I: pbuilder: network access will be disabled during build
I: Current time: Wed Mar 11 15:18:53 -12 2026
I: pbuilder-time-stamp: 1773285533
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/unstable-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 [ruby-bio_2.0.5-1.dsc]
I: copying [./ruby-bio_2.0.5.orig.tar.gz]
I: copying [./ruby-bio_2.0.5-1.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./ruby-bio_2.0.5-1.dsc: unsupported subcommand
dpkg-source: info: extracting ruby-bio in ruby-bio-2.0.5
dpkg-source: info: unpacking ruby-bio_2.0.5.orig.tar.gz
dpkg-source: info: unpacking ruby-bio_2.0.5-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying disable_tests_using_chi2.patch
dpkg-source: info: applying fix_definition_CutSymbol_in_test_cut_symbol.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/4185442/tmp/hooks/D02_print_environment starting
I: set
  BUILDDIR='/build/reproducible-path'
  BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
  BUILDUSERNAME='pbuilder1'
  BUILD_ARCH='arm64'
  DEBIAN_FRONTEND='noninteractive'
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 '
  DISTRIBUTION='unstable'
  HOME='/root'
  HOST_ARCH='arm64'
  IFS=' 	
  '
  INVOCATION_ID='32ed615716a048458b1dbebd359785fb'
  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='4185442'
  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.lg5EDUjY/pbuilderrc_Zvrs --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.lg5EDUjY/b1 --logfile b1/build.log ruby-bio_2.0.5-1.dsc'
  SUDO_GID='109'
  SUDO_UID='104'
  SUDO_USER='jenkins'
  TERM='unknown'
  TZ='/usr/share/zoneinfo/Etc/GMT+12'
  USER='root'
  _='/usr/bin/systemd-run'
  http_proxy='http://192.168.101.4:3128'
I: uname -a
  Linux codethink03-arm64 6.1.0-30-cloud-arm64 #1 SMP Debian 6.1.124-1 (2025-01-12) aarch64 GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Nov 22  2024 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/4185442/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: arm64
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
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), gem2deb, ruby-libxml, ruby-test-unit, docbook-to-man, rdtool
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19920 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 gem2deb; however:
  Package gem2deb is not installed.
 pbuilder-satisfydepends-dummy depends on ruby-libxml; however:
  Package ruby-libxml is not installed.
 pbuilder-satisfydepends-dummy depends on ruby-test-unit; however:
  Package ruby-test-unit is not installed.
 pbuilder-satisfydepends-dummy depends on docbook-to-man; however:
  Package docbook-to-man is not installed.
 pbuilder-satisfydepends-dummy depends on rdtool; however:
  Package rdtool 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} ca-certificates{a} debhelper{a} devscripts{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dirmngr{a} docbook{a} docbook-to-man{a} dwz{a} file{a} gem2deb{a} gem2deb-test-runner{a} gettext{a} gettext-base{a} gnupg{a} gnupg-l10n{a} gpg{a} gpg-agent{a} gpgconf{a} gpgsm{a} gpgv{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libassuan9{a} libb-hooks-op-check-perl{a} libclass-method-modifiers-perl{a} libclass-xsaccessor-perl{a} libclone-perl{a} libdebhelper-perl{a} libdevel-callchecker-perl{a} libdynaloader-functions-perl{a} libedit2{a} libelf1t64{a} libencode-locale-perl{a} libexpat1{a} libffi8{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libgcrypt20{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls30t64{a} libgpg-error0{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libicu72{a} libidn2-0{a} libimport-into-perl{a} libio-html-perl{a} libio-pty-perl{a} libio-socket-ssl-perl{a} libipc-run-perl{a} libksba8{a} libldap2{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} libmagic-mgc{a} libmagic1t64{a} libmodule-runtime-perl{a} libmoo-perl{a} libncurses6{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnpth0t64{a} libosp5{a} libp11-kit0{a} libparams-classify-perl{a} libpipeline1{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} librole-tiny-perl{a} libruby{a} libruby3.1t64{a} libruby3.3{a} libsasl2-2{a} libsasl2-modules-db{a} libsub-quote-perl{a} libtasn1-6{a} libtimedate-perl{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libunistring5{a} liburi-perl{a} libwww-perl{a} libwww-robotrules-perl{a} libxml2{a} libyaml-0-2{a} m4{a} man-db{a} media-types{a} netbase{a} opensp{a} openssl{a} patchutils{a} perl-openssl-defaults{a} pinentry-curses{a} po-debconf{a} python3{a} python3-minimal{a} python3.13{a} python3.13-minimal{a} rake{a} rdtool{a} readline-common{a} ruby{a} ruby-all-dev{a} ruby-did-you-mean{a} ruby-libxml{a} ruby-minitest{a} ruby-net-telnet{a} ruby-power-assert{a} ruby-rd{a} ruby-rubygems{a} ruby-sdbm{a} ruby-test-unit{a} ruby-webrick{a} ruby-xmlrpc{a} ruby3.1{a} ruby3.1-dev{a} ruby3.3{a} ruby3.3-dev{a} rubygems-integration{a} sensible-utils{a} sgml-base{a} sgml-data{a} sopv-gpgv{a} tzdata{a} wdiff{a} xml-core{a} 
The following packages are RECOMMENDED but will NOT be installed:
  apt-file curl dctrl-tools debian-keyring dput dput-ng dupload equivs fonts-lato gnupg-utils gpg-wks-client libarchive-cpio-perl libdata-dump-perl libdistro-info-perl libgit-wrapper-perl libgitlab-api-v4-perl libgpg-error-l10n libgpm2 libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libio-compress-brotli-perl libjs-jquery libjson-perl libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libxstring-perl licensecheck lintian lynx pristine-tar python3-apt python3-argcomplete python3-debian python3-magic python3-requests python3-unidiff python3-xdg ruby3.1-doc ruby3.3-doc strace unzip wget zip 
0 packages upgraded, 147 newly installed, 0 to remove and 0 not upgraded.
Need to get 56.0 MB of archives. After unpacking 230 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main arm64 libpython3.13-minimal arm64 3.13.2-1 [853 kB]
Get: 2 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.6.4-1 [90.7 kB]
Get: 3 http://deb.debian.org/debian unstable/main arm64 python3.13-minimal arm64 3.13.2-1 [1997 kB]
Get: 4 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.13.1-2 [27.0 kB]
Get: 5 http://deb.debian.org/debian unstable/main arm64 media-types all 10.1.0 [26.9 kB]
Get: 6 http://deb.debian.org/debian unstable/main arm64 netbase all 6.4 [12.8 kB]
Get: 7 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025a-2 [259 kB]
Get: 8 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.4.6-1 [20.9 kB]
Get: 9 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-6 [69.4 kB]
Get: 10 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-6 [159 kB]
Get: 11 http://deb.debian.org/debian unstable/main arm64 libpython3.13-stdlib arm64 3.13.2-1 [1914 kB]
Get: 12 http://deb.debian.org/debian unstable/main arm64 python3.13 arm64 3.13.2-1 [745 kB]
Get: 13 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.13.1-2 [9952 B]
Get: 14 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.13.1-2 [28.0 kB]
Get: 15 http://deb.debian.org/debian unstable/main arm64 sgml-base all 1.31 [15.4 kB]
Get: 16 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB]
Get: 17 http://deb.debian.org/debian unstable/main arm64 openssl arm64 3.4.0-2 [1385 kB]
Get: 18 http://deb.debian.org/debian unstable/main arm64 ca-certificates all 20241223 [164 kB]
Get: 19 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB]
Get: 20 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB]
Get: 21 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3+b1 [43.4 kB]
Get: 22 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.1-1 [241 kB]
Get: 23 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB]
Get: 24 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-7 [1129 kB]
Get: 25 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.4-3 [92.0 kB]
Get: 26 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB]
Get: 27 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB]
Get: 28 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-5 [284 kB]
Get: 29 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB]
Get: 30 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB]
Get: 31 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.17-3 [862 kB]
Get: 32 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-1 [770 kB]
Get: 33 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 34 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-3 [539 kB]
Get: 35 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB]
Get: 36 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 37 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.1-1 [19.6 kB]
Get: 38 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.1-1 [8584 B]
Get: 39 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB]
Get: 40 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB]
Get: 41 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-1 [449 kB]
Get: 42 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-6 [9239 kB]
Get: 43 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [630 kB]
Get: 44 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-1 [1610 kB]
Get: 45 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 46 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 47 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.24.1 [920 kB]
Get: 48 http://deb.debian.org/debian unstable/main arm64 libgpg-error0 arm64 1.51-3 [78.5 kB]
Get: 49 http://deb.debian.org/debian unstable/main arm64 libassuan9 arm64 3.0.1-2 [58.1 kB]
Get: 50 http://deb.debian.org/debian unstable/main arm64 libgcrypt20 arm64 1.11.0-7 [742 kB]
Get: 51 http://deb.debian.org/debian unstable/main arm64 gpgconf arm64 2.2.46-1+b1 [115 kB]
Get: 52 http://deb.debian.org/debian unstable/main arm64 libidn2-0 arm64 2.3.7-2+b1 [127 kB]
Get: 53 http://deb.debian.org/debian unstable/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB]
Get: 54 http://deb.debian.org/debian unstable/main arm64 libtasn1-6 arm64 4.19.0-3+b3 [46.9 kB]
Get: 55 http://deb.debian.org/debian unstable/main arm64 libgnutls30t64 arm64 3.8.8-2 [1363 kB]
Get: 56 http://deb.debian.org/debian unstable/main arm64 libksba8 arm64 1.6.7-2+b1 [125 kB]
Get: 57 http://deb.debian.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8+b1 [20.3 kB]
Get: 58 http://deb.debian.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8+b1 [55.7 kB]
Get: 59 http://deb.debian.org/debian unstable/main arm64 libldap2 arm64 2.6.9+dfsg-1 [179 kB]
Get: 60 http://deb.debian.org/debian unstable/main arm64 libnpth0t64 arm64 1.8-2 [22.8 kB]
Get: 61 http://deb.debian.org/debian unstable/main arm64 dirmngr arm64 2.2.46-1+b1 [344 kB]
Get: 62 http://deb.debian.org/debian unstable/main arm64 gnupg-l10n all 2.2.46-1 [702 kB]
Get: 63 http://deb.debian.org/debian unstable/main arm64 gpg arm64 2.2.46-1+b1 [481 kB]
Get: 64 http://deb.debian.org/debian unstable/main arm64 pinentry-curses arm64 1.3.1-2 [83.5 kB]
Get: 65 http://deb.debian.org/debian unstable/main arm64 gpg-agent arm64 2.2.46-1+b1 [231 kB]
Get: 66 http://deb.debian.org/debian unstable/main arm64 gpgsm arm64 2.2.46-1+b1 [232 kB]
Get: 67 http://deb.debian.org/debian unstable/main arm64 gnupg all 2.2.46-1 [376 kB]
Get: 68 http://deb.debian.org/debian unstable/main arm64 gpgv arm64 2.2.46-1+b1 [200 kB]
Get: 69 http://deb.debian.org/debian unstable/main arm64 sopv-gpgv all 0.1.1-1 [10.7 kB]
Get: 70 http://deb.debian.org/debian unstable/main arm64 libfile-dirlist-perl all 0.05-3 [7600 B]
Get: 71 http://deb.debian.org/debian unstable/main arm64 libfile-which-perl all 1.27-2 [15.1 kB]
Get: 72 http://deb.debian.org/debian unstable/main arm64 libfile-homedir-perl all 1.006-2 [42.4 kB]
