Running Binomial Method... 39.7%
[binomial] Running Binomial Method... 39.8%
[binomial] Running Binomial Method... 39.9%
[binomial] Running Binomial Method... 40.0%
[binomial] Running Binomial Method... 40.1%
[binomial] Running Binomial Method... 40.2%
[binomial] Running Binomial Method... 40.3%
[binomial] Running Binomial Method... 40.4%
[binomial] Running Binomial Method... 40.5%
[binomial] Running Binomial Method... 40.5%
[binomial] Running Binomial Method... 40.6%
[binomial] Running Binomial Method... 40.7%
[binomial] Running Binomial Method... 40.8%
[binomial] Running Binomial Method... 40.9%
[binomial] Running Binomial Method... 41.0%
[binomial] Running Binomial Method... 41.1%
[binomial] Running Binomial Method... 41.2%
[binomial] Running Binomial Method... 41.3%
[binomial] Running Binomial Method... 41.4%
[binomial] Running Binomial Method... 41.5%
[binomial] Running Binomial Method... 41.5%
[binomial] Running Binomial Method... 41.6%
[binomial] Running Binomial Method... 41.7%
[binomial] Running Binomial Method... 41.8%
[binomial] Running Binomial Method... 41.9%
[binomial] Running Binomial Method... 42.0%
[binomial] Running Binomial Method... 42.1%
[binomial] Running Binomial Method... 42.2%
[binomial] Running Binomial Method... 42.3%
[binomial] Running Binomial Method... 42.4%
[binomial] Running Binomial Method... 42.5%
[binomial] Running Binomial Method... 42.5%
[binomial] Running Binomial Method... 42.6%
[binomial] Running Binomial Method... 42.7%
[binomial] Running Binomial Method... 42.8%
[binomial] Running Binomial Method... 42.9%
[binomial] Running Binomial Method... 43.0%
[binomial] Running Binomial Method... 43.1%
[binomial] Running Binomial Method... 43.2%
[binomial] Running Binomial Method... 43.3%
[binomial] Running Binomial Method... 43.4%
[binomial] Running Binomial Method... 43.5%
[binomial] Running Binomial Method... 43.5%
[binomial] Running Binomial Method... 43.6%
[binomial] Running Binomial Method... 43.7%
[binomial] Running Binomial Method... 43.8%
[binomial] Running Binomial Method... 43.9%
[binomial] Running Binomial Method... 44.0%
[binomial] Running Binomial Method... 44.1%
[binomial] Running Binomial Method... 44.2%
[binomial] Running Binomial Method... 44.3%
[binomial] Running Binomial Method... 44.4%
[binomial] Running Binomial Method... 44.5%
[binomial] Running Binomial Method... 44.5%
[binomial] Running Binomial Method... 44.6%
[binomial] Running Binomial Method... 44.7%
[binomial] Running Binomial Method... 44.8%
[binomial] Running Binomial Method... 44.9%
[binomial] Running Binomial Method... 45.0%
[binomial] Running Binomial Method... 45.1%
[binomial] Running Binomial Method... 45.2%
[binomial] Running Binomial Method... 45.3%
[binomial] Running Binomial Method... 45.4%
[binomial] Running Binomial Method... 45.5%
[binomial] Running Binomial Method... 45.5%
[binomial] Running Binomial Method... 45.6%
[binomial] Running Binomial Method... 45.7%
[binomial] Running Binomial Method... 45.8%
[binomial] Running Binomial Method... 45.9%
[binomial] Running Binomial Method... 46.0%
[binomial] Running Binomial Method... 46.1%
[binomial] Running Binomial Method... 46.2%
[binomial] Running Binomial Method... 46.3%
[binomial] Running Binomial Method... 46.4%
[binomial] Running Binomial Method... 46.5%
[binomial] Running Binomial Method... 46.5%
[binomial] Running Binomial Method... 46.6%
[binomial] Running Binomial Method... 46.7%
[binomial] Running Binomial Method... 46.8%
[binomial] Running Binomial Method... 46.9%
[binomial] Running Binomial Method... 47.0%
[binomial] Running Binomial Method... 47.1%
[binomial] Running Binomial Method... 47.2%
[binomial] Running Binomial Method... 47.3%
[binomial] Running Binomial Method... 47.4%
[binomial] Running Binomial Method... 47.5%
[binomial] Running Binomial Method... 47.5%
[binomial] Running Binomial Method... 47.6%
[binomial] Running Binomial Method... 47.7%
[binomial] Running Binomial Method... 47.8%
[binomial] Running Binomial Method... 47.9%
[binomial] Running Binomial Method... 48.0%
[binomial] Running Binomial Method... 48.1%
[binomial] Running Binomial Method... 48.2%
[binomial] Running Binomial Method... 48.3%
[binomial] Running Binomial Method... 48.4%
[binomial] Running Binomial Method... 48.5%
[binomial] Running Binomial Method... 48.5%
[binomial] Running Binomial Method... 48.6%
[binomial] Running Binomial Method... 48.7%
[binomial] Running Binomial Method... 48.8%
[binomial] Running Binomial Method... 48.9%
[binomial] Running Binomial Method... 49.0%
[binomial] Running Binomial Method... 49.1%
[binomial] Running Binomial Method... 49.2%
[binomial] Running Binomial Method... 49.3%
[binomial] Running Binomial Method... 49.4%
[binomial] Running Binomial Method... 49.5%
[binomial] Running Binomial Method... 49.5%
[binomial] Running Binomial Method... 49.6%
[binomial] Running Binomial Method... 49.7%
[binomial] Running Binomial Method... 49.8%
[binomial] Running Binomial Method... 49.9%
[binomial] Running Binomial Method... 50.0%
[binomial] Running Binomial Method... 50.1%
[binomial] Running Binomial Method... 50.2%
[binomial] Running Binomial Method... 50.3%
[binomial] Running Binomial Method... 50.4%
[binomial] Running Binomial Method... 50.5%
[binomial] Running Binomial Method... 50.5%
[binomial] Running Binomial Method... 50.6%
[binomial] Running Binomial Method... 50.7%
[binomial] Running Binomial Method... 50.8%
[binomial] Running Binomial Method... 50.9%
[binomial] Running Binomial Method... 51.0%
[binomial] Running Binomial Method... 51.1%
[binomial] Running Binomial Method... 51.2%
[binomial] Running Binomial Method... 51.3%
[binomial] Running Binomial Method... 51.4%
[binomial] Running Binomial Method... 51.5%
[binomial] Running Binomial Method... 51.5%
[binomial] Running Binomial Method... 51.6%
[binomial] Running Binomial Method... 51.7%
[binomial] Running Binomial Method... 51.8%
[binomial] Running Binomial Method... 51.9%
[binomial] Running Binomial Method... 52.0%
[binomial] Running Binomial Method... 52.1%
[binomial] Running Binomial Method... 52.2%
[binomial] Running Binomial Method... 52.3%
[binomial] Running Binomial Method... 52.4%
[binomial] Running Binomial Method... 52.5%
[binomial] Running Binomial Method... 52.5%
[binomial] Running Binomial Method... 52.6%
[binomial] Running Binomial Method... 52.7%
[binomial] Running Binomial Method... 52.8%
[binomial] Running Binomial Method... 52.9%
[binomial] Running Binomial Method... 53.0%
[binomial] Running Binomial Method... 53.1%
[binomial] Running Binomial Method... 53.2%
[binomial] Running Binomial Method... 53.3%
[binomial] Running Binomial Method... 53.4%
[binomial] Running Binomial Method... 53.5%
[binomial] Running Binomial Method... 53.5%
[binomial] Running Binomial Method... 53.6%
[binomial] Running Binomial Method... 53.7%
[binomial] Running Binomial Method... 53.8%
[binomial] Running Binomial Method... 53.9%
[binomial] Running Binomial Method... 54.0%
[binomial] Running Binomial Method... 54.1%
[binomial] Running Binomial Method... 54.2%
[binomial] Running Binomial Method... 54.3%
[binomial] Running Binomial Method... 54.4%
[binomial] Running Binomial Method... 54.5%
[binomial] Running Binomial Method... 54.5%
[binomial] Running Binomial Method... 54.6%
[binomial] Running Binomial Method... 54.7%
[binomial] Running Binomial Method... 54.8%
[binomial] Running Binomial Method... 54.9%
[binomial] Running Binomial Method... 55.0%
[binomial] Running Binomial Method... 55.1%
[binomial] Running Binomial Method... 55.2%
[binomial] Running Binomial Method... 55.3%
[binomial] Running Binomial Method... 55.4%
[binomial] Running Binomial Method... 55.5%
[binomial] Running Binomial Method... 55.5%
[binomial] Running Binomial Method... 55.6%
[binomial] Running Binomial Method... 55.7%
[binomial] Running Binomial Method... 55.8%
[binomial] Running Binomial Method... 55.9%
[binomial] Running Binomial Method... 56.0%
[binomial] Running Binomial Method... 56.1%
[binomial] Running Binomial Method... 56.2%
[binomial] Running Binomial Method... 56.3%
[binomial] Running Binomial Method... 56.4%
[binomial] Running Binomial Method... 56.5%
[binomial] Running Binomial Method... 56.5%
[binomial] Running Binomial Method... 56.6%
[binomial] Running Binomial Method... 56.7%
[binomial] Running Binomial Method... 56.8%
[binomial] Running Binomial Method... 56.9%
[binomial] Running Binomial Method... 57.0%
[binomial] Running Binomial Method... 57.1%
[binomial] Running Binomial Method... 57.2%
[binomial] Running Binomial Method... 57.3%
[binomial] Running Binomial Method... 57.4%
[binomial] Running Binomial Method... 57.5%
[binomial] Running Binomial Method... 57.5%
[binomial] Running Binomial Method... 57.6%
[binomial] Running Binomial Method... 57.7%
[binomial] Running Binomial Method... 57.8%
[binomial] Running Binomial Method... 57.9%
[binomial] Running Binomial Method... 58.0%
[binomial] Running Binomial Method... 58.1%
[binomial] Running Binomial Method... 58.2%
[binomial] Running Binomial Method... 58.3%
[binomial] Running Binomial Method... 58.4%
[binomial] Running Binomial Method... 58.5%
[binomial] Running Binomial Method... 58.5%
[binomial] Running Binomial Method... 58.6%
[binomial] Running Binomial Method... 58.7%
[binomial] Running Binomial Method... 58.8%
[binomial] Running Binomial Method... 58.9%
[binomial] Running Binomial Method... 59.0%
[binomial] Running Binomial Method... 59.1%
[binomial] Running Binomial Method... 59.2%
[binomial] Running Binomial Method... 59.3%
[binomial] Running Binomial Method... 59.4%
[binomial] Running Binomial Method... 59.5%
[binomial] Running Binomial Method... 59.5%
[binomial] Running Binomial Method... 59.6%
[binomial] Running Binomial Method... 59.7%
[binomial] Running Binomial Method... 59.8%
[binomial] Running Binomial Method... 59.9%
[binomial] Running Binomial Method... 60.0%
[binomial] Running Binomial Method... 60.1%
[binomial] Running Binomial Method... 60.2%
[binomial] Running Binomial Method... 60.3%
[binomial] Running Binomial Method... 60.4%
[binomial] Running Binomial Method... 60.5%
[binomial] Running Binomial Method... 60.5%
[binomial] Running Binomial Method... 60.6%
[binomial] Running Binomial Method... 60.7%
[binomial] Running Binomial Method... 60.8%
[binomial] Running Binomial Method... 60.9%
[binomial] Running Binomial Method... 61.0%
[binomial] Running Binomial Method... 61.1%
[binomial] Running Binomial Method... 61.2%
[binomial] Running Binomial Method... 61.3%
[binomial] Running Binomial Method... 61.4%
[binomial] Running Binomial Method... 61.5%
[binomial] Running Binomial Method... 61.5%
[binomial] Running Binomial Method... 61.6%
[binomial] Running Binomial Method... 61.7%
[binomial] Running Binomial Method... 61.8%
[binomial] Running Binomial Method... 61.9%
[binomial] Running Binomial Method... 62.0%
[binomial] Running Binomial Method... 62.1%
[binomial] Running Binomial Method... 62.2%
[binomial] Running Binomial Method... 62.3%
[binomial] Running Binomial Method... 62.4%
[binomial] Running Binomial Method... 62.5%
[binomial] Running Binomial Method... 62.5%
[binomial] Running Binomial Method... 62.6%
[binomial] Running Binomial Method... 62.7%
[binomial] Running Binomial Method... 62.8%
[binomial] Running Binomial Method... 62.9%
[binomial] Running Binomial Method... 63.0%
[binomial] Running Binomial Method... 63.1%
[binomial] Running Binomial Method... 63.2%
