I: pbuilder: network access will be disabled during build I: Current time: Thu Jun 1 16:29:36 -12 2023 I: pbuilder-time-stamp: 1685680176 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [prody_2.3.1+dfsg-3.dsc] I: copying [./prody_2.3.1+dfsg.orig.tar.xz] I: copying [./prody_2.3.1+dfsg-3.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Jan 11 23:10:22 2023 -12 gpgv: using RSA key 772292F6F7AC85FAE041D41EE5F43F9C2734F287 gpgv: issuer "merkys@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./prody_2.3.1+dfsg-3.dsc: no acceptable signature found dpkg-source: info: extracting prody in prody-2.3.1+dfsg dpkg-source: info: unpacking prody_2.3.1+dfsg.orig.tar.xz dpkg-source: info: unpacking prody_2.3.1+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no-network-access.patch dpkg-source: info: applying add-missing-test-files.patch dpkg-source: info: applying numpy-1.24.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/876737/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='7f7e4ec4b00749b98f126124c20f5b79' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='876737' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.xoudu2pt/pbuilderrc_1ad4 --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.xoudu2pt/b1 --logfile b1/build.log prody_2.3.1+dfsg-3.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos1-amd64 5.10.0-23-amd64 #1 SMP Debian 5.10.179-1 (2023-05-12) x86_64 GNU/Linux I: ls -l /bin total 5632 -rwxr-xr-x 1 root root 1265648 Apr 23 09:23 bash -rwxr-xr-x 3 root root 39224 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 14568 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 44016 Sep 20 2022 cat -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp -rwxr-xr-x 1 root root 125640 Jan 5 01:20 dash -rwxr-xr-x 1 root root 121904 Sep 20 2022 date -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd -rwxr-xr-x 1 root root 102200 Sep 20 2022 df -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir -rwxr-xr-x 1 root root 88656 Mar 22 22:02 dmesg lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname -rwxr-xr-x 1 root root 43856 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep -rwxr-xr-x 1 root root 35664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep -rwxr-xr-x 1 root root 85600 Mar 22 22:02 findmnt -rwsr-xr-x 1 root root 35128 Mar 22 20:35 fusermount -rwxr-xr-x 1 root root 203152 Jan 24 02:43 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 98136 Apr 9 2022 gzip -rwxr-xr-x 1 root root 22680 Dec 19 01:33 hostname -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln -rwxr-xr-x 1 root root 53024 Mar 23 00:40 login -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls -rwxr-xr-x 1 root root 207168 Mar 22 22:02 lsblk -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 59712 Mar 22 22:02 more -rwsr-xr-x 1 root root 59704 Mar 22 22:02 mount -rwxr-xr-x 1 root root 18744 Mar 22 22:02 mountpoint -rwxr-xr-x 1 root root 142968 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43952 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 09:23 rbash -> bash -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 27560 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 126424 Jan 5 07:55 sed lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty -rwsr-xr-x 1 root root 72000 Mar 22 22:02 su -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync -rwxr-xr-x 1 root root 531984 Apr 6 02:25 tar -rwxr-xr-x 1 root root 14520 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch -rwxr-xr-x 1 root root 35664 Sep 20 2022 true -rwxr-xr-x 1 root root 14568 Mar 22 20:35 ulockmgr_server -rwsr-xr-x 1 root root 35128 Mar 22 22:02 umount -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir -rwxr-xr-x 1 root root 72024 Mar 22 22:02 wdctl lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/876737/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-biopython, python3-numpy, python3-pyparsing, python3-scipy, python3-setuptools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19591 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-biopython; however: Package python3-biopython is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pyparsing; however: Package python3-pyparsing is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fonts-urw-base35{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libboost-dev{a} libboost1.74-dev{a} libbrotli1{a} libbsd0{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1{a} libopenblas-dev{a} libopenblas-pthread-dev{a} libopenblas0{a} libopenblas0-pthread{a} libopenjp2-7{a} libpipeline1{a} libpng16-16{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libraqm0{a} libreadline8{a} libsub-override-perl{a} libtiff6{a} libtool{a} libuchardet0{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxml2{a} libxsimd-dev{a} m4{a} mailcap{a} man-db{a} media-types{a} mime-support{a} po-debconf{a} python3{a} python3-all{a} python3-all-dev{a} python3-beniget{a} python3-biopython{a} python3-decorator{a} python3-dev{a} python3-distutils{a} python3-gast{a} python3-lib2to3{a} python3-minimal{a} python3-numpy{a} python3-pil{a} python3-pkg-resources{a} python3-ply{a} python3-pyparsing{a} python3-pythran{a} python3-renderpm{a} python3-reportlab{a} python3-reportlab-accel{a} python3-scipy{a} python3-setuptools{a} python3.11{a} python3.11-dev{a} python3.11-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} w3c-sgml-lib{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl javascript-common libarchive-cpio-perl libglib2.0-data libltdl-dev libmail-sendmail-perl lynx ncbi-blast+ python-biopython-doc python3-olefile shared-mime-info wget xdg-user-dirs 0 packages upgraded, 116 newly installed, 0 to remove and 0 not upgraded. Need to get 102 MB of archives. After unpacking 545 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.2-6 [813 kB] Get: 2 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get: 3 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.2-6 [2064 kB] Get: 4 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.11.2-1+b1 [26.3 kB] Get: 5 http://deb.debian.org/debian bookworm/main amd64 media-types all 10.0.0 [26.1 kB] Get: 6 http://deb.debian.org/debian bookworm/main amd64 mailcap all 3.70+nmu1 [32.0 kB] Get: 7 http://deb.debian.org/debian bookworm/main amd64 mime-support all 3.66 [10.9 kB] Get: 8 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get: 9 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get: 10 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6 [1796 kB] Get: 11 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6 [572 kB] Get: 12 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B] Get: 13 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB] Get: 14 http://deb.debian.org/debian bookworm/main amd64 sgml-base all 1.31 [15.4 kB] Get: 15 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 16 http://deb.debian.org/debian bookworm/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get: 17 http://deb.debian.org/debian bookworm/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get: 18 http://deb.debian.org/debian bookworm/main amd64 file amd64 1:5.44-3 [42.5 kB] Get: 19 http://deb.debian.org/debian bookworm/main amd64 gettext-base amd64 0.21-12 [160 kB] Get: 20 http://deb.debian.org/debian bookworm/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 21 http://deb.debian.org/debian bookworm/main amd64 groff-base amd64 1.22.4-10 [916 kB] Get: 22 http://deb.debian.org/debian bookworm/main amd64 bsdextrautils amd64 2.38.1-5+b1 [86.6 kB] Get: 23 http://deb.debian.org/debian bookworm/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get: 24 http://deb.debian.org/debian bookworm/main amd64 man-db amd64 2.11.2-2 [1386 kB] Get: 25 http://deb.debian.org/debian bookworm/main amd64 m4 amd64 1.4.19-3 [287 kB] Get: 26 http://deb.debian.org/debian bookworm/main amd64 autoconf all 2.71-3 [332 kB] Get: 27 http://deb.debian.org/debian bookworm/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 28 http://deb.debian.org/debian bookworm/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 29 http://deb.debian.org/debian bookworm/main amd64 autopoint all 0.21-12 [495 kB] Get: 30 http://deb.debian.org/debian bookworm/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 31 http://deb.debian.org/debian bookworm/main amd64 libtool all 2.4.7-5 [517 kB] Get: 32 http://deb.debian.org/debian bookworm/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 33 http://deb.debian.org/debian bookworm/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 34 http://deb.debian.org/debian bookworm/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get: 35 http://deb.debian.org/debian bookworm/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 36 http://deb.debian.org/debian bookworm/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 37 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get: 38 http://deb.debian.org/debian bookworm/main amd64 dwz amd64 0.15-1 [109 kB] Get: 39 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get: 40 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.2 [687 kB] Get: 41 http://deb.debian.org/debian bookworm/main amd64 gettext amd64 0.21-12 [1300 kB] Get: 42 http://deb.debian.org/debian bookworm/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 43 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 44 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB] Get: 45 http://deb.debian.org/debian bookworm/main amd64 python3-lib2to3 all 3.11.2-3 [76.3 kB] Get: 46 http://deb.debian.org/debian bookworm/main amd64 python3-distutils all 3.11.2-3 [131 kB] Get: 47 http://deb.debian.org/debian bookworm/main amd64 dh-python all 5.20230130 [104 kB] Get: 48 http://deb.debian.org/debian bookworm/main amd64 libfontenc1 amd64 1:1.1.4-1 [24.3 kB] Get: 49 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get: 50 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get: 51 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5 [399 kB] Get: 52 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get: 53 http://deb.debian.org/debian bookworm/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 54 http://deb.debian.org/debian bookworm/main amd64 xfonts-utils amd64 1:7.7+6 [93.0 kB] Get: 55 http://deb.debian.org/debian bookworm/main amd64 fonts-urw-base35 all 20200910-7 [10.8 MB] Get: 56 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get: 57 http://deb.debian.org/debian bookworm/main amd64 libboost1.74-dev amd64 1.74.0+ds1-21 [9508 kB] Get: 58 http://deb.debian.org/debian bookworm/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get: 59 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get: 60 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get: 61 http://deb.debian.org/debian bookworm/main amd64 libexpat1-dev amd64 2.5.0-1 [150 kB] Get: 62 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get: 63 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get: 64 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2 [1398 kB] Get: 65 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get: 66 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get: 67 http://deb.debian.org/debian bookworm/main amd64 libimagequant0 amd64 2.17.0-1 [32.5 kB] Get: 68 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get: 69 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get: 70 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 71 http://deb.debian.org/debian bookworm/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 72 http://deb.debian.org/debian bookworm/main amd64 libjs-sphinxdoc all 5.3.0-4 [130 kB] Get: 73 http://deb.debian.org/debian bookworm/main amd64 libopenblas0-pthread amd64 0.3.21+ds-4 [6709 kB] Get: 74 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get: 75 http://deb.debian.org/debian bookworm/main amd64 liblbfgsb0 amd64 3.0+dfsg.4-1 [28.9 kB] Get: 76 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.14-2 [154 kB] Get: 77 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get: 78 http://deb.debian.org/debian bookworm/main amd64 libopenblas0 amd64 0.3.21+ds-4 [32.6 kB] Get: 79 http://deb.debian.org/debian bookworm/main amd64 libopenblas-pthread-dev amd64 0.3.21+ds-4 [4971 kB] Get: 80 http://deb.debian.org/debian bookworm/main amd64 libopenblas-dev amd64 0.3.21+ds-4 [44.9 kB] Get: 81 http://deb.debian.org/debian bookworm/main amd64 libopenjp2-7 amd64 2.5.0-2 [189 kB] Get: 82 http://deb.debian.org/debian bookworm/main amd64 libpython3.11 amd64 3.11.2-6 [1988 kB] Get: 83 http://deb.debian.org/debian bookworm/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1 [916 kB] Get: 84 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-dev amd64 3.11.2-6 [4738 kB] Get: 85 http://deb.debian.org/debian bookworm/main amd64 libpython3-dev amd64 3.11.2-1+b1 [9572 B] Get: 86 http://deb.debian.org/debian bookworm/main amd64 libpython3-all-dev amd64 3.11.2-1+b1 [1068 B] Get: 87 http://deb.debian.org/debian bookworm/main amd64 libraqm0 amd64 0.7.0-4.1 [10.6 kB] Get: 88 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.2 [285 kB] Get: 89 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-6 [316 kB] Get: 90 http://deb.debian.org/debian bookworm/main amd64 libwebpdemux2 amd64 1.2.4-0.2 [99.3 kB] Get: 91 http://deb.debian.org/debian bookworm/main amd64 libwebpmux3 amd64 1.2.4-0.2 [109 kB] Get: 92 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get: 93 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 94 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get: 95 http://deb.debian.org/debian bookworm/main amd64 libxsimd-dev amd64 8.1.0-7 [88.8 kB] Get: 96 http://deb.debian.org/debian bookworm/main amd64 python3-all amd64 3.11.2-1+b1 [1056 B] Get: 97 http://deb.debian.org/debian bookworm/main amd64 python3.11-dev amd64 3.11.2-6 [615 kB] Get: 98 http://deb.debian.org/debian bookworm/main amd64 python3-dev amd64 3.11.2-1+b1 [26.2 kB] Get: 99 http://deb.debian.org/debian bookworm/main amd64 python3-all-dev amd64 3.11.2-1+b1 [1072 B] Get: 100 http://deb.debian.org/debian bookworm/main amd64 python3-gast all 0.5.2-2 [9364 B] Get: 101 http://deb.debian.org/debian bookworm/main amd64 python3-beniget all 0.4.1-3 [9920 B] Get: 102 http://deb.debian.org/debian bookworm/main amd64 python3-pkg-resources all 66.1.1-1 [296 kB] Get: 103 http://deb.debian.org/debian bookworm/main amd64 python3-numpy amd64 1:1.24.2-1 [5209 kB] Get: 104 http://deb.debian.org/debian bookworm/main amd64 python3-renderpm amd64 3.6.12-1+b1 [79.2 kB] Get: 105 http://deb.debian.org/debian bookworm/main amd64 python3-reportlab-accel amd64 3.6.12-1+b1 [38.6 kB] Get: 106 http://deb.debian.org/debian bookworm/main amd64 python3-pil amd64 9.4.0-1.1+b1 [472 kB] Get: 107 http://deb.debian.org/debian bookworm/main amd64 python3-reportlab all 3.6.12-1 [564 kB] Get: 108 http://deb.debian.org/debian bookworm/main amd64 xml-core all 0.18+nmu1 [23.8 kB] Get: 109 http://deb.debian.org/debian bookworm/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Get: 110 http://deb.debian.org/debian bookworm/main amd64 python3-biopython amd64 1.80+dfsg-4+b1 [1593 kB] Get: 111 http://deb.debian.org/debian bookworm/main amd64 python3-decorator all 5.1.1-3 [14.9 kB] Get: 112 http://deb.debian.org/debian bookworm/main amd64 python3-ply all 3.11-5 [65.8 kB] Get: 113 http://deb.debian.org/debian bookworm/main amd64 python3-pyparsing all 3.0.9-1 [138 kB] Get: 114 http://deb.debian.org/debian bookworm/main amd64 python3-pythran amd64 0.11.0+ds-7 [427 kB] Get: 115 http://deb.debian.org/debian bookworm/main amd64 python3-scipy amd64 1.10.1-2 [15.2 MB] Get: 116 http://deb.debian.org/debian bookworm/main amd64 python3-setuptools all 66.1.1-1 [521 kB] Fetched 102 MB in 7s (14.7 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19591 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.2-6_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.2-6) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.5.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_amd64.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:amd64 (3.11.2-6) ... Setting up libexpat1:amd64 (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19907 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_amd64.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package mailcap. Preparing to unpack .../2-mailcap_3.70+nmu1_all.deb ... Unpacking mailcap (3.70+nmu1) ... Selecting previously unselected package mime-support. Preparing to unpack .../3-mime-support_3.66_all.deb ... Unpacking mime-support (3.66) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../5-libreadline8_8.2-1.3_amd64.deb ... Unpacking libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package libpython3.11-stdlib:amd64. Preparing to unpack .../6-libpython3.11-stdlib_3.11.2-6_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.2-6_amd64.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../8-libpython3-stdlib_3.11.2-1+b1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package python3. (Reading database ... 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Selecting previously unselected package libmagic-mgc. Preparing to unpack .../003-libmagic-mgc_1%3a5.44-3_amd64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../004-libmagic1_1%3a5.44-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../005-file_1%3a5.44-3_amd64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../006-gettext-base_0.21-12_amd64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../007-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../008-groff-base_1.22.4-10_amd64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../009-bsdextrautils_2.38.1-5+b1_amd64.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../010-libpipeline1_1.5.7-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../011-man-db_2.11.2-2_amd64.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../012-m4_1.4.19-3_amd64.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../013-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../014-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../015-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... 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Selecting previously unselected package gettext. Preparing to unpack .../028-gettext_0.21-12_amd64.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../029-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../030-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../031-debhelper_13.11.4_all.deb ... Unpacking debhelper (13.11.4) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../032-python3-lib2to3_3.11.2-3_all.deb ... Unpacking python3-lib2to3 (3.11.2-3) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../033-python3-distutils_3.11.2-3_all.deb ... Unpacking python3-distutils (3.11.2-3) ... Selecting previously unselected package dh-python. 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Preparing to unpack .../040-xfonts-encodings_1%3a1.0.4-2.2_all.deb ... Unpacking xfonts-encodings (1:1.0.4-2.2) ... Selecting previously unselected package xfonts-utils. Preparing to unpack .../041-xfonts-utils_1%3a7.7+6_amd64.deb ... Unpacking xfonts-utils (1:7.7+6) ... Selecting previously unselected package fonts-urw-base35. Preparing to unpack .../042-fonts-urw-base35_20200910-7_all.deb ... Unpacking fonts-urw-base35 (20200910-7) ... Selecting previously unselected package libblas3:amd64. Preparing to unpack .../043-libblas3_3.11.0-2_amd64.deb ... Unpacking libblas3:amd64 (3.11.0-2) ... Selecting previously unselected package libboost1.74-dev:amd64. Preparing to unpack .../044-libboost1.74-dev_1.74.0+ds1-21_amd64.deb ... Unpacking libboost1.74-dev:amd64 (1.74.0+ds1-21) ... Selecting previously unselected package libboost-dev:amd64. Preparing to unpack .../045-libboost-dev_1.74.0.3_amd64.deb ... Unpacking libboost-dev:amd64 (1.74.0.3) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../046-libbsd0_0.11.7-2_amd64.deb ... Unpacking libbsd0:amd64 (0.11.7-2) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../047-libdeflate0_1.14-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.14-1) ... Selecting previously unselected package libexpat1-dev:amd64. Preparing to unpack .../048-libexpat1-dev_2.5.0-1_amd64.deb ... Unpacking libexpat1-dev:amd64 (2.5.0-1) ... Selecting previously unselected package libfribidi0:amd64. Preparing to unpack .../049-libfribidi0_1.0.8-2.1_amd64.deb ... Unpacking libfribidi0:amd64 (1.0.8-2.1) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../050-libgfortran5_12.2.0-14_amd64.deb ... Unpacking libgfortran5:amd64 (12.2.0-14) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../051-libglib2.0-0_2.74.6-2_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.74.6-2) ... Selecting previously unselected package libgraphite2-3:amd64. Preparing to unpack .../052-libgraphite2-3_1.3.14-1_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.14-1) ... Selecting previously unselected package libharfbuzz0b:amd64. Preparing to unpack .../053-libharfbuzz0b_6.0.0+dfsg-3_amd64.deb ... Unpacking libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Selecting previously unselected package libimagequant0:amd64. Preparing to unpack .../054-libimagequant0_2.17.0-1_amd64.deb ... Unpacking libimagequant0:amd64 (2.17.0-1) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../055-libjbig0_2.1-6.1_amd64.deb ... Unpacking libjbig0:amd64 (2.1-6.1) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../056-libjpeg62-turbo_1%3a2.1.5-2_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:2.1.5-2) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../057-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Selecting previously unselected package libjs-underscore. Preparing to unpack .../058-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Selecting previously unselected package libjs-sphinxdoc. Preparing to unpack .../059-libjs-sphinxdoc_5.3.0-4_all.deb ... Unpacking libjs-sphinxdoc (5.3.0-4) ... Selecting previously unselected package libopenblas0-pthread:amd64. Preparing to unpack .../060-libopenblas0-pthread_0.3.21+ds-4_amd64.deb ... Unpacking libopenblas0-pthread:amd64 (0.3.21+ds-4) ... Selecting previously unselected package liblapack3:amd64. Preparing to unpack .../061-liblapack3_3.11.0-2_amd64.deb ... Unpacking liblapack3:amd64 (3.11.0-2) ... Selecting previously unselected package liblbfgsb0:amd64. Preparing to unpack .../062-liblbfgsb0_3.0+dfsg.4-1_amd64.deb ... Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../063-liblcms2-2_2.14-2_amd64.deb ... Unpacking liblcms2-2:amd64 (2.14-2) ... Selecting previously unselected package liblerc4:amd64. Preparing to unpack .../064-liblerc4_4.0.0+ds-2_amd64.deb ... Unpacking liblerc4:amd64 (4.0.0+ds-2) ... Selecting previously unselected package libopenblas0:amd64. Preparing to unpack .../065-libopenblas0_0.3.21+ds-4_amd64.deb ... Unpacking libopenblas0:amd64 (0.3.21+ds-4) ... Selecting previously unselected package libopenblas-pthread-dev:amd64. Preparing to unpack .../066-libopenblas-pthread-dev_0.3.21+ds-4_amd64.deb ... Unpacking libopenblas-pthread-dev:amd64 (0.3.21+ds-4) ... Selecting previously unselected package libopenblas-dev:amd64. Preparing to unpack .../067-libopenblas-dev_0.3.21+ds-4_amd64.deb ... Unpacking libopenblas-dev:amd64 (0.3.21+ds-4) ... Selecting previously unselected package libopenjp2-7:amd64. Preparing to unpack .../068-libopenjp2-7_2.5.0-2_amd64.deb ... Unpacking libopenjp2-7:amd64 (2.5.0-2) ... Selecting previously unselected package libpython3.11:amd64. Preparing to unpack .../069-libpython3.11_3.11.2-6_amd64.deb ... Unpacking libpython3.11:amd64 (3.11.2-6) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../070-zlib1g-dev_1%3a1.2.13.dfsg-1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.13.dfsg-1) ... Selecting previously unselected package libpython3.11-dev:amd64. Preparing to unpack .../071-libpython3.11-dev_3.11.2-6_amd64.deb ... Unpacking libpython3.11-dev:amd64 (3.11.2-6) ... Selecting previously unselected package libpython3-dev:amd64. Preparing to unpack .../072-libpython3-dev_3.11.2-1+b1_amd64.deb ... Unpacking libpython3-dev:amd64 (3.11.2-1+b1) ... Selecting previously unselected package libpython3-all-dev:amd64. Preparing to unpack .../073-libpython3-all-dev_3.11.2-1+b1_amd64.deb ... Unpacking libpython3-all-dev:amd64 (3.11.2-1+b1) ... Selecting previously unselected package libraqm0:amd64. Preparing to unpack .../074-libraqm0_0.7.0-4.1_amd64.deb ... Unpacking libraqm0:amd64 (0.7.0-4.1) ... Selecting previously unselected package libwebp7:amd64. Preparing to unpack .../075-libwebp7_1.2.4-0.2_amd64.deb ... Unpacking libwebp7:amd64 (1.2.4-0.2) ... Selecting previously unselected package libtiff6:amd64. Preparing to unpack .../076-libtiff6_4.5.0-6_amd64.deb ... Unpacking libtiff6:amd64 (4.5.0-6) ... Selecting previously unselected package libwebpdemux2:amd64. Preparing to unpack .../077-libwebpdemux2_1.2.4-0.2_amd64.deb ... Unpacking libwebpdemux2:amd64 (1.2.4-0.2) ... Selecting previously unselected package libwebpmux3:amd64. Preparing to unpack .../078-libwebpmux3_1.2.4-0.2_amd64.deb ... Unpacking libwebpmux3:amd64 (1.2.4-0.2) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../079-libxau6_1%3a1.0.9-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.9-1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../080-libxdmcp6_1%3a1.1.2-3_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../081-libxcb1_1.15-1_amd64.deb ... Unpacking libxcb1:amd64 (1.15-1) ... Selecting previously unselected package libxsimd-dev:amd64. Preparing to unpack .../082-libxsimd-dev_8.1.0-7_amd64.deb ... Unpacking libxsimd-dev:amd64 (8.1.0-7) ... Selecting previously unselected package python3-all. Preparing to unpack .../083-python3-all_3.11.2-1+b1_amd64.deb ... Unpacking python3-all (3.11.2-1+b1) ... Selecting previously unselected package python3.11-dev. Preparing to unpack .../084-python3.11-dev_3.11.2-6_amd64.deb ... Unpacking python3.11-dev (3.11.2-6) ... Selecting previously unselected package python3-dev. Preparing to unpack .../085-python3-dev_3.11.2-1+b1_amd64.deb ... Unpacking python3-dev (3.11.2-1+b1) ... Selecting previously unselected package python3-all-dev. 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Selecting previously unselected package python3-reportlab-accel:amd64. Preparing to unpack .../092-python3-reportlab-accel_3.6.12-1+b1_amd64.deb ... Unpacking python3-reportlab-accel:amd64 (3.6.12-1+b1) ... Selecting previously unselected package python3-pil:amd64. Preparing to unpack .../093-python3-pil_9.4.0-1.1+b1_amd64.deb ... Unpacking python3-pil:amd64 (9.4.0-1.1+b1) ... Selecting previously unselected package python3-reportlab. Preparing to unpack .../094-python3-reportlab_3.6.12-1_all.deb ... Unpacking python3-reportlab (3.6.12-1) ... Selecting previously unselected package xml-core. Preparing to unpack .../095-xml-core_0.18+nmu1_all.deb ... Unpacking xml-core (0.18+nmu1) ... Selecting previously unselected package w3c-sgml-lib. Preparing to unpack .../096-w3c-sgml-lib_1.3-3_all.deb ... Unpacking w3c-sgml-lib (1.3-3) ... Selecting previously unselected package python3-biopython. Preparing to unpack .../097-python3-biopython_1.80+dfsg-4+b1_amd64.deb ... Unpacking python3-biopython (1.80+dfsg-4+b1) ... Selecting previously unselected package python3-decorator. Preparing to unpack .../098-python3-decorator_5.1.1-3_all.deb ... Unpacking python3-decorator (5.1.1-3) ... Selecting previously unselected package python3-ply. Preparing to unpack .../099-python3-ply_3.11-5_all.deb ... Unpacking python3-ply (3.11-5) ... Selecting previously unselected package python3-pyparsing. Preparing to unpack .../100-python3-pyparsing_3.0.9-1_all.deb ... Unpacking python3-pyparsing (3.0.9-1) ... Selecting previously unselected package python3-pythran. Preparing to unpack .../101-python3-pythran_0.11.0+ds-7_amd64.deb ... Unpacking python3-pythran (0.11.0+ds-7) ... Selecting previously unselected package python3-scipy. Preparing to unpack .../102-python3-scipy_1.10.1-2_amd64.deb ... Unpacking python3-scipy (1.10.1-2) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../103-python3-setuptools_66.1.1-1_all.deb ... Unpacking python3-setuptools (66.1.1-1) ... Setting up media-types (10.0.0) ... Setting up libpipeline1:amd64 (1.5.7-1) ... Setting up libgraphite2-3:amd64 (1.3.14-1) ... Setting up liblcms2-2:amd64 (2.14-2) ... Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up libboost1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libicu72:amd64 (72.1-3) ... Setting up liblerc4:amd64 (4.0.0+ds-2) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.74.6-2) ... No schema files found: doing nothing. Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:amd64 (1.0.9-2+b6) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libmagic1:amd64 (1:5.44-3) ... Setting up libdeflate0:amd64 (1.14-1) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up file (1:5.44-3) ... Setting up libjbig0:amd64 (2.1-6.1) ... Setting up libxsimd-dev:amd64 (8.1.0-7) ... Setting up libfontenc1:amd64 (1:1.1.4-1) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libexpat1-dev:amd64 (2.5.0-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-2) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:amd64 (1.0.8-2.1) ... Setting up libimagequant0:amd64 (2.17.0-1) ... Setting up libpng16-16:amd64 (1.6.39-2) ... Setting up autopoint (0.21-12) ... Setting up libgfortran5:amd64 (12.2.0-14) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:amd64 (1.2.4-0.2) ... Setting up zlib1g-dev:amd64 (1:1.2.13.dfsg-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libtiff6:amd64 (4.5.0-6) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libopenjp2-7:amd64 (2.5.0-2) ... Setting up libsub-override-perl (0.09-4) ... Setting up sgml-base (1.31) ... Setting up libboost-dev:amd64 (1.74.0.3) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libwebpmux3:amd64 (1.2.4-0.2) ... Setting up libbsd0:amd64 (0.11.7-2) ... Setting up mailcap (3.70+nmu1) ... Setting up libelf1:amd64 (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.2) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up liblapack3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libopenblas0-pthread:amd64 (0.3.21+ds-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so.0 to provide /usr/lib/x86_64-linux-gnu/libopenblas.so.0 (libopenblas.so.0-x86_64-linux-gnu) in auto mode Setting up mime-support (3.66) ... Setting up libtool (2.4.7-5) ... Setting up libwebpdemux2:amd64 (1.2.4-0.2) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-5) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up libopenblas0:amd64 (0.3.21+ds-4) ... Setting up groff-base (1.22.4-10) ... Setting up xml-core (0.18+nmu1) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1) ... Setting up libopenblas-pthread-dev:amd64 (0.3.21+ds-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so to provide /usr/lib/x86_64-linux-gnu/libopenblas.so (libopenblas.so-x86_64-linux-gnu) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6) ... Setting up xfonts-utils (1:7.7+6) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libopenblas-dev:amd64 (0.3.21+ds-4) ... Setting up libraqm0:amd64 (0.7.0-4.1) ... Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6) ... Setting up libpython3.11:amd64 (3.11.2-6) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up fonts-urw-base35 (20200910-7) ... Setting up python3-pil:amd64 (9.4.0-1.1+b1) ... Setting up python3-decorator (5.1.1-3) ... Setting up python3-pyparsing (3.0.9-1) ... Setting up libpython3.11-dev:amd64 (3.11.2-6) ... Setting up python3-reportlab-accel:amd64 (3.6.12-1+b1) ... Setting up python3-reportlab (3.6.12-1) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-3) ... Setting up dh-python (5.20230130) ... Setting up libpython3-dev:amd64 (3.11.2-1+b1) ... Setting up python3-renderpm:amd64 (3.6.12-1+b1) ... Setting up python3-setuptools (66.1.1-1) ... Setting up python3.11-dev (3.11.2-6) ... Setting up python3-ply (3.11-5) ... Setting up python3-gast (0.5.2-2) ... Setting up python3-all (3.11.2-1+b1) ... Setting up python3-beniget (0.4.1-3) ... Setting up libpython3-all-dev:amd64 (3.11.2-1+b1) ... Setting up python3-dev (3.11.2-1+b1) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up python3-all-dev (3.11.2-1+b1) ... Setting up python3-pythran (0.11.0+ds-7) ... Setting up python3-scipy (1.10.1-2) ... Processing triggers for libc-bin (2.36-9) ... Processing triggers for sgml-base (1.31) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.80+dfsg-4+b1) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/prody-2.3.1+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../prody_2.3.1+dfsg-3_source.changes dpkg-buildpackage: info: source package prody dpkg-buildpackage: info: source version 2.3.1+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem pybuild --with numpy3,python3 debian/rules override_dh_auto_clean make[1]: Entering directory '/build/prody-2.3.1+dfsg' dh_auto_clean I: pybuild base:240: python3.11 setup.py clean running clean removing '/build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it rm -rf ProDy.egg-info make[1]: Leaving directory '/build/prody-2.3.1+dfsg' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem pybuild --with numpy3,python3 dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:240: python3.11 setup.py config running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:240: /usr/bin/python3 setup.py build running build running build_py creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody copying prody/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/subset.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/selection.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/select.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/segment.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/residue.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/pointer.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/nbexclusion.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/improper.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/hierview.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/functions.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/flags.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/fields.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/donor.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/dihedral.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/crossterm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/chain.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/bond.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/atommap.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/atomic.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/atomgroup.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/atom.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/angle.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/acceptor.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic copying prody/atomic/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/uniprot.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/quartataweb.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/pfam.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/goa.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/dali.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/cath.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database copying prody/database/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/vmdfile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/signature.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/sampling.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/rtb.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/plotting.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/perturb.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/pca.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/nmdfile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/nma.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/modeset.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/mode.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/mechstiff.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/imanm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/heatmapper.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/gnm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/gamma.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/functions.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/exgnm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/exanm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/essa.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/entropy.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/editing.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/compare.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/clustenm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/bbenm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/anm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/analysis.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/adaptive.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics copying prody/dynamics/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble copying prody/ensemble/pdbensemble.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble copying prody/ensemble/functions.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble copying prody/ensemble/ensemble.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble copying prody/ensemble/conformation.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble copying prody/ensemble/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree copying prody/kdtree/kdtree.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree copying prody/kdtree/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure copying prody/measure/transform.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure copying prody/measure/measure.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure copying prody/measure/contacts.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure copying prody/measure/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/wwpdb.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/stride.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/starfile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/pdbfile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/pdbclusters.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/localpdb.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/header.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/functions.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/emdfile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/dssp.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/compare.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/cifheader.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/ciffile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/blastpdb.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins copying prody/proteins/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/sequence.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/plotting.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/msafile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/msa.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/analysis.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence copying prody/sequence/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/trajfile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/trajectory.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/trajbase.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/psffile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/frame.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/dcdfile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory copying prody/trajectory/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/straw.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/norm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/hic.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/functions.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/cluster.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin copying prody/chromatin/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds copying prody/compounds/pdbligands.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds copying prody/compounds/functions.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds copying prody/compounds/ccd.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds copying prody/compounds/bird.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds copying prody/compounds/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/domain_decomposition copying prody/domain_decomposition/spectrus.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/domain_decomposition copying prody/domain_decomposition/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/domain_decomposition creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/settings.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/seqtools.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/pathtools.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/misctools.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/logger.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/legacy.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/laptools.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/eigtools.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/drawtools.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/doctools.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/checkers.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/catchall.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities copying prody/utilities/TreeConstruction.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps copying prody/apps/apptools.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps copying prody/apps/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_select.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_pca.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_gnm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_fetch.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_energy.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_eda.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_contacts.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_catdcd.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_blast.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_biomol.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_anm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/prody_align.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/nmaoptions.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps copying prody/apps/prody_apps/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_search.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_refine.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_rankorder.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_occupancy.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_merge.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_filter.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_fetch.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_conserv.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/evol_coevol.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps copying prody/apps/evol_apps/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests copying prody/tests/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_pca.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_gnm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_examples.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_catdcd.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/test_prody_anm.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps copying prody/tests/apps/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_subset.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_select.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_hierview.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_fragment.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_atommap.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/test_atomic.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic copying prody/tests/atomic/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_signature.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_pca.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_enms.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics copying prody/tests/dynamics/test_editing.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics copying prody/tests/dynamics/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_pdbensemble.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_functions.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_ensemble.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble copying prody/tests/ensemble/test_conformation.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble copying prody/tests/ensemble/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/kdtree copying prody/tests/kdtree/test_kdtree.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/kdtree copying prody/tests/kdtree/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/kdtree creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure copying prody/tests/measure/test_transform.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure copying prody/tests/measure/test_measure.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure copying prody/tests/measure/test_contacts.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure copying prody/tests/measure/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_wwpdb.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_localpdb.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_pdbfile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_header.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_dssp.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/test_ciffile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins copying prody/tests/proteins/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence copying prody/tests/sequence/test_sequence.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence copying prody/tests/sequence/test_msafile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence copying prody/tests/sequence/test_msa.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence copying prody/tests/sequence/test_analysis.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence copying prody/tests/sequence/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory copying prody/tests/trajectory/test_frame.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory copying prody/tests/trajectory/test_dcdfile.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory copying prody/tests/trajectory/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities copying prody/tests/utilities/test_pathtools.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities copying prody/tests/utilities/test_misctools.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities copying prody/tests/utilities/test_checkers.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities copying prody/tests/utilities/__init__.py -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities creating /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/datafiles copying prody/utilities/datafiles/saxs_water.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/datafiles copying prody/utilities/datafiles/mod_res_map.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/datafiles copying prody/tests/datafiles/pdbRTER.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3p3w.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3o21.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3mht.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb3hsy.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2nwl-opm.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2k39_truncated.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2k39_ca.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb2gb1_truncated.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ubi_ca.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ubi.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_hex.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_h36.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1tw7_step3_charmm2namd.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1r19_dssp.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ejg_oneatom.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pdb1ejg.pdb -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_vectors.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_evalues.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot_sca.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot_di.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/hit1ubi.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_vectors.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_evalues.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_vectors.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_evalues.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/commute1ubi.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_vectors.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_evalues.dat -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/mmcif_6zu5.cif -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/mmcif_6yfy.cif -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/rtb2gb1_project.coo -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/rtb2gb1_hessian.coo -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/pca2k39_cov.coo -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/gnm1ubi_kirchhoff.coo -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/exanm2nwl_hessian.coo -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/anm1ubi_hessian.coo -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/dcd2k39_truncated.dcd -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/xmlSTI.xml -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.sth -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.slx -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles copying prody/tests/datafiles/msa_Cys_knot.fasta -> /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles running build_ext building 'prody.dynamics.rtbtools' extension creating build creating build/temp.linux-x86_64-cpython-311 creating build/temp.linux-x86_64-cpython-311/prody creating build/temp.linux-x86_64-cpython-311/prody/dynamics x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/dynamics/rtbtools.c -o build/temp.linux-x86_64-cpython-311/prody/dynamics/rtbtools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/dynamics/rtbtools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/rtbtools.cpython-311-x86_64-linux-gnu.so building 'prody.dynamics.smtools' extension x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/dynamics/smtools.c -o build/temp.linux-x86_64-cpython-311/prody/dynamics/smtools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/dynamics/smtools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/smtools.cpython-311-x86_64-linux-gnu.so building 'prody.sequence.msatools' extension creating build/temp.linux-x86_64-cpython-311/prody/sequence x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/sequence/msatools.c -o build/temp.linux-x86_64-cpython-311/prody/sequence/msatools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/sequence/msatools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/msatools.cpython-311-x86_64-linux-gnu.so building 'prody.sequence.msaio' extension x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/sequence/msaio.c -o build/temp.linux-x86_64-cpython-311/prody/sequence/msaio.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/sequence/msaio.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/msaio.cpython-311-x86_64-linux-gnu.so building 'prody.sequence.seqtools' extension x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/sequence/seqtools.c -o build/temp.linux-x86_64-cpython-311/prody/sequence/seqtools.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/sequence/seqtools.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/seqtools.cpython-311-x86_64-linux-gnu.so building 'prody.kdtree._CKDTree' extension creating build/temp.linux-x86_64-cpython-311/prody/kdtree x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/kdtree/KDTree.c -o build/temp.linux-x86_64-cpython-311/prody/kdtree/KDTree.o x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c prody/kdtree/KDTreemodule.c -o build/temp.linux-x86_64-cpython-311/prody/kdtree/KDTreemodule.o x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/kdtree/KDTree.o build/temp.linux-x86_64-cpython-311/prody/kdtree/KDTreemodule.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree/_CKDTree.cpython-311-x86_64-linux-gnu.so building 'prody.proteins.ccealign' extension creating build/temp.linux-x86_64-cpython-311/prody/proteins creating build/temp.linux-x86_64-cpython-311/prody/proteins/ccealign x86_64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Iprody/utilities/tnt -I/usr/include/python3.11 -c prody/proteins/ccealign/ccealignmodule.cpp -o build/temp.linux-x86_64-cpython-311/prody/proteins/ccealign/ccealignmodule.o x86_64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -g -O2 -ffile-prefix-map=/build/prody-2.3.