tnseq-transit →
3.2.1-1 →
armhf → 2020-12-27 06:38:16
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-02
+==============================================================================+
| tnseq-transit 3.2.1-1 (armhf) Sun, 27 Dec 2020 06:15:53 +0000 |
+==============================================================================+
Package: tnseq-transit
Version: 3.2.1-1
Source Version: 3.2.1-1
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-b14bedc7-e81e-4294-8074-2c4becf02f21' 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 [12.0 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [13.0 MB]
Fetched 25.0 MB in 9s (2718 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 26.9 MB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main tnseq-transit 3.2.1-1 (dsc) [2219 B]
Get:2 http://172.17.0.1/private bullseye-staging/main tnseq-transit 3.2.1-1 (tar) [26.9 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main tnseq-transit 3.2.1-1 (diff) [5792 B]
Fetched 26.9 MB in 7s (4095 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/tnseq-transit-MhCTSS/tnseq-transit-3.2.1' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/tnseq-transit-MhCTSS' 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-8n5QNm/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-8n5QNm/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-8n5QNm/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-8n5QNm/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-8n5QNm/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-8n5QNm/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-8n5QNm/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-8n5QNm/apt_archive ./ Packages [432 B]
Fetched 2108 B in 0s (9760 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 libnss-nis libnss-nisplus 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 17 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-8n5QNm/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (66.7 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12543 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-8n5QNm/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-8n5QNm/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-8n5QNm/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-8n5QNm/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-8n5QNm/apt_archive ./ Sources [556 B]
Get:5 copy:/<<BUILDDIR>>/resolver-8n5QNm/apt_archive ./ Packages [640 B]
Fetched 2529 B in 0s (11.7 kB/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 libnss-nis libnss-nisplus libpam-cap netbase
Use 'apt autoremove' to remove them.
The following additional 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 libdebhelper-perl libdeflate0 libelf1 libexpat1
libexpat1-dev libfile-stripnondeterminism-perl libfreetype6 libgfortran5
libicu67 libimagequant0 libjbig0 libjpeg62-turbo libjs-jquery
libjs-jquery-ui liblapack3 liblbfgsb0 liblcms2-2 libmagic-mgc libmagic1
libpipeline1 libpng16-16 libpython3-dev libpython3-stdlib libpython3.9
libpython3.9-dev libpython3.9-minimal libpython3.9-stdlib libsigsegv2
libsub-override-perl libtiff5 libtool libuchardet0 libwebp6 libwebpdemux2
libwebpmux3 libxau6 libxcb1 libxdmcp6 libxml2 m4 mailcap man-db media-types
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 python3.9
python3.9-dev python3.9-minimal ttf-bitstream-vera zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc samtools dh-make gettext-doc
libasprintf-dev libgettextpo-dev groff libjs-jquery-ui-docs liblcms2-utils
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 python3.9-venv
python3.9-doc binfmt-support
Recommended packages:
curl | wget | lynx libarchive-cpio-perl javascript-common libltdl-dev
libjs-sizzle libmail-sendmail-perl python3-tk python3-bottleneck
python3-numexpr python3-odf python3-openpyxl 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 libdebhelper-perl libdeflate0 libelf1 libexpat1
libexpat1-dev libfile-stripnondeterminism-perl libfreetype6 libgfortran5
libicu67 libimagequant0 libjbig0 libjpeg62-turbo libjs-jquery
libjs-jquery-ui liblapack3 liblbfgsb0 liblcms2-2 libmagic-mgc libmagic1
libpipeline1 libpng16-16 libpython3-dev libpython3-stdlib libpython3.9
libpython3.9-dev libpython3.9-minimal libpython3.9-stdlib libsigsegv2
libsub-override-perl libtiff5 libtool libuchardet0 libwebp6 libwebpdemux2
libwebpmux3 libxau6 libxcb1 libxdmcp6 libxml2 m4 mailcap man-db media-types
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 python3.9
python3.9-dev python3.9-minimal sbuild-build-depends-tnseq-transit-dummy
ttf-bitstream-vera zlib1g-dev
0 upgraded, 100 newly installed, 0 to remove and 17 not upgraded.
Need to get 70.0 MB of archives.