[binomial] Running Binomial Method... 63.3%
[binomial] Running Binomial Method... 63.4%
[binomial] Running Binomial Method... 63.5%
[binomial] Running Binomial Method... 63.5%
[binomial] Running Binomial Method... 63.6%
[binomial] Running Binomial Method... 63.7%
[binomial] Running Binomial Method... 63.8%
[binomial] Running Binomial Method... 63.9%
[binomial] Running Binomial Method... 64.0%
[binomial] Running Binomial Method... 64.1%
[binomial] Running Binomial Method... 64.2%
[binomial] Running Binomial Method... 64.3%
[binomial] Running Binomial Method... 64.4%
[binomial] Running Binomial Method... 64.5%
[binomial] Running Binomial Method... 64.5%
[binomial] Running Binomial Method... 64.6%
[binomial] Running Binomial Method... 64.7%
[binomial] Running Binomial Method... 64.8%
[binomial] Running Binomial Method... 64.9%
[binomial] Running Binomial Method... 65.0%
[binomial] Running Binomial Method... 65.1%
[binomial] Running Binomial Method... 65.2%
[binomial] Running Binomial Method... 65.3%
[binomial] Running Binomial Method... 65.4%
[binomial] Running Binomial Method... 65.5%
[binomial] Running Binomial Method... 65.5%
[binomial] Running Binomial Method... 65.6%
[binomial] Running Binomial Method... 65.7%
[binomial] Running Binomial Method... 65.8%
[binomial] Running Binomial Method... 65.9%
[binomial] Running Binomial Method... 66.0%
[binomial] Running Binomial Method... 66.1%
[binomial] Running Binomial Method... 66.2%
[binomial] Running Binomial Method... 66.3%
[binomial] Running Binomial Method... 66.4%
[binomial] Running Binomial Method... 66.5%
[binomial] Running Binomial Method... 66.5%
[binomial] Running Binomial Method... 66.6%
[binomial] Running Binomial Method... 66.7%
[binomial] Running Binomial Method... 66.8%
[binomial] Running Binomial Method... 66.9%
[binomial] Running Binomial Method... 67.0%
[binomial] Running Binomial Method... 67.1%
[binomial] Running Binomial Method... 67.2%
[binomial] Running Binomial Method... 67.3%
[binomial] Running Binomial Method... 67.4%
[binomial] Running Binomial Method... 67.5%
[binomial] Running Binomial Method... 67.5%
[binomial] Running Binomial Method... 67.6%
[binomial] Running Binomial Method... 67.7%
[binomial] Running Binomial Method... 67.8%
[binomial] Running Binomial Method... 67.9%
[binomial] Running Binomial Method... 68.0%
[binomial] Running Binomial Method... 68.1%
[binomial] Running Binomial Method... 68.2%
[binomial] Running Binomial Method... 68.3%
[binomial] Running Binomial Method... 68.4%
[binomial] Running Binomial Method... 68.5%
[binomial] Running Binomial Method... 68.5%
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/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'>
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ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'>
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/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'>
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/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'>
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/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:1287: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test.prot_table' mode='r' encoding='UTF-8'>
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ok
test_GI (tests.test_analysis_methods.TestMethods) ... [binomial]
[binomial] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[binomial] Finished Binomial Method
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_GI
####################
[gi] Starting Genetic Interactions Method
[gi] Getting Data
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/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/usr/lib/python3.8/unittest/case.py:633: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/testoutput.txt' mode='w' encoding='UTF-8'>
method()
ResourceWarning: Enable tracemalloc to get the object allocation traceback
ok
test_Griffin (tests.test_analysis_methods.TestMethods) ... [gi] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[gi] Finished Genetic Interactions Method
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_Griffin
####################
[griffin] Starting Griffin Method
[griffin] Getting Data
[griffin] Running Griffin Method... 2.0%
[griffin] Running Griffin Method... 3.9%
[griffin] Running Griffin Method... 5.9%
[griffin] Running Griffin Method... 7.8%
[griffin] Running Griffin Method... 9.8%
[griffin] Running Griffin Method... 11.8%
[griffin] Running Griffin Method... 13.7%
[griffin] Running Griffin Method... 15.7%
[griffin] Running Griffin Method... 17.6%
[griffin] Running Griffin Method... 19.6%
[griffin] Running Griffin Method... 21.6%
[griffin] Running Griffin Method... 23.5%
[griffin] Running Griffin Method... 25.5%
[griffin] Running Griffin Method... 27.5%
[griffin] Running Griffin Method... 29.4%
[griffin] Running Griffin Method... 31.4%
[griffin] Running Griffin Method... 33.3%
[griffin] Running Griffin Method... 35.3%
[griffin] Running Griffin Method... 37.3%
[griffin] Running Griffin Method... 39.2%
[griffin] Running Griffin Method... 41.2%
[griffin] Running Griffin Method... 43.1%
[griffin] Running Griffin Method... 45.1%
[griffin] Running Griffin Method... 47.1%
[griffin] Running Griffin Method... 49.0%
[griffin] Running Griffin Method... 51.0%
[griffin] Running Griffin Method... 52.9%
[griffin] Running Griffin Method... 54.9%
[griffin] Running Griffin Method... 56.9%
[griffin] Running Griffin Method... 58.8%
[griffin] Running Griffin Method... 60.8%
[griffin] Running Griffin Method... 62.7%
[griffin] Running Griffin Method... 64.7%
[griffin] Running Griffin Method... 66.7%
[griffin] Running Griffin Method... 68.6%
[griffin] Running Griffin Method... 70.6%
[griffin] Running Griffin Method... 72.5%
[griffin] Running Griffin Method... 74.5%
[griffin] Running Griffin Method... 76.5%
[griffin] Running Griffin Method... 78.4%
[griffin] Running Griffin Method... 80.4%
[griffin] Running Griffin Method... 82.4%
[griffin] Running Griffin Method... 84.3%
[griffin] Running Griffin Method... 86.3%
[griffin] Running Griffin Method... 88.2%
[griffin] Running Griffin Method... 90.2%
[griffin] Running Griffin Method... 92.2%
[griffin] Running Griffin Method... 94.1%
[griffin] Running Griffin Method... 96.1%
[griffin] Running Griffin Method... 98.0%
[griffin] Running Griffin Method... 100.0%
ok
test_Gumbel (tests.test_analysis_methods.TestMethods) ... [griffin]
[griffin] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[griffin] Finished Griffin Method
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_Gumbel
####################
[gumbel] Reading Annotation
[gumbel] Getting Data
[gumbel] Doing Regression
[gumbel] Setting Initial Class
[gumbel] Running Gumbel Method... 0.2%
[gumbel] Running Gumbel Method... 0.3%
[gumbel] Running Gumbel Method... 0.4%
[gumbel] Running Gumbel Method... 0.5%
[gumbel] Running Gumbel Method... 0.5%
[gumbel] Running Gumbel Method... 0.6%
[gumbel] Running Gumbel Method... 0.7%
[gumbel] Running Gumbel Method... 0.8%
[gumbel] Running Gumbel Method... 0.9%
[gumbel] Running Gumbel Method... 1.0%
[gumbel] Running Gumbel Method... 1.1%
[gumbel] Running Gumbel Method... 1.2%
[gumbel] Running Gumbel Method... 1.3%
[gumbel] Running Gumbel Method... 1.4%
[gumbel] Running Gumbel Method... 1.5%
[gumbel] Running Gumbel Method... 1.5%
[gumbel] Running Gumbel Method... 1.6%
[gumbel] Running Gumbel Method... 1.7%
[gumbel] Running Gumbel Method... 1.8%
[gumbel] Running Gumbel Method... 1.9%
[gumbel] Running Gumbel Method... 2.0%
[gumbel] Running Gumbel Method... 2.1%
[gumbel] Running Gumbel Method... 2.2%
[gumbel] Running Gumbel Method... 2.3%
[gumbel] Running Gumbel Method... 2.4%
[gumbel] Running Gumbel Method... 2.5%
[gumbel] Running Gumbel Method... 2.5%
[gumbel] Running Gumbel Method... 2.6%
[gumbel] Running Gumbel Method... 2.7%
[gumbel] Running Gumbel Method... 2.8%
[gumbel] Running Gumbel Method... 2.9%
[gumbel] Running Gumbel Method... 3.0%
[gumbel] Running Gumbel Method... 3.1%
[gumbel] Running Gumbel Method... 3.2%
[gumbel] Running Gumbel Method... 3.3%
[gumbel] Running Gumbel Method... 3.4%
[gumbel] Running Gumbel Method... 3.5%
[gumbel] Running Gumbel Method... 3.5%
[gumbel] Running Gumbel Method... 3.6%
[gumbel] Running Gumbel Method... 3.7%
[gumbel] Running Gumbel Method... 3.8%
[gumbel] Running Gumbel Method... 3.9%
[gumbel] Running Gumbel Method... 4.0%
[gumbel] Running Gumbel Method... 4.1%
[gumbel] Running Gumbel Method... 4.2%
[gumbel] Running Gumbel Method... 4.3%
[gumbel] Running Gumbel Method... 4.4%
[gumbel] Running Gumbel Method... 4.5%
[gumbel] Running Gumbel Method... 4.5%
[gumbel] Running Gumbel Method... 4.6%
[gumbel] Running Gumbel Method... 4.7%
[gumbel] Running Gumbel Method... 4.8%
[gumbel] Running Gumbel Method... 4.9%
[gumbel] Running Gumbel Method... 5.0%
[gumbel] Running Gumbel Method... 5.1%
[gumbel] Running Gumbel Method... 5.2%
[gumbel] Running Gumbel Method... 5.3%
[gumbel] Running Gumbel Method... 5.4%
[gumbel] Running Gumbel Method... 5.5%
[gumbel] Running Gumbel Method... 5.5%
[gumbel] Running Gumbel Method... 5.6%
[gumbel] Running Gumbel Method... 5.7%
[gumbel] Running Gumbel Method... 5.8%
[gumbel] Running Gumbel Method... 5.9%
[gumbel] Running Gumbel Method... 6.0%
[gumbel] Running Gumbel Method... 6.1%
[gumbel] Running Gumbel Method... 6.2%
[gumbel] Running Gumbel Method... 6.3%
[gumbel] Running Gumbel Method... 6.4%
[gumbel] Running Gumbel Method... 6.5%
[gumbel] Running Gumbel Method... 6.5%
[gumbel] Running Gumbel Method... 6.6%
[gumbel] Running Gumbel Method... 6.7%
[gumbel] Running Gumbel Method... 6.8%
[gumbel] Running Gumbel Method... 6.9%
[gumbel] Running Gumbel Method... 7.0%
[gumbel] Running Gumbel Method... 7.1%
[gumbel] Running Gumbel Method... 7.2%
[gumbel] Running Gumbel Method... 7.3%
[gumbel] Running Gumbel Method... 7.4%
[gumbel] Running Gumbel Method... 7.5%
[gumbel] Running Gumbel Method... 7.5%
[gumbel] Running Gumbel Method... 7.6%
[gumbel] Running Gumbel Method... 7.7%
[gumbel] Running Gumbel Method... 7.8%
[gumbel] Running Gumbel Method... 7.9%
[gumbel] Running Gumbel Method... 8.0%
[gumbel] Running Gumbel Method... 8.1%
[gumbel] Running Gumbel Method... 8.2%
[gumbel] Running Gumbel Method... 8.3%
[gumbel] Running Gumbel Method... 8.4%
[gumbel] Running Gumbel Method... 8.5%
[gumbel] Running Gumbel Method... 8.5%
[gumbel] Running Gumbel Method... 8.6%
[gumbel] Running Gumbel Method... 8.7%
[gumbel] Running Gumbel Method... 8.8%
[gumbel] Running Gumbel Method... 8.9%
[gumbel] Running Gumbel Method... 9.0%
[gumbel] Running Gumbel Method... 9.1%
[gumbel] Running Gumbel Method... 9.2%
[gumbel] Running Gumbel Method... 9.3%
[gumbel] Running Gumbel Method... 9.4%
[gumbel] Running Gumbel Method... 9.5%
[gumbel] Running Gumbel Method... 9.5%
[gumbel] Running Gumbel Method... 9.6%
[gumbel] Running Gumbel Method... 9.7%
[gumbel] Running Gumbel Method... 9.8%
[gumbel] Running Gumbel Method... 9.9%
[gumbel] Running Gumbel Method... 10.0%
[gumbel] Running Gumbel Method... 10.1%
[gumbel] Running Gumbel Method... 10.2%
[gumbel] Running Gumbel Method... 10.3%
[gumbel] Running Gumbel Method... 10.4%
[gumbel] Running Gumbel Method... 10.5%
[gumbel] Running Gumbel Method... 10.5%
[gumbel] Running Gumbel Method... 10.6%
[gumbel] Running Gumbel Method... 10.7%
[gumbel] Running Gumbel Method... 10.8%
[gumbel] Running Gumbel Method... 10.9%