Get: 73 http://deb.debian.org/debian unstable/main arm64 libfile-touch-perl all 0.12-2 [8816 B]
Get: 74 http://deb.debian.org/debian unstable/main arm64 libio-pty-perl arm64 1:1.20-1+b2 [34.0 kB]
Get: 75 http://deb.debian.org/debian unstable/main arm64 libipc-run-perl all 20231003.0-2 [101 kB]
Get: 76 http://deb.debian.org/debian unstable/main arm64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB]
Get: 77 http://deb.debian.org/debian unstable/main arm64 libclass-xsaccessor-perl arm64 1.19-4+b4 [34.9 kB]
Get: 78 http://deb.debian.org/debian unstable/main arm64 libb-hooks-op-check-perl arm64 0.22-3+b2 [10.6 kB]
Get: 79 http://deb.debian.org/debian unstable/main arm64 libdynaloader-functions-perl all 0.004-1 [12.1 kB]
Get: 80 http://deb.debian.org/debian unstable/main arm64 libdevel-callchecker-perl arm64 0.009-1+b1 [16.3 kB]
Get: 81 http://deb.debian.org/debian unstable/main arm64 libparams-classify-perl arm64 0.015-2+b4 [22.3 kB]
Get: 82 http://deb.debian.org/debian unstable/main arm64 libmodule-runtime-perl all 0.016-2 [19.6 kB]
Get: 83 http://deb.debian.org/debian unstable/main arm64 libimport-into-perl all 1.002005-2 [11.3 kB]
Get: 84 http://deb.debian.org/debian unstable/main arm64 librole-tiny-perl all 2.002004-1 [21.4 kB]
Get: 85 http://deb.debian.org/debian unstable/main arm64 libsub-quote-perl all 2.006008-1 [21.8 kB]
Get: 86 http://deb.debian.org/debian unstable/main arm64 libmoo-perl all 2.005005-1 [58.0 kB]
Get: 87 http://deb.debian.org/debian unstable/main arm64 libencode-locale-perl all 1.05-3 [12.9 kB]
Get: 88 http://deb.debian.org/debian unstable/main arm64 libtimedate-perl all 2.3300-2 [39.3 kB]
Get: 89 http://deb.debian.org/debian unstable/main arm64 libhttp-date-perl all 6.06-1 [10.7 kB]
Get: 90 http://deb.debian.org/debian unstable/main arm64 libfile-listing-perl all 6.16-1 [12.4 kB]
Get: 91 http://deb.debian.org/debian unstable/main arm64 libhtml-tagset-perl all 3.24-1 [14.7 kB]
Get: 92 http://deb.debian.org/debian unstable/main arm64 liburi-perl all 5.30-1 [105 kB]
Get: 93 http://deb.debian.org/debian unstable/main arm64 libhtml-parser-perl arm64 3.83-1+b2 [97.5 kB]
Get: 94 http://deb.debian.org/debian unstable/main arm64 libhtml-tree-perl all 5.07-3 [211 kB]
Get: 95 http://deb.debian.org/debian unstable/main arm64 libclone-perl arm64 0.47-1+b1 [13.7 kB]
Get: 96 http://deb.debian.org/debian unstable/main arm64 libio-html-perl all 1.004-3 [16.2 kB]
Get: 97 http://deb.debian.org/debian unstable/main arm64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB]
Get: 98 http://deb.debian.org/debian unstable/main arm64 libhttp-message-perl all 7.00-2 [79.8 kB]
Get: 99 http://deb.debian.org/debian unstable/main arm64 libhttp-cookies-perl all 6.11-1 [19.1 kB]
Get: 100 http://deb.debian.org/debian unstable/main arm64 libhttp-negotiate-perl all 6.01-2 [13.1 kB]
Get: 101 http://deb.debian.org/debian unstable/main arm64 perl-openssl-defaults arm64 7+b2 [6712 B]
Get: 102 http://deb.debian.org/debian unstable/main arm64 libnet-ssleay-perl arm64 1.94-2 [323 kB]
Get: 103 http://deb.debian.org/debian unstable/main arm64 libio-socket-ssl-perl all 2.089-1 [223 kB]
Get: 104 http://deb.debian.org/debian unstable/main arm64 libnet-http-perl all 6.23-1 [23.9 kB]
Get: 105 http://deb.debian.org/debian unstable/main arm64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB]
Get: 106 http://deb.debian.org/debian unstable/main arm64 libtry-tiny-perl all 0.32-1 [22.9 kB]
Get: 107 http://deb.debian.org/debian unstable/main arm64 libwww-robotrules-perl all 6.02-1 [12.9 kB]
Get: 108 http://deb.debian.org/debian unstable/main arm64 libwww-perl all 6.77-1 [183 kB]
Get: 109 http://deb.debian.org/debian unstable/main arm64 patchutils arm64 0.4.2-1+b1 [71.3 kB]
Get: 110 http://deb.debian.org/debian unstable/main arm64 wdiff arm64 1.2.2-7 [121 kB]
Get: 111 http://deb.debian.org/debian unstable/main arm64 devscripts all 2.25.2 [1058 kB]
Get: 112 http://deb.debian.org/debian unstable/main arm64 xml-core all 0.19 [20.1 kB]
Get: 113 http://deb.debian.org/debian unstable/main arm64 sgml-data all 2.0.11+nmu1 [179 kB]
Get: 114 http://deb.debian.org/debian unstable/main arm64 docbook all 4.5-11 [126 kB]
Get: 115 http://deb.debian.org/debian unstable/main arm64 libosp5 arm64 1.5.2-15.1 [922 kB]
Get: 116 http://deb.debian.org/debian unstable/main arm64 opensp arm64 1.5.2-15.1 [441 kB]
Get: 117 http://deb.debian.org/debian unstable/main arm64 docbook-to-man arm64 1:2.0.0-47+b1 [71.4 kB]
Get: 118 http://deb.debian.org/debian unstable/main arm64 rubygems-integration all 1.19 [5488 B]
Get: 119 http://deb.debian.org/debian unstable/main arm64 ruby-did-you-mean all 1.6.3-2 [20.9 kB]
Get: 120 http://deb.debian.org/debian unstable/main arm64 ruby-net-telnet all 0.2.0-1 [13.1 kB]
Get: 121 http://deb.debian.org/debian unstable/main arm64 ruby-webrick all 1.8.1-1 [51.4 kB]
Get: 122 http://deb.debian.org/debian unstable/main arm64 ruby-xmlrpc all 0.3.3-2 [24.4 kB]
Get: 123 http://deb.debian.org/debian unstable/main arm64 libruby arm64 1:3.3~3.2 [5084 B]
Get: 124 http://deb.debian.org/debian unstable/main arm64 ruby-sdbm arm64 1.0.0-5+b6 [17.9 kB]
Get: 125 http://deb.debian.org/debian unstable/main arm64 libedit2 arm64 3.1-20250104-1 [89.3 kB]
Get: 126 http://deb.debian.org/debian unstable/main arm64 libncurses6 arm64 6.5+20250125-2 [96.2 kB]
Get: 127 http://deb.debian.org/debian unstable/main arm64 libyaml-0-2 arm64 0.2.5-2 [49.2 kB]
Get: 128 http://deb.debian.org/debian unstable/main arm64 libruby3.1t64 arm64 3.1.2-8.5 [5267 kB]
Get: 129 http://deb.debian.org/debian unstable/main arm64 ruby-minitest all 5.25.4-1 [66.2 kB]
Get: 130 http://deb.debian.org/debian unstable/main arm64 ruby-power-assert all 2.0.3-1 [11.8 kB]
Get: 131 http://deb.debian.org/debian unstable/main arm64 ruby-test-unit all 3.6.2-1 [79.1 kB]
Get: 132 http://deb.debian.org/debian unstable/main arm64 libruby3.3 arm64 3.3.7-1 [6122 kB]
Get: 133 http://deb.debian.org/debian unstable/main arm64 ruby3.3 arm64 3.3.7-1 [828 kB]
Get: 134 http://deb.debian.org/debian unstable/main arm64 ruby-rubygems all 3.6.3-1 [406 kB]
Get: 135 http://deb.debian.org/debian unstable/main arm64 ruby arm64 1:3.3~3.2 [6200 B]
Get: 136 http://deb.debian.org/debian unstable/main arm64 rake all 13.2.1-1 [65.2 kB]
Get: 137 http://deb.debian.org/debian unstable/main arm64 gem2deb-test-runner arm64 2.2.5 [17.9 kB]
Get: 138 http://deb.debian.org/debian unstable/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-3 [329 kB]
Get: 139 http://deb.debian.org/debian unstable/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-3 [621 kB]
Get: 140 http://deb.debian.org/debian unstable/main arm64 ruby3.3-dev arm64 3.3.7-1 [1038 kB]
Get: 141 http://deb.debian.org/debian unstable/main arm64 ruby3.1 arm64 3.1.2-8.5 [664 kB]
Get: 142 http://deb.debian.org/debian unstable/main arm64 ruby3.1-dev arm64 3.1.2-8.5 [1007 kB]
Get: 143 http://deb.debian.org/debian unstable/main arm64 ruby-all-dev arm64 1:3.3~3.2 [6180 B]
Get: 144 http://deb.debian.org/debian unstable/main arm64 gem2deb arm64 2.2.5 [48.0 kB]
Get: 145 http://deb.debian.org/debian unstable/main arm64 ruby-rd all 0.6.38-4.1 [64.0 kB]
Get: 146 http://deb.debian.org/debian unstable/main arm64 rdtool all 0.6.38-4.1 [44.5 kB]
Get: 147 http://deb.debian.org/debian unstable/main arm64 ruby-libxml arm64 5.0.3-1+b2 [95.7 kB]
Fetched 56.0 MB in 0s (127 MB/s)
Preconfiguring packages ...
Selecting previously unselected package libpython3.13-minimal:arm64.
(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 ... 19920 files and directories currently installed.)
Preparing to unpack .../libpython3.13-minimal_3.13.2-1_arm64.deb ...
Unpacking libpython3.13-minimal:arm64 (3.13.2-1) ...
Selecting previously unselected package libexpat1:arm64.
Preparing to unpack .../libexpat1_2.6.4-1_arm64.deb ...
Unpacking libexpat1:arm64 (2.6.4-1) ...
Selecting previously unselected package python3.13-minimal.
Preparing to unpack .../python3.13-minimal_3.13.2-1_arm64.deb ...
Unpacking python3.13-minimal (3.13.2-1) ...
Setting up libpython3.13-minimal:arm64 (3.13.2-1) ...
Setting up libexpat1:arm64 (2.6.4-1) ...
Setting up python3.13-minimal (3.13.2-1) ...
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 ... 20254 files and directories currently installed.)
Preparing to unpack .../0-python3-minimal_3.13.1-2_arm64.deb ...
Unpacking python3-minimal (3.13.1-2) ...
Selecting previously unselected package media-types.
Preparing to unpack .../1-media-types_10.1.0_all.deb ...
Unpacking media-types (10.1.0) ...
Selecting previously unselected package netbase.
Preparing to unpack .../2-netbase_6.4_all.deb ...
Unpacking netbase (6.4) ...
Selecting previously unselected package tzdata.
Preparing to unpack .../3-tzdata_2025a-2_all.deb ...
Unpacking tzdata (2025a-2) ...
Selecting previously unselected package libffi8:arm64.
Preparing to unpack .../4-libffi8_3.4.6-1_arm64.deb ...
Unpacking libffi8:arm64 (3.4.6-1) ...
Selecting previously unselected package readline-common.
Preparing to unpack .../5-readline-common_8.2-6_all.deb ...
Unpacking readline-common (8.2-6) ...
Selecting previously unselected package libreadline8t64:arm64.
Preparing to unpack .../6-libreadline8t64_8.2-6_arm64.deb ...
Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64'
Unpacking libreadline8t64:arm64 (8.2-6) ...
Selecting previously unselected package libpython3.13-stdlib:arm64.
Preparing to unpack .../7-libpython3.13-stdlib_3.13.2-1_arm64.deb ...
Unpacking libpython3.13-stdlib:arm64 (3.13.2-1) ...
Selecting previously unselected package python3.13.
Preparing to unpack .../8-python3.13_3.13.2-1_arm64.deb ...
Unpacking python3.13 (3.13.2-1) ...
Selecting previously unselected package libpython3-stdlib:arm64.
Preparing to unpack .../9-libpython3-stdlib_3.13.1-2_arm64.deb ...
Unpacking libpython3-stdlib:arm64 (3.13.1-2) ...
Setting up python3-minimal (3.13.1-2) ...
Selecting previously unselected package python3.
(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 ... 21264 files and directories currently installed.)
Preparing to unpack .../000-python3_3.13.1-2_arm64.deb ...
Unpacking python3 (3.13.1-2) ...
Selecting previously unselected package sgml-base.
Preparing to unpack .../001-sgml-base_1.31_all.deb ...
Unpacking sgml-base (1.31) ...
Selecting previously unselected package sensible-utils.
Preparing to unpack .../002-sensible-utils_0.0.24_all.deb ...
Unpacking sensible-utils (0.0.24) ...
Selecting previously unselected package openssl.
Preparing to unpack .../003-openssl_3.4.0-2_arm64.deb ...
Unpacking openssl (3.4.0-2) ...
Selecting previously unselected package ca-certificates.
Preparing to unpack .../004-ca-certificates_20241223_all.deb ...
Unpacking ca-certificates (20241223) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../005-libmagic-mgc_1%3a5.45-3+b1_arm64.deb ...
Unpacking libmagic-mgc (1:5.45-3+b1) ...
Selecting previously unselected package libmagic1t64:arm64.
Preparing to unpack .../006-libmagic1t64_1%3a5.45-3+b1_arm64.deb ...
Unpacking libmagic1t64:arm64 (1:5.45-3+b1) ...
Selecting previously unselected package file.
Preparing to unpack .../007-file_1%3a5.45-3+b1_arm64.deb ...
Unpacking file (1:5.45-3+b1) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../008-gettext-base_0.23.1-1_arm64.deb ...
Unpacking gettext-base (0.23.1-1) ...
Selecting previously unselected package libuchardet0:arm64.
Preparing to unpack .../009-libuchardet0_0.0.8-1+b2_arm64.deb ...
Unpacking libuchardet0:arm64 (0.0.8-1+b2) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../010-groff-base_1.23.0-7_arm64.deb ...
Unpacking groff-base (1.23.0-7) ...
Selecting previously unselected package bsdextrautils.
Preparing to unpack .../011-bsdextrautils_2.40.4-3_arm64.deb ...