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-311/prody/proteins/ccealign/ccealignmodule.o -L/usr/lib/x86_64-linux-gnu -o /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/ccealign.cpython-311-x86_64-linux-gnu.so dh_auto_test -O--buildsystem=pybuild I: pybuild base:240: cd /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build; python3.11 -m unittest discover -v /usr/lib/python3/dist-packages/Bio/pairwise2.py:278: BiopythonDeprecationWarning: Bio.pairwise2 has been deprecated, and we intend to remove it in a future release of Biopython. As an alternative, please consider using Bio.Align.PairwiseAligner as a replacement, and contact the Biopython developers if you still need the Bio.pairwise2 module. warnings.warn( testANMCommand (prody.tests.apps.test_prody_anm.TestANMCommand.testANMCommand) ... skipped 'prody command not found' testAlignConcat (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testAlignConcat) ... skipped 'prody command not found' testAlignException (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testAlignException) ... skipped 'prody command is not found' testIOException (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testIOException) ... skipped 'prody command is not found' testSelectConcat (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testSelectConcat) ... skipped 'prody command not found' testSelectException (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testSelectException) ... skipped 'prody command is not found' testSelectException2 (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testSelectException2) ... skipped 'prody command is not found' testSimpleConcat (prody.tests.apps.test_prody_catdcd.TestCatdcdCommand.testSimpleConcat) ... skipped 'prody command not found' testCommandExample1 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample1) Test example: $ prody anm 1p38 ... skipped 'prody command not found' testCommandExample10 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample10) Test example: $ prody align 2k39 --select "backbone and resnum < 71" ... skipped 'prody command not found' testCommandExample11 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample11) Test example: $ prody align --select "resnum < 300" 1p38 1r39 1zz2 ... skipped 'prody command not found' testCommandExample12 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample12) Test example: $ prody align --select "resnum 1 to 70" 1aar 2k39 ... skipped 'prody command not found' testCommandExample13 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample13) Test example: $ prody align --select "noh heme and chain A" 1hrc 1fi7 ... skipped 'prody command not found' testCommandExample14 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample14) Test example: $ prody biomol 2bfu ... skipped 'prody command not found' testCommandExample15 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample15) Test example: $ prody select -o B11 "resname B11" 1zz2 $ prody select -o BOG "resname BOG" 1zz2 $ prody contacts -r 4.0 -t residue -s protein 1zz2 B11.pdb BOG.pdb ... skipped 'prody command not found' testCommandExample16 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample16) Test example: $ prody fetch 1mkp 1p38 ... skipped 'prody command not found' testCommandExample17 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample17) Test example: $ prody select backbone 1p38 1r39 ... skipped 'prody command not found' testCommandExample18 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample18) Test example: $ prody energy 1p38 1r39 ... skipped 'prody command not found' testCommandExample2 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample2) Test example: $ prody anm 1aar -s "calpha and chain A and resnum < 70" -A ... skipped 'prody command not found' testCommandExample3 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample3) Test example: $ prody gnm 1p38 ... skipped 'prody command not found' testCommandExample4 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample4) Test example: $ prody gnm 1aar -c 7 -s "calpha and chain A and resnum < 70" -A ... skipped 'prody command not found' testCommandExample5 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample5) Test example: $ prody pca 2k39 ... skipped 'prody command not found' testCommandExample6 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample6) Test example: $ prody pca 2k39 --select "backbone and resnum < 71" -a -A ... skipped 'prody command not found' testCommandExample7 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample7) Test example: $ prody pca 2k39 ... skipped 'prody command not found' testCommandExample8 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample8) Test example: $ prody pca 2k39 --select "backbone and resnum < 71" -a -A ... skipped 'prody command not found' testCommandExample9 (prody.tests.apps.test_prody_examples.TestCommandExamples.testCommandExample9) Test example: $ prody align 2k39 ... skipped 'prody command not found' testGNMCommand (prody.tests.apps.test_prody_gnm.TestGNMCommand.testGNMCommand) ... skipped 'prody command not found' testPCACommandDCD (prody.tests.apps.test_prody_pca.TestPCACommand.testPCACommandDCD) ... skipped 'prody command not found' testPCACommandPDB (prody.tests.apps.test_prody_pca.TestPCACommand.testPCACommandPDB) ... skipped 'prody command not found' testAtomGroup (prody.tests.atomic.test_atomic.TestAtomIterations.testAtomGroup) ... ok testAtomMap (prody.tests.atomic.test_atomic.TestAtomIterations.testAtomMap) ... ok testChain (prody.tests.atomic.test_atomic.TestAtomIterations.testChain) ... ok testResidue (prody.tests.atomic.test_atomic.TestAtomIterations.testResidue) ... ok testSelection (prody.tests.atomic.test_atomic.TestAtomIterations.testSelection) ... ok testAtom (prody.tests.atomic.test_atomic.TestPickling.testAtom) ... ok testAtomGroup (prody.tests.atomic.test_atomic.TestPickling.testAtomGroup) ... ok testSelection (prody.tests.atomic.test_atomic.TestPickling.testSelection) ... ok testSaveLoad (prody.tests.atomic.test_atomic.TestSaveLoad.testSaveLoad) ... ok testInstantiation (prody.tests.atomic.test_atommap.TestInstantiation.testInstantiation) ... ok testAllSelection (prody.tests.atomic.test_atommap.TestSelection.testAllSelection) ... ok testChainSelection (prody.tests.atomic.test_atommap.TestSelection.testChainSelection) ... ok testGetBoolArray (prody.tests.atomic.test_atommap.TestSelection.testGetBoolArray) ... ok testNameSelection (prody.tests.atomic.test_atommap.TestSelection.testNameSelection) ... ok testSplit (prody.tests.atomic.test_fragment.TestFragment.testSplit) ... ok testSplitCopy (prody.tests.atomic.test_fragment.TestFragment.testSplitCopy) ... ok testSplitNoh (prody.tests.atomic.test_fragment.TestFragment.testSplitNoh) ... ok testSplitNohCopy (prody.tests.atomic.test_fragment.TestFragment.testSplitNohCopy) ... ok testWhole (prody.tests.atomic.test_fragment.TestFragment.testWhole) ... ok testWhole2 (prody.tests.atomic.test_fragment.TestFragment.testWhole2) ... ok testWholeAll (prody.tests.atomic.test_fragment.TestFragment.testWholeAll) ... ok testWholeCopy (prody.tests.atomic.test_fragment.TestFragment.testWholeCopy) ... ok testWholeNoh (prody.tests.atomic.test_fragment.TestFragment.testWholeNoh) ... ok testWholeNohCopy (prody.tests.atomic.test_fragment.TestFragment.testWholeNohCopy) ... ok testCA (prody.tests.atomic.test_hierview.TestShuffled.testCA) ... ok testProtein (prody.tests.atomic.test_hierview.TestShuffled.testProtein) ... ok testNumResidues (prody.tests.atomic.test_hierview.TestTerRecord.testNumResidues) ... ok testResidueIndexing (prody.tests.atomic.test_hierview.TestTerRecord.testResidueIndexing) ... ok testSelectionResidueIndexing (prody.tests.atomic.test_hierview.TestTerRecord.testSelectionResidueIndexing) ... ok testSelectionResidueIndexing2 (prody.tests.atomic.test_hierview.TestTerRecord.testSelectionResidueIndexing2) ... ok testMacro1 (prody.tests.atomic.test_select.TestMacros.testMacro1) Test macro *cacb*: 'name CA CB' ... ok testMacro2 (prody.tests.atomic.test_select.TestMacros.testMacro2) Test macro *donors*: '(protein) and (name N NE NH2 ND2 NE2 ND1 OG OH NH1 SG OG1 NE2 NZ NE1 ND1 NE2)' ... ok testMacroFunctions (prody.tests.atomic.test_select.TestMacros.testMacroFunctions) ... ok testBondedtoSelection1 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection1) Test bondedto selections 'bonded to index 0' for imatinib ... ok testBondedtoSelection10 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection10) Test bondedto selections "bonded 2 to index 0" ... ok testBondedtoSelection11 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection11) Test bondedto selections 'bonded 0 to index 0' for imatinib ... ok testBondedtoSelection12 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection12) Test bondedto selections "bonded 0 to index 0" ... ok testBondedtoSelection13 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection13) Test bondedto selections 'bonded 3 to index 0' for imatinib ... ok testBondedtoSelection14 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection14) Test bondedto selections "bonded 3 to index 0" ... ok testBondedtoSelection15 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection15) Test bondedto selections 'bonded 4 to index 0' for imatinib ... ok testBondedtoSelection16 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection16) Test bondedto selections "bonded 4 to index 0" ... ok testBondedtoSelection17 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection17) Test bondedto selections 'bonded 4 to index 0' for imatinib ... ok testBondedtoSelection18 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection18) Test bondedto selections "bonded 4 to index 0" ... ok testBondedtoSelection19 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection19) Test bondedto selections 'bonded 4 to index 0' for imatinib ... ok testBondedtoSelection2 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection2) Test bondedto selections "bonded to index 0" ... ok testBondedtoSelection20 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection20) Test bondedto selections "bonded 4 to index 0" ... ok testBondedtoSelection21 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection21) Test bondedto selections 'exbonded 1 to index 0' for imatinib ... ok testBondedtoSelection22 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection22) Test bondedto selections "exbonded 1 to index 0" ... ok testBondedtoSelection23 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection23) Test bondedto selections 'exbonded 2 to index 0' for imatinib ... ok testBondedtoSelection24 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection24) Test bondedto selections "exbonded 2 to index 0" ... ok testBondedtoSelection25 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection25) Test bondedto selections 'exbonded 3 to index 0' for imatinib ... ok testBondedtoSelection26 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection26) Test bondedto selections "exbonded 3 to index 0" ... ok testBondedtoSelection27 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection27) Test bondedto selections 'bonded 20 to index 0' for imatinib ... ok testBondedtoSelection28 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection28) Test bondedto selections "bonded 20 to index 0" ... ok testBondedtoSelection29 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection29) Test bondedto selections 'bonded 20 to index 10' for imatinib ... ok testBondedtoSelection3 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection3) Test bondedto selections 'exbonded to index 0' for imatinib ... ok testBondedtoSelection30 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection30) Test bondedto selections "bonded 20 to index 10" ... ok testBondedtoSelection31 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection31) Test bondedto selections 'bonded to index 1000' for imatinib ... ok testBondedtoSelection32 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection32) Test bondedto selections "bonded to index 1000" ... ok testBondedtoSelection33 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection33) Test bondedto selections 'fragment 0' for imatinib ... ok testBondedtoSelection34 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection34) Test bondedto selections "fragment 0" ... ok testBondedtoSelection35 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection35) Test bondedto selections 'fragment 1' for imatinib ... ok testBondedtoSelection36 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection36) Test bondedto selections "fragment 1" ... ok testBondedtoSelection37 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection37) Test bondedto selections 'fragment 0 1 2' for imatinib ... ok testBondedtoSelection38 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection38) Test bondedto selections "fragment 0 1 2" ... ok testBondedtoSelection39 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection39) Test bondedto selections 'fragindex 0 1 2' for imatinib ... ok testBondedtoSelection4 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection4) Test bondedto selections "exbonded to index 0" ... ok testBondedtoSelection40 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection40) Test bondedto selections "fragindex 0 1 2" ... ok testBondedtoSelection41 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection41) Test bondedto selections 'fragindex 0:2' for imatinib ... ok testBondedtoSelection42 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection42) Test bondedto selections "fragindex 0:2" ... ok testBondedtoSelection5 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection5) Test bondedto selections 'bonded to index 67' for imatinib ... ok testBondedtoSelection6 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection6) Test bondedto selections "bonded to index 67" ... ok testBondedtoSelection7 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection7) Test bondedto selections 'exbonded to index 67' for imatinib ... ok testBondedtoSelection8 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection8) Test bondedto selections "exbonded to index 67" ... ok testBondedtoSelection9 (prody.tests.atomic.test_select.TestSelect.testBondedtoSelection9) Test bondedto selections 'bonded 2 to index 0' for imatinib ... ok testComparisonsSelection1 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection1) Test comparisons selections 'x = -51.659' for pdb3mht ... ok testComparisonsSelection10 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection10) Test comparisons selections "beta > 10" ... ok testComparisonsSelection11 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection11) Test comparisons selections 'beta < 10' for pdb3mht ... ok testComparisonsSelection12 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection12) Test comparisons selections "beta < 10" ... ok testComparisonsSelection13 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection13) Test comparisons selections 'occupancy > 0.999999' for pdb3mht ... ok testComparisonsSelection14 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection14) Test comparisons selections "occupancy > 0.999999" ... ok testComparisonsSelection15 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection15) Test comparisons selections '-10 <= x < 0' for pdb3mht ... ok testComparisonsSelection16 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection16) Test comparisons selections "-10 <= x < 0" ... ok testComparisonsSelection17 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection17) Test comparisons selections '11 > 10' for pdb3mht ... ok testComparisonsSelection18 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection18) Test comparisons selections "11 > 10" ... ok testComparisonsSelection19 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection19) Test comparisons selections 'radius > 10' for pdb3mht ... ok testComparisonsSelection2 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection2) Test comparisons selections "x = -51.659" ... ok testComparisonsSelection20 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection20) Test comparisons selections "radius > 10" ... ok testComparisonsSelection21 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection21) Test comparisons selections 'chain = A' for pdb3mht ... ok testComparisonsSelection22 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection22) Test comparisons selections "chain = A" ... ok testComparisonsSelection23 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection23) Test comparisons selections 'x x < 1' for pdb3mht ... ok testComparisonsSelection24 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection24) Test comparisons selections "x x < 1" ... ok testComparisonsSelection25 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection25) Test comparisons selections 'name < 1' for pdb3mht ... ok testComparisonsSelection26 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection26) Test comparisons selections "name < 1" ... ok testComparisonsSelection3 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection3) Test comparisons selections 'x != -51.659' for pdb3mht ... ok testComparisonsSelection4 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection4) Test comparisons selections "x != -51.659" ... ok testComparisonsSelection5 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection5) Test comparisons selections 'z >= 82.813' for pdb3mht ... ok testComparisonsSelection6 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection6) Test comparisons selections "z >= 82.813" ... ok testComparisonsSelection7 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection7) Test comparisons selections 'z < 82.813' for pdb3mht ... ok testComparisonsSelection8 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection8) Test comparisons selections "z < 82.813" ... ok testComparisonsSelection9 (prody.tests.atomic.test_select.TestSelect.testComparisonsSelection9) Test comparisons selections 'beta > 10' for pdb3mht ... ok testCompositeSelection1 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection1) Test composite selections 'chain x y z C and x 10' for pdb3mht ... ok testCompositeSelection10 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection10) Test composite selections "water and within 5 of not protein" ... ok testCompositeSelection11 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection11) Test composite selections 'backbone and sqrt((x - 25)**2 + (y - 74)**2 + (z - 13)**2) <= 500' for pdb3mht ... ok testCompositeSelection12 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection12) Test composite selections "backbone and sqrt((x - 25)**2 + (y - 74)**2 + (z - 13)**2) <= 500" ... ok testCompositeSelection13 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection13) Test composite selections '(not resname SAH) and (protein and name CA) or (nucleic and name P)' for pdb3mht ... ok testCompositeSelection14 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection14) Test composite selections "(not resname SAH) and (protein and name CA) or (nucleic and name P)" ... ok testCompositeSelection15 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection15) Test composite selections 'protein and (backbone or name H)' for pdb3mht ... ok testCompositeSelection16 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection16) Test composite selections "protein and (backbone or name H)" ... ok testCompositeSelection17 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection17) Test composite selections 'same residue as within 4 of and resname SAH' for pdb3mht ... ok testCompositeSelection18 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection18) Test composite selections "same residue as within 4 of and resname SAH" ... ok testCompositeSelection19 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection19) Test composite selections 'protein and name CA CB and same residue as ((x+21.2)**2 + (y-35.9)**2 + (z-80.0)**2)**0.5 < 10' for pdb3mht ... ok testCompositeSelection2 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection2) Test composite selections "chain x y z C and x 10" ... ok testCompositeSelection20 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection20) Test composite selections "protein and name CA CB and same residue as ((x+21.2)**2 + (y-35.9)**2 + (z-80.0)**2)**0.5 < 10" ... ok testCompositeSelection3 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection3) Test composite selections 'resnum `1` `2`' for pdb3mht ... ok testCompositeSelection4 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection4) Test composite selections "resnum `1` `2`" ... ok testCompositeSelection5 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection5) Test composite selections 'same residue as within 4 of resname SAH' for pdb3mht ... ok testCompositeSelection6 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection6) Test composite selections "same residue as within 4 of resname SAH" ... ok testCompositeSelection7 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection7) Test composite selections 'name CA and same residue as within 4 of resname SAH' for pdb3mht ... ok testCompositeSelection8 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection8) Test composite selections "name CA and same residue as within 4 of resname SAH" ... ok testCompositeSelection9 (prody.tests.atomic.test_select.TestSelect.testCompositeSelection9) Test composite selections 'water and within 5 of not protein' for pdb3mht ... ok testDocexamplesSelection1 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection1) Test docexamples selections 'serial 1 2 3' for pdb3mht ... ok testDocexamplesSelection10 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection10) Test docexamples selections "beta 555.55" ... ok testDocexamplesSelection11 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection11) Test docexamples selections 'beta 1 to 500' for pdb3mht ... ok testDocexamplesSelection12 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection12) Test docexamples selections "beta 1 to 500" ... ok testDocexamplesSelection13 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection13) Test docexamples selections 'beta 1:500' for pdb3mht ... ok testDocexamplesSelection14 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection14) Test docexamples selections "beta 1:500" ... ok testDocexamplesSelection15 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection15) Test docexamples selections 'beta < 500' for pdb3mht ... ok testDocexamplesSelection16 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection16) Test docexamples selections "beta < 500" ... ok testDocexamplesSelection17 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection17) Test docexamples selections 'resnum 120A 120B' for pdb3mht ... ok testDocexamplesSelection18 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection18) Test docexamples selections "resnum 120A 120B" ... ok testDocexamplesSelection19 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection19) Test docexamples selections 'icode A' for pdb3mht ... ok testDocexamplesSelection2 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection2) Test docexamples selections "serial 1 2 3" ... ok testDocexamplesSelection20 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection20) Test docexamples selections "icode A" ... ok testDocexamplesSelection21 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection21) Test docexamples selections 'icode _' for pdb3mht ... ok testDocexamplesSelection22 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection22) Test docexamples selections "icode _" ... ok testDocexamplesSelection23 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection23) Test docexamples selections 'charge 1' for pdb3mht ... ok testDocexamplesSelection24 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection24) Test docexamples selections "charge 1" ... ok testDocexamplesSelection25 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection25) Test docexamples selections 'abs(charge) == 1' for pdb3mht ... ok testDocexamplesSelection26 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection26) Test docexamples selections "abs(charge) == 1" ... ok testDocexamplesSelection27 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection27) Test docexamples selections 'charge < 0' for pdb3mht ... ok testDocexamplesSelection28 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection28) Test docexamples selections "charge < 0" ... ok testDocexamplesSelection29 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection29) Test docexamples selections '0 < mass < 500' for pdb3mht ... ok testDocexamplesSelection3 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection3) Test docexamples selections 'serial 1 to 10' for pdb3mht ... ok testDocexamplesSelection30 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection30) Test docexamples selections "0 < mass < 500" ... ok testDocexamplesSelection31 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection31) Test docexamples selections 'abs(mass) <= mass <= 10' for pdb3mht ... ok testDocexamplesSelection32 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection32) Test docexamples selections "abs(mass) <= mass <= 10" ... ok testDocexamplesSelection4 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection4) Test docexamples selections "serial 1 to 10" ... ok testDocexamplesSelection5 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection5) Test docexamples selections 'serial 1:10:2' for pdb3mht ... ok testDocexamplesSelection6 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection6) Test docexamples selections "serial 1:10:2" ... ok testDocexamplesSelection7 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection7) Test docexamples selections 'serial < 10' for pdb3mht ... ok testDocexamplesSelection8 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection8) Test docexamples selections "serial < 10" ... ok testDocexamplesSelection9 (prody.tests.atomic.test_select.TestSelect.testDocexamplesSelection9) Test docexamples selections 'beta 555.55' for pdb3mht ... ok testEquivalentSelection1 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection1) Test equivalent selections 'chain C' for pdb3mht ... ok testEquivalentSelection2 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection2) Test equivalent selections "chain C" ... ok testEquivalentSelection3 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection3) Test equivalent selections 'chain C' for pdb3mht ... ok testEquivalentSelection4 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection4) Test equivalent selections "chain C" ... ok testEquivalentSelection5 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection5) Test equivalent selections 'nucleic' for pdb3mht ... ok testEquivalentSelection6 (prody.tests.atomic.test_select.TestSelect.testEquivalentSelection6) Test equivalent selections "nucleic" ... ok testFlagsSelection1 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection1) Test flags selections 'none' for pdb3mht ... ok testFlagsSelection10 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection10) Test flags selections "aliphatic" ... ok testFlagsSelection100 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection100) Test flags selections "bridge" ... ok testFlagsSelection101 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection101) Test flags selections 'bend' for pdb3mht ... ok testFlagsSelection102 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection102) Test flags selections "bend" ... ok testFlagsSelection103 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection103) Test flags selections 'coil' for pdb3mht ... ok testFlagsSelection104 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection104) Test flags selections "coil" ... ok testFlagsSelection11 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection11) Test flags selections 'aromatic' for pdb3mht ... ok testFlagsSelection12 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection12) Test flags selections "aromatic" ... ok testFlagsSelection13 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection13) Test flags selections 'at' for pdb3mht ... ok testFlagsSelection14 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection14) Test flags selections "at" ... ok testFlagsSelection15 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection15) Test flags selections 'basic' for pdb3mht ... ok testFlagsSelection16 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection16) Test flags selections "basic" ... ok testFlagsSelection17 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection17) Test flags selections 'buried' for pdb3mht ... ok testFlagsSelection18 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection18) Test flags selections "buried" ... ok testFlagsSelection19 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection19) Test flags selections 'cg' for pdb3mht ... ok testFlagsSelection2 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection2) Test flags selections "none" ... ok testFlagsSelection20 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection20) Test flags selections "cg" ... ok testFlagsSelection21 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection21) Test flags selections 'charged' for pdb3mht ... ok testFlagsSelection22 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection22) Test flags selections "charged" ... ok testFlagsSelection23 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection23) Test flags selections 'cyclic' for pdb3mht ... ok testFlagsSelection24 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection24) Test flags selections "cyclic" ... ok testFlagsSelection25 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection25) Test flags selections 'heme' for pdb3mht ... ok testFlagsSelection26 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection26) Test flags selections "heme" ... ok testFlagsSelection27 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection27) Test flags selections 'hydrophobic' for pdb3mht ... ok testFlagsSelection28 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection28) Test flags selections "hydrophobic" ... ok testFlagsSelection29 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection29) Test flags selections 'ion' for pdb3mht ... ok testFlagsSelection3 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection3) Test flags selections 'all' for pdb3mht ... ok testFlagsSelection30 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection30) Test flags selections "ion" ... ok testFlagsSelection31 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection31) Test flags selections 'large' for pdb3mht ... ok testFlagsSelection32 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection32) Test flags selections "large" ... ok testFlagsSelection33 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection33) Test flags selections 'lipid' for pdb3mht ... ok testFlagsSelection34 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection34) Test flags selections "lipid" ... ok testFlagsSelection35 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection35) Test flags selections 'medium' for pdb3mht ... ok testFlagsSelection36 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection36) Test flags selections "medium" ... ok testFlagsSelection37 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection37) Test flags selections 'neutral' for pdb3mht ... ok testFlagsSelection38 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection38) Test flags selections "neutral" ... ok testFlagsSelection39 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection39) Test flags selections 'nucleic' for pdb3mht ... ok testFlagsSelection4 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection4) Test flags selections "all" ... ok testFlagsSelection40 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection40) Test flags selections "nucleic" ... ok testFlagsSelection41 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection41) Test flags selections 'nucleotide' for pdb3mht ... ok testFlagsSelection42 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection42) Test flags selections "nucleotide" ... ok testFlagsSelection43 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection43) Test flags selections 'nucleobase' for pdb3mht ... ok testFlagsSelection44 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection44) Test flags selections "nucleobase" ... ok testFlagsSelection45 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection45) Test flags selections 'nucleoside' for pdb3mht ... ok testFlagsSelection46 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection46) Test flags selections "nucleoside" ... ok testFlagsSelection47 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection47) Test flags selections 'polar' for pdb3mht ... ok testFlagsSelection48 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection48) Test flags selections "polar" ... ok testFlagsSelection49 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection49) Test flags selections 'protein' for pdb3mht ... ok testFlagsSelection5 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection5) Test flags selections 'acidic' for pdb3mht ... ok testFlagsSelection50 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection50) Test flags selections "protein" ... ok testFlagsSelection51 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection51) Test flags selections 'stdaa' for pdb3mht ... ok testFlagsSelection52 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection52) Test flags selections "stdaa" ... ok testFlagsSelection53 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection53) Test flags selections 'nonstdaa' for pdb3mht ... ok testFlagsSelection54 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection54) Test flags selections "nonstdaa" ... ok testFlagsSelection55 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection55) Test flags selections 'purine' for pdb3mht ... ok testFlagsSelection56 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection56) Test flags selections "purine" ... ok testFlagsSelection57 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection57) Test flags selections 'pyrimidine' for pdb3mht ... ok testFlagsSelection58 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection58) Test flags selections "pyrimidine" ... ok testFlagsSelection59 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection59) Test flags selections 'small' for pdb3mht ... ok testFlagsSelection6 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection6) Test flags selections "acidic" ... ok testFlagsSelection60 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection60) Test flags selections "small" ... ok testFlagsSelection61 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection61) Test flags selections 'sugar' for pdb3mht ... ok testFlagsSelection62 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection62) Test flags selections "sugar" ... ok testFlagsSelection63 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection63) Test flags selections 'surface' for pdb3mht ... ok testFlagsSelection64 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection64) Test flags selections "surface" ... ok testFlagsSelection65 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection65) Test flags selections 'water' for pdb3mht ... ok testFlagsSelection66 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection66) Test flags selections "water" ... ok testFlagsSelection67 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection67) Test flags selections 'hetero' for pdb3mht ... ok testFlagsSelection68 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection68) Test flags selections "hetero" ... ok testFlagsSelection69 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection69) Test flags selections 'hetatm' for pdb3mht ... ok testFlagsSelection7 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection7) Test flags selections 'acyclic' for pdb3mht ... ok testFlagsSelection70 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection70) Test flags selections "hetatm" ... ok testFlagsSelection71 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection71) Test flags selections 'calpha' for pdb3mht ... ok testFlagsSelection72 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection72) Test flags selections "calpha" ... ok testFlagsSelection73 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection73) Test flags selections 'backbone' for pdb3mht ... ok testFlagsSelection74 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection74) Test flags selections "backbone" ... ok testFlagsSelection75 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection75) Test flags selections 'backbonefull' for pdb3mht ... ok testFlagsSelection76 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection76) Test flags selections "backbonefull" ... ok testFlagsSelection77 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection77) Test flags selections 'sidechain' for pdb3mht ... ok testFlagsSelection78 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection78) Test flags selections "sidechain" ... ok testFlagsSelection79 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection79) Test flags selections 'carbon' for pdb3mht ... ok testFlagsSelection8 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection8) Test flags selections "acyclic" ... ok testFlagsSelection80 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection80) Test flags selections "carbon" ... ok testFlagsSelection81 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection81) Test flags selections 'hydrogen' for pdb3mht ... ok testFlagsSelection82 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection82) Test flags selections "hydrogen" ... ok testFlagsSelection83 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection83) Test flags selections 'noh' for pdb3mht ... ok testFlagsSelection84 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection84) Test flags selections "noh" ... ok testFlagsSelection85 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection85) Test flags selections 'nitrogen' for pdb3mht ... ok testFlagsSelection86 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection86) Test flags selections "nitrogen" ... ok testFlagsSelection87 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection87) Test flags selections 'oxygen' for pdb3mht ... ok testFlagsSelection88 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection88) Test flags selections "oxygen" ... ok testFlagsSelection89 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection89) Test flags selections 'sulfur' for pdb3mht ... ok testFlagsSelection9 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection9) Test flags selections 'aliphatic' for pdb3mht ... ok testFlagsSelection90 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection90) Test flags selections "sulfur" ... ok testFlagsSelection91 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection91) Test flags selections 'extended' for pdb3mht ... ok testFlagsSelection92 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection92) Test flags selections "extended" ... ok testFlagsSelection93 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection93) Test flags selections 'helix' for pdb3mht ... ok testFlagsSelection94 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection94) Test flags selections "helix" ... ok testFlagsSelection95 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection95) Test flags selections 'helix310' for pdb3mht ... ok testFlagsSelection96 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection96) Test flags selections "helix310" ... ok testFlagsSelection97 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection97) Test flags selections 'turn' for pdb3mht ... ok testFlagsSelection98 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection98) Test flags selections "turn" ... ok testFlagsSelection99 (prody.tests.atomic.test_select.TestSelect.testFlagsSelection99) Test flags selections 'bridge' for pdb3mht ... ok testFloatSelection1 (prody.tests.atomic.test_select.TestSelect.testFloatSelection1) Test float selections 'beta 5.0 41.15 11.85' for pdb3mht ... ok testFloatSelection10 (prody.tests.atomic.test_select.TestSelect.testFloatSelection10) Test float selections "z 115.246 45.784" ... ok testFloatSelection11 (prody.tests.atomic.test_select.TestSelect.testFloatSelection11) Test float selections 'charge 0' for pdb3mht ... ok testFloatSelection12 (prody.tests.atomic.test_select.TestSelect.testFloatSelection12) Test float selections "charge 0" ... ok testFloatSelection13 (prody.tests.atomic.test_select.TestSelect.testFloatSelection13) Test float selections 'mass 1' for pdb3mht ... ok testFloatSelection14 (prody.tests.atomic.test_select.TestSelect.testFloatSelection14) Test float selections "mass 1" ... ok testFloatSelection15 (prody.tests.atomic.test_select.TestSelect.testFloatSelection15) Test float selections 'radius 0' for pdb3mht ... ok testFloatSelection16 (prody.tests.atomic.test_select.TestSelect.testFloatSelection16) Test float selections "radius 0" ... ok testFloatSelection17 (prody.tests.atomic.test_select.TestSelect.testFloatSelection17) Test float selections 'beta "1."' for pdb3mht ... ok testFloatSelection18 (prody.tests.atomic.test_select.TestSelect.testFloatSelection18) Test float selections "beta "1."" ... ok testFloatSelection19 (prody.tests.atomic.test_select.TestSelect.testFloatSelection19) Test float selections 'beta = "1."' for pdb3mht ... ok testFloatSelection2 (prody.tests.atomic.test_select.TestSelect.testFloatSelection2) Test float selections "beta 5.0 41.15 11.85" ... ok testFloatSelection20 (prody.tests.atomic.test_select.TestSelect.testFloatSelection20) Test float selections "beta = "1."" ... ok testFloatSelection3 (prody.tests.atomic.test_select.TestSelect.testFloatSelection3) Test float selections 'occupancy 1.0' for pdb3mht ... ok testFloatSelection4 (prody.tests.atomic.test_select.TestSelect.testFloatSelection4) Test float selections "occupancy 1.0" ... ok testFloatSelection5 (prody.tests.atomic.test_select.TestSelect.testFloatSelection5) Test float selections 'x 6.665' for pdb3mht ... ok testFloatSelection6 (prody.tests.atomic.test_select.TestSelect.testFloatSelection6) Test float selections "x 6.665" ... ok testFloatSelection7 (prody.tests.atomic.test_select.TestSelect.testFloatSelection7) Test float selections 'y 69.99 13.314' for pdb3mht ... ok testFloatSelection8 (prody.tests.atomic.test_select.TestSelect.testFloatSelection8) Test float selections "y 69.99 13.314" ... ok testFloatSelection9 (prody.tests.atomic.test_select.TestSelect.testFloatSelection9) Test float selections 'z 115.246 45.784' for pdb3mht ... ok testFunctionSelection1 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection1) Test function selections 'sqrt(x**2 + y**2 + z**2) < 100' for pdb3mht ... ok testFunctionSelection10 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection10) Test function selections "ceil(beta) == 10" ... ok testFunctionSelection11 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection11) Test function selections 'floor(beta) == 10' for pdb3mht ... ok testFunctionSelection12 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection12) Test function selections "floor(beta) == 10" ... ok testFunctionSelection13 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection13) Test function selections 'abs(x) == sqrt(sq(x))' for pdb3mht ... ok testFunctionSelection14 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection14) Test function selections "abs(x) == sqrt(sq(x))" ... ok testFunctionSelection15 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection15) Test function selections 'sq(x-5)+sq(y+4)+sq(z) > sq(100)' for pdb3mht ... ok testFunctionSelection16 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection16) Test function selections "sq(x-5)+sq(y+4)+sq(z) > sq(100)" ... ok testFunctionSelection17 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection17) Test function selections '1 > sq(occ)' for pdb3mht ... ok testFunctionSelection18 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection18) Test function selections "1 > sq(occ)" ... ok testFunctionSelection19 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection19) Test function selections 'sq(x x) > 1' for pdb3mht ... ok testFunctionSelection2 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection2) Test function selections "sqrt(x**2 + y**2 + z**2) < 100" ... ok testFunctionSelection20 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection20) Test function selections "sq(x x) > 1" ... ok testFunctionSelection3 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection3) Test function selections 'sqrt(x**2 + y**2 + z**2) == (x**2 + y**2 + z**2) ** 0.5' for pdb3mht ... ok testFunctionSelection4 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection4) Test function selections "sqrt(x**2 + y**2 + z**2) == (x**2 + y**2 + z**2) ** 0.5" ... ok testFunctionSelection5 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection5) Test function selections 'beta % 3 < 1' for pdb3mht ... ok testFunctionSelection6 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection6) Test function selections "beta % 3 < 1" ... ok testFunctionSelection7 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection7) Test function selections 'beta % 4 % 3 < 1' for pdb3mht ... ok testFunctionSelection8 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection8) Test function selections "beta % 4 % 3 < 1" ... ok testFunctionSelection9 (prody.tests.atomic.test_select.TestSelect.testFunctionSelection9) Test function selections 'ceil(beta) == 10' for pdb3mht ... ok testIntegerSelection1 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection1) Test integer selections 'index 10 20 10000' for pdb3mht ... ok testIntegerSelection10 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection10) Test integer selections "resnum 100 105" ... ok testIntegerSelection11 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection11) Test integer selections 'resid 0' for pdb3mht ... ok testIntegerSelection12 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection12) Test integer selections "resid 0" ... ok testIntegerSelection13 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection13) Test integer selections 'resid 100 105' for pdb3mht ... ok testIntegerSelection14 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection14) Test integer selections "resid 100 105" ... ok testIntegerSelection15 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection15) Test integer selections 'resid 100 A 105' for pdb3mht ... ok testIntegerSelection16 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection16) Test integer selections "resid 100 A 105" ... ok testIntegerSelection17 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection17) Test integer selections 'fragindex 0' for pdb3mht ... ok testIntegerSelection18 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection18) Test integer selections "fragindex 0" ... ok testIntegerSelection19 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection19) Test integer selections 'fragment 0' for pdb3mht ... ok testIntegerSelection2 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection2) Test integer selections "index 10 20 10000" ... ok testIntegerSelection20 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection20) Test integer selections "fragment 0" ... ok testIntegerSelection3 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection3) Test integer selections 'serial 0' for pdb3mht ... ok testIntegerSelection4 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection4) Test integer selections "serial 0" ... ok testIntegerSelection5 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection5) Test integer selections 'serial 1 2' for pdb3mht ... ok testIntegerSelection6 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection6) Test integer selections "serial 1 2" ... ok testIntegerSelection7 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection7) Test integer selections 'resnum 0' for pdb3mht ... ok testIntegerSelection8 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection8) Test integer selections "resnum 0" ... ok testIntegerSelection9 (prody.tests.atomic.test_select.TestSelect.testIntegerSelection9) Test integer selections 'resnum 100 105' for pdb3mht ... ok testInvalidSelection1 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection1) Test invalid selections 'chain C and and chain C' for pdb3mht ... ok testInvalidSelection10 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection10) Test invalid selections "sqr(x-5)+sqr(y+4)+sqr(z) > sqr(100)" ... ok testInvalidSelection11 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection11) Test invalid selections 'x > sq(calpha)' for pdb3mht ... ok testInvalidSelection12 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection12) Test invalid selections "x > sq(calpha)" ... ok testInvalidSelection13 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection13) Test invalid selections 'x > sq(name CA and resname ALA)' for pdb3mht ... ok testInvalidSelection14 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection14) Test invalid selections "x > sq(name CA and resname ALA)" ... ok testInvalidSelection15 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection15) Test invalid selections 'resname ALA and +1' for pdb3mht ... ok testInvalidSelection16 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection16) Test invalid selections "resname ALA and +1" ... ok testInvalidSelection2 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection2) Test invalid selections "chain C and and chain C" ... ok testInvalidSelection3 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection3) Test invalid selections 'chain C or or chain D' for pdb3mht ... ok testInvalidSelection4 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection4) Test invalid selections "chain C or or chain D" ... ok testInvalidSelection5 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection5) Test invalid selections 'chain C or not or chain D' for pdb3mht ... ok testInvalidSelection6 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection6) Test invalid selections "chain C or not or chain D" ... ok testInvalidSelection7 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection7) Test invalid selections 'chain C + 3' for pdb3mht ... ok testInvalidSelection8 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection8) Test invalid selections "chain C + 3" ... ok testInvalidSelection9 (prody.tests.atomic.test_select.TestSelect.testInvalidSelection9) Test invalid selections 'sqr(x-5)+sqr(y+4)+sqr(z) > sqr(100)' for pdb3mht ... ok testKwargsSelection1 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection1) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection10 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection10) Test kwargs selections "within 100 of none" ... ok testKwargsSelection2 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection2) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection3 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection3) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection4 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection4) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection5 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection5) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection6 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection6) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection7 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection7) Test kwargs selections 'within 100 of origin' for pdb3mht ... ok testKwargsSelection8 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection8) Test kwargs selections "within 100 of origin" ... ok testKwargsSelection9 (prody.tests.atomic.test_select.TestSelect.testKwargsSelection9) Test kwargs selections 'within 100 of none' for pdb3mht ... ok testLogicalSelection1 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection1) Test logical selections 'name or name' for pdb3mht ... ok testLogicalSelection10 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection10) Test logical selections "index 0 or index 1 " ... ok testLogicalSelection11 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection11) Test logical selections 'not not not not index 1' for pdb3mht ... ok testLogicalSelection12 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection12) Test logical selections "not not not not index 1" ... ok testLogicalSelection13 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection13) Test logical selections 'index 0 or index 1 or index 2' for pdb3mht ... ok testLogicalSelection14 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection14) Test logical selections "index 0 or index 1 or index 2" ... ok testLogicalSelection15 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection15) Test logical selections 'index 0 or index 1 or index 2 or index 4' for pdb3mht ... ok testLogicalSelection16 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection16) Test logical selections "index 0 or index 1 or index 2 or index 4" ... ok testLogicalSelection17 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection17) Test logical selections 'index 0 and index 1 ' for pdb3mht ... ok testLogicalSelection18 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection18) Test logical selections "index 0 and index 1 " ... ok testLogicalSelection19 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection19) Test logical selections 'index < 50 and index < 5' for pdb3mht ... ok testLogicalSelection2 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection2) Test logical selections "name or name" ... ok testLogicalSelection20 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection20) Test logical selections "index < 50 and index < 5" ... ok testLogicalSelection21 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection21) Test logical selections 'index < 50 and index < 25 and index < 5' for pdb3mht ... ok testLogicalSelection22 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection22) Test logical selections "index < 50 and index < 25 and index < 5" ... ok testLogicalSelection23 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection23) Test logical selections 'index < 5 and index < 25 and index < 50' for pdb3mht ... ok testLogicalSelection24 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection24) Test logical selections "index < 5 and index < 25 and index < 50" ... ok testLogicalSelection25 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection25) Test logical selections 'index 0 to 5 and index 0 to 25 and index 0 to 50' for pdb3mht ... ok testLogicalSelection26 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection26) Test logical selections "index 0 to 5 and index 0 to 25 and index 0 to 50" ... ok testLogicalSelection27 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection27) Test logical selections 'index < 5 and index < 25 and index < 50 or index < 50 or index < 5' for pdb3mht ... ok testLogicalSelection28 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection28) Test logical selections "index < 5 and index < 25 and index < 50 or index < 50 or index < 5" ... ok testLogicalSelection3 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection3) Test logical selections 'name and name' for pdb3mht ... ok testLogicalSelection4 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection4) Test logical selections "name and name" ... ok testLogicalSelection5 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection5) Test logical selections 'name CA and name CA' for pdb3mht ... ok testLogicalSelection6 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection6) Test logical selections "name CA and name CA" ... ok testLogicalSelection7 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection7) Test logical selections 'name CA or name CA' for pdb3mht ... ok testLogicalSelection8 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection8) Test logical selections "name CA or name CA" ... ok testLogicalSelection9 (prody.tests.atomic.test_select.TestSelect.testLogicalSelection9) Test logical selections 'index 0 or index 1 ' for pdb3mht ... ok testOperationSelection1 (prody.tests.atomic.test_select.TestSelect.testOperationSelection1) Test operation selections 'x ** 2 < 10' for pdb3mht ... ok testOperationSelection10 (prody.tests.atomic.test_select.TestSelect.testOperationSelection10) Test operation selections "x**2 + y**2 + z**2 < 10000" ... ok testOperationSelection2 (prody.tests.atomic.test_select.TestSelect.testOperationSelection2) Test operation selections "x ** 2 < 10" ... ok testOperationSelection3 (prody.tests.atomic.test_select.TestSelect.testOperationSelection3) Test operation selections 'x ** 2 ** 2 ** 2 < 10' for pdb3mht ... ok testOperationSelection4 (prody.tests.atomic.test_select.TestSelect.testOperationSelection4) Test operation selections "x ** 2 ** 2 ** 2 < 10" ... ok testOperationSelection5 (prody.tests.atomic.test_select.TestSelect.testOperationSelection5) Test operation selections 'x ** (+2 ** (+2 ** +2)) < 10' for pdb3mht ... ok testOperationSelection6 (prody.tests.atomic.test_select.TestSelect.testOperationSelection6) Test operation selections "x ** (+2 ** (+2 ** +2)) < 10" ... ok testOperationSelection7 (prody.tests.atomic.test_select.TestSelect.testOperationSelection7) Test operation selections 'occupancy % 2 == 1' for pdb3mht ... ok testOperationSelection8 (prody.tests.atomic.test_select.TestSelect.testOperationSelection8) Test operation selections "occupancy % 2 == 1" ... ok testOperationSelection9 (prody.tests.atomic.test_select.TestSelect.testOperationSelection9) Test operation selections 'x**2 + y**2 + z**2 < 10000' for pdb3mht ... ok testRangeSelection1 (prody.tests.atomic.test_select.TestSelect.testRangeSelection1) Test range selections 'index 0:10' for pdb3mht ... ok testRangeSelection10 (prody.tests.atomic.test_select.TestSelect.testRangeSelection10) Test range selections "resnum 10to15" ... ok testRangeSelection11 (prody.tests.atomic.test_select.TestSelect.testRangeSelection11) Test range selections 'resnum 10:16:1' for pdb3mht ... ok testRangeSelection12 (prody.tests.atomic.test_select.TestSelect.testRangeSelection12) Test range selections "resnum 10:16:1" ... ok testRangeSelection13 (prody.tests.atomic.test_select.TestSelect.testRangeSelection13) Test range selections 'resnum `-3:16:1`' for pdb3mht ... ok testRangeSelection14 (prody.tests.atomic.test_select.TestSelect.testRangeSelection14) Test range selections "resnum `-3:16:1`" ... ok testRangeSelection15 (prody.tests.atomic.test_select.TestSelect.testRangeSelection15) Test range selections 'resid 10to15' for pdb3mht ... ok testRangeSelection16 (prody.tests.atomic.test_select.TestSelect.testRangeSelection16) Test range selections "resid 10to15" ... ok testRangeSelection17 (prody.tests.atomic.test_select.TestSelect.testRangeSelection17) Test range selections 'resid 10:16:1' for pdb3mht ... ok testRangeSelection18 (prody.tests.atomic.test_select.TestSelect.testRangeSelection18) Test range selections "resid 10:16:1" ... ok testRangeSelection19 (prody.tests.atomic.test_select.TestSelect.testRangeSelection19) Test range selections 'x `-10:20`' for pdb3mht ... ok testRangeSelection2 (prody.tests.atomic.test_select.TestSelect.testRangeSelection2) Test range selections "index 0:10" ... ok testRangeSelection20 (prody.tests.atomic.test_select.TestSelect.testRangeSelection20) Test range selections "x `-10:20`" ... ok testRangeSelection21 (prody.tests.atomic.test_select.TestSelect.testRangeSelection21) Test range selections 'x 0:20:1' for pdb3mht ... ok testRangeSelection22 (prody.tests.atomic.test_select.TestSelect.testRangeSelection22) Test range selections "x 0:20:1" ... ok testRangeSelection23 (prody.tests.atomic.test_select.TestSelect.testRangeSelection23) Test range selections 'beta 13.02:13.01' for pdb3mht ... ok testRangeSelection24 (prody.tests.atomic.test_select.TestSelect.testRangeSelection24) Test range selections "beta 13.02:13.01" ... ok testRangeSelection3 (prody.tests.atomic.test_select.TestSelect.testRangeSelection3) Test range selections 'index 0to10' for pdb3mht ... ok testRangeSelection4 (prody.tests.atomic.test_select.TestSelect.testRangeSelection4) Test range selections "index 0to10" ... ok testRangeSelection5 (prody.tests.atomic.test_select.TestSelect.testRangeSelection5) Test range selections 'serial 0:10:2' for pdb3mht ... ok testRangeSelection6 (prody.tests.atomic.test_select.TestSelect.testRangeSelection6) Test range selections "serial 0:10:2" ... ok testRangeSelection7 (prody.tests.atomic.test_select.TestSelect.testRangeSelection7) Test range selections 'serial 0:10:10' for pdb3mht ... ok testRangeSelection8 (prody.tests.atomic.test_select.TestSelect.testRangeSelection8) Test range selections "serial 0:10:10" ... ok testRangeSelection9 (prody.tests.atomic.test_select.TestSelect.testRangeSelection9) Test range selections 'resnum 10to15' for pdb3mht ... ok testRegexpSelection1 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection1) Test regexp selections 'resname "S.."' for pdb3mht ... ok testRegexpSelection10 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection10) Test regexp selections "name "C((A|B)"" ... ok testRegexpSelection2 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection2) Test regexp selections "resname "S.."" ... ok testRegexpSelection3 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection3) Test regexp selections 'name "C.