[gumbel] Running Gumbel Method... 11.0%
[gumbel] Running Gumbel Method... 11.1%
[gumbel] Running Gumbel Method... 11.2%
[gumbel] Running Gumbel Method... 11.3%
[gumbel] Running Gumbel Method... 11.4%
[gumbel] Running Gumbel Method... 11.5%
[gumbel] Running Gumbel Method... 11.5%
[gumbel] Running Gumbel Method... 11.6%
[gumbel] Running Gumbel Method... 11.7%
[gumbel] Running Gumbel Method... 11.8%
[gumbel] Running Gumbel Method... 11.9%
[gumbel] Running Gumbel Method... 12.0%
[gumbel] Running Gumbel Method... 12.1%
[gumbel] Running Gumbel Method... 12.2%
[gumbel] Running Gumbel Method... 12.3%
[gumbel] Running Gumbel Method... 12.4%
[gumbel] Running Gumbel Method... 12.5%
[gumbel] Running Gumbel Method... 12.5%
[gumbel] Running Gumbel Method... 12.6%
[gumbel] Running Gumbel Method... 12.7%
[gumbel] Running Gumbel Method... 12.8%
[gumbel] Running Gumbel Method... 12.9%
[gumbel] Running Gumbel Method... 13.0%
[gumbel] Running Gumbel Method... 13.1%
[gumbel] Running Gumbel Method... 13.2%
[gumbel] Running Gumbel Method... 13.3%
[gumbel] Running Gumbel Method... 13.4%
[gumbel] Running Gumbel Method... 13.5%
[gumbel] Running Gumbel Method... 13.5%
[gumbel] Running Gumbel Method... 13.6%
[gumbel] Running Gumbel Method... 13.7%
[gumbel] Running Gumbel Method... 13.8%
[gumbel] Running Gumbel Method... 13.9%
[gumbel] Running Gumbel Method... 14.0%
[gumbel] Running Gumbel Method... 14.1%
[gumbel] Running Gumbel Method... 14.2%
[gumbel] Running Gumbel Method... 14.3%
[gumbel] Running Gumbel Method... 14.4%
[gumbel] Running Gumbel Method... 14.5%
[gumbel] Running Gumbel Method... 14.5%
[gumbel] Running Gumbel Method... 14.6%
[gumbel] Running Gumbel Method... 14.7%
[gumbel] Running Gumbel Method... 14.8%
[gumbel] Running Gumbel Method... 14.9%
[gumbel] Running Gumbel Method... 15.0%
[gumbel] Running Gumbel Method... 15.1%
[gumbel] Running Gumbel Method... 15.2%
[gumbel] Running Gumbel Method... 15.3%
[gumbel] Running Gumbel Method... 15.4%
[gumbel] Running Gumbel Method... 15.5%
[gumbel] Running Gumbel Method... 15.5%
[gumbel] Running Gumbel Method... 15.6%
[gumbel] Running Gumbel Method... 15.7%
[gumbel] Running Gumbel Method... 15.8%
[gumbel] Running Gumbel Method... 15.9%
[gumbel] Running Gumbel Method... 16.0%
[gumbel] Running Gumbel Method... 16.1%
[gumbel] Running Gumbel Method... 16.2%
[gumbel] Running Gumbel Method... 16.3%
[gumbel] Running Gumbel Method... 16.4%
[gumbel] Running Gumbel Method... 16.5%
[gumbel] Running Gumbel Method... 16.5%
[gumbel] Running Gumbel Method... 16.6%
[gumbel] Running Gumbel Method... 16.7%
[gumbel] Running Gumbel Method... 16.8%
[gumbel] Running Gumbel Method... 16.9%
[gumbel] Running Gumbel Method... 17.0%
[gumbel] Running Gumbel Method... 17.1%
[gumbel] Running Gumbel Method... 17.2%
[gumbel] Running Gumbel Method... 17.3%
[gumbel] Running Gumbel Method... 17.4%
[gumbel] Running Gumbel Method... 17.5%
[gumbel] Running Gumbel Method... 17.5%
[gumbel] Running Gumbel Method... 17.6%
[gumbel] Running Gumbel Method... 17.7%
[gumbel] Running Gumbel Method... 17.8%
[gumbel] Running Gumbel Method... 17.9%
[gumbel] Running Gumbel Method... 18.0%
[gumbel] Running Gumbel Method... 18.1%
[gumbel] Running Gumbel Method... 18.2%
[gumbel] Running Gumbel Method... 18.3%
[gumbel] Running Gumbel Method... 18.4%
[gumbel] Running Gumbel Method... 18.5%
[gumbel] Running Gumbel Method... 18.5%
[gumbel] Running Gumbel Method... 18.6%
[gumbel] Running Gumbel Method... 18.7%
[gumbel] Running Gumbel Method... 18.8%
[gumbel] Running Gumbel Method... 18.9%
[gumbel] Running Gumbel Method... 19.0%
[gumbel] Running Gumbel Method... 19.1%
[gumbel] Running Gumbel Method... 19.2%
[gumbel] Running Gumbel Method... 19.3%
[gumbel] Running Gumbel Method... 19.4%
[gumbel] Running Gumbel Method... 19.5%
[gumbel] Running Gumbel Method... 19.5%
[gumbel] Running Gumbel Method... 19.6%
[gumbel] Running Gumbel Method... 19.7%
[gumbel] Running Gumbel Method... 19.8%
[gumbel] Running Gumbel Method... 19.9%
[gumbel] Running Gumbel Method... 20.0%
[gumbel] Running Gumbel Method... 20.1%
[gumbel] Running Gumbel Method... 20.2%
[gumbel] Running Gumbel Method... 20.3%
[gumbel] Running Gumbel Method... 20.4%
[gumbel] Running Gumbel Method... 20.5%
[gumbel] Running Gumbel Method... 20.5%
[gumbel] Running Gumbel Method... 20.6%
[gumbel] Running Gumbel Method... 20.7%
[gumbel] Running Gumbel Method... 20.8%
[gumbel] Running Gumbel Method... 20.9%
[gumbel] Running Gumbel Method... 21.0%
[gumbel] Running Gumbel Method... 21.1%
[gumbel] Running Gumbel Method... 21.2%
[gumbel] Running Gumbel Method... 21.3%
[gumbel] Running Gumbel Method... 21.4%
[gumbel] Running Gumbel Method... 21.5%
[gumbel] Running Gumbel Method... 21.5%
[gumbel] Running Gumbel Method... 21.6%
[gumbel] Running Gumbel Method... 21.7%
[gumbel] Running Gumbel Method... 21.8%
[gumbel] Running Gumbel Method... 21.9%
[gumbel] Running Gumbel Method... 22.0%
[gumbel] Running Gumbel Method... 22.1%
[gumbel] Running Gumbel Method... 22.2%
[gumbel] Running Gumbel Method... 22.3%
[gumbel] Running Gumbel Method... 22.4%
[gumbel] Running Gumbel Method... 22.5%
[gumbel] Running Gumbel Method... 22.5%
[gumbel] Running Gumbel Method... 22.6%
[gumbel] Running Gumbel Method... 22.7%
[gumbel] Running Gumbel Method... 22.8%
[gumbel] Running Gumbel Method... 22.9%
[gumbel] Running Gumbel Method... 23.0%
[gumbel] Running Gumbel Method... 23.1%
[gumbel] Running Gumbel Method... 23.2%
[gumbel] Running Gumbel Method... 23.3%
[gumbel] Running Gumbel Method... 23.4%
[gumbel] Running Gumbel Method... 23.5%
[gumbel] Running Gumbel Method... 23.5%
[gumbel] Running Gumbel Method... 23.6%
[gumbel] Running Gumbel Method... 23.7%
[gumbel] Running Gumbel Method... 23.8%
[gumbel] Running Gumbel Method... 23.9%
[gumbel] Running Gumbel Method... 24.0%
[gumbel] Running Gumbel Method... 24.1%
[gumbel] Running Gumbel Method... 24.2%
[gumbel] Running Gumbel Method... 24.3%
[gumbel] Running Gumbel Method... 24.4%
[gumbel] Running Gumbel Method... 24.5%
[gumbel] Running Gumbel Method... 24.5%
[gumbel] Running Gumbel Method... 24.6%
[gumbel] Running Gumbel Method... 24.7%
[gumbel] Running Gumbel Method... 24.8%
[gumbel] Running Gumbel Method... 24.9%
[gumbel] Running Gumbel Method... 25.0%
[gumbel] Running Gumbel Method... 25.1%
[gumbel] Running Gumbel Method... 25.2%
[gumbel] Running Gumbel Method... 25.3%
[gumbel] Running Gumbel Method... 25.4%
[gumbel] Running Gumbel Method... 25.5%
[gumbel] Running Gumbel Method... 25.5%
[gumbel] Running Gumbel Method... 25.6%
[gumbel] Running Gumbel Method... 25.7%
[gumbel] Running Gumbel Method... 25.8%
[gumbel] Running Gumbel Method... 25.9%
[gumbel] Running Gumbel Method... 26.0%
[gumbel] Running Gumbel Method... 26.1%
[gumbel] Running Gumbel Method... 26.2%
[gumbel] Running Gumbel Method... 26.3%
[gumbel] Running Gumbel Method... 26.4%
[gumbel] Running Gumbel Method... 26.5%
[gumbel] Running Gumbel Method... 26.5%
[gumbel] Running Gumbel Method... 26.6%
[gumbel] Running Gumbel Method... 26.7%
[gumbel] Running Gumbel Method... 26.8%
[gumbel] Running Gumbel Method... 26.9%
[gumbel] Running Gumbel Method... 27.0%
[gumbel] Running Gumbel Method... 27.1%
[gumbel] Running Gumbel Method... 27.2%
[gumbel] Running Gumbel Method... 27.3%
[gumbel] Running Gumbel Method... 27.4%
[gumbel] Running Gumbel Method... 27.5%
[gumbel] Running Gumbel Method... 27.5%
[gumbel] Running Gumbel Method... 27.6%
[gumbel] Running Gumbel Method... 27.7%
[gumbel] Running Gumbel Method... 27.8%
[gumbel] Running Gumbel Method... 27.9%
[gumbel] Running Gumbel Method... 28.0%
[gumbel] Running Gumbel Method... 28.1%
[gumbel] Running Gumbel Method... 28.2%
[gumbel] Running Gumbel Method... 28.3%
[gumbel] Running Gumbel Method... 28.4%
[gumbel] Running Gumbel Method... 28.5%
[gumbel] Running Gumbel Method... 28.5%
[gumbel] Running Gumbel Method... 28.6%
[gumbel] Running Gumbel Method... 28.7%
[gumbel] Running Gumbel Method... 28.8%
[gumbel] Running Gumbel Method... 28.9%
[gumbel] Running Gumbel Method... 29.0%
[gumbel] Running Gumbel Method... 29.1%
[gumbel] Running Gumbel Method... 29.2%
[gumbel] Running Gumbel Method... 29.3%
[gumbel] Running Gumbel Method... 29.4%
[gumbel] Running Gumbel Method... 29.5%
[gumbel] Running Gumbel Method... 29.5%
[gumbel] Running Gumbel Method... 29.6%
[gumbel] Running Gumbel Method... 29.7%
[gumbel] Running Gumbel Method... 29.8%
[gumbel] Running Gumbel Method... 29.9%
[gumbel] Running Gumbel Method... 30.0%
[gumbel] Running Gumbel Method... 30.1%
[gumbel] Running Gumbel Method... 30.2%
[gumbel] Running Gumbel Method... 30.3%
[gumbel] Running Gumbel Method... 30.4%
[gumbel] Running Gumbel Method... 30.5%
[gumbel] Running Gumbel Method... 30.5%
[gumbel] Running Gumbel Method... 30.6%
[gumbel] Running Gumbel Method... 30.7%
[gumbel] Running Gumbel Method... 30.8%
[gumbel] Running Gumbel Method... 30.9%
[gumbel] Running Gumbel Method... 31.0%
[gumbel] Running Gumbel Method... 31.1%
[gumbel] Running Gumbel Method... 31.2%
[gumbel] Running Gumbel Method... 31.3%
[gumbel] Running Gumbel Method... 31.4%
[gumbel] Running Gumbel Method... 31.5%
[gumbel] Running Gumbel Method... 31.5%
[gumbel] Running Gumbel Method... 31.6%
[gumbel] Running Gumbel Method... 31.7%
[gumbel] Running Gumbel Method... 31.8%
[gumbel] Running Gumbel Method... 31.9%
[gumbel] Running Gumbel Method... 32.0%
[gumbel] Running Gumbel Method... 32.1%
[gumbel] Running Gumbel Method... 32.2%
[gumbel] Running Gumbel Method... 32.3%
[gumbel] Running Gumbel Method... 32.4%
[gumbel] Running Gumbel Method... 32.5%
[gumbel] Running Gumbel Method... 32.5%
[gumbel] Running Gumbel Method... 32.6%
[gumbel] Running Gumbel Method... 32.7%
[gumbel] Running Gumbel Method... 32.8%
[gumbel] Running Gumbel Method... 32.9%
[gumbel] Running Gumbel Method... 33.0%
[gumbel] Running Gumbel Method... 33.1%
[gumbel] Running Gumbel Method... 33.2%
[gumbel] Running Gumbel Method... 33.3%
[gumbel] Running Gumbel Method... 33.4%
[gumbel] Running Gumbel Method... 33.5%
[gumbel] Running Gumbel Method... 33.5%
[gumbel] Running Gumbel Method... 33.6%
[gumbel] Running Gumbel Method... 33.7%
[gumbel] Running Gumbel Method... 33.8%
[gumbel] Running Gumbel Method... 33.9%
[gumbel] Running Gumbel Method... 34.0%
[gumbel] Running Gumbel Method... 34.1%
[gumbel] Running Gumbel Method... 34.2%
[gumbel] Running Gumbel Method... 34.3%
[gumbel] Running Gumbel Method... 34.4%
[gumbel] Running Gumbel Method... 34.5%
[gumbel] Running Gumbel Method... 34.5%
[gumbel] Running Gumbel Method... 34.6%
[gumbel] Running Gumbel Method... 34.7%
[gumbel] Running Gumbel Method... 34.8%
[gumbel] Running Gumbel Method... 34.9%
[gumbel] Running Gumbel Method... 35.0%
[gumbel] Running Gumbel Method... 35.1%
[gumbel] Running Gumbel Method... 35.2%
[gumbel] Running Gumbel Method... 35.3%
[gumbel] Running Gumbel Method... 35.4%
[gumbel] Running Gumbel Method... 35.5%
[gumbel] Running Gumbel Method... 35.5%
[gumbel] Running Gumbel Method... 35.6%
[gumbel] Running Gumbel Method... 35.7%
[gumbel] Running Gumbel Method... 35.8%
[gumbel] Running Gumbel Method... 35.9%
[gumbel] Running Gumbel Method... 36.0%
[gumbel] Running Gumbel Method... 36.1%
[gumbel] Running Gumbel Method... 36.2%
[gumbel] Running Gumbel Method... 36.3%
[gumbel] Running Gumbel Method... 36.4%
[gumbel] Running Gumbel Method... 36.5%
[gumbel] Running Gumbel Method... 36.5%
[gumbel] Running Gumbel Method... 36.6%
[gumbel] Running Gumbel Method... 36.7%
[gumbel] Running Gumbel Method... 36.8%