After this operation, 297 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-8n5QNm/apt_archive ./ sbuild-build-depends-tnseq-transit-dummy 0.invalid.0 [920 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-5 [783 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.3-1 [29.9 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.3-2 [1269 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf libpython3.9-minimal armhf 3.9.1-1+rpi1 [789 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.10-1 [73.3 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf python3.9-minimal armhf 3.9.1-1+rpi1 [1625 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf python3-minimal armhf 3.9.0-4 [37.8 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf media-types all 1.0.1 [18.2 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf mailcap all 3.67 [31.3 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf mime-support all 3.66 [10.9 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf libpython3.9-stdlib armhf 3.9.1-1+rpi1 [1654 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf python3.9 armhf 3.9.1-1+rpi1 [461 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf libpython3-stdlib armhf 3.9.0-4 [21.0 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf python3 armhf 3.9.0-4 [64.1 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.39-3 [117 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.39-3 [68.0 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.21-3 [170 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-3 [32.4 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-13 [313 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.2-4 [801 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.21-3 [509 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf bwa armhf 0.7.17-5+b4 [194 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf openssl armhf 1.1.1h-1 [812 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf ca-certificates all 20200601 [158 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-14 [513 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 13.3 [188 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.9.0-1 [25.5 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.9.0-1 [15.2 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.182-1 [162 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13+20201015-2 [162 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libicu67 armhf 67.1-5 [8288 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-6.3 [580 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.21-3 [1214 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 13.3 [1009 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf python3-lib2to3 all 3.8.6-1 [78.4 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf python3-distutils all 3.8.6-1 [145 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf dh-python all 4.20201102 [99.3 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf fonts-lyx all 2.3.6-1 [205 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libblas3 armhf 3.9.0-3 [108 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf libdeflate0 armhf 1.6-1 [47.4 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf libexpat1-dev armhf 2.2.10-1 [121 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf libpng16-16 armhf 1.6.37-3 [276 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libfreetype6 armhf 2.10.4+dfsg-1 [353 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf libgfortran5 armhf 10.2.1-1+rpi1 [231 kB]
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Get:58 http://172.17.0.1/private bullseye-staging/main armhf libjbig0 armhf 2.1-3.1+b2 [27.6 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf libjpeg62-turbo armhf 1:2.0.5-1.1 [121 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf node-jquery all 3.5.1+dfsg+~3.5.4-3 [396 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf libjs-jquery all 3.5.1+dfsg+~3.5.4-3 [3996 B]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libjs-jquery-ui all 1.12.1+dfsg-7 [232 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf liblapack3 armhf 3.9.0-3 [1597 kB]
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Get:65 http://172.17.0.1/private bullseye-staging/main armhf liblcms2-2 armhf 2.9-4 [119 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf libpython3.9 armhf 3.9.1-1+rpi1 [1411 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf libpython3.9-dev armhf 3.9.1-1+rpi1 [3053 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf libpython3-dev armhf 3.9.0-4 [21.2 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf libwebp6 armhf 0.6.1-2 [228 kB]
Get:70 http://172.17.0.1/private bullseye-staging/main armhf libtiff5 armhf 4.1.0+git201212-1 [258 kB]
Get:71 http://172.17.0.1/private bullseye-staging/main armhf libwebpdemux2 armhf 0.6.1-2 [86.7 kB]
Get:72 http://172.17.0.1/private bullseye-staging/main armhf libwebpmux3 armhf 0.6.1-2 [94.2 kB]
Get:73 http://172.17.0.1/private bullseye-staging/main armhf libxau6 armhf 1:1.0.8-1+b2 [19.1 kB]
Get:74 http://172.17.0.1/private bullseye-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:75 http://172.17.0.1/private bullseye-staging/main armhf libxcb1 armhf 1.14-2 [135 kB]
Get:76 http://172.17.0.1/private bullseye-staging/main armhf ttf-bitstream-vera all 1.10-8 [352 kB]
Get:77 http://172.17.0.1/private bullseye-staging/main armhf python-matplotlib-data all 3.3.2-2 [4153 kB]
Get:78 http://172.17.0.1/private bullseye-staging/main armhf python3-certifi all 2020.6.20-1 [151 kB]
Get:79 http://172.17.0.1/private bullseye-staging/main armhf python3-six all 1.15.0-2 [16.9 kB]
Get:80 http://172.17.0.1/private bullseye-staging/main armhf python3-cycler all 0.10.0-3 [8084 B]
Get:81 http://172.17.0.1/private bullseye-staging/main armhf python3-dateutil all 2.8.1-4 [81.6 kB]
Get:82 http://172.17.0.1/private bullseye-staging/main armhf python3-decorator all 4.4.2-2 [15.8 kB]
Get:83 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:84 http://172.17.0.1/private bullseye-staging/main armhf python3.9-dev armhf 3.9.1-1+rpi1 [501 kB]
Get:85 http://172.17.0.1/private bullseye-staging/main armhf python3-dev armhf 3.9.0-4 [1164 B]
Get:86 http://172.17.0.1/private bullseye-staging/main armhf python3-kiwisolver armhf 1.3.1-1 [272 kB]
Get:87 http://172.17.0.1/private bullseye-staging/main armhf python3-pyparsing all 2.4.7-1 [109 kB]
Get:88 http://172.17.0.1/private bullseye-staging/main armhf python3-pkg-resources all 50.3.0-1 [187 kB]
Get:89 http://172.17.0.1/private bullseye-staging/main armhf python3-numpy armhf 1:1.19.4-1+b2 [2930 kB]
Get:90 http://172.17.0.1/private bullseye-staging/main armhf python3-pil armhf 8.0.1-1+b1 [423 kB]
Get:91 http://172.17.0.1/private bullseye-staging/main armhf python3-matplotlib armhf 3.3.2-2+b1 [4167 kB]
Get:92 http://172.17.0.1/private bullseye-staging/main armhf python3-tz all 2020.4-2 [34.8 kB]
Get:93 http://172.17.0.1/private bullseye-staging/main armhf python3-pandas-lib armhf 1.1.5+dfsg-1 [2865 kB]
Get:94 http://172.17.0.1/private bullseye-staging/main armhf python3-pandas all 1.1.5+dfsg-1 [2096 kB]
Get:95 http://172.17.0.1/private bullseye-staging/main armhf python3-patsy all 0.5.1-2 [172 kB]
Get:96 http://172.17.0.1/private bullseye-staging/main armhf python3-pubsub all 4.0.3-4 [46.6 kB]
Get:97 http://172.17.0.1/private bullseye-staging/main armhf python3-scipy armhf 1.5.4-1 [12.0 MB]
Get:98 http://172.17.0.1/private bullseye-staging/main armhf python3-setuptools all 50.3.0-1 [511 kB]
Get:99 http://172.17.0.1/private bullseye-staging/main armhf python3-statsmodels-lib armhf 0.12.1-1+rpi1+b1 [1140 kB]
Get:100 http://172.17.0.1/private bullseye-staging/main armhf python3-statsmodels all 0.12.1-1+rpi1 [4452 kB]
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Setting up libwebpmux3:armhf (0.6.1-2) ...