*"' for pdb3mht ... ok testRegexpSelection4 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection4) Test regexp selections "name "C.*"" ... ok testRegexpSelection5 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection5) Test regexp selections 'name ".*\'"' for pdb3mht ... ok testRegexpSelection6 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection6) Test regexp selections "name ".*'"" ... ok testRegexpSelection7 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection7) Test regexp selections 'name "C(A|B)"' for pdb3mht ... ok testRegexpSelection8 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection8) Test regexp selections "name "C(A|B)"" ... ok testRegexpSelection9 (prody.tests.atomic.test_select.TestSelect.testRegexpSelection9) Test regexp selections 'name "C((A|B)"' for pdb3mht ... ok testSameasSelection1 (prody.tests.atomic.test_select.TestSelect.testSameasSelection1) Test sameas selections 'same residue as index 0' for pdb3mht ... ok testSameasSelection10 (prody.tests.atomic.test_select.TestSelect.testSameasSelection10) Test sameas selections "same chain as chain C" ... ok testSameasSelection11 (prody.tests.atomic.test_select.TestSelect.testSameasSelection11) Test sameas selections 'same residue as chain X' for pdb3mht ... ok testSameasSelection12 (prody.tests.atomic.test_select.TestSelect.testSameasSelection12) Test sameas selections "same residue as chain X" ... ok testSameasSelection13 (prody.tests.atomic.test_select.TestSelect.testSameasSelection13) Test sameas selections 'same none as chain C' for pdb3mht ... ok testSameasSelection14 (prody.tests.atomic.test_select.TestSelect.testSameasSelection14) Test sameas selections "same none as chain C" ... ok testSameasSelection15 (prody.tests.atomic.test_select.TestSelect.testSameasSelection15) Test sameas selections 'same residue as same residue as same residue as index 0' for pdb3mht ... ok testSameasSelection16 (prody.tests.atomic.test_select.TestSelect.testSameasSelection16) Test sameas selections "same residue as same residue as same residue as index 0" ... ok testSameasSelection2 (prody.tests.atomic.test_select.TestSelect.testSameasSelection2) Test sameas selections "same residue as index 0" ... ok testSameasSelection3 (prody.tests.atomic.test_select.TestSelect.testSameasSelection3) Test sameas selections 'same chain as index 0' for pdb3mht ... ok testSameasSelection4 (prody.tests.atomic.test_select.TestSelect.testSameasSelection4) Test sameas selections "same chain as index 0" ... ok testSameasSelection5 (prody.tests.atomic.test_select.TestSelect.testSameasSelection5) Test sameas selections 'same segment as index 0' for pdb3mht ... ok testSameasSelection6 (prody.tests.atomic.test_select.TestSelect.testSameasSelection6) Test sameas selections "same segment as index 0" ... ok testSameasSelection7 (prody.tests.atomic.test_select.TestSelect.testSameasSelection7) Test sameas selections 'same residue as resname DG ALA' for pdb3mht ... ok testSameasSelection8 (prody.tests.atomic.test_select.TestSelect.testSameasSelection8) Test sameas selections "same residue as resname DG ALA" ... ok testSameasSelection9 (prody.tests.atomic.test_select.TestSelect.testSameasSelection9) Test sameas selections 'same chain as chain C' for pdb3mht ... ok testSequenceSelection1 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection1) Test sequence selections 'sequence al' for pdb3mht ... ok testSequenceSelection10 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection10) Test sequence selections "sequence FKPY" ... ok testSequenceSelection11 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection11) Test sequence selections 'sequence "SS."' for pdb3mht ... ok testSequenceSelection12 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection12) Test sequence selections "sequence "SS."" ... ok testSequenceSelection13 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection13) Test sequence selections 'sequence "S[A-Z]{2}G"' for pdb3mht ... ok testSequenceSelection14 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection14) Test sequence selections "sequence "S[A-Z]{2}G"" ... ok testSequenceSelection15 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection15) Test sequence selections 'sequence "S.S.S"' for pdb3mht ... ok testSequenceSelection16 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection16) Test sequence selections "sequence "S.S.S"" ... ok testSequenceSelection17 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection17) Test sequence selections 'sequence "."' for pdb3mht ... ok testSequenceSelection18 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection18) Test sequence selections "sequence "."" ... ok testSequenceSelection2 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection2) Test sequence selections "sequence al" ... ok testSequenceSelection3 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection3) Test sequence selections 'sequence A' for pdb3mht ... ok testSequenceSelection4 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection4) Test sequence selections "sequence A" ... ok testSequenceSelection5 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection5) Test sequence selections 'sequence MIEIK' for pdb3mht ... ok testSequenceSelection6 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection6) Test sequence selections "sequence MIEIK" ... ok testSequenceSelection7 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection7) Test sequence selections 'sequence VLNAL' for pdb3mht ... ok testSequenceSelection8 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection8) Test sequence selections "sequence VLNAL" ... ok testSequenceSelection9 (prody.tests.atomic.test_select.TestSelect.testSequenceSelection9) Test sequence selections 'sequence FKPY' for pdb3mht ... ok testSpecialcharSelection1 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection1) Test specialchar selections 'altloc ` `' for pdb3mht ... ok testSpecialcharSelection2 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection2) Test specialchar selections "altloc ` `" ... ok testSpecialcharSelection3 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection3) Test specialchar selections 'name A` `CA`' for pdb3mht ... ok testSpecialcharSelection4 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection4) Test specialchar selections "name A` `CA`" ... ok testSpecialcharSelection5 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection5) Test specialchar selections 'name `A``' for pdb3mht ... ok testSpecialcharSelection6 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection6) Test specialchar selections "name `A``" ... ok testSpecialcharSelection7 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection7) Test specialchar selections 'z `+100.291`' for pdb3mht ... ok testSpecialcharSelection8 (prody.tests.atomic.test_select.TestSelect.testSpecialcharSelection8) Test specialchar selections "z `+100.291`" ... ok testStringSelection1 (prody.tests.atomic.test_select.TestSelect.testStringSelection1) Test string selections 'name P' for pdb3mht ... ok testStringSelection10 (prody.tests.atomic.test_select.TestSelect.testStringSelection10) Test string selections "chain x" ... ok testStringSelection11 (prody.tests.atomic.test_select.TestSelect.testStringSelection11) Test string selections 'chain x y' for pdb3mht ... ok testStringSelection12 (prody.tests.atomic.test_select.TestSelect.testStringSelection12) Test string selections "chain x y" ... ok testStringSelection13 (prody.tests.atomic.test_select.TestSelect.testStringSelection13) Test string selections 'chain x y z' for pdb3mht ... ok testStringSelection14 (prody.tests.atomic.test_select.TestSelect.testStringSelection14) Test string selections "chain x y z" ... ok testStringSelection15 (prody.tests.atomic.test_select.TestSelect.testStringSelection15) Test string selections 'chain x y z C' for pdb3mht ... ok testStringSelection16 (prody.tests.atomic.test_select.TestSelect.testStringSelection16) Test string selections "chain x y z C" ... ok testStringSelection17 (prody.tests.atomic.test_select.TestSelect.testStringSelection17) Test string selections 'chain C D' for pdb3mht ... ok testStringSelection18 (prody.tests.atomic.test_select.TestSelect.testStringSelection18) Test string selections "chain C D" ... ok testStringSelection19 (prody.tests.atomic.test_select.TestSelect.testStringSelection19) Test string selections 'chain CD' for pdb3mht ... ok testStringSelection2 (prody.tests.atomic.test_select.TestSelect.testStringSelection2) Test string selections "name P" ... ok testStringSelection20 (prody.tests.atomic.test_select.TestSelect.testStringSelection20) Test string selections "chain CD" ... ok testStringSelection21 (prody.tests.atomic.test_select.TestSelect.testStringSelection21) Test string selections 'resname DG' for pdb3mht ... ok testStringSelection22 (prody.tests.atomic.test_select.TestSelect.testStringSelection22) Test string selections "resname DG" ... ok testStringSelection23 (prody.tests.atomic.test_select.TestSelect.testStringSelection23) Test string selections 'resname DG ALA' for pdb3mht ... ok testStringSelection24 (prody.tests.atomic.test_select.TestSelect.testStringSelection24) Test string selections "resname DG ALA" ... ok testStringSelection25 (prody.tests.atomic.test_select.TestSelect.testStringSelection25) Test string selections 'altloc A' for pdb3mht ... ok testStringSelection26 (prody.tests.atomic.test_select.TestSelect.testStringSelection26) Test string selections "altloc A" ... ok testStringSelection27 (prody.tests.atomic.test_select.TestSelect.testStringSelection27) Test string selections 'altloc _' for pdb3mht ... ok testStringSelection28 (prody.tests.atomic.test_select.TestSelect.testStringSelection28) Test string selections "altloc _" ... ok testStringSelection29 (prody.tests.atomic.test_select.TestSelect.testStringSelection29) Test string selections 'secondary H' for pdb3mht ... ok testStringSelection3 (prody.tests.atomic.test_select.TestSelect.testStringSelection3) Test string selections 'name P CA' for pdb3mht ... ok testStringSelection30 (prody.tests.atomic.test_select.TestSelect.testStringSelection30) Test string selections "secondary H" ... ok testStringSelection31 (prody.tests.atomic.test_select.TestSelect.testStringSelection31) Test string selections 'secondary H E' for pdb3mht ... ok testStringSelection32 (prody.tests.atomic.test_select.TestSelect.testStringSelection32) Test string selections "secondary H E" ... ok testStringSelection33 (prody.tests.atomic.test_select.TestSelect.testStringSelection33) Test string selections 'secondary _' for pdb3mht ... ok testStringSelection34 (prody.tests.atomic.test_select.TestSelect.testStringSelection34) Test string selections "secondary _" ... ok testStringSelection35 (prody.tests.atomic.test_select.TestSelect.testStringSelection35) Test string selections 'segment _' for pdb3mht ... ok testStringSelection36 (prody.tests.atomic.test_select.TestSelect.testStringSelection36) Test string selections "segment _" ... ok testStringSelection4 (prody.tests.atomic.test_select.TestSelect.testStringSelection4) Test string selections "name P CA" ... ok testStringSelection5 (prody.tests.atomic.test_select.TestSelect.testStringSelection5) Test string selections 'name `A 1`' for pdb3mht ... ok testStringSelection6 (prody.tests.atomic.test_select.TestSelect.testStringSelection6) Test string selections "name `A 1`" ... ok testStringSelection7 (prody.tests.atomic.test_select.TestSelect.testStringSelection7) Test string selections 'chain C' for pdb3mht ... ok testStringSelection8 (prody.tests.atomic.test_select.TestSelect.testStringSelection8) Test string selections "chain C" ... ok testStringSelection9 (prody.tests.atomic.test_select.TestSelect.testStringSelection9) Test string selections 'chain x' for pdb3mht ... ok testSynonymsSelection1 (prody.tests.atomic.test_select.TestSelect.testSynonymsSelection1) Test synonyms selections 'chain C' for pdb3mht ... ok testSynonymsSelection2 (prody.tests.atomic.test_select.TestSelect.testSynonymsSelection2) Test synonyms selections "chain C" ... ok testSynonymsSelection3 (prody.tests.atomic.test_select.TestSelect.testSynonymsSelection3) Test synonyms selections 'chain C D' for pdb3mht ... ok testSynonymsSelection4 (prody.tests.atomic.test_select.TestSelect.testSynonymsSelection4) Test synonyms selections "chain C D" ... ok testUnintendedSelection1 (prody.tests.atomic.test_select.TestSelect.testUnintendedSelection1) Test unintended selections 'abs beta = beta' for pdb3mht ... ok testUnintendedSelection2 (prody.tests.atomic.test_select.TestSelect.testUnintendedSelection2) Test unintended selections "abs beta = beta" ... ok testUserdataSelection1 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection1) Test userdata selections 'temp < 10' for pdb3mht ... ok testUserdataSelection10 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection10) Test userdata selections "occ" ... ok testUserdataSelection11 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection11) Test userdata selections 'occ and occupancy == 1' for pdb3mht ... ok testUserdataSelection12 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection12) Test userdata selections "occ and occupancy == 1" ... ok testUserdataSelection13 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection13) Test userdata selections 'occ and occupancy == 1 and oc10 - 9 == 1' for pdb3mht ... ok testUserdataSelection14 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection14) Test userdata selections "occ and occupancy == 1 and oc10 - 9 == 1" ... ok testUserdataSelection15 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection15) Test userdata selections 'occ and occupancy == 1 and temp < 10' for pdb3mht ... ok testUserdataSelection16 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection16) Test userdata selections "occ and occupancy == 1 and temp < 10" ... ok testUserdataSelection17 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection17) Test userdata selections 'occ > 0' for pdb3mht ... ok testUserdataSelection18 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection18) Test userdata selections "occ > 0" ... ok testUserdataSelection2 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection2) Test userdata selections "temp < 10" ... ok testUserdataSelection3 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection3) Test userdata selections 'temp < 10 and chain D' for pdb3mht ... ok testUserdataSelection4 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection4) Test userdata selections "temp < 10 and chain D" ... ok testUserdataSelection5 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection5) Test userdata selections 'oc10 - 9 == 1' for pdb3mht ... ok testUserdataSelection6 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection6) Test userdata selections "oc10 - 9 == 1" ... ok testUserdataSelection7 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection7) Test userdata selections 'temp < 10' for pdb3mht ... ok testUserdataSelection8 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection8) Test userdata selections "temp < 10" ... ok testUserdataSelection9 (prody.tests.atomic.test_select.TestSelect.testUserdataSelection9) Test userdata selections 'occ' for pdb3mht ... ok testWithinSelection1 (prody.tests.atomic.test_select.TestSelect.testWithinSelection1) Test within selections 'within 10 of index 0' for pdb3mht ... ok testWithinSelection10 (prody.tests.atomic.test_select.TestSelect.testWithinSelection10) Test within selections "within 5 of within 5 of within 5 of index 0" ... ok testWithinSelection11 (prody.tests.atomic.test_select.TestSelect.testWithinSelection11) Test within selections 'exwithin 5 of exwithin 5 of exwithin 5 of index 0' for pdb3mht ... ok testWithinSelection12 (prody.tests.atomic.test_select.TestSelect.testWithinSelection12) Test within selections "exwithin 5 of exwithin 5 of exwithin 5 of index 0" ... ok testWithinSelection13 (prody.tests.atomic.test_select.TestSelect.testWithinSelection13) Test within selections 'within 1 of pdb' for pdb3mht ... ok testWithinSelection14 (prody.tests.atomic.test_select.TestSelect.testWithinSelection14) Test within selections "within 1 of pdb" ... ok testWithinSelection15 (prody.tests.atomic.test_select.TestSelect.testWithinSelection15) Test within selections 'exwithin 1 of pdb' for pdb3mht ... ok testWithinSelection16 (prody.tests.atomic.test_select.TestSelect.testWithinSelection16) Test within selections "exwithin 1 of pdb" ... ok testWithinSelection17 (prody.tests.atomic.test_select.TestSelect.testWithinSelection17) Test within selections 'exwithin 1 of ag' for pdb3mht ... ok testWithinSelection18 (prody.tests.atomic.test_select.TestSelect.testWithinSelection18) Test within selections "exwithin 1 of ag" ... ok testWithinSelection19 (prody.tests.atomic.test_select.TestSelect.testWithinSelection19) Test within selections 'within 100 of index 10000' for pdb3mht ... ok testWithinSelection2 (prody.tests.atomic.test_select.TestSelect.testWithinSelection2) Test within selections "within 10 of index 0" ... ok testWithinSelection20 (prody.tests.atomic.test_select.TestSelect.testWithinSelection20) Test within selections "within 100 of index 10000" ... ok testWithinSelection3 (prody.tests.atomic.test_select.TestSelect.testWithinSelection3) Test within selections 'exwithin 100 of index 0' for pdb3mht ... ok testWithinSelection4 (prody.tests.atomic.test_select.TestSelect.testWithinSelection4) Test within selections "exwithin 100 of index 0" ... ok testWithinSelection5 (prody.tests.atomic.test_select.TestSelect.testWithinSelection5) Test within selections 'exwithin 4 of resname SAH' for pdb3mht ... ok testWithinSelection6 (prody.tests.atomic.test_select.TestSelect.testWithinSelection6) Test within selections "exwithin 4 of resname SAH" ... ok testWithinSelection7 (prody.tests.atomic.test_select.TestSelect.testWithinSelection7) Test within selections '(within 4 of water) and not water' for pdb3mht ... ok testWithinSelection8 (prody.tests.atomic.test_select.TestSelect.testWithinSelection8) Test within selections "(within 4 of water) and not water" ... ok testWithinSelection9 (prody.tests.atomic.test_select.TestSelect.testWithinSelection9) Test within selections 'within 5 of within 5 of within 5 of index 0' for pdb3mht ... ok testWithout_AndSelection1 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection1) Test without_and selections 'coil protein' for pdb3mht ... ok testWithout_AndSelection10 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection10) Test without_and selections "(protein nucleic)" ... ok testWithout_AndSelection11 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection11) Test without_and selections 'noh hetero water' for pdb3mht ... ok testWithout_AndSelection12 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection12) Test without_and selections "noh hetero water" ... ok testWithout_AndSelection13 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection13) Test without_and selections 'ca occupancy > 0' for pdb3mht ... ok testWithout_AndSelection14 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection14) Test without_and selections "ca occupancy > 0" ... ok testWithout_AndSelection15 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection15) Test without_and selections 'ca occupancy - 0 > 0' for pdb3mht ... ok testWithout_AndSelection16 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection16) Test without_and selections "ca occupancy - 0 > 0" ... ok testWithout_AndSelection17 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection17) Test without_and selections 'ca occupancy - 0 > 0 + 0' for pdb3mht ... ok testWithout_AndSelection18 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection18) Test without_and selections "ca occupancy - 0 > 0 + 0" ... ok testWithout_AndSelection19 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection19) Test without_and selections 'occupancy > ca 0' for pdb3mht ... ok testWithout_AndSelection2 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection2) Test without_and selections "coil protein" ... ok testWithout_AndSelection20 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection20) Test without_and selections "occupancy > ca 0" ... ok testWithout_AndSelection21 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection21) Test without_and selections 'noh hetero (water)' for pdb3mht ... ok testWithout_AndSelection22 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection22) Test without_and selections "noh hetero (water)" ... ok testWithout_AndSelection23 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection23) Test without_and selections 'noh hetero not (water)' for pdb3mht ... ok testWithout_AndSelection24 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection24) Test without_and selections "noh hetero not (water)" ... ok testWithout_AndSelection25 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection25) Test without_and selections '(water) hetero' for pdb3mht ... ok testWithout_AndSelection26 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection26) Test without_and selections "(water) hetero" ... ok testWithout_AndSelection27 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection27) Test without_and selections 'ca abs(beta) = beta + abs(0)' for pdb3mht ... ok testWithout_AndSelection28 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection28) Test without_and selections "ca abs(beta) = beta + abs(0)" ... ok testWithout_AndSelection3 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection3) Test without_and selections 'sidechain sc protein' for pdb3mht ... ok testWithout_AndSelection4 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection4) Test without_and selections "sidechain sc protein" ... ok testWithout_AndSelection5 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection5) Test without_and selections 'bbfull bb' for pdb3mht ... ok testWithout_AndSelection6 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection6) Test without_and selections "bbfull bb" ... ok testWithout_AndSelection7 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection7) Test without_and selections '(charged basic)' for pdb3mht ... ok testWithout_AndSelection8 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection8) Test without_and selections "(charged basic)" ... ok testWithout_AndSelection9 (prody.tests.atomic.test_select.TestSelect.testWithout_AndSelection9) Test without_and selections '(protein nucleic)' for pdb3mht ... ok testSetData (prody.tests.atomic.test_subset.TestUserData.testSetData) ... ok testDatafile_1ejg (prody.tests.datafiles.TestDatafiles.testDatafile_1ejg) Test presence of "pdb1ejg.pdb" ... ok testDatafile_1ubi (prody.tests.datafiles.TestDatafiles.testDatafile_1ubi) Test presence of "pdb1ubi.pdb" ... ok testDatafile_1ubi_ca (prody.tests.datafiles.TestDatafiles.testDatafile_1ubi_ca) Test presence of "pdb1ubi_ca.pdb" ... ok testDatafile_2gb1_truncated (prody.tests.datafiles.TestDatafiles.testDatafile_2gb1_truncated) Test presence of "pdb2gb1_truncated.pdb" ... ok testDatafile_2k39_ca (prody.tests.datafiles.TestDatafiles.testDatafile_2k39_ca) Test presence of "pdb2k39_ca.pdb" ... ok testDatafile_2nwl (prody.tests.datafiles.TestDatafiles.testDatafile_2nwl) Test presence of "pdb2nwl-opm.pdb" ... ok testDatafile_3hsy (prody.tests.datafiles.TestDatafiles.testDatafile_3hsy) Test presence of "pdb3hsy.pdb" ... ok testDatafile_3mht (prody.tests.datafiles.TestDatafiles.testDatafile_3mht) Test presence of "pdb3mht.pdb" ... ok testDatafile_3o21 (prody.tests.datafiles.TestDatafiles.testDatafile_3o21) Test presence of "pdb3o21.pdb" ... ok testDatafile_3p3w (prody.tests.datafiles.TestDatafiles.testDatafile_3p3w) Test presence of "pdb3p3w.pdb" ... ok testDatafile_DI (prody.tests.datafiles.TestDatafiles.testDatafile_DI) Test presence of "msa_Cys_knot_di.dat" ... ok testDatafile_Fasta (prody.tests.datafiles.TestDatafiles.testDatafile_Fasta) Test presence of "msa_Cys_knot.fasta" ... ok testDatafile_RTER (prody.tests.datafiles.TestDatafiles.testDatafile_RTER) Test presence of "pdbRTER.pdb" ... ok testDatafile_SCA (prody.tests.datafiles.TestDatafiles.testDatafile_SCA) Test presence of "msa_Cys_knot_sca.dat" ... ok testDatafile_Selex (prody.tests.datafiles.TestDatafiles.testDatafile_Selex) Test presence of "msa_Cys_knot.slx" ... ok testDatafile_Stockholm (prody.tests.datafiles.TestDatafiles.testDatafile_Stockholm) Test presence of "msa_Cys_knot.sth" ... ok testDatafile_anm1ubi_evalues (prody.tests.datafiles.TestDatafiles.testDatafile_anm1ubi_evalues) Test presence of "anm1ubi_evalues.dat" ... ok testDatafile_anm1ubi_hessian (prody.tests.datafiles.TestDatafiles.testDatafile_anm1ubi_hessian) Test presence of "anm1ubi_hessian.coo" ... ok testDatafile_anm1ubi_vectors (prody.tests.datafiles.TestDatafiles.testDatafile_anm1ubi_vectors) Test presence of "anm1ubi_vectors.dat" ... ok testDatafile_commute1ubi (prody.tests.datafiles.TestDatafiles.testDatafile_commute1ubi) Test presence of "commute1ubi.dat" ... ok testDatafile_dcd (prody.tests.datafiles.TestDatafiles.testDatafile_dcd) Test presence of "dcd2k39_truncated.dcd" ... ok testDatafile_dssp (prody.tests.datafiles.TestDatafiles.testDatafile_dssp) Test presence of "pdb1r19_dssp.pdb" ... ok testDatafile_five_digits (prody.tests.datafiles.TestDatafiles.testDatafile_five_digits) Test presence of "pdb1tw7_step3_charmm2namd.pdb" ... ok testDatafile_gnm1ubi_evalues (prody.tests.datafiles.TestDatafiles.testDatafile_gnm1ubi_evalues) Test presence of "gnm1ubi_evalues.dat" ... ok testDatafile_gnm1ubi_kirchhoff (prody.tests.datafiles.TestDatafiles.testDatafile_gnm1ubi_kirchhoff) Test presence of "gnm1ubi_kirchhoff.coo" ... ok testDatafile_gnm1ubi_vectors (prody.tests.datafiles.TestDatafiles.testDatafile_gnm1ubi_vectors) Test presence of "gnm1ubi_vectors.dat" ... ok testDatafile_h36 (prody.tests.datafiles.TestDatafiles.testDatafile_h36) Test presence of "pdb1tw7_step3_charmm2namd_doubled_h36.pdb" ... ok testDatafile_hex (prody.tests.datafiles.TestDatafiles.testDatafile_hex) Test presence of "pdb1tw7_step3_charmm2namd_doubled_hex.pdb" ... ok testDatafile_hit1ubi (prody.tests.datafiles.TestDatafiles.testDatafile_hit1ubi) Test presence of "hit1ubi.dat" ... ok testDatafile_long_chid_cif (prody.tests.datafiles.TestDatafiles.testDatafile_long_chid_cif) Test presence of "mmcif_6zu5.cif" ... ok testDatafile_multi_model_cif (prody.tests.datafiles.TestDatafiles.testDatafile_multi_model_cif) Test presence of "mmcif_6yfy.cif" ... ok testDatafile_multi_model_truncated (prody.tests.datafiles.TestDatafiles.testDatafile_multi_model_truncated) Test presence of "pdb2k39_truncated.pdb" ... ok testDatafile_oneatom (prody.tests.datafiles.TestDatafiles.testDatafile_oneatom) Test presence of "pdb1ejg_oneatom.pdb" ... ok testDatafile_pca2k39_cov (prody.tests.datafiles.TestDatafiles.testDatafile_pca2k39_cov) Test presence of "pca2k39_cov.coo" ... ok testDatafile_pca2k39_evalues (prody.tests.datafiles.TestDatafiles.testDatafile_pca2k39_evalues) Test presence of "pca2k39_evalues.dat" ... ok testDatafile_pca2k39_vectors (prody.tests.datafiles.TestDatafiles.testDatafile_pca2k39_vectors) Test presence of "pca2k39_vectors.dat" ... ok testDatafile_rtb2gb1_hessian (prody.tests.datafiles.TestDatafiles.testDatafile_rtb2gb1_hessian) Test presence of "rtb2gb1_hessian.coo" ... ok testDatafile_rtb2gb1_project (prody.tests.datafiles.TestDatafiles.testDatafile_rtb2gb1_project) Test presence of "rtb2gb1_project.coo" ... ok testDatafile_sti (prody.tests.datafiles.TestDatafiles.testDatafile_sti) Test presence of "xmlSTI.xml" ... ok testMode1d (prody.tests.dynamics.test_editing.TestExtending.testMode1d) ... ok testMode3d (prody.tests.dynamics.test_editing.TestExtending.testMode3d) ... ok testModel1d (prody.tests.dynamics.test_editing.TestExtending.testModel1d) ... ok testModel3d (prody.tests.dynamics.test_editing.TestExtending.testModel3d) ... ok testVector1d (prody.tests.dynamics.test_editing.TestExtending.testVector1d) ... ok testVector3d (prody.tests.dynamics.test_editing.TestExtending.testVector3d) ... ok testBuildHessianSlow (prody.tests.dynamics.test_enms.TestANM.testBuildHessianSlow) ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixCoordsArray) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixCoordsWrongType) Test response to wrong type *coords* argument. ... ok testBuildMatrixCutoffInvalidValue (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixCutoffInvalidValue) Test response to wrong *cutoff* argument. ... ok testBuildMatrixCutoffWrongType (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixCutoffWrongType) Test response to cutoff of wrong type. ... ok testBuildMatrixInvalidGamma (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixInvalidGamma) Test response to invalid *gamma* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixWrongCoords) Test response to wrong coords.dtype. ... ok testBuildMatrixWrongGamma (prody.tests.dynamics.test_enms.TestANM.testBuildMatrixWrongGamma) Test response to wrong *gamma* argument. ... ok testSetHessianWrongShape (prody.tests.dynamics.test_enms.TestANM.testSetHessianWrongShape) Test response to wrong shape *hessian* argument. ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_enms.TestANM.testSetMatrixAcceptableDtype) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_enms.TestANM.testSetMatrixNonSquare) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_enms.TestANM.testSetMatrixWrongDim) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_enms.TestANM.testSetMatrixWrongDtype) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_enms.TestANM.testSetMatrixWrongType) Test response to wrong matrix type argument. ... ok testEigenvalues (prody.tests.dynamics.test_enms.TestANMResults.testEigenvalues) Test eigenvalues. ... ok testEigenvectors (prody.tests.dynamics.test_enms.TestANMResults.testEigenvectors) Test eigenvectors. ... ok testGetCutoff (prody.tests.dynamics.test_enms.TestANMResults.testGetCutoff) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.TestANMResults.testGetGamma) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testGetHessian (prody.tests.dynamics.test_enms.TestANMResults.testGetHessian) ... ok testHessian (prody.tests.dynamics.test_enms.TestANMResults.testHessian) Test Hessian matrix. ... ok testHessianSums (prody.tests.dynamics.test_enms.TestANMResults.testHessianSums) ... ok testHessianSymmetry (prody.tests.dynamics.test_enms.TestANMResults.testHessianSymmetry) ... ok testVariances (prody.tests.dynamics.test_enms.TestANMResults.testVariances) Test variances. ... ok testEigenvalues (prody.tests.dynamics.test_enms.TestEXANMResults.testEigenvalues) Test eigenvalues. ... ok testEigenvectors (prody.tests.dynamics.test_enms.TestEXANMResults.testEigenvectors) Test eigenvectors. ... ok testGetCutoff (prody.tests.dynamics.test_enms.TestEXANMResults.testGetCutoff) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.TestEXANMResults.testGetGamma) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testGetHessian (prody.tests.dynamics.test_enms.TestEXANMResults.testGetHessian) ... ok testHessian (prody.tests.dynamics.test_enms.TestEXANMResults.testHessian) Test Hessian matrix. ... ok testHessianSums (prody.tests.dynamics.test_enms.TestEXANMResults.testHessianSums) ... ok testHessianSymmetry (prody.tests.dynamics.test_enms.TestEXANMResults.testHessianSymmetry) ... ok testVariances (prody.tests.dynamics.test_enms.TestEXANMResults.testVariances) Test variances. ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixCoordsArray) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixCoordsWrongType) Test response to wrong type *coords* argument. ... ok testBuildMatrixCutoffInvalidValue (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixCutoffInvalidValue) Test response to wrong *cutoff* argument. ... ok testBuildMatrixCutoffWrongType (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixCutoffWrongType) Test response to cutoff of wrong type. ... ok testBuildMatrixInvalidGamma (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixInvalidGamma) Test response to invalid *gamma* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixWrongCoords) Test response to wrong coords.dtype. ... ok testBuildMatrixWrongGamma (prody.tests.dynamics.test_enms.TestGNM.testBuildMatrixWrongGamma) Test response to wrong *gamma* argument. ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_enms.TestGNM.testSetMatrixAcceptableDtype) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_enms.TestGNM.testSetMatrixNonSquare) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_enms.TestGNM.testSetMatrixWrongDim) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_enms.TestGNM.testSetMatrixWrongDtype) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_enms.TestGNM.testSetMatrixWrongType) Test response to wrong matrix type argument. ... ok testBuildKirchoffSlow (prody.tests.dynamics.test_enms.TestGNMResults.testBuildKirchoffSlow) ... ok testCommuteTime (prody.tests.dynamics.test_enms.TestGNMResults.testCommuteTime) ... ok testEigenvalues (prody.tests.dynamics.test_enms.TestGNMResults.testEigenvalues) ... ok testEigenvectors (prody.tests.dynamics.test_enms.TestGNMResults.testEigenvectors) ... ok testGetCutoff (prody.tests.dynamics.test_enms.TestGNMResults.testGetCutoff) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.TestGNMResults.testGetGamma) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testGetKirchoff (prody.tests.dynamics.test_enms.TestGNMResults.testGetKirchoff) ... ok testKirchhoff (prody.tests.dynamics.test_enms.TestGNMResults.testKirchhoff) ... ok testKirchhoffSums (prody.tests.dynamics.test_enms.TestGNMResults.testKirchhoffSums) ... ok testKirchhoffSymmetry (prody.tests.dynamics.test_enms.TestGNMResults.testKirchhoffSymmetry) ... ok testCalcModes (prody.tests.dynamics.test_enms.TestRTB.testCalcModes) ... /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/eigtools.py:41: DeprecationWarning: Keyword argument 'eigvals' is deprecated in favour of 'subset_by_index' keyword instead and will be removed in SciPy 1.12.0. values, vectors = linalg.eigh(M, turbo=turbo, eigvals=eigvals) ok testHessian (prody.tests.dynamics.test_enms.TestRTB.testHessian) ... ok testProjection (prody.tests.dynamics.test_enms.TestRTB.testProjection) ... ok testGetCutoff (prody.tests.dynamics.test_enms.testGNMBase.testGetCutoff) Testing return type of :meth:`~.GNMBase.getCutoff`. ... ok testGetGamma (prody.tests.dynamics.test_enms.testGNMBase.testGetGamma) Testing return type of :meth:`~.GNMBase.getGamma`. ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_pca.TestPCA.testBuildMatrixCoordsArray) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_pca.TestPCA.testBuildMatrixCoordsWrongType) Test response to wrong type *coords* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_pca.TestPCA.testBuildMatrixWrongCoords) Test response to wrong coords.dtype. ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_pca.TestPCA.testSetMatrixAcceptableDtype) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_pca.TestPCA.testSetMatrixNonSquare) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_pca.TestPCA.testSetMatrixWrongDim) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_pca.TestPCA.testSetMatrixWrongDtype) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_pca.TestPCA.testSetMatrixWrongType) Test response to wrong matrix type argument. ... ok testBuildMatrixCoordsArray (prody.tests.dynamics.test_pca.TestPCAResults.testBuildMatrixCoordsArray) Test output when *coords* is an array. ... ok testBuildMatrixCoordsWrongType (prody.tests.dynamics.test_pca.TestPCAResults.testBuildMatrixCoordsWrongType) Test response to wrong type *coords* argument. ... ok testBuildMatrixWrongCoords (prody.tests.dynamics.test_pca.TestPCAResults.testBuildMatrixWrongCoords) Test response to wrong coords.dtype. ... ok testCovariance (prody.tests.dynamics.test_pca.TestPCAResults.testCovariance) ... ok testCovarianceSymmetry (prody.tests.dynamics.test_pca.TestPCAResults.testCovarianceSymmetry) ... ok testEigenvalues (prody.tests.dynamics.test_pca.TestPCAResults.testEigenvalues) ... ok testEigenvectors (prody.tests.dynamics.test_pca.TestPCAResults.testEigenvectors) ... ok testNumModesAll (prody.tests.dynamics.test_pca.TestPCAResults.testNumModesAll) ... ok testNumModesSet (prody.tests.dynamics.test_pca.TestPCAResults.testNumModesSet) ... ok testSetMatrixAcceptableDtype (prody.tests.dynamics.test_pca.TestPCAResults.testSetMatrixAcceptableDtype) Test response to acceptable matrix.dtype. ... ok testSetMatrixNonSquare (prody.tests.dynamics.test_pca.TestPCAResults.testSetMatrixNonSquare) Test response to non-square matrix. ... ok testSetMatrixWrongDim (prody.tests.dynamics.test_pca.TestPCAResults.testSetMatrixWrongDim) Test response to wrong dim *kirchhoff* argument. ... ok testSetMatrixWrongDtype (prody.tests.dynamics.test_pca.TestPCAResults.testSetMatrixWrongDtype) Test response to wrong matrix.dtype. ... ok testSetMatrixWrongType (prody.tests.dynamics.test_pca.TestPCAResults.testSetMatrixWrongType) Test response to wrong matrix type argument. ... ok testSlicing (prody.tests.dynamics.test_signature.TestSDArray.testSlicing) ... ok testCoordinates (prody.tests.ensemble.test_conformation.TestConformation.testCoordinates) ... ok testCoordinatesForAll (prody.tests.ensemble.test_conformation.TestConformation.testCoordinatesForAll) ... ok testGetIndex (prody.tests.ensemble.test_conformation.TestConformation.testGetIndex) Test get index function. ... ok testGetNumAtoms (prody.tests.ensemble.test_conformation.TestConformation.testGetNumAtoms) Test get index function. ... ok testWeights (prody.tests.ensemble.test_conformation.TestConformation.testWeights) ... ok testCoordinates (prody.tests.ensemble.test_conformation.TestPDBConformation.testCoordinates) ... ok testCoordinatesForAll (prody.tests.ensemble.test_conformation.TestPDBConformation.testCoordinatesForAll) ... ok testGetIndex (prody.tests.ensemble.test_conformation.TestPDBConformation.testGetIndex) ... ok testGetNumAtoms (prody.tests.ensemble.test_conformation.TestPDBConformation.testGetNumAtoms) ... ok testWeights (prody.tests.ensemble.test_conformation.TestPDBConformation.testWeights) ... ok testWeightsForAll (prody.tests.ensemble.test_conformation.TestPDBConformation.testWeightsForAll) ... ok testConcatenation (prody.tests.ensemble.test_ensemble.TestEnsemble.testConcatenation) Test concatenation of ensembles without weights. ... ok testConcatenationNoweightsWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testConcatenationNoweightsWeights) Test concatenation of ensembles without and with weights. ... ok testConcatenationWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testConcatenationWeights) Test concatenation of ensembles with weights. ... ok testConcatenationWeightsNoweights (prody.tests.ensemble.test_ensemble.TestEnsemble.testConcatenationWeightsNoweights) Test concatenation of ensembles with and without weights. ... ok testDelCoordsetAll (prody.tests.ensemble.test_ensemble.TestEnsemble.testDelCoordsetAll) ... ok testDelCoordsetMiddle (prody.tests.ensemble.test_ensemble.TestEnsemble.testDelCoordsetMiddle) ... ok testGetCoordinates (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetCoordinates) Test correctness of reference coordinates. ... ok testGetCoordsets (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetCoordsets) Test correctness of all coordinates. ... ok testGetNumAtoms (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetNumAtoms) ... ok testGetNumCsets (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetNumCsets) ... ok testGetRMSDs (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetRMSDs) ... ok testGetRMSDsWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetRMSDsWeights) ... ok testGetWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testGetWeights) Test correctness of all weights. ... ok testIterCoordsets (prody.tests.ensemble.test_ensemble.TestEnsemble.testIterCoordsets) Test coordinate iteration. ... ok testSelection (prody.tests.ensemble.test_ensemble.TestEnsemble.testSelection) Test atom selection of ensemble. ... ok testSlicing (prody.tests.ensemble.test_ensemble.TestEnsemble.testSlicing) Test slicing operation. ... ok testSlicingCopy (prody.tests.ensemble.test_ensemble.TestEnsemble.testSlicingCopy) Test making a copy by slicing operation. ... ok testSlicingList (prody.tests.ensemble.test_ensemble.TestEnsemble.testSlicingList) Test slicing with a list. ... ok testSlicingWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testSlicingWeights) Test slicing operation with weights. ... ok testSuperpose (prody.tests.ensemble.test_ensemble.TestEnsemble.testSuperpose) ... ok testSuperposeWeights (prody.tests.ensemble.test_ensemble.TestEnsemble.testSuperposeWeights) ... ok testResults (prody.tests.ensemble.test_functions.TestBuildPDBEnsemble.testResults) ... ok testInvalidType (prody.tests.ensemble.test_functions.TestCalcOccupancies.testInvalidType) ... ok testResults (prody.tests.ensemble.test_functions.TestCalcOccupancies.testResults) ... ok testWeightsNone (prody.tests.ensemble.test_functions.TestCalcOccupancies.testWeightsNone) ... ok testResults (prody.tests.ensemble.test_functions.TestTrimPDBEnsemble.testResults) ... /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/sequence.py:52: DeprecationWarning: tostring() is deprecated. Use tobytes() instead. return self._array.tostring().decode() ok testAddCoordsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testAddCoordsets) ... ok testConcatenation (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testConcatenation) Test concatenation of PDB ensembles. ... ok testDelCoordsetAll (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testDelCoordsetAll) Test consequences of deleting all coordinate sets. ... ok testDelCoordsetMiddle (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testDelCoordsetMiddle) ... ok testDelCoordsetMiddleTrans (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testDelCoordsetMiddleTrans) ... ok testGetCoordinates (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testGetCoordinates) ... ok testGetCoordsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testGetCoordsets) ... ok testGetNumAtoms (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testGetNumAtoms) ... ok testGetNumCsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testGetNumCsets) ... ok testGetWeights (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testGetWeights) ... ok testIterCoordsets (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testIterCoordsets) ... ok testSlicing (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testSlicing) ... ok testSlicingCopy (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testSlicingCopy) ... ok testSlicingList (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testSlicingList) ... ok testSlicingWeights (prody.tests.ensemble.test_pdbensemble.TestPDBEnsemble.testSlicingWeights) ... ok testAllSearch (prody.tests.kdtree.test_kdtree.TestKDTree.testAllSearch) ... ok testSearch (prody.tests.kdtree.test_kdtree.TestKDTree.testSearch) ... ok testPairNoPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC.testPairNoPBC) ... ok testPairPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC.testPairPBC) ... ok testPointNoPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC.testPointNoPBC) ... ok testPointPBC (prody.tests.kdtree.test_kdtree.TestKDTreePBC.testPointPBC) ... ok testMINvsMAX (prody.tests.measure.test_contacts.TestContacts.testMINvsMAX) ... ok testPBCvsNONE (prody.tests.measure.test_contacts.TestContacts.testPBCvsNONE) ... ok testAtomicArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors.testAtomicArgumentSwitching) ... ok testCoordArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors.testCoordArgumentSwitching) ... ok testNoPBC (prody.tests.measure.test_contacts.TestNeighbors.testNoPBC) ... ok testPBC (prody.tests.measure.test_contacts.TestNeighbors.testPBC) ... ok testPBCAtomicArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors.testPBCAtomicArgumentSwitching) ... ok testPBCCoordArgumentSwitching (prody.tests.measure.test_contacts.TestNeighbors.testPBCCoordArgumentSwitching) ... ok testCenter (prody.tests.measure.test_measure.TestCenter.testCenter) ... ok testCenterWithWeights (prody.tests.measure.test_measure.TestCenter.testCenterWithWeights) ... ok testMultiCoordsets (prody.tests.measure.test_measure.TestCenter.testMultiCoordsets) ... ok testMultiCoordsetsWithWeights (prody.tests.measure.test_measure.TestCenter.testMultiCoordsetsWithWeights) ... ok testCTerPhi (prody.tests.measure.test_measure.TestDihedrals.testCTerPhi) ... ok testCTerPsi (prody.tests.measure.test_measure.TestDihedrals.testCTerPsi) ... ok testCalcPhi (prody.tests.measure.test_measure.TestDihedrals.testCalcPhi) ... ok testCalcPsi (prody.tests.measure.test_measure.TestDihedrals.testCalcPsi) ... ok testNTerPhi (prody.tests.measure.test_measure.TestDihedrals.testNTerPhi) ... ok testNTerPsi (prody.tests.measure.test_measure.TestDihedrals.testNTerPsi) ... ok testPBC (prody.tests.measure.test_measure.TestDistances.testPBC) ... ok testPBCSymmetry (prody.tests.measure.test_measure.TestDistances.testPBCSymmetry) ... ok testMSF (prody.tests.measure.test_measure.TestMSF.testMSF) ... /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/dcdfile.py:273: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead xyz = fromstring(self._file.read(self._itemsize * n_floats), /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/dcdfile.py:320: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead data = fromstring(data, self._dtype) /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/dcdfile.py:294: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead unitcell = fromstring(self._file.read(48), dtype=np.float64) ok testMSFfloat (prody.tests.measure.test_measure.TestMSF.testMSFfloat) ... ok testByArgument (prody.tests.measure.test_transform.TestMoveAtoms.testByArgument) ... ok testToArgument (prody.tests.measure.test_transform.TestMoveAtoms.testToArgument) ... ok testTransformation (prody.tests.measure.test_transform.TestMoveAtoms.testTransformation) ... ok testWrap (prody.tests.measure.test_transform.TestWrapAtoms.testWrap) ... ok testAgArgMultiModel (prody.tests.proteins.test_ciffile.TestParseMMCIF.testAgArgMultiModel) Test number of coordinate sets when using *ag* arguments. ... ok testAgArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testAgArgument) Test outcome of valid and invalid *ag* arguments. ... /usr/lib/python3.11/traceback.py:240: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/mmcif_6yfy.cif' mode='rt' encoding='utf-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testChainArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testChainArgument) Test outcome of valid and invalid *chain* arguments. ... ok testLongChainArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testLongChainArgument) Test outcome of valid and invalid *chain* arguments. ... /usr/lib/python3.11/traceback.py:240: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/mmcif_6zu5.cif' mode='rt' encoding='utf-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testModelArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testModelArgument) Test outcome of valid and invalid *model* arguments. ... ok testPDBArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testPDBArgument) Test outcome of invalid *pdb* arguments. ... ok testSubsetArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testSubsetArgument) Test outcome of valid and invalid *subset* arguments. ... ok testTitleArgument (prody.tests.proteins.test_ciffile.TestParseMMCIF.testTitleArgument) Test outcome of *title* argument. ... ok testUsualCase (prody.tests.proteins.test_ciffile.TestParseMMCIF.testUsualCase) Test the outcome of a simple parsing scenario. ... ok testDSSPBridgePartners (prody.tests.proteins.test_dssp.TestDSSPFunctions.testDSSPBridgePartners) Check if the DSSP bridge-partners were correctly parsed and ... skipped 'dssp is not found' testHeaderContent (prody.tests.proteins.test_header.TestParsePDBHeaderOnly.testHeaderContent) ... ok testHeaderType (prody.tests.proteins.test_header.TestParsePDBHeaderOnly.testHeaderType) ... ok testCompressedArgument (prody.tests.proteins.test_localpdb.TestFetchPDB.testCompressedArgument) Test decompressing fetched PDB files. ... skipped 'Not running tests needing network access.' testFetchingMultipleFiles (prody.tests.proteins.test_localpdb.TestFetchPDB.testFetchingMultipleFiles) Test the outcome of fetching multiple PDB files. ... skipped 'Not running tests needing network access.' testFetchingSingleFile (prody.tests.proteins.test_localpdb.TestFetchPDB.testFetchingSingleFile) Test the outcome of fetching a single PDB file. ... skipped 'Not running tests needing network access.' testInvalidPDBIdentifier (prody.tests.proteins.test_localpdb.TestFetchPDB.testInvalidPDBIdentifier) Test outcome of passing invalid PDB identifiers. ... ok testAgArgMultiModel (prody.tests.proteins.test_pdbfile.TestParsePDB.testAgArgMultiModel) Test number of coordinate sets when using *ag* arguments. ... ok testAgArgSingleModel (prody.tests.proteins.test_pdbfile.TestParsePDB.testAgArgSingleModel) Test number of coordinate sets when using *ag* arguments. ... ok testAgArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testAgArgument) Test outcome of valid and invalid *ag* arguments. ... /usr/lib/python3.11/traceback.py:240: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb2k39_truncated.pdb' mode='rt' encoding='utf-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testChainArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testChainArgument) Test outcome of valid and invalid *chain* arguments. ... ok testFiveDigitResnum (prody.tests.proteins.test_pdbfile.TestParsePDB.testFiveDigitResnum) Test parsing PDB files with five digit resnums ... ok testHexResnum (prody.tests.proteins.test_pdbfile.TestParsePDB.testHexResnum) Test parsing PDB files with hexadecimal resnums ... ok testHexSerial (prody.tests.proteins.test_pdbfile.TestParsePDB.testHexSerial) Test parsing PDB files with hexadecimal serial numbers ... ok testHybrid36Resnum (prody.tests.proteins.test_pdbfile.TestParsePDB.testHybrid36Resnum) Test parsing PDB files with Hybrid36 resnums ... ok testHybrid36Serial (prody.tests.proteins.test_pdbfile.TestParsePDB.testHybrid36Serial) Test parsing PDB files with Hybrid36 serial numbers ... ok testModelArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testModelArgument) Test outcome of valid and invalid *model* arguments. ... ok testPDBArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testPDBArgument) Test outcome of invalid *pdb* arguments. ... ok testSubsetArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testSubsetArgument) Test outcome of valid and invalid *subset* arguments. ... ok testTitleArgument (prody.tests.proteins.test_pdbfile.TestParsePDB.testTitleArgument) Test outcome of *title* argument. ... ok testUsualCase (prody.tests.proteins.test_pdbfile.TestParsePDB.testUsualCase) Test the outcome of a simple parsing scenario. ... ok testAltlocA (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc.testAltlocA) ... ok testAltlocB (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc.testAltlocB) ... ok testAltlocC (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc.testAltlocC) ... ok testAltlocNone (prody.tests.proteins.test_pdbfile.TestParsePDBAltloc.testAltlocNone) ... ok testAtomGroupContent (prody.tests.proteins.test_pdbfile.TestParsePDBHeaderAndAllModels.testAtomGroupContent) ... ok testAtomGroupType (prody.tests.proteins.test_pdbfile.TestParsePDBHeaderAndAllModels.testAtomGroupType) ... ok testModelArgument (prody.tests.proteins.test_pdbfile.TestWritePDB.testModelArgument) Test valid and invalid model arguments. ... /usr/lib/python3.11/traceback.py:240: ResourceWarning: unclosed file <_io.TextIOWrapper name='/tmp/test.pdb' mode='wt' encoding='utf-8'> tb.tb_frame.clear() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testParsingOutput (prody.tests.proteins.test_pdbfile.TestWritePDB.testParsingOutput) Test if parsing output is the same as parsing original file. ... ok testWritingHex (prody.tests.proteins.test_pdbfile.TestWritePDB.testWritingHex) Test if output from writing hexadecimal is as expected. ... ok testWritingHybrid36 (prody.tests.proteins.test_pdbfile.TestWritePDB.testWritingHybrid36) Test if output from writing Hybrid36 is as expected. ... ok testCompressed (prody.tests.proteins.test_wwpdb.TestFTP.testCompressed) ... skipped 'Not running tests needing network access.' testDecompressed (prody.tests.proteins.test_wwpdb.TestFTP.testDecompressed) ... skipped 'Not running tests needing network access.' testCompressed (prody.tests.proteins.test_wwpdb.TestHTTP.testCompressed) ... skipped 'Not running tests needing network access.' testDecompressed (prody.tests.proteins.test_wwpdb.TestHTTP.testDecompressed) ... skipped 'Not running tests needing network access.' testResidueCount (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy.testResidueCount) ... ok testResidueOccupancy (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy.testResidueOccupancy) ... ok testSequenceCount (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy.testSequenceCount) ... ok testSequenceOccupancy (prody.tests.sequence.test_analysis.TestCalcMSAOccupancy.testSequenceOccupancy) ... ok testMATLAB (prody.tests.sequence.test_analysis.TestCalcMeff.testMATLAB) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcMeff.testTwenty) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestCalcMeff.testTwentyReversed) ... ok testZero1 (prody.tests.sequence.test_analysis.TestCalcMeff.testZero1) ... ok testZero2 (prody.tests.sequence.test_analysis.TestCalcMeff.testZero2) ... ok testAmbiguity (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity) ... ok testAmbiguity2 