[gumbel] Running Gumbel Method... 36.9%
[gumbel] Running Gumbel Method... 37.0%
[gumbel] Running Gumbel Method... 37.1%
[gumbel] Running Gumbel Method... 37.2%
[gumbel] Running Gumbel Method... 37.3%
[gumbel] Running Gumbel Method... 37.4%
[gumbel] Running Gumbel Method... 37.5%
[gumbel] Running Gumbel Method... 37.5%
[gumbel] Running Gumbel Method... 37.6%
[gumbel] Running Gumbel Method... 37.7%
[gumbel] Running Gumbel Method... 37.8%
[gumbel] Running Gumbel Method... 37.9%
[gumbel] Running Gumbel Method... 38.0%
[gumbel] Running Gumbel Method... 38.1%
[gumbel] Running Gumbel Method... 38.2%
[gumbel] Running Gumbel Method... 38.3%
[gumbel] Running Gumbel Method... 38.4%
[gumbel] Running Gumbel Method... 38.5%
[gumbel] Running Gumbel Method... 38.5%
[gumbel] Running Gumbel Method... 38.6%
[gumbel] Running Gumbel Method... 38.7%
[gumbel] Running Gumbel Method... 38.8%
[gumbel] Running Gumbel Method... 38.9%
[gumbel] Running Gumbel Method... 39.0%
[gumbel] Running Gumbel Method... 39.1%
[gumbel] Running Gumbel Method... 39.2%
[gumbel] Running Gumbel Method... 39.3%
[gumbel] Running Gumbel Method... 39.4%
[gumbel] Running Gumbel Method... 39.5%
[gumbel] Running Gumbel Method... 39.5%
[gumbel] Running Gumbel Method... 39.6%
[gumbel] Running Gumbel Method... 39.7%
[gumbel] Running Gumbel Method... 39.8%
[gumbel] Running Gumbel Method... 39.9%
[gumbel] Running Gumbel Method... 40.0%
[gumbel] Running Gumbel Method... 40.1%
[gumbel] Running Gumbel Method... 40.2%
[gumbel] Running Gumbel Method... 40.3%
[gumbel] Running Gumbel Method... 40.4%
[gumbel] Running Gumbel Method... 40.5%
[gumbel] Running Gumbel Method... 40.5%
[gumbel] Running Gumbel Method... 40.6%
[gumbel] Running Gumbel Method... 40.7%
[gumbel] Running Gumbel Method... 40.8%
[gumbel] Running Gumbel Method... 40.9%
[gumbel] Running Gumbel Method... 41.0%
[gumbel] Running Gumbel Method... 41.1%
[gumbel] Running Gumbel Method... 41.2%
[gumbel] Running Gumbel Method... 41.3%
[gumbel] Running Gumbel Method... 41.4%
[gumbel] Running Gumbel Method... 41.5%
[gumbel] Running Gumbel Method... 41.5%
[gumbel] Running Gumbel Method... 41.6%
[gumbel] Running Gumbel Method... 41.7%
[gumbel] Running Gumbel Method... 41.8%
[gumbel] Running Gumbel Method... 41.9%
[gumbel] Running Gumbel Method... 42.0%
[gumbel] Running Gumbel Method... 42.1%
[gumbel] Running Gumbel Method... 42.2%
[gumbel] Running Gumbel Method... 42.3%
[gumbel] Running Gumbel Method... 42.4%
[gumbel] Running Gumbel Method... 42.5%
[gumbel] Running Gumbel Method... 42.5%
[gumbel] Running Gumbel Method... 42.6%
[gumbel] Running Gumbel Method... 42.7%
[gumbel] Running Gumbel Method... 42.8%
[gumbel] Running Gumbel Method... 42.9%
[gumbel] Running Gumbel Method... 43.0%
[gumbel] Running Gumbel Method... 43.1%
[gumbel] Running Gumbel Method... 43.2%
[gumbel] Running Gumbel Method... 43.3%
[gumbel] Running Gumbel Method... 43.4%
[gumbel] Running Gumbel Method... 43.5%
[gumbel] Running Gumbel Method... 43.5%
[gumbel] Running Gumbel Method... 43.6%
[gumbel] Running Gumbel Method... 43.7%
[gumbel] Running Gumbel Method... 43.8%
[gumbel] Running Gumbel Method... 43.9%
[gumbel] Running Gumbel Method... 44.0%
[gumbel] Running Gumbel Method... 44.1%
[gumbel] Running Gumbel Method... 44.2%
[gumbel] Running Gumbel Method... 44.3%
[gumbel] Running Gumbel Method... 44.4%
[gumbel] Running Gumbel Method... 44.5%
[gumbel] Running Gumbel Method... 44.5%
[gumbel] Running Gumbel Method... 44.6%
[gumbel] Running Gumbel Method... 44.7%
[gumbel] Running Gumbel Method... 44.8%
[gumbel] Running Gumbel Method... 44.9%
[gumbel] Running Gumbel Method... 45.0%
[gumbel] Running Gumbel Method... 45.1%
[gumbel] Running Gumbel Method... 45.2%
[gumbel] Running Gumbel Method... 45.3%
[gumbel] Running Gumbel Method... 45.4%
[gumbel] Running Gumbel Method... 45.5%
[gumbel] Running Gumbel Method... 45.5%
[gumbel] Running Gumbel Method... 45.6%
[gumbel] Running Gumbel Method... 45.7%
[gumbel] Running Gumbel Method... 45.8%
[gumbel] Running Gumbel Method... 45.9%
[gumbel] Running Gumbel Method... 46.0%
[gumbel] Running Gumbel Method... 46.1%
[gumbel] Running Gumbel Method... 46.2%
[gumbel] Running Gumbel Method... 46.3%
[gumbel] Running Gumbel Method... 46.4%
[gumbel] Running Gumbel Method... 46.5%
[gumbel] Running Gumbel Method... 46.5%
[gumbel] Running Gumbel Method... 46.6%
[gumbel] Running Gumbel Method... 46.7%
[gumbel] Running Gumbel Method... 46.8%
[gumbel] Running Gumbel Method... 46.9%
[gumbel] Running Gumbel Method... 47.0%
[gumbel] Running Gumbel Method... 47.1%
[gumbel] Running Gumbel Method... 47.2%
[gumbel] Running Gumbel Method... 47.3%
[gumbel] Running Gumbel Method... 47.4%
[gumbel] Running Gumbel Method... 47.5%
[gumbel] Running Gumbel Method... 47.5%
[gumbel] Running Gumbel Method... 47.6%
[gumbel] Running Gumbel Method... 47.7%
[gumbel] Running Gumbel Method... 47.8%
[gumbel] Running Gumbel Method... 47.9%
[gumbel] Running Gumbel Method... 48.0%
[gumbel] Running Gumbel Method... 48.1%
[gumbel] Running Gumbel Method... 48.2%
[gumbel] Running Gumbel Method... 48.3%
[gumbel] Running Gumbel Method... 48.4%
[gumbel] Running Gumbel Method... 48.5%
[gumbel] Running Gumbel Method... 48.5%
[gumbel] Running Gumbel Method... 48.6%
[gumbel] Running Gumbel Method... 48.7%
[gumbel] Running Gumbel Method... 48.8%
[gumbel] Running Gumbel Method... 48.9%
[gumbel] Running Gumbel Method... 49.0%
[gumbel] Running Gumbel Method... 49.1%
[gumbel] Running Gumbel Method... 49.2%
[gumbel] Running Gumbel Method... 49.3%
[gumbel] Running Gumbel Method... 49.4%
[gumbel] Running Gumbel Method... 49.5%
[gumbel] Running Gumbel Method... 49.5%
[gumbel] Running Gumbel Method... 49.6%
[gumbel] Running Gumbel Method... 49.7%
[gumbel] Running Gumbel Method... 49.8%
[gumbel] Running Gumbel Method... 49.9%
[gumbel] Running Gumbel Method... 50.0%
[gumbel] Running Gumbel Method... 50.1%
[gumbel] Running Gumbel Method... 50.2%
[gumbel] Running Gumbel Method... 50.3%
[gumbel] Running Gumbel Method... 50.4%
[gumbel] Running Gumbel Method... 50.5%
[gumbel] Running Gumbel Method... 50.5%
[gumbel] Running Gumbel Method... 50.6%
[gumbel] Running Gumbel Method... 50.7%
[gumbel] Running Gumbel Method... 50.8%
[gumbel] Running Gumbel Method... 50.9%
[gumbel] Running Gumbel Method... 51.0%
[gumbel] Running Gumbel Method... 51.1%
[gumbel] Running Gumbel Method... 51.2%
[gumbel] Running Gumbel Method... 51.3%
[gumbel] Running Gumbel Method... 51.4%
[gumbel] Running Gumbel Method... 51.5%
[gumbel] Running Gumbel Method... 51.5%
[gumbel] Running Gumbel Method... 51.6%
[gumbel] Running Gumbel Method... 51.7%
[gumbel] Running Gumbel Method... 51.8%
[gumbel] Running Gumbel Method... 51.9%
[gumbel] Running Gumbel Method... 52.0%
[gumbel] Running Gumbel Method... 52.1%
[gumbel] Running Gumbel Method... 52.2%
[gumbel] Running Gumbel Method... 52.3%
[gumbel] Running Gumbel Method... 52.4%
[gumbel] Running Gumbel Method... 52.5%
[gumbel] Running Gumbel Method... 52.5%
[gumbel] Running Gumbel Method... 52.6%
[gumbel] Running Gumbel Method... 52.7%
[gumbel] Running Gumbel Method... 52.8%
[gumbel] Running Gumbel Method... 52.9%
[gumbel] Running Gumbel Method... 53.0%
[gumbel] Running Gumbel Method... 53.1%
[gumbel] Running Gumbel Method... 53.2%
[gumbel] Running Gumbel Method... 53.3%
[gumbel] Running Gumbel Method... 53.4%
[gumbel] Running Gumbel Method... 53.5%
[gumbel] Running Gumbel Method... 53.5%
[gumbel] Running Gumbel Method... 53.6%
[gumbel] Running Gumbel Method... 53.7%
[gumbel] Running Gumbel Method... 53.8%
[gumbel] Running Gumbel Method... 53.9%
[gumbel] Running Gumbel Method... 54.0%
[gumbel] Running Gumbel Method... 54.1%
[gumbel] Running Gumbel Method... 54.2%
[gumbel] Running Gumbel Method... 54.3%
[gumbel] Running Gumbel Method... 54.4%
[gumbel] Running Gumbel Method... 54.5%
[gumbel] Running Gumbel Method... 54.5%
[gumbel] Running Gumbel Method... 54.6%
[gumbel] Running Gumbel Method... 54.7%
[gumbel] Running Gumbel Method... 54.8%
[gumbel] Running Gumbel Method... 54.9%
[gumbel] Running Gumbel Method... 55.0%
[gumbel] Running Gumbel Method... 55.1%
[gumbel] Running Gumbel Method... 55.2%
[gumbel] Running Gumbel Method... 55.3%
[gumbel] Running Gumbel Method... 55.4%
[gumbel] Running Gumbel Method... 55.5%
[gumbel] Running Gumbel Method... 55.5%
[gumbel] Running Gumbel Method... 55.6%
[gumbel] Running Gumbel Method... 55.7%
[gumbel] Running Gumbel Method... 55.8%
[gumbel] Running Gumbel Method... 55.9%
[gumbel] Running Gumbel Method... 56.0%
[gumbel] Running Gumbel Method... 56.1%
[gumbel] Running Gumbel Method... 56.2%
[gumbel] Running Gumbel Method... 56.3%
[gumbel] Running Gumbel Method... 56.4%
[gumbel] Running Gumbel Method... 56.5%
[gumbel] Running Gumbel Method... 56.5%
[gumbel] Running Gumbel Method... 56.6%
[gumbel] Running Gumbel Method... 56.7%
[gumbel] Running Gumbel Method... 56.8%
[gumbel] Running Gumbel Method... 56.9%
[gumbel] Running Gumbel Method... 57.0%
[gumbel] Running Gumbel Method... 57.1%
[gumbel] Running Gumbel Method... 57.2%
[gumbel] Running Gumbel Method... 57.3%
[gumbel] Running Gumbel Method... 57.4%
[gumbel] Running Gumbel Method... 57.5%
[gumbel] Running Gumbel Method... 57.5%
[gumbel] Running Gumbel Method... 57.6%
[gumbel] Running Gumbel Method... 57.7%
[gumbel] Running Gumbel Method... 57.8%
[gumbel] Running Gumbel Method... 57.9%
[gumbel] Running Gumbel Method... 58.0%
[gumbel] Running Gumbel Method... 58.1%
[gumbel] Running Gumbel Method... 58.2%
[gumbel] Running Gumbel Method... 58.3%
[gumbel] Running Gumbel Method... 58.4%
[gumbel] Running Gumbel Method... 58.5%
[gumbel] Running Gumbel Method... 58.5%
[gumbel] Running Gumbel Method... 58.6%
[gumbel] Running Gumbel Method... 58.7%
[gumbel] Running Gumbel Method... 58.8%
[gumbel] Running Gumbel Method... 58.9%
[gumbel] Running Gumbel Method... 59.0%
[gumbel] Running Gumbel Method... 59.1%
[gumbel] Running Gumbel Method... 59.2%
[gumbel] Running Gumbel Method... 59.3%
[gumbel] Running Gumbel Method... 59.4%
[gumbel] Running Gumbel Method... 59.5%
[gumbel] Running Gumbel Method... 59.5%
[gumbel] Running Gumbel Method... 59.6%
[gumbel] Running Gumbel Method... 59.7%
[gumbel] Running Gumbel Method... 59.8%
[gumbel] Running Gumbel Method... 59.9%
[gumbel] Running Gumbel Method... 60.0%
[gumbel] Running Gumbel Method... 60.1%
[gumbel] Running Gumbel Method... 60.2%
[gumbel] Running Gumbel Method... 60.3%
[gumbel] Running Gumbel Method... 60.4%
[gumbel] Running Gumbel Method... 60.5%
[gumbel] Running Gumbel Method... 60.5%
[gumbel] Running Gumbel Method... 60.6%
[gumbel] Running Gumbel Method... 60.7%
[gumbel] Running Gumbel Method... 60.8%
[gumbel] Running Gumbel Method... 60.9%
[gumbel] Running Gumbel Method... 61.0%
[gumbel] Running Gumbel Method... 61.1%
[gumbel] Running Gumbel Method... 61.2%
[gumbel] Running Gumbel Method... 61.3%
[gumbel] Running Gumbel Method... 61.4%
[gumbel] Running Gumbel Method... 61.5%
[gumbel] Running Gumbel Method... 61.5%
[gumbel] Running Gumbel Method... 61.6%
[gumbel] Running Gumbel Method... 61.7%
[gumbel] Running Gumbel Method... 61.8%
[gumbel] Running Gumbel Method... 61.9%
[gumbel] Running Gumbel Method... 62.0%
[gumbel] Running Gumbel Method... 62.1%
[gumbel] Running Gumbel Method... 62.2%
[gumbel] Running Gumbel Method... 62.3%
[gumbel] Running Gumbel Method... 62.4%
[gumbel] Running Gumbel Method... 62.5%
[gumbel] Running Gumbel Method... 62.5%
[gumbel] Running Gumbel Method... 62.6%
[gumbel] Running Gumbel Method... 62.7%