Setting up libbsd0:armhf (0.10.0-1) ...
Setting up mailcap (3.67) ...
Setting up libelf1:armhf (0.182-1) ...
Setting up libxml2:armhf (2.9.10+dfsg-6.3) ...
Setting up node-jquery (3.5.1+dfsg+~3.5.4-3) ...
Setting up libpython3.9-stdlib:armhf (3.9.1-1+rpi1) ...
Setting up libpython3-stdlib:armhf (3.9.0-4) ...
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 gettext (0.21-3) ...
Setting up mime-support (3.66) ...
Setting up libtool (2.4.6-14) ...
Setting up libwebpdemux2:armhf (0.6.1-2) ...
Setting up m4 (1.4.18-4) ...
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up ca-certificates (20200601) ...
Updating certificates in /etc/ssl/certs...
126 added, 0 removed; done.
Setting up libpython3.9:armhf (3.9.1-1+rpi1) ...
Setting up libfreetype6:armhf (2.10.4+dfsg-1) ...
Setting up autoconf (2.69-13) ...
Setting up dh-strip-nondeterminism (1.9.0-1) ...
Setting up dwz (0.13+20201015-2) ...
Setting up groff-base (1.22.4-5) ...
Setting up libjs-jquery (3.5.1+dfsg+~3.5.4-3) ...
Setting up python3.9 (3.9.1-1+rpi1) ...
Setting up liblbfgsb0:armhf (3.0+dfsg.3-9) ...
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 po-debconf (1.0.21) ...
Setting up libpython3.9-dev:armhf (3.9.1-1+rpi1) ...
Setting up python3 (3.9.0-4) ...
Setting up man-db (2.9.3-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up python3-tz (2020.4-2) ...
Setting up python3-six (1.15.0-2) ...
Setting up python3-pil:armhf (8.0.1-1+b1) ...
Setting up python3-decorator (4.4.2-2) ...
Setting up libjs-jquery-ui (1.12.1+dfsg-7) ...
Setting up python3-pyparsing (2.4.7-1) ...
Setting up python3-certifi (2020.6.20-1) ...
Setting up python3-cycler (0.10.0-3) ...
Setting up python3-kiwisolver (1.3.1-1) ...
Setting up python3-pubsub (4.0.3-4) ...
Setting up python3.9-dev (3.9.1-1+rpi1) ...
Setting up python3-dateutil (2.8.1-4) ...
Setting up python3-lib2to3 (3.8.6-1) ...
Setting up python3-pkg-resources (50.3.0-1) ...
Setting up python3-distutils (3.8.6-1) ...
Setting up dh-python (4.20201102) ...
Setting up libpython3-dev:armhf (3.9.0-4) ...
Setting up python3-setuptools (50.3.0-1) ...
Setting up python3-dev (3.9.0-4) ...
Setting up python3-numpy (1:1.19.4-1+b2) ...
Setting up python3-statsmodels-lib:armhf (0.12.1-1+rpi1+b1) ...
Setting up python3-matplotlib (3.3.2-2+b1) ...
Setting up python3-scipy (1.5.4-1) ...
Setting up python3-pandas-lib:armhf (1.1.5+dfsg-1) ...
Setting up python3-patsy (0.5.1-2) ...
Setting up python3-pandas (1.1.5+dfsg-1) ...
Setting up python3-statsmodels (0.12.1-1+rpi1) ...
Setting up debhelper (13.3) ...
Setting up dh-autoreconf (19) ...
Setting up sbuild-build-depends-tnseq-transit-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.31-5+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 4.15.0-76-generic armhf (armv8l)
Toolchain package versions: binutils_2.35.1-5+rpi1 dpkg-dev_1.20.5+rpi1 g++-10_10.2.1-1+rpi1 gcc-10_10.2.1-1+rpi1 libc6-dev_2.31-5+rpi1 libstdc++-10-dev_10.2.1-1+rpi1 libstdc++6_10.2.1-1+rpi1 linux-libc-dev_5.9.6-1+rpi1+b1
Package versions: adduser_3.118 apt_2.1.12 autoconf_2.69-13 automake_1:1.16.2-4 autopoint_0.21-3 autotools-dev_20180224.1+nmu1 base-files_11+rpi1 base-passwd_3.5.48 bash_5.1-1 binutils_2.35.1-5+rpi1 binutils-arm-linux-gnueabihf_2.35.1-5+rpi1 binutils-common_2.35.1-5+rpi1 bsdextrautils_2.36.1-2 bsdutils_1:2.36.1-2 build-essential_12.8 bwa_0.7.17-5+b4 bzip2_1.0.8-4 ca-certificates_20200601 coreutils_8.32-4 cpp_4:10.2.0-1+rpi1 cpp-10_10.2.1-1+rpi1 dash_0.5.11+git20200708+dd9ef66-5 debconf_1.5.74 debhelper_13.3 debianutils_4.11.2 dh-autoreconf_19 dh-python_4.20201102 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+20201015-2 e2fsprogs_1.45.6-1 fakeroot_1.25.3-1.1 fdisk_2.36.1-2 file_1:5.39-3 findutils_4.7.0+git20201010-2 fonts-lyx_2.3.6-1 g++_4:10.2.0-1+rpi1 g++-10_10.2.1-1+rpi1 gcc_4:10.2.0-1+rpi1 gcc-10_10.2.1-1+rpi1 gcc-10-base_10.2.1-1+rpi1 gettext_0.21-3 gettext-base_0.21-3 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_3.6-1 groff-base_1.22.4-5 gzip_1.10-2 hostname_3.23 init-system-helpers_1.60 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20200821-2 krb5-locales_1.18.3-4 libacl1_2.2.53-8 libapt-pkg6.0_2.1.12 libarchive-zip-perl_1.68-1 libasan6_10.2.1-1+rpi1 libassuan0_2.5.3-7.1 libatomic1_10.2.1-1+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3.1 libaudit1_1:2.8.5-3.1+b1 libbinutils_2.35.1-5+rpi1 libblas3_3.9.0-3 libblkid1_2.36.1-2 libbrotli1_1.0.9-2+b1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-4 libc-bin_2.31-5+rpi1 libc-dev-bin_2.31-5+rpi1 libc6_2.31-5+rpi1 libc6-dev_2.31-5+rpi1 libcap-ng0_0.7.9-2.2+b1 libcap2_1:2.44-1 libcap2-bin_1:2.44-1 libcc1-0_10.2.1-1+rpi1 libcom-err2_1.45.6-1 libcrypt-dev_1:4.4.17-1 libcrypt1_1:4.4.17-1 libctf-nobfd0_2.35.1-5+rpi1 libctf0_2.35.1-5+rpi1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.255+b1 libdebhelper-perl_13.3 libdeflate0_1.6-1 libdpkg-perl_1.20.5+rpi1 libelf1_0.182-1 libexpat1_2.2.10-1 libexpat1-dev_2.2.10-1 libext2fs2_1.45.6-1 libfakeroot_1.25.3-1.1 libfdisk1_2.36.1-2 libffi7_3.3-5 libfile-stripnondeterminism-perl_1.9.0-1 libfreetype6_2.10.4+dfsg-1 libgcc-10-dev_10.2.1-1+rpi1 libgcc-s1_10.2.1-1+rpi1 libgcrypt20_1.8.7-2 libgdbm-compat4_1.18.1-5.1 libgdbm6_1.18.1-5.1 libgfortran5_10.2.1-1+rpi1 libgmp10_2:6.2.1+dfsg-1 libgnutls30_3.6.15-4 libgomp1_10.2.1-1+rpi1 libgpg-error0_1.38-2 libgssapi-krb5-2_1.18.3-4 libhogweed6_3.6-2 libicu67_67.1-5 libidn2-0_2.3.0-4 libimagequant0_2.12.2-1.1 libisl23_0.23-1 libjbig0_2.1-3.1+b2 libjpeg62-turbo_1:2.0.5-1.1 libjs-jquery_3.5.1+dfsg+~3.5.4-3 libjs-jquery-ui_1.12.1+dfsg-7 libk5crypto3_1.18.3-4 libkeyutils1_1.6.1-2 libkrb5-3_1.18.3-4 libkrb5support0_1.18.3-4 libksba8_1.5.0-2 liblapack3_3.9.0-3 