Unpacking bsdextrautils (2.40.4-3) ...
Selecting previously unselected package libpipeline1:arm64.
Preparing to unpack .../012-libpipeline1_1.5.8-1_arm64.deb ...
Unpacking libpipeline1:arm64 (1.5.8-1) ...
Selecting previously unselected package man-db.
Preparing to unpack .../013-man-db_2.13.0-1_arm64.deb ...
Unpacking man-db (2.13.0-1) ...
Selecting previously unselected package m4.
Preparing to unpack .../014-m4_1.4.19-5_arm64.deb ...
Unpacking m4 (1.4.19-5) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../015-autoconf_2.72-3_all.deb ...
Unpacking autoconf (2.72-3) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../016-autotools-dev_20220109.1_all.deb ...
Unpacking autotools-dev (20220109.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../017-automake_1%3a1.17-3_all.deb ...
Unpacking automake (1:1.17-3) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../018-autopoint_0.23.1-1_all.deb ...
Unpacking autopoint (0.23.1-1) ...
Selecting previously unselected package libdebhelper-perl.
Preparing to unpack .../019-libdebhelper-perl_13.24.1_all.deb ...
Unpacking libdebhelper-perl (13.24.1) ...
Selecting previously unselected package libtool.
Preparing to unpack .../020-libtool_2.5.4-3_all.deb ...
Unpacking libtool (2.5.4-3) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../021-dh-autoreconf_20_all.deb ...
Unpacking dh-autoreconf (20) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../022-libarchive-zip-perl_1.68-1_all.deb ...
Unpacking libarchive-zip-perl (1.68-1) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../023-libfile-stripnondeterminism-perl_1.14.1-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (1.14.1-1) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../024-dh-strip-nondeterminism_1.14.1-1_all.deb ...
Unpacking dh-strip-nondeterminism (1.14.1-1) ...
Selecting previously unselected package libelf1t64:arm64.
Preparing to unpack .../025-libelf1t64_0.192-4_arm64.deb ...
Unpacking libelf1t64:arm64 (0.192-4) ...
Selecting previously unselected package dwz.
Preparing to unpack .../026-dwz_0.15-1+b1_arm64.deb ...
Unpacking dwz (0.15-1+b1) ...
Selecting previously unselected package libunistring5:arm64.
Preparing to unpack .../027-libunistring5_1.3-1_arm64.deb ...
Unpacking libunistring5:arm64 (1.3-1) ...
Selecting previously unselected package libicu72:arm64.
Preparing to unpack .../028-libicu72_72.1-6_arm64.deb ...
Unpacking libicu72:arm64 (72.1-6) ...
Selecting previously unselected package libxml2:arm64.
Preparing to unpack .../029-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_arm64.deb ...
Unpacking libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ...
Selecting previously unselected package gettext.
Preparing to unpack .../030-gettext_0.23.1-1_arm64.deb ...
Unpacking gettext (0.23.1-1) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../031-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 .../032-po-debconf_1.0.21+nmu1_all.deb ...
Unpacking po-debconf (1.0.21+nmu1) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../033-debhelper_13.24.1_all.deb ...
Unpacking debhelper (13.24.1) ...
Selecting previously unselected package libgpg-error0:arm64.
Preparing to unpack .../034-libgpg-error0_1.51-3_arm64.deb ...
Unpacking libgpg-error0:arm64 (1.51-3) ...
Selecting previously unselected package libassuan9:arm64.
Preparing to unpack .../035-libassuan9_3.0.1-2_arm64.deb ...
Unpacking libassuan9:arm64 (3.0.1-2) ...
Selecting previously unselected package libgcrypt20:arm64.
Preparing to unpack .../036-libgcrypt20_1.11.0-7_arm64.deb ...
Unpacking libgcrypt20:arm64 (1.11.0-7) ...
Selecting previously unselected package gpgconf.
Preparing to unpack .../037-gpgconf_2.2.46-1+b1_arm64.deb ...
Unpacking gpgconf (2.2.46-1+b1) ...
Selecting previously unselected package libidn2-0:arm64.
Preparing to unpack .../038-libidn2-0_2.3.7-2+b1_arm64.deb ...
Unpacking libidn2-0:arm64 (2.3.7-2+b1) ...
Selecting previously unselected package libp11-kit0:arm64.
Preparing to unpack .../039-libp11-kit0_0.25.5-3_arm64.deb ...
Unpacking libp11-kit0:arm64 (0.25.5-3) ...
Selecting previously unselected package libtasn1-6:arm64.
Preparing to unpack .../040-libtasn1-6_4.19.0-3+b3_arm64.deb ...
Unpacking libtasn1-6:arm64 (4.19.0-3+b3) ...
Selecting previously unselected package libgnutls30t64:arm64.
Preparing to unpack .../041-libgnutls30t64_3.8.8-2_arm64.deb ...
Unpacking libgnutls30t64:arm64 (3.8.8-2) ...
Selecting previously unselected package libksba8:arm64.
Preparing to unpack .../042-libksba8_1.6.7-2+b1_arm64.deb ...
Unpacking libksba8:arm64 (1.6.7-2+b1) ...
Selecting previously unselected package libsasl2-modules-db:arm64.
Preparing to unpack .../043-libsasl2-modules-db_2.1.28+dfsg1-8+b1_arm64.deb ...
Unpacking libsasl2-modules-db:arm64 (2.1.28+dfsg1-8+b1) ...
Selecting previously unselected package libsasl2-2:arm64.
Preparing to unpack .../044-libsasl2-2_2.1.28+dfsg1-8+b1_arm64.deb ...
Unpacking libsasl2-2:arm64 (2.1.28+dfsg1-8+b1) ...
Selecting previously unselected package libldap2:arm64.
Preparing to unpack .../045-libldap2_2.6.9+dfsg-1_arm64.deb ...
Unpacking libldap2:arm64 (2.6.9+dfsg-1) ...
Selecting previously unselected package libnpth0t64:arm64.
Preparing to unpack .../046-libnpth0t64_1.8-2_arm64.deb ...
Unpacking libnpth0t64:arm64 (1.8-2) ...
Selecting previously unselected package dirmngr.
Preparing to unpack .../047-dirmngr_2.2.46-1+b1_arm64.deb ...
Unpacking dirmngr (2.2.46-1+b1) ...
Selecting previously unselected package gnupg-l10n.
Preparing to unpack .../048-gnupg-l10n_2.2.46-1_all.deb ...
Unpacking gnupg-l10n (2.2.46-1) ...
Selecting previously unselected package gpg.
Preparing to unpack .../049-gpg_2.2.46-1+b1_arm64.deb ...
Unpacking gpg (2.2.46-1+b1) ...
Selecting previously unselected package pinentry-curses.
Preparing to unpack .../050-pinentry-curses_1.3.1-2_arm64.deb ...
Unpacking pinentry-curses (1.3.1-2) ...
Selecting previously unselected package gpg-agent.
Preparing to unpack .../051-gpg-agent_2.2.46-1+b1_arm64.deb ...
Unpacking gpg-agent (2.2.46-1+b1) ...
Selecting previously unselected package gpgsm.
Preparing to unpack .../052-gpgsm_2.2.46-1+b1_arm64.deb ...
Unpacking gpgsm (2.2.46-1+b1) ...
Selecting previously unselected package gnupg.
Preparing to unpack .../053-gnupg_2.2.46-1_all.deb ...
Unpacking gnupg (2.2.46-1) ...
Selecting previously unselected package gpgv.
Preparing to unpack .../054-gpgv_2.2.46-1+b1_arm64.deb ...
Unpacking gpgv (2.2.46-1+b1) ...
Selecting previously unselected package sopv-gpgv.
Preparing to unpack .../055-sopv-gpgv_0.1.1-1_all.deb ...
Unpacking sopv-gpgv (0.1.1-1) ...
Selecting previously unselected package libfile-dirlist-perl.
Preparing to unpack .../056-libfile-dirlist-perl_0.05-3_all.deb ...
Unpacking libfile-dirlist-perl (0.05-3) ...
Selecting previously unselected package libfile-which-perl.
Preparing to unpack .../057-libfile-which-perl_1.27-2_all.deb ...
Unpacking libfile-which-perl (1.27-2) ...
Selecting previously unselected package libfile-homedir-perl.
Preparing to unpack .../058-libfile-homedir-perl_1.006-2_all.deb ...
Unpacking libfile-homedir-perl (1.006-2) ...
Selecting previously unselected package libfile-touch-perl.
Preparing to unpack .../059-libfile-touch-perl_0.12-2_all.deb ...
Unpacking libfile-touch-perl (0.12-2) ...
Selecting previously unselected package libio-pty-perl.
Preparing to unpack .../060-libio-pty-perl_1%3a1.20-1+b2_arm64.deb ...
Unpacking libio-pty-perl (1:1.20-1+b2) ...
Selecting previously unselected package libipc-run-perl.
Preparing to unpack .../061-libipc-run-perl_20231003.0-2_all.deb ...
Unpacking libipc-run-perl (20231003.0-2) ...
Selecting previously unselected package libclass-method-modifiers-perl.
Preparing to unpack .../062-libclass-method-modifiers-perl_2.15-1_all.deb ...
Unpacking libclass-method-modifiers-perl (2.15-1) ...
Selecting previously unselected package libclass-xsaccessor-perl.
Preparing to unpack .../063-libclass-xsaccessor-perl_1.19-4+b4_arm64.deb ...
Unpacking libclass-xsaccessor-perl (1.19-4+b4) ...
Selecting previously unselected package libb-hooks-op-check-perl:arm64.
Preparing to unpack .../064-libb-hooks-op-check-perl_0.22-3+b2_arm64.deb ...
Unpacking libb-hooks-op-check-perl:arm64 (0.22-3+b2) ...
Selecting previously unselected package libdynaloader-functions-perl.
Preparing to unpack .../065-libdynaloader-functions-perl_0.004-1_all.deb ...
Unpacking libdynaloader-functions-perl (0.004-1) ...
Selecting previously unselected package libdevel-callchecker-perl:arm64.
Preparing to unpack .../066-libdevel-callchecker-perl_0.009-1+b1_arm64.deb ...
Unpacking libdevel-callchecker-perl:arm64 (0.009-1+b1) ...
Selecting previously unselected package libparams-classify-perl:arm64.
Preparing to unpack .../067-libparams-classify-perl_0.015-2+b4_arm64.deb ...
Unpacking libparams-classify-perl:arm64 (0.015-2+b4) ...
Selecting previously unselected package libmodule-runtime-perl.
Preparing to unpack .../068-libmodule-runtime-perl_0.016-2_all.deb ...
Unpacking libmodule-runtime-perl (0.016-2) ...
Selecting previously unselected package libimport-into-perl.
Preparing to unpack .../069-libimport-into-perl_1.002005-2_all.deb ...
Unpacking libimport-into-perl (1.002005-2) ...
Selecting previously unselected package librole-tiny-perl.
Preparing to unpack .../070-librole-tiny-perl_2.002004-1_all.deb ...
Unpacking librole-tiny-perl (2.002004-1) ...
Selecting previously unselected package libsub-quote-perl.
Preparing to unpack .../071-libsub-quote-perl_2.006008-1_all.deb ...
Unpacking libsub-quote-perl (2.006008-1) ...
Selecting previously unselected package libmoo-perl.
Preparing to unpack .../072-libmoo-perl_2.005005-1_all.deb ...
Unpacking libmoo-perl (2.005005-1) ...
Selecting previously unselected package libencode-locale-perl.
Preparing to unpack .../073-libencode-locale-perl_1.05-3_all.deb ...
Unpacking libencode-locale-perl (1.05-3) ...
Selecting previously unselected package libtimedate-perl.
Preparing to unpack .../074-libtimedate-perl_2.3300-2_all.deb ...
Unpacking libtimedate-perl (2.3300-2) ...
Selecting previously unselected package libhttp-date-perl.
Preparing to unpack .../075-libhttp-date-perl_6.06-1_all.deb ...
Unpacking libhttp-date-perl (6.06-1) ...
Selecting previously unselected package libfile-listing-perl.
Preparing to unpack .../076-libfile-listing-perl_6.16-1_all.deb ...
Unpacking libfile-listing-perl (6.16-1) ...
Selecting previously unselected package libhtml-tagset-perl.
Preparing to unpack .../077-libhtml-tagset-perl_3.24-1_all.deb ...
Unpacking libhtml-tagset-perl (3.24-1) ...
Selecting previously unselected package liburi-perl.
Preparing to unpack .../078-liburi-perl_5.30-1_all.deb ...
Unpacking liburi-perl (5.30-1) ...
Selecting previously unselected package libhtml-parser-perl:arm64.
Preparing to unpack .../079-libhtml-parser-perl_3.83-1+b2_arm64.deb ...
Unpacking libhtml-parser-perl:arm64 (3.83-1+b2) ...
Selecting previously unselected package libhtml-tree-perl.
Preparing to unpack .../080-libhtml-tree-perl_5.07-3_all.deb ...
Unpacking libhtml-tree-perl (5.07-3) ...
Selecting previously unselected package libclone-perl:arm64.