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity2) ... ok testAmbiguity3 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity3) ... ok testAmbiguity4 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity4) ... ok testAmbiguity5 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity5) ... ok testAmbiguity6 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity6) ... ok testAmbiguity7 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testAmbiguity7) ... ok testInf (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testInf) ... ok testNoAmbiguity (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testNoAmbiguity) ... ok testNorm (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testNorm) ... ok testNorm2 (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testNorm2) ... ok testSixSequences (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testSixSequences) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testTwenty) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestCalcMutualInfo.testTwentyReversed) ... ok testAmbiguity (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity) ... ok testAmbiguity2 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity2) ... ok testAmbiguity3 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity3) ... ok testAmbiguity4 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity4) ... ok testAmbiguity5 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity5) ... ok testAmbiguity6 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity6) ... ok testAmbiguity7 (prody.tests.sequence.test_analysis.TestCalcOMES.testAmbiguity7) ... ok testFourSequences (prody.tests.sequence.test_analysis.TestCalcOMES.testFourSequences) ... ok testInf (prody.tests.sequence.test_analysis.TestCalcOMES.testInf) ... ok testNoAmbiguity (prody.tests.sequence.test_analysis.TestCalcOMES.testNoAmbiguity) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcOMES.testTwenty) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestCalcOMES.testTwentyReversed) ... ok testZero (prody.tests.sequence.test_analysis.TestCalcOMES.testZero) ... ok testMATLAB (prody.tests.sequence.test_analysis.TestCalcSCA.testMATLAB) ... ok testZero (prody.tests.sequence.test_analysis.TestCalcSCA.testZero) ... ok testAmbiguous (prody.tests.sequence.test_analysis.TestCalcShannonEntropy.testAmbiguous) ... ok testGapDividend (prody.tests.sequence.test_analysis.TestCalcShannonEntropy.testGapDividend) ... ok testSixSequences (prody.tests.sequence.test_analysis.TestCalcShannonEntropy.testSixSequences) ... ok testSmallProbability (prody.tests.sequence.test_analysis.TestCalcShannonEntropy.testSmallProbability) ... ok testTwenty (prody.tests.sequence.test_analysis.TestCalcShannonEntropy.testTwenty) ... ok testMATLAB10 (prody.tests.sequence.test_analysis.TestDirectInfo.testMATLAB10) ... /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/analysis.py:592: PendingDeprecationWarning: the matrix subclass is not the recommended way to represent matrices or deal with linear algebra (see https://docs.scipy.org/doc/numpy/user/numpy-for-matlab-users.html). Please adjust your code to use regular ndarray. c = matrix.dot(matrix(zeros((length*q, 1), float)), /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/analysis.py:593: PendingDeprecationWarning: the matrix subclass is not the recommended way to represent matrices or deal with linear algebra (see https://docs.scipy.org/doc/numpy/user/numpy-for-matlab-users.html). Please adjust your code to use regular ndarray. matrix(zeros((1, length*q), float))) /usr/lib/python3/dist-packages/numpy/matrixlib/defmatrix.py:69: PendingDeprecationWarning: the matrix subclass is not the recommended way to represent matrices or deal with linear algebra (see https://docs.scipy.org/doc/numpy/user/numpy-for-matlab-users.html). Please adjust your code to use regular ndarray. return matrix(data, dtype=dtype, copy=False) ok testMATLAB8 (prody.tests.sequence.test_analysis.TestDirectInfo.testMATLAB8) ... ok testTwenty (prody.tests.sequence.test_analysis.TestDirectInfo.testTwenty) ... ok testTwentyReversed (prody.tests.sequence.test_analysis.TestDirectInfo.testTwentyReversed) ... ok testZero (prody.tests.sequence.test_analysis.TestDirectInfo.testZero) ... ok testZero1 (prody.tests.sequence.test_analysis.TestDirectInfo.testZero1) ... ok testZero2 (prody.tests.sequence.test_analysis.TestDirectInfo.testZero2) ... ok testZero3 (prody.tests.sequence.test_analysis.TestDirectInfo.testZero3) ... ok testZero4 (prody.tests.sequence.test_analysis.TestDirectInfo.testZero4) ... ok testIdentityMatrix (prody.tests.sequence.test_analysis.TestIdentity.testIdentityMatrix) ... ok testIdentityMatrixNonTurbo (prody.tests.sequence.test_analysis.TestIdentity.testIdentityMatrixNonTurbo) ... ok testUnique (prody.tests.sequence.test_analysis.TestUnique.testUnique) ... ok testUnique2 (prody.tests.sequence.test_analysis.TestUnique.testUnique2) ... ok testMerge (prody.tests.sequence.test_msa.TestMerging.testMerge) ... ok testAddition (prody.tests.sequence.test_msa.TestRefinement.testAddition) ... ok testAll (prody.tests.sequence.test_msa.TestRefinement.testAll) ... ok testColocc (prody.tests.sequence.test_msa.TestRefinement.testColocc) ... ok testExtension (prody.tests.sequence.test_msa.TestRefinement.testExtension) ... ok testLabel (prody.tests.sequence.test_msa.TestRefinement.testLabel) ... ok testRowCol (prody.tests.sequence.test_msa.TestRefinement.testRowCol) ... ok testRowocc (prody.tests.sequence.test_msa.TestRefinement.testRowocc) ... ok testSeqid (prody.tests.sequence.test_msa.TestRefinement.testSeqid) ... ok testSeqidLabel (prody.tests.sequence.test_msa.TestRefinement.testSeqidLabel) ... ok testMSAFile (prody.tests.sequence.test_msafile.TestMSAFile.testMSAFile) ... ok testWriteFasta (prody.tests.sequence.test_msafile.TestMSAFile.testWriteFasta) ... /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/sequence.py:32: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead self._seq = fromstring(one, '|S1') ok testWriteSelex (prody.tests.sequence.test_msafile.TestMSAFile.testWriteSelex) ... ok testWriteStockholm (prody.tests.sequence.test_msafile.TestMSAFile.testWriteStockholm) ... ok testArray (prody.tests.sequence.test_msafile.TestParseMSA.testArray) ... ok testIterator (prody.tests.sequence.test_msafile.TestParseMSA.testIterator) ... ok testMapping (prody.tests.sequence.test_msafile.TestParseMSA.testMapping) ... ok testFasta (prody.tests.sequence.test_msafile.TestWriteMSA.testFasta) ... ok testSelex (prody.tests.sequence.test_msafile.TestWriteMSA.testSelex) ... ok testStringConversion (prody.tests.sequence.test_sequence.TestSequence.testStringConversion) ... /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/sequence.py:36: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead self._seq = fromstring(args[0], '|S1') ok testParseDCD (prody.tests.trajectory.test_dcdfile.TestDCDFile.testParseDCD) ... ok testWrite (prody.tests.trajectory.test_dcdfile.TestDCDFile.testWrite) ... ok testWriteDCD (prody.tests.trajectory.test_dcdfile.TestDCDFile.testWriteDCD) ... ok testWriteModeAppend (prody.tests.trajectory.test_dcdfile.TestDCDFile.testWriteModeAppend) ... ok testAll (prody.tests.trajectory.test_frame.TestSuperpose.testAll) ... ok testCarbon (prody.tests.trajectory.test_frame.TestSuperpose.testCarbon) ... ok testCoords (prody.tests.utilities.test_checkers.TestCheckCoords.testCoords) ... ok testCoordset (prody.tests.utilities.test_checkers.TestCheckCoords.testCoordset) ... ok testCoordsetNatoms (prody.tests.utilities.test_checkers.TestCheckCoords.testCoordsetNatoms) ... ok testInvalidCoords (prody.tests.utilities.test_checkers.TestCheckCoords.testInvalidCoords) ... ok testCorrectMonotypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes.testCorrectMonotypeOneArg) ... ok testCorrectMonotypeTwoArgs (prody.tests.utilities.test_checkers.testCheckTypes.testCorrectMonotypeTwoArgs) ... ok testCorrectMultitypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes.testCorrectMultitypeOneArg) ... ok testWrongMonotypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes.testWrongMonotypeOneArg) ... ok testWrongMonotypeTwoArgs (prody.tests.utilities.test_checkers.testCheckTypes.testWrongMonotypeTwoArgs) ... ok testWrongMultitypeOneArg (prody.tests.utilities.test_checkers.testCheckTypes.testWrongMultitypeOneArg) ... ok testContinuous (prody.tests.utilities.test_misctools.TestRangeString.testContinuous) ... ok testGapped (prody.tests.utilities.test_misctools.TestRangeString.testGapped) ... ok testNegative (prody.tests.utilities.test_misctools.TestRangeString.testNegative) ... ok testRepeated (prody.tests.utilities.test_misctools.TestRangeString.testRepeated) ... ok testBuffer (prody.tests.utilities.test_pathtools.TestGunzip.testBuffer) ... /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/test_pathtools.py:34: ResourceWarning: unclosed file <_io.BufferedReader name='/tmp/compressed.txt.gz'> buff = open(self.gzfn, 'rb').read() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok testFile (prody.tests.utilities.test_pathtools.TestGunzip.testFile) ... /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/test_pathtools.py:29: ResourceWarning: unclosed file <_io.TextIOWrapper name='/tmp/compressed.txt' mode='r' encoding='utf-8'> text = open(fn).read() ResourceWarning: Enable tracemalloc to get the object allocation traceback ok ---------------------------------------------------------------------- Ran 954 tests in 285.110s OK (skipped=37) create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:240: /usr/bin/python3 setup.py install --root /build/prody-2.3.1+dfsg/debian/python3-prody running install /usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py running build_ext running install_lib creating /build/prody-2.3.1+dfsg/debian/python3-prody creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11 creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/__pycache__ creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/__pycache__ creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/__pycache__/test_pathtools.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/__pycache__/test_misctools.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/__pycache__/test_checkers.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/test_checkers.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/test_misctools.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/utilities/test_pathtools.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/trajectory creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory/__pycache__/test_frame.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory/__pycache__/test_dcdfile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/trajectory copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory/test_dcdfile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/trajectory copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/trajectory/test_frame.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/trajectory creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence/__pycache__/test_sequence.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence/__pycache__/test_msafile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence/__pycache__/test_msa.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence/__pycache__/test_analysis.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence/test_analysis.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence/test_msa.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence/test_msafile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/sequence/test_sequence.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/__pycache__/test_wwpdb.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/__pycache__/test_pdbfile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/__pycache__/test_localpdb.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/__pycache__/test_header.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/__pycache__/test_dssp.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/__pycache__/test_ciffile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/test_ciffile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/test_dssp.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/test_header.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/test_pdbfile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/test_localpdb.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/proteins/test_wwpdb.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure/__pycache__/test_transform.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure/__pycache__/test_measure.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure/__pycache__/test_contacts.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure/test_contacts.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure/test_measure.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/measure/test_transform.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/kdtree creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/kdtree/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/kdtree/__pycache__/test_kdtree.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/kdtree/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/kdtree/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/kdtree/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/kdtree/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/kdtree copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/kdtree/test_kdtree.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/kdtree creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble/__pycache__/test_pdbensemble.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble/__pycache__/test_functions.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble/__pycache__/test_ensemble.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble/__pycache__/test_conformation.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble/test_conformation.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble/test_ensemble.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble/test_functions.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/ensemble/test_pdbensemble.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics/__pycache__/test_signature.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics/__pycache__/test_pca.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics/__pycache__/test_enms.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics/__pycache__/test_editing.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics/test_editing.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics/test_enms.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics/test_pca.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/dynamics/test_signature.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/msa_Cys_knot.fasta -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/msa_Cys_knot.slx -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/msa_Cys_knot.sth -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/xmlSTI.xml -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/dcd2k39_truncated.dcd -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/anm1ubi_hessian.coo -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/exanm2nwl_hessian.coo -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/gnm1ubi_kirchhoff.coo -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pca2k39_cov.coo -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/rtb2gb1_hessian.coo -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/rtb2gb1_project.coo -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/mmcif_6yfy.cif -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/mmcif_6zu5.cif -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/anm1ubi_evalues.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/anm1ubi_vectors.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/commute1ubi.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/exanm2nwl_evalues.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/exanm2nwl_vectors.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/gnm1ubi_evalues.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/gnm1ubi_vectors.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/hit1ubi.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/msa_Cys_knot_di.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/msa_Cys_knot_sca.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pca2k39_evalues.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pca2k39_vectors.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb1ejg.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb1ejg_oneatom.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb1r19_dssp.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb1tw7_step3_charmm2namd.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_h36.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb1tw7_step3_charmm2namd_doubled_hex.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb1ubi.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb1ubi_ca.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb2gb1_truncated.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb2k39_ca.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb2k39_truncated.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb2nwl-opm.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb3hsy.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb3mht.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb3o21.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdb3p3w.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/pdbRTER.pdb -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/datafiles/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/__pycache__/test_subset.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/__pycache__/test_select.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/__pycache__/test_hierview.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/__pycache__/test_fragment.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/__pycache__/test_atommap.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/__pycache__/test_atomic.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/test_atomic.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/test_atommap.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/test_fragment.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/test_hierview.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/test_select.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/atomic/test_subset.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/__pycache__/test_prody_pca.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/__pycache__/test_prody_gnm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/__pycache__/test_prody_examples.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/__pycache__/test_prody_catdcd.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/__pycache__/test_prody_anm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/test_prody_anm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/test_prody_catdcd.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/test_prody_examples.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/test_prody_gnm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/apps/test_prody_pca.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/tests/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/__pycache__/apptools.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/__pycache__ creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/__pycache__/evol_rankorder.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/__pycache__/evol_coevol.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/__pycache__/evol_conserv.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/__pycache__/evol_occupancy.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/__pycache__/evol_merge.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/__pycache__/evol_refine.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/__pycache__/evol_filter.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/__pycache__/evol_fetch.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/__pycache__/evol_search.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/evol_coevol.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/evol_conserv.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/evol_fetch.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/evol_filter.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/evol_merge.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/evol_occupancy.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/evol_rankorder.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/evol_refine.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/evol_apps/evol_search.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_energy.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_select.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_fetch.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_contacts.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_catdcd.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_biomol.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_blast.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_align.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_eda.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_pca.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_gnm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/nmaoptions.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/prody_anm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/nmaoptions.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_align.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_anm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_biomol.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_blast.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_catdcd.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_contacts.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_eda.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_energy.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_fetch.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_gnm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_pca.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/prody_apps/prody_select.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/apps/apptools.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/catchall.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/eigtools.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/TreeConstruction.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/seqtools.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/laptools.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/doctools.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/misctools.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/pathtools.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/settings.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/logger.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/checkers.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__pycache__ creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/datafiles/mod_res_map.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/datafiles/saxs_water.dat -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/datafiles copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/TreeConstruction.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/catchall.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/checkers.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/doctools.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/drawtools.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/eigtools.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/laptools.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/legacy.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/logger.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/misctools.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/pathtools.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/seqtools.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/utilities/settings.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/domain_decomposition creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/domain_decomposition/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/domain_decomposition/__pycache__/spectrus.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/domain_decomposition/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/domain_decomposition/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/domain_decomposition/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/domain_decomposition/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/domain_decomposition copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/domain_decomposition/spectrus.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/domain_decomposition creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds/__pycache__/functions.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds/__pycache__/ccd.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds/__pycache__/bird.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds/__pycache__/pdbligands.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds/bird.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds/ccd.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds/functions.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/compounds/pdbligands.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin/__pycache__/cluster.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin/__pycache__/functions.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin/__pycache__/norm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin/__pycache__/hic.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin/cluster.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin/functions.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin/hic.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin/norm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/chromatin/straw.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/__pycache__/psffile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/__pycache__/trajfile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/__pycache__/dcdfile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/__pycache__/trajectory.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/__pycache__/frame.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/__pycache__/trajbase.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/dcdfile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/frame.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/psffile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/trajbase.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/trajectory.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/trajectory/trajfile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/__pycache__/plotting.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/__pycache__/analysis.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/__pycache__/msafile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/__pycache__/sequence.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/__pycache__/msa.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/seqtools.cpython-311-x86_64-linux-gnu.so -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/msaio.cpython-311-x86_64-linux-gnu.so -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/msatools.cpython-311-x86_64-linux-gnu.so -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/analysis.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/msa.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/msafile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/plotting.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/sequence/sequence.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/stride.