liblbfgsb0_3.0+dfsg.3-9 liblcms2-2_2.9-4 libldap-2.4-2_2.4.56+dfsg-1+rpi1+b1 libldap-common_2.4.56+dfsg-1+rpi1 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.39-3 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libsystemd0_246.6-4+rpi1 libtasn1-6_4.16.0-2 libtiff5_4.1.0+git201212-1 libtinfo6_6.2+20201114-1 libtirpc-common_1.2.6-3 libtirpc-dev_1.2.6-3 libtirpc3_1.2.6-3 libtool_2.4.6-14 libubsan1_10.2.1-1+rpi1 libuchardet0_0.0.7-1 libudev1_246.6-4+rpi1 libunistring2_0.9.10-4 libuuid1_2.36.1-2 libwebp6_0.6.1-2 libwebpdemux2_0.6.1-2 libwebpmux3_0.6.1-2 libxau6_1:1.0.8-1+b2 libxcb1_1.14-2 libxdmcp6_1:1.1.2-3 libxml2_2.9.10+dfsg-6.3 libzstd1_1.4.5+dfsg-4+rpi1 linux-libc-dev_5.9.6-1+rpi1+b1 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 mailcap_3.67 make_4.3-4 man-db_2.9.3-2 mawk_1.3.4.20200120-2 media-types_1.0.1 mime-support_3.66 mount_2.36.1-2 ncurses-base_6.2+20201114-1 ncurses-bin_6.2+20201114-1 netbase_6.2 node-jquery_3.5.1+dfsg+~3.5.4-3 openssl_1.1.1h-1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.32.0-5 perl-base_5.32.0-5 perl-modules-5.32_5.32.0-6 pinentry-curses_1.1.0-4 po-debconf_1.0.21 python-matplotlib-data_3.3.2-2 python3_3.9.0-4 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_3.9.0-4 python3-distutils_3.8.6-1 python3-kiwisolver_1.3.1-1 python3-lib2to3_3.8.6-1 python3-matplotlib_3.3.2-2+b1 python3-minimal_3.9.0-4 python3-numpy_1:1.19.4-1+b2 python3-pandas_1.1.5+dfsg-1 python3-pandas-lib_1.1.5+dfsg-1 python3-patsy_0.5.1-2 python3-pil_8.0.1-1+b1 python3-pkg-resources_50.3.0-1 python3-pubsub_4.0.3-4 python3-pyparsing_2.4.7-1 python3-scipy_1.5.4-1 python3-setuptools_50.3.0-1 python3-six_1.15.0-2 python3-statsmodels_0.12.1-1+rpi1 python3-statsmodels-lib_0.12.1-1+rpi1+b1 python3-tz_2020.4-2 python3.9_3.9.1-1+rpi1 python3.9-dev_3.9.1-1+rpi1 python3.9-minimal_3.9.1-1+rpi1 raspbian-archive-keyring_20120528.2 readline-common_8.1-1 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_1.32+dfsg-1+rpi1 ttf-bitstream-vera_1.10-8 tzdata_2020d-1 util-linux_2.36.1-2 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.eE0AKimO/trustedkeys.kbx': General error
gpgv: Signature made Thu Dec 24 18:30:31 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_3.2.1-1.dsc
dpkg-source: info: extracting tnseq-transit in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking tnseq-transit_3.2.1.orig.tar.gz
dpkg-source: info: unpacking tnseq-transit_3.2.1-1.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 disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-b14bedc7-e81e-4294-8074-2c4becf02f21
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package tnseq-transit
dpkg-buildpackage: info: source version 3.2.1-1
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:232: python3.9 setup.py clean
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build' (and everything under it)
'build/bdist.linux-armhf' does not exist -- can't clean it
'build/scripts-3.9' 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:232: python3.9 setup.py config
running config
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_build -a -O--buildsystem=pybuild
I: pybuild base:232: /usr/bin/python3 setup.py build
running build
running build_py
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytpp
copying src/pytpp/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytpp
copying src/pytpp/__main__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytpp
copying src/pytpp/tpp_gui.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytpp
copying src/pytpp/tpp_tools.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytpp
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/__main__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/draw_trash.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/fileDisplay.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/images.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/norm_tools.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/qcDisplay.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/stat_tools.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/tnseq_tools.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/transit_gui.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/transit_tools.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/trash.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
copying src/pytransit/view_trash.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/anova.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/base.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/binomial.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/corrplot.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/example.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/gi.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/griffin.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/gumbel.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/heatmap.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/hmm.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/norm.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/normalize.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/pathway_enrichment.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/rankproduct.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/resampling.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/tn5gaps.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/tnseq_stats.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/utest.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
copying src/pytransit/analysis/zinb.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/convert