[gumbel] Running Gumbel Method... 62.8%
[gumbel] Running Gumbel Method... 62.9%
[gumbel] Running Gumbel Method... 63.0%
[gumbel] Running Gumbel Method... 63.1%
[gumbel] Running Gumbel Method... 63.2%
[gumbel] Running Gumbel Method... 63.3%
[gumbel] Running Gumbel Method... 63.4%
[gumbel] Running Gumbel Method... 63.5%
[gumbel] Running Gumbel Method... 63.5%
[gumbel] Running Gumbel Method... 63.6%
[gumbel] Running Gumbel Method... 63.7%
[gumbel] Running Gumbel Method... 63.8%
[gumbel] Running Gumbel Method... 63.9%
[gumbel] Running Gumbel Method... 64.0%
[gumbel] Running Gumbel Method... 64.1%
[gumbel] Running Gumbel Method... 64.2%
[gumbel] Running Gumbel Method... 64.3%
[gumbel] Running Gumbel Method... 64.4%
[gumbel] Running Gumbel Method... 64.5%
[gumbel] Running Gumbel Method... 64.5%
[gumbel] Running Gumbel Method... 64.6%
[gumbel] Running Gumbel Method... 64.7%
[gumbel] Running Gumbel Method... 64.8%
[gumbel] Running Gumbel Method... 64.9%
[gumbel] Running Gumbel Method... 65.0%
[gumbel] Running Gumbel Method... 65.1%
[gumbel] Running Gumbel Method... 65.2%
[gumbel] Running Gumbel Method... 65.3%
[gumbel] Running Gumbel Method... 65.4%
[gumbel] Running Gumbel Method... 65.5%
[gumbel] Running Gumbel Method... 65.5%
[gumbel] Running Gumbel Method... 65.6%
[gumbel] Running Gumbel Method... 65.7%
[gumbel] Running Gumbel Method... 65.8%
[gumbel] Running Gumbel Method... 65.9%
[gumbel] Running Gumbel Method... 66.0%
[gumbel] Running Gumbel Method... 66.1%
[gumbel] Running Gumbel Method... 66.2%
[gumbel] Running Gumbel Method... 66.3%
[gumbel] Running Gumbel Method... 66.4%
[gumbel] Running Gumbel Method... 66.5%
[gumbel] Running Gumbel Method... 66.5%
[gumbel] Running Gumbel Method... 66.6%
[gumbel] Running Gumbel Method... 66.7%
[gumbel] Running Gumbel Method... 66.8%
[gumbel] Running Gumbel Method... 66.9%
[gumbel] Running Gumbel Method... 67.0%
[gumbel] Running Gumbel Method... 67.1%
[gumbel] Running Gumbel Method... 67.2%
[gumbel] Running Gumbel Method... 67.3%
[gumbel] Running Gumbel Method... 67.4%
[gumbel] Running Gumbel Method... 67.5%
[gumbel] Running Gumbel Method... 67.5%
[gumbel] Running Gumbel Method... 67.6%
[gumbel] Running Gumbel Method... 67.7%
[gumbel] Running Gumbel Method... 67.8%
[gumbel] Running Gumbel Method... 67.9%
[gumbel] Running Gumbel Method... 68.0%
[gumbel] Running Gumbel Method... 68.1%
[gumbel] Running Gumbel Method... 68.2%
[gumbel] Running Gumbel Method... 68.3%
[gumbel] Running Gumbel Method... 68.4%
[gumbel] Running Gumbel Method... 68.5%
[gumbel] Running Gumbel Method... 68.5%
[gumbel] Running Gumbel Method... 68.6%
[gumbel] Running Gumbel Method... 68.7%
[gumbel] Running Gumbel Method... 68.8%
[gumbel] Running Gumbel Method... 68.9%
[gumbel] Running Gumbel Method... 69.0%
[gumbel] Running Gumbel Method... 69.1%
[gumbel] Running Gumbel Method... 69.2%
[gumbel] Running Gumbel Method... 69.3%
[gumbel] Running Gumbel Method... 69.4%
[gumbel] Running Gumbel Method... 69.5%
[gumbel] Running Gumbel Method... 69.5%
[gumbel] Running Gumbel Method... 69.6%
[gumbel] Running Gumbel Method... 69.7%
[gumbel] Running Gumbel Method... 69.8%
[gumbel] Running Gumbel Method... 69.9%
[gumbel] Running Gumbel Method... 70.0%
[gumbel] Running Gumbel Method... 70.1%
[gumbel] Running Gumbel Method... 70.2%
[gumbel] Running Gumbel Method... 70.3%
[gumbel] Running Gumbel Method... 70.4%
[gumbel] Running Gumbel Method... 70.5%
[gumbel] Running Gumbel Method... 70.5%
[gumbel] Running Gumbel Method... 70.6%
[gumbel] Running Gumbel Method... 70.7%
[gumbel] Running Gumbel Method... 70.8%
[gumbel] Running Gumbel Method... 70.9%
[gumbel] Running Gumbel Method... 71.0%
[gumbel] Running Gumbel Method... 71.1%
[gumbel] Running Gumbel Method... 71.2%
[gumbel] Running Gumbel Method... 71.3%
[gumbel] Running Gumbel Method... 71.4%
[gumbel] Running Gumbel Method... 71.5%
[gumbel] Running Gumbel Method... 71.5%
[gumbel] Running Gumbel Method... 71.6%
[gumbel] Running Gumbel Method... 71.7%
[gumbel] Running Gumbel Method... 71.8%
[gumbel] Running Gumbel Method... 71.9%
[gumbel] Running Gumbel Method... 72.0%
[gumbel] Running Gumbel Method... 72.1%
[gumbel] Running Gumbel Method... 72.2%
[gumbel] Running Gumbel Method... 72.3%
[gumbel] Running Gumbel Method... 72.4%
[gumbel] Running Gumbel Method... 72.5%
[gumbel] Running Gumbel Method... 72.5%
[gumbel] Running Gumbel Method... 72.6%
[gumbel] Running Gumbel Method... 72.7%
[gumbel] Running Gumbel Method... 72.8%
[gumbel] Running Gumbel Method... 72.9%
[gumbel] Running Gumbel Method... 73.0%
[gumbel] Running Gumbel Method... 73.1%
[gumbel] Running Gumbel Method... 73.2%
[gumbel] Running Gumbel Method... 73.3%
[gumbel] Running Gumbel Method... 73.4%
[gumbel] Running Gumbel Method... 73.5%
[gumbel] Running Gumbel Method... 73.5%
[gumbel] Running Gumbel Method... 73.6%
[gumbel] Running Gumbel Method... 73.7%
[gumbel] Running Gumbel Method... 73.8%
[gumbel] Running Gumbel Method... 73.9%
[gumbel] Running Gumbel Method... 74.0%
[gumbel] Running Gumbel Method... 74.1%
[gumbel] Running Gumbel Method... 74.2%
[gumbel] Running Gumbel Method... 74.3%
[gumbel] Running Gumbel Method... 74.4%
[gumbel] Running Gumbel Method... 74.5%
[gumbel] Running Gumbel Method... 74.5%
[gumbel] Running Gumbel Method... 74.6%
[gumbel] Running Gumbel Method... 74.7%
[gumbel] Running Gumbel Method... 74.8%
[gumbel] Running Gumbel Method... 74.9%
[gumbel] Running Gumbel Method... 75.0%
[gumbel] Running Gumbel Method... 75.1%
[gumbel] Running Gumbel Method... 75.2%
[gumbel] Running Gumbel Method... 75.3%
[gumbel] Running Gumbel Method... 75.4%
[gumbel] Running Gumbel Method... 75.5%
[gumbel] Running Gumbel Method... 75.5%
[gumbel] Running Gumbel Method... 75.6%
[gumbel] Running Gumbel Method... 75.7%
[gumbel] Running Gumbel Method... 75.8%
[gumbel] Running Gumbel Method... 75.9%
[gumbel] Running Gumbel Method... 76.0%
[gumbel] Running Gumbel Method... 76.1%
[gumbel] Running Gumbel Method... 76.2%
[gumbel] Running Gumbel Method... 76.3%
[gumbel] Running Gumbel Method... 76.4%
[gumbel] Running Gumbel Method... 76.5%
[gumbel] Running Gumbel Method... 76.5%
[gumbel] Running Gumbel Method... 76.6%
[gumbel] Running Gumbel Method... 76.7%
[gumbel] Running Gumbel Method... 76.8%
[gumbel] Running Gumbel Method... 76.9%
[gumbel] Running Gumbel Method... 77.0%
[gumbel] Running Gumbel Method... 77.1%
[gumbel] Running Gumbel Method... 77.2%
[gumbel] Running Gumbel Method... 77.3%
[gumbel] Running Gumbel Method... 77.4%
[gumbel] Running Gumbel Method... 77.5%
[gumbel] Running Gumbel Method... 77.5%
[gumbel] Running Gumbel Method... 77.6%
[gumbel] Running Gumbel Method... 77.7%
[gumbel] Running Gumbel Method... 77.8%
[gumbel] Running Gumbel Method... 77.9%
[gumbel] Running Gumbel Method... 78.0%
[gumbel] Running Gumbel Method... 78.1%
[gumbel] Running Gumbel Method... 78.2%
[gumbel] Running Gumbel Method... 78.3%
[gumbel] Running Gumbel Method... 78.4%
[gumbel] Running Gumbel Method... 78.5%
[gumbel] Running Gumbel Method... 78.5%
[gumbel] Running Gumbel Method... 78.6%
[gumbel] Running Gumbel Method... 78.7%
[gumbel] Running Gumbel Method... 78.8%
[gumbel] Running Gumbel Method... 78.9%
[gumbel] Running Gumbel Method... 79.0%
[gumbel] Running Gumbel Method... 79.1%
[gumbel] Running Gumbel Method... 79.2%
[gumbel] Running Gumbel Method... 79.3%
[gumbel] Running Gumbel Method... 79.4%
[gumbel] Running Gumbel Method... 79.5%
[gumbel] Running Gumbel Method... 79.5%
[gumbel] Running Gumbel Method... 79.6%
[gumbel] Running Gumbel Method... 79.7%
[gumbel] Running Gumbel Method... 79.8%
[gumbel] Running Gumbel Method... 79.9%
[gumbel] Running Gumbel Method... 80.0%
[gumbel] Running Gumbel Method... 80.1%
[gumbel] Running Gumbel Method... 80.2%
[gumbel] Running Gumbel Method... 80.3%
[gumbel] Running Gumbel Method... 80.4%
[gumbel] Running Gumbel Method... 80.5%
[gumbel] Running Gumbel Method... 80.5%
[gumbel] Running Gumbel Method... 80.6%
[gumbel] Running Gumbel Method... 80.7%
[gumbel] Running Gumbel Method... 80.8%
[gumbel] Running Gumbel Method... 80.9%
[gumbel] Running Gumbel Method... 81.0%
[gumbel] Running Gumbel Method... 81.1%
[gumbel] Running Gumbel Method... 81.2%
[gumbel] Running Gumbel Method... 81.3%
[gumbel] Running Gumbel Method... 81.4%
[gumbel] Running Gumbel Method... 81.5%
[gumbel] Running Gumbel Method... 81.5%
[gumbel] Running Gumbel Method... 81.6%
[gumbel] Running Gumbel Method... 81.7%
[gumbel] Running Gumbel Method... 81.8%
[gumbel] Running Gumbel Method... 81.9%
[gumbel] Running Gumbel Method... 82.0%
[gumbel] Running Gumbel Method... 82.1%
[gumbel] Running Gumbel Method... 82.2%
[gumbel] Running Gumbel Method... 82.3%
[gumbel] Running Gumbel Method... 82.4%
[gumbel] Running Gumbel Method... 82.5%
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/<<PKGBUILDDIR>>/tests/../src/pytransit/analysis/gumbel.py:498: DeprecationWarning: scipy.exp is deprecated and will be removed in SciPy 2.0.0, use numpy.exp instead
pval = 1 - scipy.exp(scipy.stats.gumbel_r.logcdf(r,u,B))
/<<PKGBUILDDIR>>/tests/../src/pytransit/analysis/gumbel.py:522: DeprecationWarning: scipy.exp is deprecated and will be removed in SciPy 2.0.0, use numpy.exp instead
h0 = ((scipy.exp(scipy.stats.gumbel_r.logpdf(R,mu,sigma))) * scipy.stats.norm.pdf(S, mu_s*R, sigma_s) * (1-w1))
ok
test_HMM (tests.test_analysis_methods.TestMethods) ... [gumbel]
[gumbel] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[gumbel] Finished Gumbel Method
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_HMM
####################
[hmm] Starting HMM Method
[hmm] Getting Data
[hmm] Normalizing using: TTR
[hmm] Running HMM Method... 2.5%
[hmm] Running HMM Method... 5.0%
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/<<PKGBUILDDIR>>/tests/../src/pytransit/analysis/hmm.py:194: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test.wig' mode='r' encoding='UTF-8'>
T = len([1 for line in open(ctrldata[0]).readlines() if not line.startswith("#")])
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
ok
test_anova (tests.test_analysis_methods.TestMethods) ... [hmm]
[hmm] Finished HMM - Sites Method
[hmm] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[hmm] Creating HMM Genes Level Output
[hmm] Adding File: /<<PKGBUILDDIR>>/tests/testoutput_genes.txt
[hmm] Finished HMM Method
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_anova
####################
[anova] Starting Anova analysis
[anova] Getting Data
[anova] Normalizing using: TTR
[anova] Running Anova
[anova] Running Anova Method... 2.0%
[anova] Running Anova Method... 3.9%
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[anova] Running Anova Method... 100.0%
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:121: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test.prot_table' mode='r' encoding='UTF-8'>
for line in open(fname):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/transit_test.py:89: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/testoutput.txt' mode='r' encoding='UTF-8'>
for line in open(fname):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
ok
test_resampling (tests.test_analysis_methods.TestMethods) ... [anova] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[anova] Finished Anova analysis
[anova] Time: 6.2s
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_resampling
####################
[resampling] Starting resampling Method
[resampling] Getting Data
[resampling] Preprocessing Ctrl data...