Preparing to unpack .../081-libclone-perl_0.47-1+b1_arm64.deb ...
Unpacking libclone-perl:arm64 (0.47-1+b1) ...
Selecting previously unselected package libio-html-perl.
Preparing to unpack .../082-libio-html-perl_1.004-3_all.deb ...
Unpacking libio-html-perl (1.004-3) ...
Selecting previously unselected package liblwp-mediatypes-perl.
Preparing to unpack .../083-liblwp-mediatypes-perl_6.04-2_all.deb ...
Unpacking liblwp-mediatypes-perl (6.04-2) ...
Selecting previously unselected package libhttp-message-perl.
Preparing to unpack .../084-libhttp-message-perl_7.00-2_all.deb ...
Unpacking libhttp-message-perl (7.00-2) ...
Selecting previously unselected package libhttp-cookies-perl.
Preparing to unpack .../085-libhttp-cookies-perl_6.11-1_all.deb ...
Unpacking libhttp-cookies-perl (6.11-1) ...
Selecting previously unselected package libhttp-negotiate-perl.
Preparing to unpack .../086-libhttp-negotiate-perl_6.01-2_all.deb ...
Unpacking libhttp-negotiate-perl (6.01-2) ...
Selecting previously unselected package perl-openssl-defaults:arm64.
Preparing to unpack .../087-perl-openssl-defaults_7+b2_arm64.deb ...
Unpacking perl-openssl-defaults:arm64 (7+b2) ...
Selecting previously unselected package libnet-ssleay-perl:arm64.
Preparing to unpack .../088-libnet-ssleay-perl_1.94-2_arm64.deb ...
Unpacking libnet-ssleay-perl:arm64 (1.94-2) ...
Selecting previously unselected package libio-socket-ssl-perl.
Preparing to unpack .../089-libio-socket-ssl-perl_2.089-1_all.deb ...
Unpacking libio-socket-ssl-perl (2.089-1) ...
Selecting previously unselected package libnet-http-perl.
Preparing to unpack .../090-libnet-http-perl_6.23-1_all.deb ...
Unpacking libnet-http-perl (6.23-1) ...
Selecting previously unselected package liblwp-protocol-https-perl.
Preparing to unpack .../091-liblwp-protocol-https-perl_6.14-1_all.deb ...
Unpacking liblwp-protocol-https-perl (6.14-1) ...
Selecting previously unselected package libtry-tiny-perl.
Preparing to unpack .../092-libtry-tiny-perl_0.32-1_all.deb ...
Unpacking libtry-tiny-perl (0.32-1) ...
Selecting previously unselected package libwww-robotrules-perl.
Preparing to unpack .../093-libwww-robotrules-perl_6.02-1_all.deb ...
Unpacking libwww-robotrules-perl (6.02-1) ...
Selecting previously unselected package libwww-perl.
Preparing to unpack .../094-libwww-perl_6.77-1_all.deb ...
Unpacking libwww-perl (6.77-1) ...
Selecting previously unselected package patchutils.
Preparing to unpack .../095-patchutils_0.4.2-1+b1_arm64.deb ...
Unpacking patchutils (0.4.2-1+b1) ...
Selecting previously unselected package wdiff.
Preparing to unpack .../096-wdiff_1.2.2-7_arm64.deb ...
Unpacking wdiff (1.2.2-7) ...
Selecting previously unselected package devscripts.
Preparing to unpack .../097-devscripts_2.25.2_all.deb ...
Unpacking devscripts (2.25.2) ...
Selecting previously unselected package xml-core.
Preparing to unpack .../098-xml-core_0.19_all.deb ...
Unpacking xml-core (0.19) ...
Selecting previously unselected package sgml-data.
Preparing to unpack .../099-sgml-data_2.0.11+nmu1_all.deb ...
Unpacking sgml-data (2.0.11+nmu1) ...
Selecting previously unselected package docbook.
Preparing to unpack .../100-docbook_4.5-11_all.deb ...
Unpacking docbook (4.5-11) ...
Selecting previously unselected package libosp5.
Preparing to unpack .../101-libosp5_1.5.2-15.1_arm64.deb ...
Unpacking libosp5 (1.5.2-15.1) ...
Selecting previously unselected package opensp.
Preparing to unpack .../102-opensp_1.5.2-15.1_arm64.deb ...
Unpacking opensp (1.5.2-15.1) ...
Selecting previously unselected package docbook-to-man.
Preparing to unpack .../103-docbook-to-man_1%3a2.0.0-47+b1_arm64.deb ...
Unpacking docbook-to-man (1:2.0.0-47+b1) ...
Selecting previously unselected package rubygems-integration.
Preparing to unpack .../104-rubygems-integration_1.19_all.deb ...
Unpacking rubygems-integration (1.19) ...
Selecting previously unselected package ruby-did-you-mean.
Preparing to unpack .../105-ruby-did-you-mean_1.6.3-2_all.deb ...
Unpacking ruby-did-you-mean (1.6.3-2) ...
Selecting previously unselected package ruby-net-telnet.
Preparing to unpack .../106-ruby-net-telnet_0.2.0-1_all.deb ...
Unpacking ruby-net-telnet (0.2.0-1) ...
Selecting previously unselected package ruby-webrick.
Preparing to unpack .../107-ruby-webrick_1.8.1-1_all.deb ...
Unpacking ruby-webrick (1.8.1-1) ...
Selecting previously unselected package ruby-xmlrpc.
Preparing to unpack .../108-ruby-xmlrpc_0.3.3-2_all.deb ...
Unpacking ruby-xmlrpc (0.3.3-2) ...
Selecting previously unselected package libruby:arm64.
Preparing to unpack .../109-libruby_1%3a3.3~3.2_arm64.deb ...
Unpacking libruby:arm64 (1:3.3~3.2) ...
Selecting previously unselected package ruby-sdbm:arm64.
Preparing to unpack .../110-ruby-sdbm_1.0.0-5+b6_arm64.deb ...
Unpacking ruby-sdbm:arm64 (1.0.0-5+b6) ...
Selecting previously unselected package libedit2:arm64.
Preparing to unpack .../111-libedit2_3.1-20250104-1_arm64.deb ...
Unpacking libedit2:arm64 (3.1-20250104-1) ...
Selecting previously unselected package libncurses6:arm64.
Preparing to unpack .../112-libncurses6_6.5+20250125-2_arm64.deb ...
Unpacking libncurses6:arm64 (6.5+20250125-2) ...
Selecting previously unselected package libyaml-0-2:arm64.
Preparing to unpack .../113-libyaml-0-2_0.2.5-2_arm64.deb ...
Unpacking libyaml-0-2:arm64 (0.2.5-2) ...
Selecting previously unselected package libruby3.1t64:arm64.
Preparing to unpack .../114-libruby3.1t64_3.1.2-8.5_arm64.deb ...
Unpacking libruby3.1t64:arm64 (3.1.2-8.5) ...
Selecting previously unselected package ruby-minitest.
Preparing to unpack .../115-ruby-minitest_5.25.4-1_all.deb ...
Unpacking ruby-minitest (5.25.4-1) ...
Selecting previously unselected package ruby-power-assert.
Preparing to unpack .../116-ruby-power-assert_2.0.3-1_all.deb ...
Unpacking ruby-power-assert (2.0.3-1) ...
Selecting previously unselected package ruby-test-unit.
Preparing to unpack .../117-ruby-test-unit_3.6.2-1_all.deb ...
Unpacking ruby-test-unit (3.6.2-1) ...
Selecting previously unselected package libruby3.3:arm64.
Preparing to unpack .../118-libruby3.3_3.3.7-1_arm64.deb ...
Unpacking libruby3.3:arm64 (3.3.7-1) ...
Selecting previously unselected package ruby3.3.
Preparing to unpack .../119-ruby3.3_3.3.7-1_arm64.deb ...
Unpacking ruby3.3 (3.3.7-1) ...
Selecting previously unselected package ruby-rubygems.
Preparing to unpack .../120-ruby-rubygems_3.6.3-1_all.deb ...
Unpacking ruby-rubygems (3.6.3-1) ...
Selecting previously unselected package ruby.
Preparing to unpack .../121-ruby_1%3a3.3~3.2_arm64.deb ...
Unpacking ruby (1:3.3~3.2) ...
Selecting previously unselected package rake.
Preparing to unpack .../122-rake_13.2.1-1_all.deb ...
Unpacking rake (13.2.1-1) ...
Selecting previously unselected package gem2deb-test-runner.
Preparing to unpack .../123-gem2deb-test-runner_2.2.5_arm64.deb ...
Unpacking gem2deb-test-runner (2.2.5) ...
Selecting previously unselected package libgmpxx4ldbl:arm64.
Preparing to unpack .../124-libgmpxx4ldbl_2%3a6.3.0+dfsg-3_arm64.deb ...
Unpacking libgmpxx4ldbl:arm64 (2:6.3.0+dfsg-3) ...
Selecting previously unselected package libgmp-dev:arm64.
Preparing to unpack .../125-libgmp-dev_2%3a6.3.0+dfsg-3_arm64.deb ...
Unpacking libgmp-dev:arm64 (2:6.3.0+dfsg-3) ...
Selecting previously unselected package ruby3.3-dev:arm64.
Preparing to unpack .../126-ruby3.3-dev_3.3.7-1_arm64.deb ...
Unpacking ruby3.3-dev:arm64 (3.3.7-1) ...
Selecting previously unselected package ruby3.1.
Preparing to unpack .../127-ruby3.1_3.1.2-8.5_arm64.deb ...
Unpacking ruby3.1 (3.1.2-8.5) ...
Selecting previously unselected package ruby3.1-dev:arm64.
Preparing to unpack .../128-ruby3.1-dev_3.1.2-8.5_arm64.deb ...
Unpacking ruby3.1-dev:arm64 (3.1.2-8.5) ...
Selecting previously unselected package ruby-all-dev:arm64.
Preparing to unpack .../129-ruby-all-dev_1%3a3.3~3.2_arm64.deb ...
Unpacking ruby-all-dev:arm64 (1:3.3~3.2) ...
Selecting previously unselected package gem2deb.
Preparing to unpack .../130-gem2deb_2.2.5_arm64.deb ...
Unpacking gem2deb (2.2.5) ...
Selecting previously unselected package ruby-rd.
Preparing to unpack .../131-ruby-rd_0.6.38-4.1_all.deb ...
Unpacking ruby-rd (0.6.38-4.1) ...
Selecting previously unselected package rdtool.
Preparing to unpack .../132-rdtool_0.6.38-4.1_all.deb ...
Unpacking rdtool (0.6.38-4.1) ...
Selecting previously unselected package ruby-libxml:arm64.
Preparing to unpack .../133-ruby-libxml_5.0.3-1+b2_arm64.deb ...
Unpacking ruby-libxml:arm64 (5.0.3-1+b2) ...
Setting up media-types (10.1.0) ...
Setting up libpipeline1:arm64 (1.5.8-1) ...
Setting up wdiff (1.2.2-7) ...
Setting up libfile-which-perl (1.27-2) ...
Setting up libnpth0t64:arm64 (1.8-2) ...
Setting up libicu72:arm64 (72.1-6) ...
Setting up bsdextrautils (2.40.4-3) ...
Setting up libgpg-error0:arm64 (1.51-3) ...
Setting up libdynaloader-functions-perl (0.004-1) ...
Setting up libclass-method-modifiers-perl (2.15-1) ...
Setting up ruby-power-assert (2.0.3-1) ...
Setting up libio-pty-perl (1:1.20-1+b2) ...
Setting up libmagic-mgc (1:5.45-3+b1) ...
Setting up libclone-perl:arm64 (0.47-1+b1) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libyaml-0-2:arm64 (0.2.5-2) ...
Setting up libhtml-tagset-perl (3.24-1) ...
Setting up libdebhelper-perl (13.24.1) ...
Setting up libedit2:arm64 (3.1-20250104-1) ...
Setting up liblwp-mediatypes-perl (6.04-2) ...
Setting up libmagic1t64:arm64 (1:5.45-3+b1) ...
Setting up libtry-tiny-perl (0.32-1) ...
Setting up perl-openssl-defaults:arm64 (7+b2) ...
Setting up gettext-base (0.23.1-1) ...
Setting up m4 (1.4.19-5) ...
Setting up libgcrypt20:arm64 (1.11.0-7) ...
Setting up libencode-locale-perl (1.05-3) ...
Setting up file (1:5.45-3+b1) ...
Setting up libelf1t64:arm64 (0.192-4) ...
Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg1-8+b1) ...
Setting up libosp5 (1.5.2-15.1) ...
Setting up tzdata (2025a-2) ...

Current default time zone: 'Etc/UTC'
Local time is now:      Thu Mar 12 03:19:23 UTC 2026.
Universal Time is now:  Thu Mar 12 03:19:23 UTC 2026.
Run 'dpkg-reconfigure tzdata' if you wish to change it.

Setting up ruby-minitest (5.25.4-1) ...
Setting up autotools-dev (20220109.1) ...
Setting up libgmpxx4ldbl:arm64 (2:6.3.0+dfsg-3) ...