copying src/pytransit/convert/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/convert
copying src/pytransit/convert/base.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/convert
copying src/pytransit/convert/gff_to_prot_table.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/convert
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export
copying src/pytransit/export/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export
copying src/pytransit/export/base.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export
copying src/pytransit/export/combined_wig.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export
copying src/pytransit/export/igv.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export
copying src/pytransit/export/mean_counts.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export
copying src/pytransit/export/prot_table.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/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'
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writing manifest file 'tnseq_transit.egg-info/SOURCES.txt'
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/COG_roles.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/GO_associated_Rvs-3-11-18.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/GO_associated_Rvs.csv -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/GO_term_names.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/H37Rv.sanger_associated_RVS.csv -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/H37Rv_COG_roles.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/H37Rv_GO_terms.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/H37Rv_sanger_roles.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/README.md -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/cholesterol_H37Rv_merged.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/cholesterol_H37Rv_rep1.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/cholesterol_H37Rv_rep2.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/cholesterol_H37Rv_rep3.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/cholesterol_glycerol_combined.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/gene_ontology.1_2.3-11-18.obo -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/glycerol_H37Rv_merged.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/glycerol_H37Rv_rep1.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/glycerol_H37Rv_rep2.wig -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/samples_metadata_cg.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/samples_metadata_cg_covar.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/samples_metadata_cg_interactions.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/sanger_roles.dat -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
copying src/pytransit/data/smeg_GO_terms.txt -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/BCG.fna -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/BCG.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/H37Rv.fna -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/H37Rv.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/H37RvBD.fna -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/H37RvBD.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/H37RvBD_mod3.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/H37RvMA2.fna -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/H37RvMA2.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/genomes.html -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/mc2_155_tamu.fna -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes
copying src/pytransit/genomes/mc2_155_tamu.prot_table -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/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:232: PYTHONPATH=tests python3.9 -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) ... /<<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'>
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/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: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:1287: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test.prot_table' mode='r' encoding='UTF-8'>
for line in open(path):
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/<<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):
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/<<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):
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####################
tests.test_analysis_methods.TestMethods.test_Binomial
####################
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[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%
[binomial] Running Binomial Method... 68.6%
[binomial] Running Binomial Method... 68.7%
[binomial] Running Binomial Method... 68.8%
[binomial] Running Binomial Method... 68.9%
[binomial] Running Binomial Method... 69.0%
[binomial] Running Binomial Method... 69.1%
[binomial] Running Binomial Method... 69.2%
[binomial] Running Binomial Method... 69.3%
[binomial] Running Binomial Method... 69.4%
[binomial] Running Binomial Method... 69.5%
[binomial] Running Binomial Method... 69.5%
[binomial] Running Binomial Method... 69.6%
[binomial] Running Binomial Method... 69.7%
[binomial] Running Binomial Method... 69.8%
[binomial] Running Binomial Method... 69.9%
[binomial] Running Binomial Method... 70.0%
[binomial] Running Binomial Method... 70.1%
[binomial] Running Binomial Method... 70.2%
[binomial] Running Binomial Method... 70.3%
[binomial] Running Binomial Method... 70.4%
[binomial] Running Binomial Method... 70.5%