[resampling] Normalizing using: TTR
[resampling] Performing LOESS Correction
[resampling] Preprocessing Exp data...
[resampling] Normalizing using: TTR
[resampling] Performing LOESS Correction
[resampling] Running Resampling Method... 2.0%
[resampling] Running Resampling Method... 3.9%
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[resampling] Running Resampling Method... 92.2%
[resampling] Running Resampling Method... 94.1%
[resampling] Running Resampling Method... 96.1%
[resampling] Running Resampling Method... 98.0%
[resampling] Running Resampling Method... 100.0%
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'>
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ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'>
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ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:1287: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test.prot_table' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:1214: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test.prot_table' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:518: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test.prot_table' mode='r' encoding='UTF-8'>
for line in open(self.annotation):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/transit_test.py:89: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/testoutput.txt' mode='r' encoding='UTF-8'>
for line in open(fname):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
ok
test_resampling_adaptive (tests.test_analysis_methods.TestMethods) ... [resampling]
[resampling] Performing Benjamini-Hochberg Correction
[resampling] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[resampling] Finished resampling Method
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_resampling_adaptive
####################
[resampling] Starting resampling Method
[resampling] Getting Data
[resampling] Preprocessing Ctrl data...
[resampling] Normalizing using: TTR
[resampling] Preprocessing Exp data...
[resampling] Normalizing using: TTR
[resampling] Running Resampling Method... 2.0%
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/<<PKGBUILDDIR>>/tests/../src/pytransit/stat_tools.py:717: VisibleDeprecationWarning: Creating an ndarray from ragged nested sequences (which is a list-or-tuple of lists-or-tuples-or ndarrays with different lengths or shapes) is deprecated. If you meant to do this, you must specify 'dtype=object' when creating the ndarray
DATA[K] = numpy.array([L1[K], L2[K]])
/<<PKGBUILDDIR>>/tests/../src/pytransit/stat_tools.py:515: VisibleDeprecationWarning: Creating an ndarray from ragged nested sequences (which is a list-or-tuple of lists-or-tuples-or ndarrays with different lengths or shapes) is deprecated. If you meant to do this, you must specify 'dtype=object' when creating the ndarray
E[L] = numpy.array([perm[:n1], perm[n1:]])
ok
test_resampling_combined_wig (tests.test_analysis_methods.TestMethods) ... [resampling]
[resampling] Performing Benjamini-Hochberg Correction
[resampling] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[resampling] Finished resampling Method
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_resampling_combined_wig
####################
[resampling] Starting resampling Method
[resampling] Getting Data
[resampling] Preprocessing Ctrl data...
[resampling] Normalizing using: TTR
[resampling] Preprocessing Exp data...
[resampling] Normalizing using: TTR
[resampling] Running Resampling Method... 2.0%
[resampling] Running Resampling Method... 3.9%
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ok
test_resampling_histogram (tests.test_analysis_methods.TestMethods) ... [resampling]
[resampling] Performing Benjamini-Hochberg Correction
[resampling] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[resampling] Finished resampling Method
37
35
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_resampling_histogram
####################
[resampling] Starting resampling Method
[resampling] Getting Data
[resampling] Preprocessing Ctrl data...
[resampling] Normalizing using: TTR
[resampling] Preprocessing Exp data...
[resampling] Normalizing using: TTR
[resampling] Running Resampling Method... 2.0%
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ok
test_resampling_multistrain (tests.test_analysis_methods.TestMethods) ... [resampling]
[resampling] Performing Benjamini-Hochberg Correction
[resampling] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[resampling] Finished resampling Method
Removing histogram files
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_resampling_multistrain
####################
[resampling] Starting resampling Method
[resampling] Getting Data
[resampling] Multiple annotation files found
[resampling] Mapping ctrl data to /<<PKGBUILDDIR>>/tests/data/test.prot_table, exp data to /<<PKGBUILDDIR>>/tests/data/test.prot_table
[resampling] Preprocessing Ctrl data...
[resampling] Normalizing using: TTR
[resampling] Preprocessing Exp data...
[resampling] Normalizing using: TTR
[resampling] Running Resampling Method... 2.0%
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[resampling] Running Resampling Method... 100.0%
ok
test_utest (tests.test_analysis_methods.TestMethods) ... [resampling]
[resampling] Performing Benjamini-Hochberg Correction
[resampling] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[resampling] Finished resampling Method
Removing histogram files
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_utest
####################
[utest] Starting Mann-Whitney U-test Method
[utest] Getting Data
[utest] Normalizing using: TTR
[utest] Running Mann-Whitney U-test Method... 2.0%
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[utest] Running Mann-Whitney U-test Method... 33.3%
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[utest] Running Mann-Whitney U-test Method... 45.1%
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[utest] Running Mann-Whitney U-test Method... 49.0%
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[utest] Running Mann-Whitney U-test Method... 52.9%
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[utest] Running Mann-Whitney U-test Method... 56.9%
[utest] Running Mann-Whitney U-test Method... 58.8%
[utest] Running Mann-Whitney U-test Method... 60.8%
[utest] Running Mann-Whitney U-test Method... 62.7%
[utest] Running Mann-Whitney U-test Method... 64.7%
[utest] Running Mann-Whitney U-test Method... 66.7%
[utest] Running Mann-Whitney U-test Method... 68.6%
[utest] Running Mann-Whitney U-test Method... 70.6%
[utest] Running Mann-Whitney U-test Method... 72.5%
[utest] Running Mann-Whitney U-test Method... 74.5%
[utest] Running Mann-Whitney U-test Method... 76.5%
[utest] Running Mann-Whitney U-test Method... 78.4%
[utest] Running Mann-Whitney U-test Method... 80.4%
[utest] Running Mann-Whitney U-test Method... 82.4%
[utest] Running Mann-Whitney U-test Method... 84.3%
[utest] Running Mann-Whitney U-test Method... 86.3%
[utest] Running Mann-Whitney U-test Method... 88.2%
[utest] Running Mann-Whitney U-test Method... 90.2%
[utest] Running Mann-Whitney U-test Method... 92.2%
[utest] Running Mann-Whitney U-test Method... 94.1%
[utest] Running Mann-Whitney U-test Method... 96.1%
[utest] Running Mann-Whitney U-test Method... 98.0%
[utest] Running Mann-Whitney U-test Method... 100.0%
ok
test_zinb (tests.test_analysis_methods.TestMethods) ... skipped 'requires R, rpy2'
test_zinb_covariates (tests.test_analysis_methods.TestMethods) ... skipped 'requires R, rpy2'
test_zinb_interactions (tests.test_analysis_methods.TestMethods) ... skipped 'requires R, rpy2'
test_TTR (tests.test_norm_methods.TestNormMethods) ... ok
test_nonorm (tests.test_norm_methods.TestNormMethods) ... ok
test_resampling_NZMean (tests.test_norm_methods.TestNormMethods) ... [utest]
[utest] Performing Benjamini-Hochberg Correction
[utest] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[utest] Finished Mann-Whitney U-test Method
Removing output file...
####################
tests.test_norm_methods.TestNormMethods.test_TTR
####################
####################
tests.test_norm_methods.TestNormMethods.test_nonorm
####################
####################
tests.test_norm_methods.TestNormMethods.test_resampling_NZMean
####################
[resampling] Starting resampling Method
[resampling] Getting Data
[resampling] Preprocessing Ctrl data...
[resampling] Normalizing using: nzmean
[resampling] Preprocessing Exp data...
[resampling] Normalizing using: nzmean
[resampling] Running Resampling Method... 2.0%
[resampling] Running Resampling Method... 3.9%
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[resampling] Running Resampling Method... 98.0%
[resampling] Running Resampling Method... 100.0%
ok
test_resampling_Quantile (tests.test_norm_methods.TestNormMethods) ... [resampling]
[resampling] Performing Benjamini-Hochberg Correction
[resampling] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[resampling] Finished resampling Method
Removing output file...
####################
tests.test_norm_methods.TestNormMethods.test_resampling_Quantile
####################
[resampling] Starting resampling Method
[resampling] Getting Data
[resampling] Preprocessing Ctrl data...
[resampling] Normalizing using: quantile
[resampling] Preprocessing Exp data...
[resampling] Normalizing using: quantile
[resampling] Running Resampling Method... 2.0%
[resampling] Running Resampling Method... 3.9%
[resampling] Running Resampling Method... 5.9%
[resampling] Running Resampling Method... 7.8%
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[resampling] Running Resampling Method... 13.7%
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[resampling] Running Resampling Method... 17.6%
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[resampling] Running Resampling Method... 25.5%
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[resampling] Running Resampling Method... 96.1%
[resampling] Running Resampling Method... 98.0%
[resampling] Running Resampling Method... 100.0%
/<<PKGBUILDDIR>>/tests/transit_test.py:75: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/testoutput.txt' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
ok
test_resampling_TTR (tests.test_norm_methods.TestNormMethods) ... [resampling]
[resampling] Performing Benjamini-Hochberg Correction
[resampling] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[resampling] Finished resampling Method
Removing output file...
####################
tests.test_norm_methods.TestNormMethods.test_resampling_TTR
####################
[resampling] Starting resampling Method
[resampling] Getting Data
[resampling] Preprocessing Ctrl data...
[resampling] Normalizing using: TTR
[resampling] Preprocessing Exp data...
[resampling] Normalizing using: TTR
[resampling] Running Resampling Method... 2.0%
[resampling] Running Resampling Method... 3.9%
[resampling] Running Resampling Method... 5.9%
[resampling] Running Resampling Method... 7.8%
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ok
test_resampling_TotReads (tests.test_norm_methods.TestNormMethods) ... [resampling]
[resampling] Performing Benjamini-Hochberg Correction
[resampling] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[resampling] Finished resampling Method
Removing output file...
####################
tests.test_norm_methods.TestNormMethods.test_resampling_TotReads
####################
[resampling] Starting resampling Method
[resampling] Getting Data
[resampling] Preprocessing Ctrl data...
[resampling] Normalizing using: totreads
[resampling] Preprocessing Exp data...
[resampling] Normalizing using: totreads
[resampling] Running Resampling Method... 2.0%
[resampling] Running Resampling Method... 3.9%
[resampling] Running Resampling Method... 5.9%
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[resampling] Running Resampling Method... 100.0%
ok
test_resampling_ZINFNB (tests.test_norm_methods.TestNormMethods) ... [resampling]
[resampling] Performing Benjamini-Hochberg Correction
[resampling] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[resampling] Finished resampling Method
Removing output file...
####################
tests.test_norm_methods.TestNormMethods.test_resampling_ZINFNB
####################
[resampling] Starting resampling Method
[resampling] Getting Data
[resampling] Preprocessing Ctrl data...
[resampling] Normalizing using: zinfnb
[resampling] Preprocessing Exp data...
[resampling] Normalizing using: zinfnb
[resampling] Running Resampling Method... 2.0%
[resampling] Running Resampling Method... 3.9%
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[resampling] Running Resampling Method... 100.0%
ok
test_resampling_nonorm (tests.test_norm_methods.TestNormMethods) ... [resampling]
[resampling] Performing Benjamini-Hochberg Correction
[resampling] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[resampling] Finished resampling Method
Removing output file...
####################
tests.test_norm_methods.TestNormMethods.test_resampling_nonorm
####################
[resampling] Starting resampling Method
[resampling] Getting Data
[resampling] Preprocessing Ctrl data...
[resampling] Preprocessing Exp data...
[resampling] Running Resampling Method... 2.0%
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[resampling] Running Resampling Method... 98.0%
[resampling] Running Resampling Method... 100.0%
ok
test_cleanargs_flag_arguments_w_quotes (tests.test_pytransit_tools.TestTnSeqTools) ... ok
test_cleanargs_flag_arguments_with_double_dash (tests.test_pytransit_tools.TestTnSeqTools) ... ok
test_cleanargs_flag_without_arguments (tests.test_pytransit_tools.TestTnSeqTools) ... ok
test_cleanargs_negative_arguments (tests.test_pytransit_tools.TestTnSeqTools) ... ok
test_cleanargs_positional_arguments (tests.test_pytransit_tools.TestTnSeqTools) ... ok
test_cleanargs_positional_arguments_w_quotes (tests.test_pytransit_tools.TestTnSeqTools) ... ok
test_file_types (tests.test_pytransit_tools.TestTnSeqTools) ... ok
test_genes_creation_fromdata (tests.test_pytransit_tools.TestTnSeqTools) ... /<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:1287: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/genomes/H37Rv.prot_table' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:1214: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/genomes/H37Rv.prot_table' mode='r' encoding='UTF-8'>
for line in open(path):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:518: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/genomes/H37Rv.prot_table' mode='r' encoding='UTF-8'>
for line in open(self.annotation):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
ok
test_genes_creation_fromwig (tests.test_pytransit_tools.TestTnSeqTools) ... ok
test_normalization (tests.test_pytransit_tools.TestTnSeqTools) ... ok
test_read_data (tests.test_pytransit_tools.TestTnSeqTools) ... ok
test_tpp_flag_primer (tests.test_tpp.TestTPP) ... skipped 'requires local data file'
test_tpp_multicontig_auto_replicon_ids (tests.test_tpp.TestTPP) ... [tn_preprocess] running pre-processing on /<<PKGBUILDDIR>>/tests/data/test-multicontig-1.fastq and
[tn_preprocess] protocol: Sassetti
[tn_preprocess] transposon type: Himar1
[tn_preprocess] One reference genome specified: /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna, containing 3 records.