Setting up ruby-test-unit (3.6.2-1) ...
Setting up gnupg-l10n (2.2.46-1) ...
Setting up libncurses6:arm64 (6.5+20250125-2) ...
Setting up ruby-net-telnet (0.2.0-1) ...
Setting up libunistring5:arm64 (1.3-1) ...
Setting up libio-html-perl (1.004-3) ...
Setting up autopoint (0.23.1-1) ...
Setting up libb-hooks-op-check-perl:arm64 (0.22-3+b2) ...
Setting up libipc-run-perl (20231003.0-2) ...
Setting up libsasl2-2:arm64 (2.1.28+dfsg1-8+b1) ...
Setting up autoconf (2.72-3) ...
Setting up libtimedate-perl (2.3300-2) ...
Setting up ruby-webrick (1.8.1-1) ...
Setting up libffi8:arm64 (3.4.6-1) ...
Setting up dwz (0.15-1+b1) ...
Setting up sensible-utils (0.0.24) ...
Setting up gpgv (2.2.46-1+b1) ...
Setting up libuchardet0:arm64 (0.0.8-1+b2) ...
Setting up libassuan9:arm64 (3.0.1-2) ...
Setting up librole-tiny-perl (2.002004-1) ...
Setting up libtasn1-6:arm64 (4.19.0-3+b3) ...
Setting up netbase (6.4) ...
Setting up sgml-base (1.31) ...
Setting up libsub-quote-perl (2.006008-1) ...
Setting up libclass-xsaccessor-perl (1.19-4+b4) ...
Setting up ruby-did-you-mean (1.6.3-2) ...
Setting up libfile-dirlist-perl (0.05-3) ...
Setting up libfile-homedir-perl (1.006-2) ...
Setting up openssl (3.4.0-2) ...
Setting up readline-common (8.2-6) ...
Setting up ruby-xmlrpc (0.3.3-2) ...
Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ...
Setting up libldap2:arm64 (2.6.9+dfsg-1) ...
Setting up liburi-perl (5.30-1) ...
Setting up ruby-rd (0.6.38-4.1) ...
Setting up libfile-touch-perl (0.12-2) ...
Setting up libnet-ssleay-perl:arm64 (1.94-2) ...
Setting up automake (1:1.17-3) ...
update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode
Setting up libksba8:arm64 (1.6.7-2+b1) ...
Setting up pinentry-curses (1.3.1-2) ...
Setting up libfile-stripnondeterminism-perl (1.14.1-1) ...
Setting up libhttp-date-perl (6.06-1) ...
Setting up gettext (0.23.1-1) ...
Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-3) ...
Setting up libfile-listing-perl (6.16-1) ...
Setting up libtool (2.5.4-3) ...
Setting up libnet-http-perl (6.23-1) ...
Setting up libidn2-0:arm64 (2.3.7-2+b1) ...
Setting up opensp (1.5.2-15.1) ...
Setting up libdevel-callchecker-perl:arm64 (0.009-1+b1) ...
Setting up intltool-debian (0.35.0+20060710.6) ...
Setting up dh-autoreconf (20) ...
Setting up patchutils (0.4.2-1+b1) ...
Setting up ca-certificates (20241223) ...
Updating certificates in /etc/ssl/certs...
152 added, 0 removed; done.
Setting up libp11-kit0:arm64 (0.25.5-3) ...
Setting up libreadline8t64:arm64 (8.2-6) ...
Setting up dh-strip-nondeterminism (1.14.1-1) ...
Setting up libwww-robotrules-perl (6.02-1) ...
Setting up groff-base (1.23.0-7) ...
Setting up xml-core (0.19) ...
Setting up libhtml-parser-perl:arm64 (3.83-1+b2) ...
Setting up gpgconf (2.2.46-1+b1) ...
Setting up libpython3.13-stdlib:arm64 (3.13.2-1) ...
Setting up libio-socket-ssl-perl (2.089-1) ...
Setting up gpg (2.2.46-1+b1) ...
Setting up libpython3-stdlib:arm64 (3.13.1-2) ...
Setting up libhttp-message-perl (7.00-2) ...
Setting up libgnutls30t64:arm64 (3.8.8-2) ...
Setting up libhttp-negotiate-perl (6.01-2) ...
Setting up gpg-agent (2.2.46-1+b1) ...
Setting up libhttp-cookies-perl (6.11-1) ...
Setting up python3.13 (3.13.2-1) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up libhtml-tree-perl (5.07-3) ...
Setting up libparams-classify-perl:arm64 (0.015-2+b4) ...
Setting up gpgsm (2.2.46-1+b1) ...
Setting up python3 (3.13.1-2) ...
Setting up rubygems-integration (1.19) ...
Setting up sopv-gpgv (0.1.1-1) ...
update-alternatives: using /usr/bin/sopv-gpgv to provide /usr/bin/sopv (sopv) in auto mode
Setting up man-db (2.13.0-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up dirmngr (2.2.46-1+b1) ...
Setting up libmodule-runtime-perl (0.016-2) ...
Setting up gnupg (2.2.46-1) ...
Setting up libimport-into-perl (1.002005-2) ...
Setting up libmoo-perl (2.005005-1) ...
Setting up debhelper (13.24.1) ...
Setting up rake (13.2.1-1) ...
Setting up liblwp-protocol-https-perl (6.14-1) ...
Setting up libruby:arm64 (1:3.3~3.2) ...
Setting up libwww-perl (6.77-1) ...
Setting up libruby3.3:arm64 (3.3.7-1) ...
Setting up ruby (1:3.3~3.2) ...
Setting up devscripts (2.25.2) ...
Setting up rdtool (0.6.38-4.1) ...
Setting up ruby3.3-dev:arm64 (3.3.7-1) ...
Setting up ruby3.3 (3.3.7-1) ...
Setting up ruby-libxml:arm64 (5.0.3-1+b2) ...
Setting up ruby-sdbm:arm64 (1.0.0-5+b6) ...
Setting up ruby-rubygems (3.6.3-1) ...
Setting up gem2deb-test-runner (2.2.5) ...
Setting up libruby3.1t64:arm64 (3.1.2-8.5) ...
Setting up ruby3.1 (3.1.2-8.5) ...
Setting up ruby3.1-dev:arm64 (3.1.2-8.5) ...
Setting up ruby-all-dev:arm64 (1:3.3~3.2) ...
Setting up gem2deb (2.2.5) ...
Processing triggers for libc-bin (2.40-6) ...
Processing triggers for sgml-base (1.31) ...
Setting up sgml-data (2.0.11+nmu1) ...
Processing triggers for sgml-base (1.31) ...
Setting up docbook (4.5-11) ...
Processing triggers for sgml-base (1.31) ...
Setting up docbook-to-man (1:2.0.0-47+b1) ...
Processing triggers for ca-certificates (20241223) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
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/reproducible-path/ruby-bio-2.0.5/ && 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  > ../ruby-bio_2.0.5-1_source.changes
dpkg-buildpackage: info: source package ruby-bio
dpkg-buildpackage: info: source version 2.0.5-1
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Lucas Nussbaum <lucas@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture arm64
 debian/rules clean
dh clean --buildsystem=ruby --with ruby
   debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/reproducible-path/ruby-bio-2.0.5'
dh_auto_clean
	dh_ruby --clean
W: XS-Ruby-Versions is deprecated, and will be ignored
rm -f br_biofetch.1 br_bioflat.1 br_biogetseq.1 br_pmfetch.1
make[1]: Leaving directory '/build/reproducible-path/ruby-bio-2.0.5'
   dh_autoreconf_clean -O--buildsystem=ruby
   dh_clean -O--buildsystem=ruby
 debian/rules binary
dh binary --buildsystem=ruby --with ruby
   dh_update_autotools_config -O--buildsystem=ruby
   dh_autoreconf -O--buildsystem=ruby
   dh_auto_configure -O--buildsystem=ruby
	dh_ruby --configure
   dh_auto_build -O--buildsystem=ruby
	dh_ruby --build
   dh_auto_test -O--buildsystem=ruby
	dh_ruby --test
   create-stamp debian/debhelper-build-stamp
   dh_testroot -O--buildsystem=ruby
   dh_prep -O--buildsystem=ruby
   debian/rules override_dh_auto_install
make[1]: Entering directory '/build/reproducible-path/ruby-bio-2.0.5'
dh_auto_install
	dh_ruby --install /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio

┌──────────────────────────────────────────────────────────────────────────────┐
│ ruby-bio: Install files                                                      │
└──────────────────────────────────────────────────────────────────────────────┘

install -d /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/alignment.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/alignment.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/bl2seq/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/bl2seq/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/blast/format0.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/blast/format0.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/blast/format8.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/blast/format8.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/blast/genomenet.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/blast/genomenet.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/blast/ncbioptions.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/blast/ncbioptions.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/blast/remote.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/blast/remote.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/blast/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/blast/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/blast/rexml.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/blast/rexml.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/blast/rpsblast.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/blast/rpsblast.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/blast/wublast.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/blast/wublast.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/blast.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/blast.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/blat/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/blat/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/clustalw/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/clustalw/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/clustalw.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/clustalw.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/emboss.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/emboss.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/fasta/format10.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/fasta/format10.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/fasta.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/fasta.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/gcg/msf.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/gcg/msf.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/gcg/seq.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/gcg/seq.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/genscan/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/genscan/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/hmmer/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/hmmer/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/hmmer.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/hmmer.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/iprscan/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/iprscan/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/mafft/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/mafft/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/mafft.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/mafft.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/meme/mast/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/meme/mast/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/meme/mast.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/meme/mast.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/meme/motif.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/meme/motif.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/muscle.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/muscle.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/paml/baseml/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/paml/baseml/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/paml/baseml.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/paml/baseml.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/paml/codeml/rates.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/paml/codeml/rates.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/paml/codeml/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/paml/codeml/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/paml/codeml.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/paml/codeml.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/paml/common.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/paml/common.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/paml/common_report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/paml/common_report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/paml/yn00/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/paml/yn00/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/paml/yn00.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/paml/yn00.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/phylip/alignment.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/phylip/alignment.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/phylip/distance_matrix.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/phylip/distance_matrix.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/probcons.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/probcons.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/psort/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/psort/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/psort.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/psort.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/pts1.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/pts1.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/sim4/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/sim4/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/sim4.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/sim4.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/sosui/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/sosui/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/spidey/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/spidey/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/targetp/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/targetp/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/tcoffee.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/tcoffee.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/appl/tmhmm/report.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/appl/tmhmm/report.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/command.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/command.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/compat/features.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/compat/features.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/compat/references.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/compat/references.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/data/aa.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/data/aa.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/data/codontable.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/data/codontable.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/data/na.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/data/na.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/aaindex.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/aaindex.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/embl/common.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/embl/common.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/embl/embl.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/embl/embl.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/embl/embl_to_biosequence.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/embl/embl_to_biosequence.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/embl/format_embl.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/embl/format_embl.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/embl/sptr.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/embl/sptr.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/embl/swissprot.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/embl/swissprot.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/embl/trembl.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/embl/trembl.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/embl/uniprot.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/embl/uniprot.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/embl/uniprotkb.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/embl/uniprotkb.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/fantom.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/fantom.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/fasta/defline.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/fasta/defline.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/fasta/fasta_to_biosequence.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/fasta/fasta_to_biosequence.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/fasta/format_fasta.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/fasta/format_fasta.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/fasta/format_qual.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/fasta/format_qual.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/fasta/qual.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/fasta/qual.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/fasta/qual_to_biosequence.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/fasta/qual_to_biosequence.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/fasta.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/fasta.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/fastq/fastq_to_biosequence.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/fastq/fastq_to_biosequence.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/fastq/format_fastq.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/fastq/format_fastq.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/fastq.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/fastq.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/genbank/common.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/genbank/common.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/genbank/ddbj.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/genbank/ddbj.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/genbank/format_genbank.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/genbank/format_genbank.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/genbank/genbank.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/genbank/genbank.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/genbank/genbank_to_biosequence.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/genbank/genbank_to_biosequence.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/genbank/genpept.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/genbank/genpept.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/genbank/refseq.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/genbank/refseq.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/gff.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/gff.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/go.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/go.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/brite.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/brite.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/common.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/common.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/compound.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/compound.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/drug.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/drug.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/enzyme.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/enzyme.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/expression.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/expression.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/genes.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/genes.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/genome.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/genome.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/glycan.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/glycan.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/keggtab.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/keggtab.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/kgml.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/kgml.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/module.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/module.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/orthology.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/orthology.