[binomial] Running Binomial Method... 70.5%
[binomial] Running Binomial Method... 70.6%
[binomial] Running Binomial Method... 70.7%
[binomial] Running Binomial Method... 70.8%
[binomial] Running Binomial Method... 70.9%
[binomial] Running Binomial Method... 71.0%
[binomial] Running Binomial Method... 71.1%
[binomial] Running Binomial Method... 71.2%
[binomial] Running Binomial Method... 71.3%
[binomial] Running Binomial Method... 71.4%
[binomial] Running Binomial Method... 71.5%
[binomial] Running Binomial Method... 71.5%
[binomial] Running Binomial Method... 71.6%
[binomial] Running Binomial Method... 71.7%
[binomial] Running Binomial Method... 71.8%
[binomial] Running Binomial Method... 71.9%
[binomial] Running Binomial Method... 72.0%
[binomial] Running Binomial Method... 72.1%
[binomial] Running Binomial Method... 72.2%
[binomial] Running Binomial Method... 72.3%
[binomial] Running Binomial Method... 72.4%
[binomial] Running Binomial Method... 72.5%
[binomial] Running Binomial Method... 72.5%
[binomial] Running Binomial Method... 72.6%
[binomial] Running Binomial Method... 72.7%
[binomial] Running Binomial Method... 72.8%
[binomial] Running Binomial Method... 72.9%
[binomial] Running Binomial Method... 73.0%
[binomial] Running Binomial Method... 73.1%
[binomial] Running Binomial Method... 73.2%
[binomial] Running Binomial Method... 73.3%
[binomial] Running Binomial Method... 73.4%
[binomial] Running Binomial Method... 73.5%
[binomial] Running Binomial Method... 73.5%
[binomial] Running Binomial Method... 73.6%
[binomial] Running Binomial Method... 73.7%
[binomial] Running Binomial Method... 73.8%
[binomial] Running Binomial Method... 73.9%
[binomial] Running Binomial Method... 74.0%
[binomial] Running Binomial Method... 74.1%
[binomial] Running Binomial Method... 74.2%
[binomial] Running Binomial Method... 74.3%
[binomial] Running Binomial Method... 74.4%
[binomial] Running Binomial Method... 74.5%
[binomial] Running Binomial Method... 74.5%
[binomial] Running Binomial Method... 74.6%
[binomial] Running Binomial Method... 74.7%
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[binomial]
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####################
tests.test_analysis_methods.TestMethods.test_GI
####################
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/usr/lib/python3.9/unittest/case.py:550: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/testoutput.txt' mode='w' encoding='UTF-8'>
method()
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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
####################
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ok
test_Gumbel (tests.test_analysis_methods.TestMethods) ... /<<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))
[griffin]
[griffin] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[griffin] Finished Griffin Method
Removing output file...
####################
tests.test_analysis_methods.TestMethods.test_Gumbel
####################
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[gumbel] Running Gumbel Method... 3.5%
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[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%
[gumbel] Running Gumbel Method... 82.5%
[gumbel] Running Gumbel Method... 82.6%
[gumbel] Running Gumbel Method... 82.7%
[gumbel] Running Gumbel Method... 82.8%
[gumbel] Running Gumbel Method... 82.9%
[gumbel] Running Gumbel Method... 83.0%
[gumbel] Running Gumbel Method... 83.1%
[gumbel] Running Gumbel Method... 83.2%
[gumbel] Running Gumbel Method... 83.3%
[gumbel] Running Gumbel Method... 83.4%
[gumbel] Running Gumbel Method... 83.5%
[gumbel] Running Gumbel Method... 83.5%
[gumbel] Running Gumbel Method... 83.6%
[gumbel] Running Gumbel Method... 83.7%
[gumbel] Running Gumbel Method... 83.8%
[gumbel] Running Gumbel Method... 83.9%
[gumbel] Running Gumbel Method... 84.0%
[gumbel] Running Gumbel Method... 84.1%
[gumbel] Running Gumbel Method... 84.2%
[gumbel] Running Gumbel Method... 84.3%
[gumbel] Running Gumbel Method... 84.4%
[gumbel] Running Gumbel Method... 84.5%
[gumbel] Running Gumbel Method... 84.5%
[gumbel] Running Gumbel Method... 84.6%
[gumbel] Running Gumbel Method... 84.7%
[gumbel] Running Gumbel Method... 84.8%
[gumbel] Running Gumbel Method... 84.9%
[gumbel] Running Gumbel Method... 85.0%
[gumbel] Running Gumbel Method... 85.1%
[gumbel] Running Gumbel Method... 85.2%
[gumbel] Running Gumbel Method... 85.3%
[gumbel] Running Gumbel Method... 85.4%
[gumbel] Running Gumbel Method... 85.5%
[gumbel] Running Gumbel Method... 85.5%
[gumbel] Running Gumbel Method... 85.6%
[gumbel] Running Gumbel Method... 85.7%
[gumbel] Running Gumbel Method... 85.8%
[gumbel] Running Gumbel Method... 85.9%
[gumbel] Running Gumbel Method... 86.0%
[gumbel] Running Gumbel Method... 86.1%
[gumbel] Running Gumbel Method... 86.2%
[gumbel] Running Gumbel Method... 86.3%
[gumbel] Running Gumbel Method... 86.4%
[gumbel] Running Gumbel Method... 86.5%
[gumbel] Running Gumbel Method... 86.5%
[gumbel] Running Gumbel Method... 86.6%
[gumbel] Running Gumbel Method... 86.7%
[gumbel] Running Gumbel Method... 86.8%
[gumbel] Running Gumbel Method... 86.9%
[gumbel] Running Gumbel Method... 87.0%
[gumbel] Running Gumbel Method... 87.1%
[gumbel] Running Gumbel Method... 87.2%
[gumbel] Running Gumbel Method... 87.3%
[gumbel] Running Gumbel Method... 87.4%
[gumbel] Running Gumbel Method... 87.5%
[gumbel] Running Gumbel Method... 87.5%
[gumbel] Running Gumbel Method... 87.6%
[gumbel] Running Gumbel Method... 87.7%
[gumbel] Running Gumbel Method... 87.8%
[gumbel] Running Gumbel Method... 87.9%
[gumbel] Running Gumbel Method... 88.0%
[gumbel] Running Gumbel Method... 88.1%