[tn_preprocess] Autogenerating replicon_ids...
[tn_preprocess] extracting reads...
[tn_preprocess] fastq2reads: /<<PKGBUILDDIR>>/tests/data/test-multicontig-1.fastq -> /<<PKGBUILDDIR>>/tests/test_tpp_temp.reads1
/<<PKGBUILDDIR>>/tests/../src/pytpp/tpp_tools.py:85: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test-multicontig-1.fastq' mode='r' encoding='UTF-8'>
for line in open(infile):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
[tn_preprocess] assuming single-ended reads
[tn_preprocess] creating /<<PKGBUILDDIR>>/tests/test_tpp_temp.trimmed1
[tn_preprocess] prefix sequence:
[tn_preprocess] Looking for start of Tn prefix within P,Q = [0,20]
/<<PKGBUILDDIR>>/tests/../src/pytpp/tpp_tools.py:276: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/test_tpp_temp.reads1' mode='r' encoding='UTF-8'>
for line in open(infile):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
[tn_preprocess] mapping reads using BWA...(this takes a couple of minutes)
[tn_preprocess] /usr/bin/bwa index /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna
b'[bwa_index] Pack FASTA... 0.47 sec'
b'[bwa_index] Construct BWT for the packed sequence...'
b'[bwa_index] 15.08 seconds elapse.'
b'[bwa_index] Update BWT... 0.58 sec'
b'[bwa_index] Pack forward-only FASTA... 0.31 sec'
b'[bwa_index] Construct SA from BWT and Occ... 13.58 sec'
b'[main] Version: 0.7.17-r1188'
b'[main] CMD: /usr/bin/bwa index /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna'
b'[main] Real time: 31.280 sec; CPU: 30.030 sec'
b''
[tn_preprocess] /usr/bin/bwa mem /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna /<<PKGBUILDDIR>>/tests/test_tpp_temp.trimmed1 > /<<PKGBUILDDIR>>/tests/test_tpp_temp.sam
b'[M::bwa_idx_load_from_disk] read 0 ALT contigs'
b'[M::process] read 2500 sequences (304052 bp)...'
b'[M::mem_process_seqs] Processed 2500 reads in 2.110 CPU sec, 2.118 real sec'
b'[main] Version: 0.7.17-r1188'
b'[main] CMD: /usr/bin/bwa mem /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna /<<PKGBUILDDIR>>/tests/test_tpp_temp.trimmed1'
b'[main] Real time: 2.747 sec; CPU: 2.205 sec'
b''
[tn_preprocess] tabulating template counts and statistics for reference genome /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna
/<<PKGBUILDDIR>>/tests/../src/pytpp/tpp_tools.py:378: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test-multicontig.fna' mode='r' encoding='UTF-8'>
for line in open(filename):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytpp/tpp_tools.py:560: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/test_tpp_temp.sam' mode='r' encoding='UTF-8'>
for line in open(sam):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
[tn_preprocess] writing /<<PKGBUILDDIR>>/tests/test_tpp_temp_1.wig
[tn_preprocess] writing /<<PKGBUILDDIR>>/tests/test_tpp_temp_2.wig
[tn_preprocess] writing /<<PKGBUILDDIR>>/tests/test_tpp_temp_3.wig
/<<PKGBUILDDIR>>/tests/../src/pytpp/tpp_tools.py:1108: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/test_tpp_temp.reads1' mode='r' encoding='UTF-8'>
for line in open(vars.reads1):
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytpp/tpp_tools.py:1117: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/test_tpp_temp.reads1' mode='r' encoding='UTF-8'>
read_length = get_read_length(vars.base + ".reads1")
ResourceWarning: Enable tracemalloc to get the object allocation traceback
/<<PKGBUILDDIR>>/tests/../src/pytpp/tpp_tools.py:1118: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/test_tpp_temp.trimmed1' mode='r' encoding='UTF-8'>
mean_r1_genomic = get_genomic_portion(vars.base + ".trimmed1")
ResourceWarning: Enable tracemalloc to get the object allocation traceback
[tn_preprocess] writing /<<PKGBUILDDIR>>/tests/test_tpp_temp.tn_stats
[tn_preprocess] Done.
ok
test_tpp_multicontig_empty_prefix (tests.test_tpp.TestTPP) ... [tn_preprocess] running pre-processing on /<<PKGBUILDDIR>>/tests/data/test-multicontig-1.fastq and
[tn_preprocess] protocol: Sassetti
[tn_preprocess] transposon type: Himar1
[tn_preprocess] One reference genome specified: /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna, containing 3 records.
[tn_preprocess] extracting reads...
[tn_preprocess] fastq2reads: /<<PKGBUILDDIR>>/tests/data/test-multicontig-1.fastq -> /<<PKGBUILDDIR>>/tests/test_tpp_temp.reads1
[tn_preprocess] assuming single-ended reads
[tn_preprocess] creating /<<PKGBUILDDIR>>/tests/test_tpp_temp.trimmed1
[tn_preprocess] prefix sequence:
[tn_preprocess] Looking for start of Tn prefix within P,Q = [0,20]
[tn_preprocess] mapping reads using BWA...(this takes a couple of minutes)
[tn_preprocess] /usr/bin/bwa mem /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna /<<PKGBUILDDIR>>/tests/test_tpp_temp.trimmed1 > /<<PKGBUILDDIR>>/tests/test_tpp_temp.sam
b'[M::bwa_idx_load_from_disk] read 0 ALT contigs'
b'[M::process] read 2500 sequences (304052 bp)...'
b'[M::mem_process_seqs] Processed 2500 reads in 1.920 CPU sec, 1.922 real sec'
b'[main] Version: 0.7.17-r1188'
b'[main] CMD: /usr/bin/bwa mem /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna /<<PKGBUILDDIR>>/tests/test_tpp_temp.trimmed1'
b'[main] Real time: 2.417 sec; CPU: 2.015 sec'
b''
[tn_preprocess] tabulating template counts and statistics for reference genome /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna
[tn_preprocess] writing /<<PKGBUILDDIR>>/tests/test_tpp_temp_a.wig
[tn_preprocess] writing /<<PKGBUILDDIR>>/tests/test_tpp_temp_b.wig
[tn_preprocess] writing /<<PKGBUILDDIR>>/tests/test_tpp_temp_c.wig
[tn_preprocess] writing /<<PKGBUILDDIR>>/tests/test_tpp_temp.tn_stats
[tn_preprocess] Done.
ok
test_tpp_noflag_primer (tests.test_tpp.TestTPP) ... skipped 'requires local data file'
test_tpp_protocol_mme1 (tests.test_tpp.TestTPP) ... skipped 'requires local data file'
----------------------------------------------------------------------
Ran 39 tests in 2131.166s
OK (skipped=6)
[resampling]
[resampling] Performing Benjamini-Hochberg Correction
[resampling] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[resampling] Finished resampling Method
Removing output file...
####################
tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_arguments_w_quotes
####################
####################
tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_arguments_with_double_dash
####################
####################
tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_without_arguments
####################
####################
tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_negative_arguments
####################
####################
tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_positional_arguments
####################
####################
tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_positional_arguments_w_quotes
####################
####################
tests.test_pytransit_tools.TestTnSeqTools.test_file_types
####################
####################
tests.test_pytransit_tools.TestTnSeqTools.test_genes_creation_fromdata
####################
####################
tests.test_pytransit_tools.TestTnSeqTools.test_genes_creation_fromwig
####################
####################
tests.test_pytransit_tools.TestTnSeqTools.test_normalization
####################
####################
tests.test_pytransit_tools.TestTnSeqTools.test_read_data
####################
####################
tests.test_tpp.TestTPP.test_tpp_multicontig_auto_replicon_ids
####################
# title: Tn-Seq Pre-Processor
# date: 11/02/2020 12:07:01
# command: python python3.8 -m unittest -v tests/test_analysis_methods.py tests/test_norm_methods.py tests/test_pytransit_tools.py tests/test_tpp.py tests/transit_test.py
# transposon type: Himar1
# protocol type: Sassetti
# bwa flags:
# read1: /<<PKGBUILDDIR>>/tests/data/test-multicontig-1.fastq
# read2:
# ref_genome: /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna
# replicon_ids: 1,2,3
# total_reads (or read pairs): 2500
# trimmed_reads (reads with valid Tn prefix, and insert size>20bp): 2512
# reads1_mapped: 2116
# reads2_mapped: 0
# mapped_reads (both R1 and R2 map into genome, and R2 has a proper barcode): 2116
# read_count (TA sites only, for Himar1):
# 1: 63
# 2: 0
# 3: 0
# template_count:
# 1: 63
# 2: 0
# 3: 0
# template_ratio (reads per template):
# 1: 1.00
# 2: 0.00
# 3: 0.00
# TA_sites:
# 1: 89994
# 2: 646
# 3: 664
# TAs_hit:
# 1: 63
# 2: 0
# 3: 0
# density:
# 1: 0.001
# 2: 0.000
# 3: 0.000
# max_count (among templates):
# 1: 1
# 2: 0
# 3: 0
# max_site (coordinate):
# 1: 4977050
# 2: 57441
# 3: 38111
# NZ_mean (among templates):
# 1: 1.0
# 2: 0.0
# 3: 0.0
# FR_corr (Fwd templates vs. Rev templates):
# 1: -0.000
# 2: nan
# 3: nan
# BC_corr (reads vs. templates, summed over both strands):
# 1: nan
# 2: nan
# 3: nan
# primer_matches: 36 reads (1.4%) contain CTAGAGGGCCCAATTCGCCCTATAGTGAGT (Himar1)
# vector_matches: 36 reads (1.4%) contain CTAGACCGTCCAGTCTGGCAGGCCGGAAAC (phiMycoMarT7)
# adapter_matches: 57 reads (2.3%) contain GATCGGAAGAGCACACGTCTGAACTCCAGTCAC (Illumina/TruSeq index)
# misprimed_reads: 17 reads (0.7%) contain Himar1 prefix but don't end in TGTTA
# read_length: 125 bp
# mean_R1_genomic_length: 121.6 bp
Removing tpp test file
Removing tpp test file
Removing tpp test file
Removing tpp test file
Removing tpp test file
Removing tpp test file
Removing tpp test file
Removing tpp test file
####################
tests.test_tpp.TestTPP.test_tpp_multicontig_empty_prefix
####################
# title: Tn-Seq Pre-Processor
# date: 11/02/2020 12:07:24
# command: python python3.8 -m unittest -v tests/test_analysis_methods.py tests/test_norm_methods.py tests/test_pytransit_tools.py tests/test_tpp.py tests/transit_test.py
# transposon type: Himar1
# protocol type: Sassetti
# bwa flags:
# read1: /<<PKGBUILDDIR>>/tests/data/test-multicontig-1.fastq
# read2:
# ref_genome: /<<PKGBUILDDIR>>/tests/data/test-multicontig.fna
# replicon_ids: a,b,c
# total_reads (or read pairs): 2500
# trimmed_reads (reads with valid Tn prefix, and insert size>20bp): 2512
# reads1_mapped: 2116
# reads2_mapped: 0
# mapped_reads (both R1 and R2 map into genome, and R2 has a proper barcode): 2116
# read_count (TA sites only, for Himar1):
# a: 63
# b: 0
# c: 0
# template_count:
# a: 63
# b: 0
# c: 0
# template_ratio (reads per template):
# a: 1.00
# b: 0.00
# c: 0.00
# TA_sites:
# a: 89994
# b: 646
# c: 664
# TAs_hit:
# a: 63
# b: 0
# c: 0
# density:
# a: 0.001
# b: 0.000
# c: 0.000
# max_count (among templates):
# a: 1
# b: 0
# c: 0
# max_site (coordinate):
# a: 4977050
# b: 57441
# c: 38111
# NZ_mean (among templates):
# a: 1.0
# b: 0.0
# c: 0.0
# FR_corr (Fwd templates vs. Rev templates):
# a: -0.000
# b: nan
# c: nan
# BC_corr (reads vs. templates, summed over both strands):
# a: nan
# b: nan
# c: nan
# primer_matches: 36 reads (1.4%) contain CTAGAGGGCCCAATTCGCCCTATAGTGAGT (Himar1)
# vector_matches: 36 reads (1.4%) contain CTAGACCGTCCAGTCTGGCAGGCCGGAAAC (phiMycoMarT7)
# adapter_matches: 57 reads (2.3%) contain GATCGGAAGAGCACACGTCTGAACTCCAGTCAC (Illumina/TruSeq index)
# misprimed_reads: 17 reads (0.7%) contain Himar1 prefix but don't end in TGTTA
# read_length: 125 bp
# mean_R1_genomic_length: 121.6 bp
Removing tpp test file
Removing tpp test file
Removing tpp test file
Removing tpp test file
Removing tpp test file
Removing tpp test file
Removing tpp test file
Removing tpp test file
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
create-stamp debian/debhelper-build-stamp
dh_testroot -a -O--buildsystem=pybuild
dh_prep -a -O--buildsystem=pybuild
dh_auto_install -a -O--buildsystem=pybuild
I: pybuild base:217: /usr/bin/python3 setup.py install --root /<<PKGBUILDDIR>>/debian/tnseq-transit
running install
running build
running build_py
running egg_info
writing tnseq_transit.egg-info/PKG-INFO
writing dependency_links to tnseq_transit.egg-info/dependency_links.txt
writing entry points to tnseq_transit.egg-info/entry_points.txt
writing requirements to tnseq_transit.egg-info/requires.txt
writing top-level names to tnseq_transit.egg-info/top_level.txt
reading manifest file 'tnseq_transit.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching 'VERSION'
warning: no files found matching '*.html' under directory 'src/pytransit/doc/build/html'
warning: no files found matching '*.png' under directory 'src/pytransit/doc/build/html/_images'
warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_modules'
warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_static'
writing manifest file 'tnseq_transit.egg-info/SOURCES.txt'
running install_lib
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytpp
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytpp/__init__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytpp
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytpp/__main__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytpp
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytpp/tpp_gui.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytpp
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytpp/tpp_tools.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytpp
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/__init__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/__main__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/draw_trash.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/fileDisplay.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/images.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/norm_tools.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/qcDisplay.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/stat_tools.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/tnseq_tools.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/transit_gui.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/transit_tools.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/trash.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/view_trash.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/__init__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/anova.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/base.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/binomial.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/corrplot.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/example.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/gi.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/griffin.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/gumbel.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/heatmap.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/hmm.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/norm.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/normalize.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/pathway_enrichment.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/rankproduct.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/resampling.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/tn5gaps.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/tnseq_stats.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/utest.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/analysis/zinb.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/convert
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/convert/__init__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/convert
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/convert/base.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/convert
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/convert/gff_to_prot_table.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/convert
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export/__init__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export/base.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export/combined_wig.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export/igv.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export/mean_counts.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/export/prot_table.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/COG_roles.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/GO_associated_Rvs-3-11-18.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/GO_associated_Rvs.csv -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/GO_term_names.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/H37Rv.sanger_associated_RVS.csv -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/H37Rv_COG_roles.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/H37Rv_GO_terms.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/H37Rv_sanger_roles.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/cholesterol_H37Rv_merged.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/cholesterol_H37Rv_rep1.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/cholesterol_H37Rv_rep2.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/cholesterol_H37Rv_rep3.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/cholesterol_glycerol_combined.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/gene_ontology.1_2.3-11-18.obo -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/glycerol_H37Rv_merged.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/glycerol_H37Rv_rep1.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/glycerol_H37Rv_rep2.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/samples_metadata_cg.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/samples_metadata_cg_covar.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/samples_metadata_cg_interactions.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/data/sanger_roles.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/data