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/pathway.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/pathway.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/kegg/reaction.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/kegg/reaction.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/lasergene.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/lasergene.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/litdb.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/litdb.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/medline.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/medline.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/nbrf.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/nbrf.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/newick.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/newick.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/nexus.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/nexus.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/pdb/atom.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/pdb/atom.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/pdb/chain.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/pdb/chain.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/pdb/chemicalcomponent.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/pdb/chemicalcomponent.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/pdb/model.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/pdb/model.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/pdb/pdb.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/pdb/pdb.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/pdb/residue.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/pdb/residue.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/pdb/utils.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/pdb/utils.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/pdb.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/pdb.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/prosite.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/prosite.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/rebase.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/rebase.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/sanger_chromatogram/abif.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/sanger_chromatogram/abif.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/sanger_chromatogram/chromatogram.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/sanger_chromatogram/chromatogram.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/sanger_chromatogram/chromatogram_to_biosequence.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/sanger_chromatogram/chromatogram_to_biosequence.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/sanger_chromatogram/scf.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/sanger_chromatogram/scf.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/soft.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/soft.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db/transfac.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db/transfac.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/db.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/db.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/feature.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/feature.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/das.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/das.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/fastacmd.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/fastacmd.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/fetch.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/fetch.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/flatfile/autodetection.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/flatfile/autodetection.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/flatfile/bdb.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/flatfile/bdb.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/flatfile/buffer.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/flatfile/buffer.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/flatfile/index.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/flatfile/index.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/flatfile/indexer.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/flatfile/indexer.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/flatfile/splitter.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/flatfile/splitter.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/flatfile.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/flatfile.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/hinv.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/hinv.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/ncbirest.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/ncbirest.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/pubmed.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/pubmed.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/registry.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/registry.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/io/togows.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/io/togows.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/location.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/location.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/map.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/map.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/pathway.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/pathway.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/reference.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/reference.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence/aa.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence/aa.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence/adapter.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence/adapter.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence/common.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence/common.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence/compat.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence/compat.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence/dblink.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence/dblink.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence/format.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence/format.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence/format_raw.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence/format_raw.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence/generic.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence/generic.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence/na.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence/na.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence/quality_score.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence/quality_score.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence/sequence_masker.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence/sequence_masker.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/sequence.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/sequence.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/tree/output.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/tree/output.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/tree.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/tree.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/color_scheme/buried.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/buried.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/color_scheme/helix.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/helix.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/color_scheme/hydropathy.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/hydropathy.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/color_scheme/nucleotide.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/nucleotide.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/color_scheme/strand.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/strand.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/color_scheme/taylor.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/taylor.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/color_scheme/turn.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/turn.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/color_scheme/zappo.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/zappo.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/color_scheme.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/color_scheme.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/contingency_table.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/contingency_table.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/analysis.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/analysis.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/analysis_basic.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/analysis_basic.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/cut_symbol.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/cut_symbol.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/dense_int_array.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/dense_int_array.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/double_stranded/aligned_strands.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded/aligned_strands.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/double_stranded/cut_location_pair.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded/cut_location_pair.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/double_stranded/cut_location_pair_in_enzyme_notation.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded/cut_location_pair_in_enzyme_notation.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/double_stranded/cut_locations.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded/cut_locations.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/double_stranded/cut_locations_in_enzyme_notation.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded/cut_locations_in_enzyme_notation.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/double_stranded.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/enzymes.yaml /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/enzymes.yaml
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/range/cut_range.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/cut_range.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/range/cut_ranges.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/cut_ranges.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/range/horizontal_cut_range.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/horizontal_cut_range.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/range/sequence_range/calculated_cuts.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/sequence_range/calculated_cuts.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/range/sequence_range/fragment.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/sequence_range/fragment.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/range/sequence_range/fragments.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/sequence_range/fragments.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/range/sequence_range.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/sequence_range.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/range/vertical_cut_range.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/vertical_cut_range.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/single_strand/cut_locations_in_enzyme_notation.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/single_strand/cut_locations_in_enzyme_notation.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/single_strand.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/single_strand.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/single_strand_complement.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/single_strand_complement.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/sorted_num_array.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/sorted_num_array.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme/string_formatting.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/string_formatting.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/restriction_enzyme.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/util/sirna.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/util/sirna.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio/version.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio/version.rb
install -D -m644 /build/reproducible-path/ruby-bio-2.0.5/lib/bio.rb /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby/bio.rb

┌──────────────────────────────────────────────────────────────────────────────┐
│ ruby-bio: Install Rubygems integration metadata                              │
└──────────────────────────────────────────────────────────────────────────────┘

generating gemspec at /build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/share/rubygems-integration/all/specifications/bio-2.0.5.gemspec
/usr/bin/ruby3.3 /usr/bin/gem2deb-test-runner

┌──────────────────────────────────────────────────────────────────────────────┐
│ Run tests for ruby3.3 from debian/ruby-tests.rake                            │
└──────────────────────────────────────────────────────────────────────────────┘

RUBYLIB=/build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby:. GEM_PATH=/build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/share/rubygems-integration/all:/build/reproducible-path/ruby-bio-2.0.5/debian/.debhelper/generated/_source/home/.local/share/gem/ruby/3.3.0:/var/lib/gems/3.3.0:/usr/local/lib/ruby/gems/3.3.0:/usr/lib/ruby/gems/3.3.0:/usr/lib/aarch64-linux-gnu/ruby/gems/3.3.0:/usr/share/rubygems-integration/3.3.0:/usr/share/rubygems-integration/all:/usr/lib/aarch64-linux-gnu/rubygems-integration/3.3.0 ruby3.3 -S rake --rakelibdir /gem2deb-nonexistent -f debian/ruby-tests.rake
/usr/bin/ruby3.3 -w -I"test" /usr/share/rubygems-integration/all/gems/rake-13.2.1/lib/rake/rake_test_loader.rb "test/functional/bio/sequence/test_output_embl.rb" "test/functional/bio/test_command.rb" "test/unit/bio/appl/bl2seq/test_report.rb" "test/unit/bio/appl/blast/test_ncbioptions.rb" "test/unit/bio/appl/blast/test_report.rb" "test/unit/bio/appl/blast/test_rpsblast.rb" "test/unit/bio/appl/clustalw/test_report.rb" "test/unit/bio/appl/gcg/test_msf.rb" "test/unit/bio/appl/genscan/test_report.rb" "test/unit/bio/appl/hmmer/test_report.rb" "test/unit/bio/appl/iprscan/test_report.rb" "test/unit/bio/appl/mafft/test_report.rb" "test/unit/bio/appl/meme/mast/test_report.rb" "test/unit/bio/appl/meme/test_mast.rb" "test/unit/bio/appl/meme/test_motif.rb" "test/unit/bio/appl/paml/codeml/test_rates.rb" "test/unit/bio/appl/paml/codeml/test_report.rb" "test/unit/bio/appl/paml/codeml/test_report_single.rb" "test/unit/bio/appl/paml/test_codeml.rb" "test/unit/bio/appl/sim4/test_report.rb" "test/unit/bio/appl/sosui/test_report.rb" "test/unit/bio/appl/targetp/test_report.rb" "test/unit/bio/appl/test_blast.rb" "test/unit/bio/appl/test_fasta.rb" "test/unit/bio/appl/test_pts1.rb" "test/unit/bio/appl/tmhmm/test_report.rb" "test/unit/bio/data/test_aa.rb" "test/unit/bio/data/test_codontable.rb" "test/unit/bio/data/test_na.rb" "test/unit/bio/db/embl/test_common.rb" "test/unit/bio/db/embl/test_embl.rb" "test/unit/bio/db/embl/test_embl_rel89.rb" "test/unit/bio/db/embl/test_embl_to_bioseq.rb" "test/unit/bio/db/embl/test_uniprot.rb" "test/unit/bio/db/embl/test_uniprotkb.rb" "test/unit/bio/db/embl/test_uniprotkb_P03589.rb" "test/unit/bio/db/embl/test_uniprotkb_P28907.rb" "test/unit/bio/db/embl/test_uniprotkb_P49144.rb" "test/unit/bio/db/embl/test_uniprotkb_new_part.rb" "test/unit/bio/db/fasta/test_defline.rb" "test/unit/bio/db/fasta/test_defline_misc.rb" "test/unit/bio/db/fasta/test_format_qual.rb" "test/unit/bio/db/genbank/test_common.rb" "test/unit/bio/db/genbank/test_genbank.rb" "test/unit/bio/db/genbank/test_genpept.rb" "test/unit/bio/db/kegg/test_compound.rb" "test/unit/bio/db/kegg/test_drug.rb" "test/unit/bio/db/kegg/test_enzyme.rb" "test/unit/bio/db/kegg/test_genes.rb" "test/unit/bio/db/kegg/test_genome.rb" "test/unit/bio/db/kegg/test_glycan.rb" "test/unit/bio/db/kegg/test_kgml.rb" "test/unit/bio/db/kegg/test_module.rb" "test/unit/bio/db/kegg/test_orthology.rb" "test/unit/bio/db/kegg/test_pathway.rb" "test/unit/bio/db/kegg/test_reaction.rb" "test/unit/bio/db/pdb/test_pdb.rb" "test/unit/bio/db/sanger_chromatogram/test_abif.rb" "test/unit/bio/db/sanger_chromatogram/test_scf.rb" "test/unit/bio/db/test_aaindex.rb" "test/unit/bio/db/test_fasta.rb" "test/unit/bio/db/test_fastq.rb" "test/unit/bio/db/test_gff.rb" "test/unit/bio/db/test_go.rb" "test/unit/bio/db/test_lasergene.rb" "test/unit/bio/db/test_litdb.rb" "test/unit/bio/db/test_medline.rb" "test/unit/bio/db/test_nbrf.rb" "test/unit/bio/db/test_newick.rb" "test/unit/bio/db/test_nexus.rb" "test/unit/bio/db/test_prosite.rb" "test/unit/bio/db/test_qual.rb" "test/unit/bio/db/test_rebase.rb" "test/unit/bio/db/test_soft.rb" "test/unit/bio/io/flatfile/test_autodetection.rb" "test/unit/bio/io/flatfile/test_buffer.rb" "test/unit/bio/io/flatfile/test_splitter.rb" "test/unit/bio/io/test_fastacmd.rb" "test/unit/bio/io/test_flatfile.rb" "test/unit/bio/io/test_togows.rb" "test/unit/bio/sequence/test_aa.rb" "test/unit/bio/sequence/test_common.rb" "test/unit/bio/sequence/test_compat.rb" "test/unit/bio/sequence/test_dblink.rb" "test/unit/bio/sequence/test_na.rb" "test/unit/bio/sequence/test_quality_score.rb" "test/unit/bio/sequence/test_ruby3.rb" "test/unit/bio/sequence/test_sequence_masker.rb" "test/unit/bio/test_alignment.rb" "test/unit/bio/test_command.rb" "test/unit/bio/test_db.rb" "test/unit/bio/test_feature.rb" "test/unit/bio/test_location.rb" "test/unit/bio/test_map.rb" "test/unit/bio/test_pathway.rb" "test/unit/bio/test_reference.rb" "test/unit/bio/test_sequence.rb" "test/unit/bio/test_tree.rb" "test/unit/bio/util/restriction_enzyme/analysis/test_calculated_cuts.rb" "test/unit/bio/util/restriction_enzyme/analysis/test_cut_ranges.rb" "test/unit/bio/util/restriction_enzyme/analysis/test_sequence_range.rb" "test/unit/bio/util/restriction_enzyme/double_stranded/test_aligned_strands.rb" "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_location_pair.rb" "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_location_pair_in_enzyme_notation.rb" "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_locations.rb" "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_locations_in_enzyme_notation.rb" "test/unit/bio/util/restriction_enzyme/single_strand/test_cut_locations_in_enzyme_notation.rb" "test/unit/bio/util/restriction_enzyme/test_analysis.rb" "test/unit/bio/util/restriction_enzyme/test_cut_symbol.rb" "test/unit/bio/util/restriction_enzyme/test_dense_int_array.rb" "test/unit/bio/util/restriction_enzyme/test_double_stranded.rb" "test/unit/bio/util/restriction_enzyme/test_single_strand.rb" "test/unit/bio/util/restriction_enzyme/test_single_strand_complement.rb" "test/unit/bio/util/restriction_enzyme/test_sorted_num_array.rb" "test/unit/bio/util/restriction_enzyme/test_string_formatting.rb" "test/unit/bio/util/test_color_scheme.rb" "test/unit/bio/util/test_contingency_table.rb" "test/unit/bio/util/test_restriction_enzyme.rb" "test/unit/bio/util/test_sirna.rb"  -v
Bio::UniProt is an alias of Bio::UniProtKB. Please use Bio::UniProtKB. Bio::UniProt may be deprecated in the future.