[gumbel] Running Gumbel Method... 88.2%
[gumbel] Running Gumbel Method... 88.3%
[gumbel] Running Gumbel Method... 88.4%
[gumbel] Running Gumbel Method... 88.5%
[gumbel] Running Gumbel Method... 88.5%
[gumbel] Running Gumbel Method... 88.6%
[gumbel] Running Gumbel Method... 88.7%
[gumbel] Running Gumbel Method... 88.8%
[gumbel] Running Gumbel Method... 88.9%
[gumbel] Running Gumbel Method... 89.0%
[gumbel] Running Gumbel Method... 89.1%
[gumbel] Running Gumbel Method... 89.2%
[gumbel] Running Gumbel Method... 89.3%
[gumbel] Running Gumbel Method... 89.4%
[gumbel] Running Gumbel Method... 89.5%
[gumbel] Running Gumbel Method... 89.5%
[gumbel] Running Gumbel Method... 89.6%
[gumbel] Running Gumbel Method... 89.7%
[gumbel] Running Gumbel Method... 89.8%
[gumbel] Running Gumbel Method... 89.9%
[gumbel] Running Gumbel Method... 90.0%
[gumbel] Running Gumbel Method... 90.1%
[gumbel] Running Gumbel Method... 90.2%
[gumbel] Running Gumbel Method... 90.3%
[gumbel] Running Gumbel Method... 90.4%
[gumbel] Running Gumbel Method... 90.5%
[gumbel] Running Gumbel Method... 90.5%
[gumbel] Running Gumbel Method... 90.6%
[gumbel] Running Gumbel Method... 90.7%
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ok
test_HMM (tests.test_analysis_methods.TestMethods) ... /<<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'>
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/<<PKGBUILDDIR>>/tests/../src/pytransit/tnseq_tools.py:927: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/data/test.wig' mode='r' encoding='UTF-8'>
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[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%
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ok
test_anova (tests.test_analysis_methods.TestMethods) ... /<<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'>
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[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%
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/<<PKGBUILDDIR>>/tests/transit_test.py:89: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/testoutput.txt' mode='r' encoding='UTF-8'>
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ok
test_resampling (tests.test_analysis_methods.TestMethods) ... /<<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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/<<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:910: ResourceWarning: unclosed file <_io.TextIOWrapper name='/<<PKGBUILDDIR>>/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'>
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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_rep2.wig' mode='r' encoding='UTF-8'>
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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_rep3.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/cholesterol_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/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'>
for line in open(path):
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/<<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):
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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'>
for line in open(path):
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/<<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):
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/<<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):
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[anova] Adding File: /<<PKGBUILDDIR>>/tests/testoutput.txt
[anova] Finished Anova analysis
[anova] Time: 1.7s
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%
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/<<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):
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ok
test_resampling_adaptive (tests.test_analysis_methods.TestMethods) ... /<<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:]])
[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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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%
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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
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[resampling] Normalizing using: TTR
[resampling] Running Resampling Method... 2.0%
[resampling] Running Resampling Method... 3.9%
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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... 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%
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[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%
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[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%
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[resampling] Running Resampling Method... 96.1%
[resampling] Running Resampling Method... 98.0%
[resampling] Running Resampling Method... 100.0%
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... 13.7%
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[resampling] Running Resampling Method... 25.5%
[resampling] Running Resampling Method... 27.5%
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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
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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
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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... 0.14 sec'
b'[bwa_index] Construct BWT for the packed sequence...'
b'[bwa_index] 5.38 seconds elapse.'