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/dssp.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/functions.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/cifheader.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/emdfile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/starfile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/ciffile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/header.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/pdbfile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/blastpdb.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/pdbclusters.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/wwpdb.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/localpdb.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/compare.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/ccealign.cpython-311-x86_64-linux-gnu.so -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/blastpdb.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/ciffile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/cifheader.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/compare.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/dssp.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/emdfile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/functions.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/header.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/localpdb.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/pdbclusters.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/pdbfile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/starfile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/stride.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/proteins/wwpdb.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure/__pycache__/transform.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure/__pycache__/contacts.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure/__pycache__/measure.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure/contacts.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure/measure.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/measure/transform.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/kdtree creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/kdtree/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree/__pycache__/kdtree.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/kdtree/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/kdtree/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree/_CKDTree.cpython-311-x86_64-linux-gnu.so -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/kdtree copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/kdtree copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/kdtree/kdtree.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/kdtree creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble/__pycache__/pdbensemble.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble/__pycache__/conformation.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble/__pycache__/ensemble.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble/__pycache__/functions.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble/conformation.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble/ensemble.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble/functions.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/ensemble/pdbensemble.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/essa.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/clustenm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/adaptive.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/signature.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/exgnm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/vmdfile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/nmdfile.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/mechstiff.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/heatmapper.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/sampling.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/plotting.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/perturb.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/imanm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/rtb.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/exanm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/functions.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/pca.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/anm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/editing.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/compare.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/gamma.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/gnm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/analysis.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/modeset.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/mode.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/nma.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/entropy.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/smtools.cpython-311-x86_64-linux-gnu.so -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/rtbtools.cpython-311-x86_64-linux-gnu.so -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/adaptive.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/analysis.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/anm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/bbenm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/clustenm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/compare.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/editing.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/entropy.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/essa.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/exanm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/exgnm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/functions.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/gamma.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/gnm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/heatmapper.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/imanm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/mechstiff.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/mode.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/modeset.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/nma.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/nmdfile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/pca.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/perturb.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/plotting.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/rtb.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/sampling.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/signature.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/dynamics/vmdfile.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/__pycache__/quartataweb.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/__pycache__/goa.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/__pycache__/dali.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/__pycache__/cath.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/__pycache__/uniprot.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/__pycache__/pfam.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/cath.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/dali.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/goa.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/pfam.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/quartataweb.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/database/uniprot.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic creating /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/functions.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/hierview.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/residue.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/atommap.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/segment.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/selection.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/atomgroup.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/select.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/subset.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/chain.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/nbexclusion.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/crossterm.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/acceptor.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/donor.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/improper.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/dihedral.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/angle.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/bond.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/atomic.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/pointer.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/atom.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/flags.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/fields.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__pycache__/__init__.cpython-311.pyc -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__pycache__ copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/acceptor.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/angle.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/atom.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/atomgroup.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/atomic.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/atommap.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/bond.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/chain.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/crossterm.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/dihedral.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/donor.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/fields.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/flags.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/functions.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/hierview.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/improper.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/nbexclusion.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/pointer.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/residue.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/segment.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/select.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/selection.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/atomic/subset.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic copying /build/prody-2.3.1+dfsg/.pybuild/cpython3_3.11_prody/build/prody/__init__.py -> /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities/test_checkers.py to test_checkers.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities/test_misctools.py to test_misctools.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/utilities/test_pathtools.py to test_pathtools.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/trajectory/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/trajectory/test_dcdfile.py to test_dcdfile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/trajectory/test_frame.py to test_frame.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence/test_analysis.py to test_analysis.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence/test_msa.py to test_msa.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence/test_msafile.py to test_msafile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/sequence/test_sequence.py to test_sequence.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/test_ciffile.py to test_ciffile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/test_dssp.py to test_dssp.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/test_header.py to test_header.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/test_pdbfile.py to test_pdbfile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/test_localpdb.py to test_localpdb.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/proteins/test_wwpdb.py to test_wwpdb.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure/test_contacts.py to test_contacts.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure/test_measure.py to test_measure.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/measure/test_transform.py to test_transform.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/kdtree/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/kdtree/test_kdtree.py to test_kdtree.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble/test_conformation.py to test_conformation.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble/test_ensemble.py to test_ensemble.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble/test_functions.py to test_functions.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/ensemble/test_pdbensemble.py to test_pdbensemble.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics/test_editing.py to test_editing.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics/test_enms.py to test_enms.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics/test_pca.py to test_pca.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/dynamics/test_signature.py to test_signature.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/datafiles/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/test_atomic.py to test_atomic.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/test_atommap.py to test_atommap.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/test_fragment.py to test_fragment.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/test_hierview.py to test_hierview.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/test_select.py to test_select.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/atomic/test_subset.py to test_subset.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/test_prody_anm.py to test_prody_anm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/test_prody_catdcd.py to test_prody_catdcd.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/test_prody_examples.py to test_prody_examples.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/test_prody_gnm.py to test_prody_gnm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/apps/test_prody_pca.py to test_prody_pca.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/tests/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/evol_coevol.py to evol_coevol.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/evol_conserv.py to evol_conserv.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/evol_fetch.py to evol_fetch.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/evol_filter.py to evol_filter.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/evol_merge.py to evol_merge.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/evol_occupancy.py to evol_occupancy.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/evol_rankorder.py to evol_rankorder.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/evol_refine.py to evol_refine.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/evol_apps/evol_search.py to evol_search.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/nmaoptions.py to nmaoptions.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_align.py to prody_align.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_anm.py to prody_anm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_biomol.py to prody_biomol.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_blast.py to prody_blast.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_catdcd.py to prody_catdcd.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_contacts.py to prody_contacts.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_eda.py to prody_eda.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_energy.py to prody_energy.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_fetch.py to prody_fetch.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_gnm.py to prody_gnm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_pca.py to prody_pca.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/prody_apps/prody_select.py to prody_select.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/apps/apptools.py to apptools.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/TreeConstruction.py to TreeConstruction.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/catchall.py to catchall.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/checkers.py to checkers.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/doctools.py to doctools.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/drawtools.py to drawtools.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/eigtools.py to eigtools.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/laptools.py to laptools.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/legacy.py to legacy.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/logger.py to logger.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/misctools.py to misctools.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/pathtools.py to pathtools.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/seqtools.py to seqtools.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/utilities/settings.py to settings.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/domain_decomposition/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/domain_decomposition/spectrus.py to spectrus.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds/bird.py to bird.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds/ccd.py to ccd.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds/functions.py to functions.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/compounds/pdbligands.py to pdbligands.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/cluster.py to cluster.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/functions.py to functions.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/hic.py to hic.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/norm.py to norm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/chromatin/straw.py to straw.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/dcdfile.py to dcdfile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/frame.py to frame.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/psffile.py to psffile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/trajbase.py to trajbase.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/trajectory.py to trajectory.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/trajectory/trajfile.py to trajfile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/analysis.py to analysis.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/msa.py to msa.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/msafile.py to msafile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/plotting.py to plotting.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/sequence/sequence.py to sequence.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/blastpdb.py to blastpdb.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/ciffile.py to ciffile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/cifheader.py to cifheader.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/compare.py to compare.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/dssp.py to dssp.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/emdfile.py to emdfile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/functions.py to functions.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/header.py to header.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/localpdb.py to localpdb.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/pdbclusters.py to pdbclusters.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/pdbfile.py to pdbfile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/starfile.py to starfile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/stride.py to stride.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/proteins/wwpdb.py to wwpdb.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure/contacts.py to contacts.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure/measure.py to measure.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/measure/transform.py to transform.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/kdtree/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/kdtree/kdtree.py to kdtree.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble/conformation.py to conformation.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble/ensemble.py to ensemble.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble/functions.py to functions.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/ensemble/pdbensemble.py to pdbensemble.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/adaptive.py to adaptive.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/analysis.py to analysis.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/anm.py to anm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/bbenm.py to bbenm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/clustenm.py to clustenm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/compare.py to compare.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/editing.py to editing.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/entropy.py to entropy.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/essa.py to essa.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/exanm.py to exanm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/exgnm.py to exgnm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/functions.py to functions.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/gamma.py to gamma.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/gnm.py to gnm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/heatmapper.py to heatmapper.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/imanm.py to imanm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/mechstiff.py to mechstiff.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/mode.py to mode.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/modeset.py to modeset.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/nma.py to nma.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/nmdfile.py to nmdfile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/pca.py to pca.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/perturb.py to perturb.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/plotting.py to plotting.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/rtb.py to rtb.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/sampling.py to sampling.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/signature.py to signature.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/dynamics/vmdfile.py to vmdfile.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/cath.py to cath.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/dali.py to dali.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/goa.py to goa.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/pfam.py to pfam.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/quartataweb.py to quartataweb.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/database/uniprot.py to uniprot.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/__init__.py to __init__.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/acceptor.py to acceptor.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/angle.py to angle.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/atom.py to atom.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/atomgroup.py to atomgroup.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/atomic.py to atomic.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/atommap.py to atommap.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/bond.py to bond.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/chain.py to chain.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/crossterm.py to crossterm.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/dihedral.py to dihedral.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/donor.py to donor.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/fields.py to fields.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/flags.py to flags.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/functions.py to functions.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/hierview.py to hierview.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/improper.py to improper.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/nbexclusion.py to nbexclusion.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/pointer.py to pointer.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/residue.py to residue.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/segment.py to segment.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/select.py to select.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/selection.py to selection.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/atomic/subset.py to subset.cpython-311.pyc byte-compiling /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/prody/__init__.py to __init__.cpython-311.pyc running install_egg_info running egg_info creating ProDy.egg-info writing ProDy.egg-info/PKG-INFO writing dependency_links to ProDy.egg-info/dependency_links.txt writing entry points to ProDy.egg-info/entry_points.txt writing requirements to ProDy.egg-info/requires.txt writing top-level names to ProDy.egg-info/top_level.txt writing manifest file 'ProDy.egg-info/SOURCES.txt' reading manifest file 'ProDy.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'pyproject.toml' warning: no files found matching 'prody/*/*/*.c' warning: no files found matching 'prody/*/*.cpp' warning: no files found matching 'prody/utilities/datafiles/*.txt' adding license file 'LICENSE.rst' writing manifest file 'ProDy.egg-info/SOURCES.txt' Copying ProDy.egg-info to /build/prody-2.3.1+dfsg/debian/python3-prody/usr/lib/python3.11/dist-packages/ProDy-2.3.1.egg-info Skipping SOURCES.txt running install_scripts Installing evol script to /build/prody-2.3.1+dfsg/debian/python3-prody/usr/bin Installing prody script to /build/prody-2.3.1+dfsg/debian/python3-prody/usr/bin debian/rules override_dh_install make[1]: Entering directory '/build/prody-2.3.1+dfsg' for VERSION in $(py3versions --supported); \ do \ mkdir --parents debian/python3-prody-tests/usr/lib/${VERSION}/dist-packages/prody; \ mv debian/python3-prody/usr/lib/${VERSION}/dist-packages/prody/tests debian/python3-prody-tests/usr/lib/${VERSION}/dist-packages/prody; \ done dh_install make[1]: Leaving directory '/build/prody-2.3.1+dfsg' dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dwz: debian/python3-prody/usr/lib/python3/dist-packages/prody/proteins/ccealign.cpython-311-x86_64-linux-gnu.so: DWARF compression not beneficial - old size 87415 new size 91271 dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_numpy3 -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: Provides field of package python3-prody: substitution variable ${python3:Provides} used, but is not defined dpkg-gencontrol: warning: Provides field of package python3-prody: substitution variable ${python3:Provides} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-prody' in '../python3-prody_2.3.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'python3-prody-dbgsym' in '../python3-prody-dbgsym_2.3.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'python3-prody-tests' in '../python3-prody-tests_2.3.1+dfsg-3_all.deb'. dpkg-genbuildinfo --build=binary -O../prody_2.3.1+dfsg-3_amd64.buildinfo dpkg-genchanges --build=binary -O../prody_2.3.1+dfsg-3_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/876737 and its subdirectories I: Current time: Thu Jun 1 16:42:00 -12 2023 I: pbuilder-time-stamp: 1685680920