Loaded suite /usr/share/rubygems-integration/all/gems/rake-13.2.1/lib/rake/rake_test_loader
Started
Bio::External2go: 
  test_db_ids:						.: (0.000683)
  test_dbs:						.: (0.000261)
  test_go_ids:						.: (0.000226)
  test_go_terms:					.: (0.000223)
  test_parser:						.: (0.000397)
  test_set_date:					.: (0.000223)
  test_set_desc:					.: (0.000223)
  test_to_str:						.: (0.000227)
Bio::FuncTestCommandBackports: 
  test_mktmpdir_with_block:				.: (0.000630)
  test_mktmpdir_without_block:				.: (0.000468)
  test_remove_entry_secure:				.: (0.000389)
Bio::FuncTestCommandCallMisc1: 
  test_call_command:					.: (0.036310)
  test_call_command_fork:				.: (0.000219)
  test_call_command_open3:				.: (0.051294)
  test_call_command_popen:				.: (0.027820)
Bio::FuncTestCommandCallSimple: 
  test_call_command:					.: (0.019797)
  test_call_command_fork:				.: (0.000217)
  test_call_command_open3:				.: (0.051215)
  test_call_command_popen:				.: (0.027970)
Bio::FuncTestCommandCallWithSpace: 
  test_call_command:					.: (0.035482)
  test_call_command_fork:				.: (0.000214)
  test_call_command_open3:				.: (0.035487)
  test_call_command_popen:				.: (0.016438)
Bio::FuncTestCommandChdir: 
  test_call_command_chdir:				.: (0.012294)
  test_call_command_fork_chdir:				.: (0.000419)
  test_call_command_popen_chdir:			.: (0.010922)
  test_query_command_chdir:				.: (0.008158)
  test_query_command_fork_chdir:			.: (0.000269)
  test_query_command_popen_chdir:			.: (0.011643)
Bio::FuncTestCommandQuery: 
  test_query_command:					.: (0.043030)
  test_query_command_fork:				.: (0.004037)
  test_query_command_open3:				.: (0.108307)
  test_query_command_popen:				.: (0.039595)
Bio::FuncTestCommandTmpdir: 
  test_close!:						.: (0.000675)
  test_initialize:					.: (0.000300)
  test_path:						.: (0.000218)
  test_path_after_close:				.: (0.000386)
Bio::FuncTestSequenceOutputEMBL: 
  test_output_embl:					.: (0.028767)
  test_output_fasta:					.: (0.015610)
Bio::NCBIDB::TestCommon: 
  test_acc_version:					.: (0.000766)
  test_accession:					.: (0.000252)
  test_accessions:					.: (0.000203)
  test_comment:						.: (0.000189)
  test_common_name:					.: (0.000233)
  test_definition:					.: (0.000211)
  test_features:					.: (0.000345)
  test_gi:						.: (0.004284)
  test_keywords:					.: (0.000301)
  test_locus:						.: (0.000160)
  test_nid:						.: (0.000233)
  test_organism:					.: (0.000208)
  test_origin:						.: (0.000166)
  test_references:					.: (0.000550)
  test_segment:						.: (0.000189)
  test_source:						.: (0.000259)
  test_taxonomy:					.: (0.000189)
  test_version:						.: (0.000193)
  test_versions:					.: (0.000167)
Bio::TestAA: 
  test_13:						.: (0.000188)
  test_1n:						.: (0.000046)
  test_name2one:					.: (0.000086)
  test_name2three:					.: (0.000049)
  test_one2name:					.: (0.000041)
  test_one2three:					.: (0.000038)
  test_three2name:					.: (0.000035)
  test_three2one:					.: (0.000045)
  test_to_1_1:						.: (0.000038)
  test_to_1_3:						.: (0.000045)
  test_to_1_name:					.: (0.000045)
  test_to_3_1:						.: (0.000038)
  test_to_3_3:						.: (0.000036)
  test_to_3_name:					.: (0.000046)
  test_to_re:						.: (0.000077)
Bio::TestAAConstants: 
  test_bio_aminoacid:					.: (0.000116)
Bio::TestAAindex: 
  test_api:						.: (0.000074)
  test_auto_aax1:					.: (0.000196)
  test_auto_aax2:					.: (0.000116)
Bio::TestAAindex1: 
  test_author:						.: (0.000182)
  test_comment:						.: (0.000116)
  test_correlation_coefficient:				.: (0.000233)
  test_dblinks:						.: (0.000107)
  test_definition:					.: (0.000104)
  test_entry_id:					.: (0.000097)
  test_index:						.: (0.000149)
  test_journal:						.: (0.000118)
  test_title:						.: (0.000101)
Bio::TestAAindex2: 
  test_access_A_R:					.: (0.000509)
  test_access_R_A:					.: (0.000646)
  test_author:						.: (0.000162)
  test_cols:						.: (0.000124)
  test_comment:						.: (0.000112)
  test_dblinks:						.: (0.000113)
  test_definition:					.: (0.000114)
  test_entry_id:					.: (0.000102)
  test_journal:						.: (0.000118)
  test_matrix:						.: (0.000421)
  test_matrix_1_2:					.: (0.000407)
  test_matrix_2_2:					.: (0.013259)
  test_matrix_A_R:					.: (0.008760)
  test_matrix_R_A:					.: (0.000456)
  test_matrix_determinant:				.: (0.001772)
  test_matrix_rank:					.: (0.001514)
  test_matrix_transpose:				.: (0.000559)
  test_rows:						.: (0.000129)
  test_title:						.: (0.000140)
Bio::TestAAindexConstant: 
  test_delimiter:					.: (0.000157)
  test_tagsize:						.: (0.000044)
Bio::TestAbif: 
  test_complement:					.: (0.014209)
  test_seq:						.: (0.005766)
  test_to_biosequence:					.: (0.014619)
Bio::TestActsLikeMap: 
  test_mixin:						.: (0.000450)
Bio::TestActsLikeMapAndMarker: 
  test_mixin:						.: (0.000362)
Bio::TestActsLikeMarker: 
  test_mixin:						.: (0.000259)
Bio::TestAlignment: 
  test_add_seq_no_key:					.: (0.000390)
  test_add_seq_using_seq_with_aaseq_method:		.: (0.000307)
  test_add_seq_using_seq_with_definition_method:	.: (0.000162)
  test_add_seq_using_seq_with_entry_id_method:		.: (0.000174)
  test_add_seq_using_seq_with_naseq_method:		.: (0.000174)
  test_add_seq_using_seq_with_seq_method:		.: (0.000162)
  test_consensus_iupac_gap_modes:			.: (0.000407)
  test_consensus_iupac_missing_char:			.: (0.000222)
  test_consensus_iupac_missing_char_option:		.: (0.000231)
  test_consensus_iupac_no_gaps:				.: (0.000265)
  test_consensus_iupac_of_ambiguous_bases:		.: (0.000306)
  test_consensus_iupac_yields_correct_ambiguous_bases:	.: (0.002862)
  test_consensus_opt_gap_mode:				.: (0.005213)
  test_consensus_opt_missing_char:			.: (0.000295)
  test_consensus_string_no_gaps:			.: (0.000124)
  test_consensus_threshold_four_sequences:		.: (0.000160)
  test_consensus_threshold_two_sequences:		.: (0.000248)
  test_convert_match:					.: (0.000132)
  test_convert_unmatch:					.: (0.000075)
  test_convert_unmatch_different_length_sequences_truncates_seq_if_last_matched:.: (0.000073)
  test_convert_unmatch_different_match_char:		.: (0.000070)
  test_convert_unmatch_multiple_sequences:		.: (0.000166)
  test_default_gap_char:				.: (0.000040)
  test_default_gap_regexp_matches_default_gap_char:	.: (0.000048)
  test_default_missing_char:				.: (0.000036)
  test_each_site_equal_length:				.: (0.000084)
  test_each_site_unequal_length:			.: (0.000075)
  test_equals:						.: (0.000123)
  test_match_line_protein:				.: (0.000375)
  test_normalizebang_extends_sequences_with_gaps:	.: (0.000086)
  test_seq_length_is_max_seq_length:			.: (0.000049)
  test_seq_length_when_one_sequence:			.: (0.000039)
  test_seqclass_String_seq_not_present_no_seqclass_set:	.: (0.000047)
  test_seqclass_when_seqclass_set:			.: (0.000052)
  test_seqclass_when_sequence_used:			.: (0.000043)
  test_seqclass_when_sequence_used_no_seqclass_set:	.: (0.000041)
  test_set_and_get_gap_char:				.: (0.000041)
  test_store_cannot_override_key:			.: (0.000050)
  test_store_with_default_keys_and_user_defined_keys:	.: (0.000050)
  test_store_with_nil_key_uses_next_number_for_key:	.: (0.000042)
Bio::TestAlignmentEnumerableExtension: 
  test_alignment_collect:				.: (0.000234)
  test_alignment_concat:				.: (0.000092)
  test_alignment_length:				.: (0.000044)
  test_alignment_lstrip!:				.: (0.000100)
  test_alignment_lstrip_nil:				.: (0.000055)
  test_alignment_normalize!:				.: (0.000045)
  test_alignment_rstrip!:				.: (0.000168)
  test_alignment_rstrip_nil:				.: (0.000056)
  test_alignment_site:					.: (0.000053)
  test_alignment_slice:					.: (0.000050)
  test_alignment_strip!:				.: (0.016544)
  test_alignment_strip_nil:				.: (0.000307)
  test_alignment_subseq:				.: (0.000411)
  test_alignment_window:				.: (0.000190)
  test_collect_each_site:				.: (0.000200)
  test_consensus_each_site_default:			.: (0.000223)
  test_consensus_each_site_gap_mode_1:			.: (0.000211)
  test_consensus_each_site_gap_mode_minus1:		.: (0.000203)
  test_consensus_iupac:					.: (0.000394)
  test_consensus_string_default:			.: (0.000194)
  test_consensus_string_half:				.: (0.003280)
  test_convert_match:					.: (0.000291)
  test_convert_unmatch:					.: (0.000179)
  test_each_seq:					.: (0.000598)
  test_each_site:					.: (0.000217)
  test_each_site_step:					.: (0.000183)
  test_each_window:					.: (0.000220)
  test_match_line:					.: (0.000816)
  test_match_line_amino:				.: (0.004283)
  test_match_line_nuc:					.: (0.000349)
  test_private_alignment_site:				.: (0.000169)
  test_remove_all_gaps!:				.: (0.000197)
  test_seqclass:					.: (0.000159)
  test_seqclass=:					.: (0.000189)
  test_seqclass_default:				.: (0.000140)
Bio::TestAlignmentMultiFastaFormat: 
  test_alignment:					.: (0.002679)
  test_determine_seq_method:				.: (0.026564)
  test_entries:						.: (0.002166)
Bio::TestAlignmentOutput: 
  test_avoid_same_name:					.: (0.000475)
  test_avoid_same_name_numbering:			.: (0.000561)
  test_clustal_have_same_name_true:			.: (0.000246)
  test_have_same_name_false:				.: (0.001704)
Bio::TestAlignmentPropertyMethods: 
  test_gap_char=:					.: (0.001923)
  test_gap_char_default:				.: (0.005066)
  test_gap_char_never_nil:				.: (0.001207)
  test_gap_regexp:					.: (0.000974)
  test_gap_regexp=:					.: (0.000145)
  test_gap_regexp_never_nil:				.: (0.000124)
  test_get_all_property_default:			.: (0.000130)
  test_get_all_property_nodefault:			.: (0.008501)
  test_is_gap_default_false:				.: (0.000275)
  test_is_gap_default_true:				.: (0.000261)
  test_is_gap_nodefault_false:				.: (0.001509)
  test_is_gap_nodefault_true:				.: (0.000158)
  test_missing_char=:					.: (0.006933)
  test_missing_char_default:				.: (0.000217)
  test_missing_char_never_nil:				.: (0.000125)
  test_seqclass=:					.: (0.001543)
  test_seqclass_default:				.: (0.007939)
  test_seqclass_never_nil:				.: (0.002926)
  test_set_all_property:				.: (0.000240)
Bio::TestAlignmentSite: 
  test_consensus_iupac:					.: (0.000575)
  test_consensus_string_50percent:			.: (0.000187)
  test_consensus_string_50percent_nil:			.: (0.000173)
  test_consensus_string_default:			.: (0.000161)
  test_consensus_string_default_nil:			.: (0.000172)
  test_has_gap_false:					.: (0.000161)
  test_has_gap_true:					.: (0.000134)
  test_match_line_amino_100percent:			.: (0.000197)
  test_match_line_amino_missing:			.: (0.000213)
  test_match_line_amino_strong:				.: (0.000173)
  test_match_line_amino_weak:				.: (0.000216)
  test_match_line_nuc_100percent:			.: (0.000187)
  test_match_line_nuc_missing:				.: (0.000193)
  test_remove_gaps!:					.: (0.000418)
  test_remove_gaps_bang_not_removed:			.: (0.000151)
Bio::TestAtomFinder: 
  test_atoms:						.: (0.022953)
  test_each_atom:					.: (0.000378)
  test_find_atom:					.: (0.000261)
Bio::TestBioFastaDefline: 
  test_acc_version:					.: (0.000557)
  test_accession:					.: (0.000424)
  test_accessions:					.: (0.000341)
  test_description:					.: (0.000293)
  test_descriptions:					.: (0.000311)
  test_entry_id:					.: (0.000303)