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/BCG.fna -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/BCG.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/H37Rv.fna -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/H37Rv.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/H37RvBD.fna -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/H37RvBD.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/H37RvBD_mod3.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/H37RvMA2.fna -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/H37RvMA2.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/genomes.html -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/mc2_155_tamu.fna -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8/build/pytransit/genomes/mc2_155_tamu.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/genomes
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytpp/__init__.py to __init__.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytpp/__main__.py to __main__.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytpp/tpp_gui.py to tpp_gui.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytpp/tpp_tools.py to tpp_tools.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/__init__.py to __init__.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/__main__.py to __main__.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/draw_trash.py to draw_trash.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/fileDisplay.py to fileDisplay.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/images.py to images.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/norm_tools.py to norm_tools.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/qcDisplay.py to qcDisplay.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/stat_tools.py to stat_tools.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/tnseq_tools.py to tnseq_tools.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/transit_gui.py to transit_gui.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/transit_tools.py to transit_tools.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/trash.py to trash.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/view_trash.py to view_trash.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/__init__.py to __init__.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/anova.py to anova.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/base.py to base.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/binomial.py to binomial.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/corrplot.py to corrplot.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/example.py to example.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/gi.py to gi.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/griffin.py to griffin.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/gumbel.py to gumbel.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/heatmap.py to heatmap.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/hmm.py to hmm.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/norm.py to norm.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/normalize.py to normalize.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/pathway_enrichment.py to pathway_enrichment.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/rankproduct.py to rankproduct.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/resampling.py to resampling.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/tn5gaps.py to tn5gaps.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/tnseq_stats.py to tnseq_stats.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/utest.py to utest.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/analysis/zinb.py to zinb.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/convert/__init__.py to __init__.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/convert/base.py to base.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/convert/gff_to_prot_table.py to gff_to_prot_table.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export/__init__.py to __init__.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export/base.py to base.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export/combined_wig.py to combined_wig.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export/igv.py to igv.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export/mean_counts.py to mean_counts.cpython-38.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/pytransit/export/prot_table.py to prot_table.cpython-38.pyc
running install_egg_info
Copying tnseq_transit.egg-info to /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.8/dist-packages/tnseq_transit-3.2.0.egg-info
Skipping SOURCES.txt
running install_scripts
Installing tpp script to /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/bin
Installing transit script to /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/bin
/usr/lib/python3.8/dist-packages/pytpp/tpp_tools.py:648: SyntaxWarning: "is" with a literal. Did you mean "=="?
/usr/lib/python3.8/dist-packages/pytpp/tpp_tools.py:651: SyntaxWarning: "is" with a literal. Did you mean "=="?
debian/rules override_dh_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_install
mv debian/tnseq-transit/usr/bin/tpp debian/tnseq-transit/usr/bin/transit-tpp
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_installdocs -a -O--buildsystem=pybuild
dh_installchangelogs -a -O--buildsystem=pybuild
dh_installman -a -O--buildsystem=pybuild
dh_python3 -a -O--buildsystem=pybuild
dh_installsystemduser -a -O--buildsystem=pybuild
dh_perl -a -O--buildsystem=pybuild
dh_link -a -O--buildsystem=pybuild
dh_strip_nondeterminism -a -O--buildsystem=pybuild
dh_compress -a -O--buildsystem=pybuild
dh_fixperms -a -O--buildsystem=pybuild
dh_missing -a -O--buildsystem=pybuild
dh_dwz -a -a -O--buildsystem=pybuild
dh_strip -a -a -O--buildsystem=pybuild
dh_makeshlibs -a -a -O--buildsystem=pybuild
dh_shlibdeps -a -a -O--buildsystem=pybuild
dh_installdeb -a -O--buildsystem=pybuild
dh_gencontrol -a -O--buildsystem=pybuild
dh_md5sums -a -O--buildsystem=pybuild
dh_builddeb -a -O--buildsystem=pybuild
dpkg-deb: building package 'tnseq-transit' in '../tnseq-transit_3.2.0-1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../tnseq-transit_3.2.0-1_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 2020-11-02T12:11:17Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
tnseq-transit_3.2.0-1_armhf.changes:
------------------------------------
Format: 1.8
Date: Thu, 29 Oct 2020 02:49:44 +0530
Source: tnseq-transit
Binary: tnseq-transit
Architecture: armhf
Version: 3.2.0-1
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Nilesh Patra <npatra974@gmail.com>
Description:
tnseq-transit - statistical calculations of essentiality of genes or genomic regi
Changes:
tnseq-transit (3.2.0-1) unstable; urgency=medium
.
* Team Upload.
* New upstream version 3.2.0
Checksums-Sha1:
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71a23adef98427d6064f0f4c9cbaa71dd431ca4a 8871364 tnseq-transit_3.2.0-1_armhf.deb
Checksums-Sha256:
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db421d836e1dd0087134232b7bc879c39d8d89e0f03a6603b0e1804f7fa0bfa1 8871364 tnseq-transit_3.2.0-1_armhf.deb
Files:
c740047de5286989ce16328e5469780b 6821 science optional tnseq-transit_3.2.0-1_armhf.buildinfo
b747e59d438e7458cb5f95cf5ccc4f61 8871364 science optional tnseq-transit_3.2.0-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
tnseq-transit_3.2.0-1_armhf.deb
-------------------------------
new Debian package, version 2.0.
size 8871364 bytes: control archive=3872 bytes.
1383 bytes, 28 lines control
8762 bytes, 93 lines md5sums
251 bytes, 12 lines * postinst #!/bin/sh
400 bytes, 12 lines * prerm #!/bin/sh
Package: tnseq-transit
Version: 3.2.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 76338
Depends: python3-matplotlib, python3-numpy, python3-pil, python3-pkg-resources, python3-scipy, python3-statsmodels, python3:any, python3-pubsub, python3-wxgtk4.0, bwa
Breaks: transit
Replaces: transit
Provides: transit
Section: science
Priority: optional
Homepage: http://saclab.tamu.edu/essentiality/transit/
Description: statistical calculations of essentiality of genes or genomic regions
This is a software that can be used to analyze Tn-Seq datasets. It
includes various statistical calculations of essentiality of genes or
genomic regions (including conditional essentiality between 2
conditions). These methods were developed and tested as a collaboration
between the Sassetti lab (UMass) and the Ioerger lab (Texas A&M)
.
TRANSIT is capable of analyzing TnSeq libraries constructed with Himar1
or Tn5 datasets.
.
TRANSIT assumes you have already done pre-processing of raw sequencing
files (.fastq) and extracted read counts into a .wig formatted file.
The .wig file should contain the counts at all sites where an insertion
could take place (including sites with no reads). For Himar1 datasets
this is all TA sites in the genome. For Tn5 datasets this would be all
nucleotides in the genome.
drwxr-xr-x root/root 0 2020-10-28 21:19 ./
drwxr-xr-x root/root 0 2020-10-28 21:19 ./usr/
drwxr-xr-x root/root 0 2020-10-28 21:19 ./usr/bin/
-rwxr-xr-x root/root 976 2020-10-28 21:19 ./usr/bin/transit
-rwxr-xr-x root/root 968 2020-10-28 21:19 ./usr/bin/transit-tpp
drwxr-xr-x root/root 0 2020-10-28 21:19 ./usr/lib/
drwxr-xr-x root/root 0 2020-10-28 21:19 ./usr/lib/python3/
drwxr-xr-x root/root 0 2020-10-28 21:19 ./usr/lib/python3/dist-packages/
drwxr-xr-x root/root 0 2020-10-28 21:19 ./usr/lib/python3/dist-packages/pytpp/
-rw-r--r-- root/root 1 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytpp/__init__.py
-rw-r--r-- root/root 3655 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytpp/__main__.py
-rw-r--r-- root/root 25744 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytpp/tpp_gui.py
-rw-r--r-- root/root 56453 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytpp/tpp_tools.py
drwxr-xr-x root/root 0 2020-10-28 21:19 ./usr/lib/python3/dist-packages/pytransit/
-rw-r--r-- root/root 119 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/__init__.py
-rw-r--r-- root/root 4999 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/__main__.py
drwxr-xr-x root/root 0 2020-10-28 21:19 ./usr/lib/python3/dist-packages/pytransit/analysis/
-rw-r--r-- root/root 1931 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/__init__.py
-rw-r--r-- root/root 10263 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/anova.py
-rw-r--r-- root/root 20519 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/base.py
-rw-r--r-- root/root 20720 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/binomial.py
-rw-r--r-- root/root 6502 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/corrplot.py
-rw-r--r-- root/root 7621 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/example.py
-rw-r--r-- root/root 40148 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/gi.py
-rw-r--r-- root/root 10076 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/griffin.py
-rw-r--r-- root/root 21252 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/gumbel.py
-rw-r--r-- root/root 6336 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/heatmap.py
-rw-r--r-- root/root 22968 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/hmm.py
-rw-r--r-- root/root 3925 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/norm.py
-rw-r--r-- root/root 5122 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/normalize.py
-rw-r--r-- root/root 20617 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/pathway_enrichment.py
-rw-r--r-- root/root 13710 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/rankproduct.py
-rw-r--r-- root/root 31789 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/resampling.py
-rw-r--r-- root/root 15274 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/tn5gaps.py
-rw-r--r-- root/root 5122 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/tnseq_stats.py
-rw-r--r-- root/root 14650 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/utest.py
-rw-r--r-- root/root 30490 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/analysis/zinb.py
drwxr-xr-x root/root 0 2020-10-28 21:19 ./usr/lib/python3/dist-packages/pytransit/convert/
-rw-r--r-- root/root 330 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/convert/__init__.py
-rw-r--r-- root/root 5996 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/convert/base.py
-rw-r--r-- root/root 5705 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/convert/gff_to_prot_table.py
drwxr-xr-x root/root 0 2020-10-28 21:19 ./usr/lib/python3/dist-packages/pytransit/data/
-rw-r--r-- root/root 939 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/COG_roles.dat
-rw-r--r-- root/root 469931 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/GO_associated_Rvs-3-11-18.txt
-rw-r--r-- root/root 285249 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/GO_associated_Rvs.csv
-rw-r--r-- root/root 2582004 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/GO_term_names.dat
-rw-r--r-- root/root 2043959 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt
-rw-r--r-- root/root 32738 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/H37Rv.sanger_associated_RVS.csv
-rw-r--r-- root/root 146196 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/H37Rv_COG_roles.dat
-rw-r--r-- root/root 2043959 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/H37Rv_GO_terms.txt
-rw-r--r-- root/root 102346 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/H37Rv_sanger_roles.dat
-rw-r--r-- root/root 785384 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/cholesterol_H37Rv_merged.wig
-rw-r--r-- root/root 766014 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/cholesterol_H37Rv_rep1.wig
-rw-r--r-- root/root 762998 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/cholesterol_H37Rv_rep2.wig
-rw-r--r-- root/root 757561 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/cholesterol_H37Rv_rep3.wig
-rw-r--r-- root/root 3189503 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/cholesterol_glycerol_combined.dat
-rw-r--r-- root/root 33810329 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/gene_ontology.1_2.3-11-18.obo
-rw-r--r-- root/root 789627 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/glycerol_H37Rv_merged.wig
-rw-r--r-- root/root 766649 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/glycerol_H37Rv_rep1.wig
-rw-r--r-- root/root 779802 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/glycerol_H37Rv_rep2.wig
-rw-r--r-- root/root 315 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/samples_metadata_cg.txt
-rw-r--r-- root/root 342 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/samples_metadata_cg_covar.txt
-rw-r--r-- root/root 364 2020-10-26 15:38 ./usr/lib/python3/dist-packages/pytransit/data/samples_metadata_cg_interactions.txt
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+------------------------------------------------------------------------------+
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| Cleanup |
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Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
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| Summary |
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Build Architecture: armhf
Build-Space: 265484
Build-Time: 2409
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 1350
Job: tnseq-transit_3.2.0-1
Machine Architecture: armhf
Package: tnseq-transit
Package-Time: 3818
Source-Version: 3.2.0-1
Space: 265484
Status: successful
Version: 3.2.0-1
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Finished at 2020-11-02T12:11:17Z
Build needed 01:03:38, 265484k disc space