b'[bwa_index] Update BWT... 0.12 sec'
b'[bwa_index] Pack forward-only FASTA... 0.10 sec'
b'[bwa_index] Construct SA from BWT and Occ... 4.56 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: 10.692 sec; CPU: 10.299 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 0.574 CPU sec, 0.574 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: 0.687 sec; CPU: 0.625 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 0.572 CPU sec, 0.572 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: 0.734 sec; CPU: 0.623 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 635.065s
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: 12/27/2020 06:36:52
# command: python python3.9 -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: 12/27/2020 06:37:00
# command: python python3.9 -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:232: /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/python3.9
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytpp
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytpp/__init__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytpp
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytpp/__main__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytpp
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytpp/tpp_gui.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytpp
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytpp/tpp_tools.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytpp
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/__init__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/__main__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/draw_trash.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/fileDisplay.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/images.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/norm_tools.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/qcDisplay.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/stat_tools.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/tnseq_tools.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/transit_gui.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/transit_tools.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/trash.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/view_trash.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/__init__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/anova.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/base.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/binomial.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/corrplot.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/example.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/gi.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/griffin.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/gumbel.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/heatmap.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/hmm.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/norm.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/normalize.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/pathway_enrichment.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/rankproduct.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/resampling.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/tn5gaps.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/tnseq_stats.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/utest.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/analysis/zinb.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/convert
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/convert/__init__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/convert
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/convert/base.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/convert
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/convert/gff_to_prot_table.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/convert
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export/__init__.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export/base.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export/combined_wig.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export/igv.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export/mean_counts.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/export
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/export/prot_table.py -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/export
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/COG_roles.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/GO_associated_Rvs-3-11-18.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/GO_associated_Rvs.csv -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/GO_term_names.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/H37Rv.sanger_associated_RVS.csv -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/H37Rv_COG_roles.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/H37Rv_GO_terms.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/H37Rv_sanger_roles.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/README.md -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/cholesterol_H37Rv_merged.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/cholesterol_H37Rv_rep1.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/cholesterol_H37Rv_rep2.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/cholesterol_H37Rv_rep3.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/cholesterol_glycerol_combined.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/gene_ontology.1_2.3-11-18.obo -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/glycerol_H37Rv_merged.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/glycerol_H37Rv_rep1.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/glycerol_H37Rv_rep2.wig -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/samples_metadata_cg.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/samples_metadata_cg_covar.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/samples_metadata_cg_interactions.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/sanger_roles.dat -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/data/smeg_GO_terms.txt -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/data
creating /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/BCG.fna -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/BCG.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/H37Rv.fna -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/H37Rv.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/H37RvBD.fna -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/H37RvBD.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/H37RvBD_mod3.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/H37RvMA2.fna -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/H37RvMA2.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/genomes.html -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/mc2_155_tamu.fna -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build/pytransit/genomes/mc2_155_tamu.prot_table -> /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/genomes
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytpp/__init__.py to __init__.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytpp/__main__.py to __main__.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytpp/tpp_gui.py to tpp_gui.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytpp/tpp_tools.py to tpp_tools.cpython-39.pyc
/usr/lib/python3.9/dist-packages/pytpp/tpp_tools.py:648: SyntaxWarning: "is" with a literal. Did you mean "=="?
/usr/lib/python3.9/dist-packages/pytpp/tpp_tools.py:651: SyntaxWarning: "is" with a literal. Did you mean "=="?
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/__init__.py to __init__.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/__main__.py to __main__.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/draw_trash.py to draw_trash.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/fileDisplay.py to fileDisplay.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/images.py to images.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/norm_tools.py to norm_tools.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/qcDisplay.py to qcDisplay.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/stat_tools.py to stat_tools.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/tnseq_tools.py to tnseq_tools.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/transit_gui.py to transit_gui.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/transit_tools.py to transit_tools.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/trash.py to trash.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/view_trash.py to view_trash.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis/__init__.py to __init__.cpython-39.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/pytransit/analysis/anova.py to anova.cpython-39.pyc
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running install_egg_info
Copying tnseq_transit.egg-info to /<<PKGBUILDDIR>>/debian/tnseq-transit/usr/lib/python3.9/dist-packages/tnseq_transit-3.2.1.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
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
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dh_installman -a -O--buildsystem=pybuild
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dpkg-deb: building package 'tnseq-transit' in '../tnseq-transit_3.2.1-1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../tnseq-transit_3.2.1-1_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 2020-12-27T06:38:11Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
tnseq-transit_3.2.1-1_armhf.changes:
------------------------------------
Format: 1.8
Date: Thu, 24 Dec 2020 23:44:18 +0530
Source: tnseq-transit
Binary: tnseq-transit
Architecture: armhf
Version: 3.2.1-1
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <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 (3.2.1-1) unstable; urgency=medium
.
* New upstream version
* Standards-Version: 4.5.1 (routine-update)
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Files:
e76901e3a267faf31351cadc62188ecb 6875 science optional tnseq-transit_3.2.1-1_armhf.buildinfo
47423c450d2ea9903a109ad2191e27ed 8954788 science optional tnseq-transit_3.2.1-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
tnseq-transit_3.2.1-1_armhf.deb
-------------------------------
new Debian package, version 2.0.
size 8954788 bytes: control archive=3928 bytes.
1383 bytes, 28 lines control
8948 bytes, 95 lines md5sums
251 bytes, 12 lines * postinst #!/bin/sh
400 bytes, 12 lines * prerm #!/bin/sh
Package: tnseq-transit
Version: 3.2.1-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 76920
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 2020-12-24 18:14 ./
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drwxr-xr-x root/root 0 2020-12-24 18:14 ./usr/bin/
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-rwxr-xr-x root/root 968 2020-12-24 18:14 ./usr/bin/transit-tpp
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drwxr-xr-x root/root 0 2020-12-24 18:14 ./usr/lib/python3/
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-rw-r--r-- root/root 3925 2020-12-22 17:13 ./usr/lib/python3/dist-packages/pytransit/analysis/norm.py
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-rw-r--r-- root/root 841 2020-12-24 18:14 ./usr/share/man/man1/transit-tpp.1.gz
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| Summary |
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Build Architecture: armhf
Build-Space: 267316
Build-Time: 719
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 594
Job: tnseq-transit_3.2.1-1
Machine Architecture: armhf
Package: tnseq-transit
Package-Time: 1338
Source-Version: 3.2.1-1
Space: 267316
Status: successful
Version: 3.2.1-1
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Finished at 2020-12-27T06:38:11Z
Build needed 00:22:18, 267316k disk space