  test_get:						.: (0.000322)
  test_get_all_by_type:					.: (0.000296)
  test_get_by_type:					.: (0.000284)
  test_gi:						.: (0.000270)
  test_id_strings:					.: (0.000513)
  test_locus:						.: (0.000269)
  test_method_missing:					.: (0.004717)
  test_to_s:						.: (0.000379)
  test_words:						.: (0.000442)
Bio::TestBioGOOntology: 
  test_dag_edit_format_parser:				.: (0.000677)
  test_goid2term:					.: (0.000222)
  test_parse_goids:					.: (0.000204)
Bio::TestBioGenBank: 
  test_basecount:					.: (0.000281)
  test_circular:					.: (0.000160)
  test_classification:					.: (0.000200)
  test_date:						.: (0.000139)
  test_date_modified:					.: (0.000482)
  test_division:					.: (0.000154)
  test_each_cds_feature:				.: (0.009825)
  test_each_cds_qualifiers:				.: (0.000660)
  test_each_gene:					.: (0.000531)
  test_entry_id:					.: (0.000165)
  test_length:						.: (0.000145)
  test_locus_circular:					.: (0.000184)
  test_locus_class:					.: (0.000191)
  test_locus_date:					.: (0.004786)
  test_locus_division:					.: (0.000233)
  test_locus_entry_id:					.: (0.000153)
  test_locus_length:					.: (0.000174)
  test_locus_natype:					.: (0.000158)
  test_locus_strand:					.: (0.000149)
  test_natype:						.: (0.000128)
  test_seq:						.: (0.000189)
  test_seq_len:						.: (0.000161)
  test_strand:						.: (0.000136)
  test_strandedness:					.: (0.000140)
  test_to_biosequence:					.: (0.006015)
Bio::TestBioGenPept: 
  test_circular:					.: (0.000505)
  test_date:						.: (0.000261)
  test_dbsource:					.: (0.000235)
  test_division:					.: (0.000229)
  test_entry_id:					.: (0.000250)
  test_length:						.: (0.000589)
  test_locus:						.: (0.000245)
  test_seq:						.: (0.000295)
  test_seq_len:						.: (0.000538)
Bio::TestBioKEGGGENES_b0529: 
  test_aalen:						.: (0.000480)
  test_aaseq:						.: (0.000703)
  test_chromosome:					.: (0.000313)
  test_codon_usage:					.: (0.000356)
  test_cu_list:						.: (0.000234)
  test_dblinks_as_hash:					.: (0.000299)
  test_dblinks_as_strings:				.: (0.000263)
  test_definition:					.: (0.000270)
  test_division:					.: (0.000252)
  test_eclinks:						.: (0.000311)
  test_entry:						.: (0.000237)
  test_entry_id:					.: (0.000223)
  test_gbposition:					.: (0.000280)
  test_gene:						.: (0.000281)
  test_genes:						.: (0.000274)
  test_keggclass:					.: (0.000273)
  test_keggclasses:					.: (0.000293)
  test_locations:					.: (0.000385)
  test_motifs_as_hash:					.: (0.000285)
  test_motifs_as_strings:				.: (0.000267)
  test_name:						.: (0.000248)
  test_names_as_array:					.: (0.000261)
  test_new:						.: (0.000268)
  test_ntlen:						.: (0.000323)
  test_ntseq:						.: (0.000360)
  test_organism:					.: (0.000236)
  test_orthologs_as_hash:				.: (0.000352)
  test_orthologs_as_strings:				.: (0.000139)
  test_pathway:						.: (0.000170)
  test_pathway_after_pathways_as_strings:		.: (0.000188)
  test_pathway_before_pathways_as_strings:		.: (0.000194)
  test_pathways_as_hash:				.: (0.000154)
  test_pathways_as_strings:				.: (0.000122)
  test_position:					.: (0.000131)
  test_structure:					.: (0.000132)
Bio::TestBioKEGGGENOME_T00005: 
  test_chromosomes:					.: (0.000848)
  test_comment:						.: (0.000229)
  test_data_source:					.: (0.000229)
  test_definition:					.: (0.000201)
  test_disease:						.: (0.000195)
  test_entry_id:					.: (0.000504)
  test_lineage:						.: (0.000452)
  test_nalen:						.: (0.000417)
  test_name:						.: (0.000361)
  test_new:						.: (0.000361)
  test_num_gene:					.: (0.000362)
  test_num_rna:						.: (0.000342)
  test_original_databases:				.: (0.004496)
  test_original_db:					.: (0.000518)
  test_plasmids:					.: (0.000455)
  test_references:					.: (0.001918)
  test_statistics:					.: (0.000400)
  test_taxid:						.: (0.000432)
  test_taxonomy:					.: (0.000405)
Bio::TestBioKEGGGENOME_T00070: 
  test_chromosomes:					.: (0.000590)
  test_comment:						.: (0.005792)
  test_data_source:					.: (0.006276)
  test_definition:					.: (0.005158)
  test_disease:						.: (0.000471)
  test_entry_id:					.: (0.000342)
  test_lineage:						.: (0.000358)
  test_nalen:						.: (0.000281)
  test_name:						.: (0.000295)
  test_new:						.: (0.000287)
  test_num_gene:					.: (0.000283)
  test_num_rna:						.: (0.000244)
  test_original_databases:				.: (0.000289)
  test_original_db:					.: (0.000267)
  test_plasmids:					.: (0.000954)
  test_references:					.: (0.000623)
  test_statistics:					.: (0.000279)
  test_taxid:						.: (0.000293)
  test_taxonomy:					.: (0.004565)
Bio::TestBioKEGGPATHWAY_ec00072: 
  test_compounds_as_hash:				.: (0.000560)
  test_compounds_as_strings:				.: (0.000286)
  test_dblinks_as_hash:					.: (0.000262)
  test_dblinks_as_strings:				.: (0.000220)
  test_description:					.: (0.000266)
  test_diseases_as_hash:				.: (0.000228)
  test_diseases_as_strings:				.: (0.000287)
  test_entry_id:					.: (0.000289)
  test_enzymes_as_strings:				.: (0.000247)
  test_genes_as_hash:					.: (0.000216)
  test_genes_as_strings:				.: (0.000226)
  test_keggclass:					.: (0.000272)
  test_ko_pathway:					.: (0.000236)
  test_modules_as_hash:					.: (0.000259)
  test_modules_as_strings:				.: (0.000211)
  test_name:						.: (0.000250)
  test_new:						.: (0.004876)
  test_organism:					.: (0.000328)
  test_orthologs_as_hash:				.: (0.000123)
  test_orthologs_as_strings:				.: (0.000101)
  test_pathways_as_hash:				.: (0.000113)
  test_pathways_as_strings:				.: (0.000095)
  test_reactions_as_hash:				.: (0.000095)
  test_reactions_as_strings:				.: (0.000366)
  test_references:					.: (0.000153)
  test_rel_pathways_as_hash:				.: (0.000124)
  test_rel_pathways_as_strings:				.: (0.000096)
Bio::TestBioKEGGPATHWAY_hsa00790: 
  test_compounds_as_hash:				.: (0.000392)
  test_compounds_as_strings:				.: (0.000181)
  test_dblinks_as_hash:					.: (0.000133)
  test_dblinks_as_strings:				.: (0.000120)
  test_description:					.: (0.000146)
  test_diseases_as_hash:				.: (0.000131)
  test_diseases_as_strings:				.: (0.000116)
  test_entry_id:					.: (0.000125)
  test_enzymes_as_strings:				.: (0.000105)
  test_genes_as_hash:					.: (0.000160)
  test_genes_as_strings:				.: (0.000128)
  test_keggclass:					.: (0.001067)
  test_ko_pathway:					.: (0.000502)
  test_modules_as_hash:					.: (0.000287)
  test_modules_as_strings:				.: (0.000249)
  test_name:						.: (0.005409)
  test_new:						.: (0.000402)
  test_organism:					.: (0.000297)
  test_orthologs_as_hash:				.: (0.000244)
  test_orthologs_as_strings:				.: (0.000249)
  test_pathways_as_hash:				.: (0.000259)
  test_pathways_as_strings:				.: (0.000236)
  test_reactions_as_hash:				.: (0.000232)
  test_reactions_as_strings:				.: (0.000229)
  test_references:					.: (0.000236)
  test_rel_pathways_as_hash:				.: (0.000289)
  test_rel_pathways_as_strings:				.: (0.000244)
Bio::TestBioKEGGPATHWAY_ko00312: 
  test_compounds_as_hash:				.: (0.000369)
  test_compounds_as_strings:				.: (0.000240)
  test_dblinks_as_hash:					.: (0.000220)
  test_dblinks_as_strings:				.: (0.000215)
  test_description:					.: (0.000250)
  test_diseases_as_hash:				.: (0.000215)
  test_diseases_as_strings:				.: (0.000215)
  test_entry_id:					.: (0.000245)
  test_enzymes_as_strings:				.: (0.000233)
  test_genes_as_hash:					.: (0.000232)
  test_genes_as_strings:				.: (0.000200)
  test_keggclass:					.: (0.007276)
  test_ko_pathway:					.: (0.000418)
  test_modules_as_hash:					.: (0.000279)
  test_modules_as_strings:				.: (0.000271)
  test_name:						.: (0.000286)
  test_new:						.: (0.000264)
  test_organism:					.: (0.000278)
  test_orthologs_as_hash:				.: (0.000317)
  test_orthologs_as_strings:				.: (0.000255)
  test_pathways_as_hash:				.: (0.000283)
  test_pathways_as_strings:				.: (0.000230)
  test_reactions_as_hash:				.: (0.000217)
  test_reactions_as_strings:				.: (0.000208)
  test_references:					.: (0.000217)
  test_rel_pathways_as_hash:				.: (0.000226)
  test_rel_pathways_as_strings:				.: (0.000217)
Bio::TestBioKEGGPATHWAY_map00030: 
  test_compounds_as_hash:				.: (0.000398)
  test_compounds_as_strings:				.: (0.000232)
  test_dblinks_as_hash:					.: (0.000281)
  test_dblinks_as_strings:				.: (0.000284)
  test_description:					.: (0.000358)
  test_diseases_as_hash:				.: (0.000254)
  test_diseases_as_strings:				.: (0.000243)
  test_entry_id:					.: (0.000286)
  test_enzymes_as_strings:				.: (0.000260)
  test_genes_as_hash:					.: (0.000250)
  test_genes_as_strings:				.: (0.000241)
  test_keggclass:					.: (0.000275)
  test_ko_pathway:					.: (0.000259)
  test_modules_as_hash:					.: (0.000352)
  test_modules_as_strings:				.: (0.000258)
  test_name:						.: (0.000278)
  test_new:						.: (0.000395)
  test_organism:					.: (0.000290)
  test_orthologs_as_hash:				.: (0.000268)
  test_orthologs_as_strings:				.: (0.000237)
  test_pathways_as_hash:				.: (0.000262)
  test_pathways_as_strings:				.: (0.000325)
  test_reactions_as_hash:				.: (0.000242)
  test_reactions_as_strings:				.: (0.000235)
  test_references:					.: (0.000659)
  test_rel_pathways_as_hash:				.: (0.000293)
  test_rel_pathways_as_strings:				.: (0.015321)
Bio::TestBioKeggDRUG: 
  test_activity:					.: (0.000603)
  test_comment:						.: (0.000350)
  test_dblinks_as_hash:					.: (0.000382)
  test_dblinks_as_strings:				.: (0.000320)
  test_entry_id:					.: (0.000291)
  test_formula:						.: (0.000282)
  test_kcf:						.: (0.000299)
  test_mass:						.: (0.000274)
  test_name:						.: (0.000280)
  test_names:						.: (0.000296)
  test_pathways_as_hash:				.: (0.000721)
  test_pathways_as_strings:				.: (0.000391)
  test_products:					.: (0.004925)
  test_remark:						.: (0.000433)
Bio::TestBioKeggGLYCAN: 
  test_comment:						.: (0.000488)
  test_composition:					.: (0.000317)
  test_compounds:					.: (0.000293)
  test_dblinks_as_hash:					.: (0.000798)
  test_dblinks_as_strings:				.: (0.000308)
  test_entry_id:					.: (0.000333)
  test_enzymes:						.: (0.000287)
  test_kcf:						.: (0.000245)
  test_keggclass:					.: (0.000271)
  test_mass:						.: (0.000269)
  test_name:						.: (0.000568)
  test_orthologs_as_hash:				.: (0.000328)
  test_orthologs_as_strings:				.: (0.000259)
  test_pathways_as_hash:				.: (0.004562)
  test_pathways_as_strings:				.: (0.000410)
  test_reactions:					.: (0.000340)
  test_references:					.: (0.000358)
  test_remark:						.: (0.000302)
Bio::TestBioKeggGLYCAN_G01366: 
  test_comment:						.: (0.000396)
  test_composition:					.: (0.000251)
  test_compounds:					.: (0.000611)
  test_dblinks_as_hash:					.: (0.000299)
  test_dblinks_as_strings:				.: (0.000227)
  test_entry_id:					.: (0.000248)
  test_enzymes:						.: (0.000234)
  test_kcf:						.: (0.000222)
  test_keggclass:					.: (0.000247)
  test_mass:						.: (0.000244)
  test_name:						.: (0.000505)
  test_orthologs_as_hash:				.: (0.004589)
  test_orthologs_as_strings:				.: (0.000348)
  test_pathways_as_hash:				.: (0.000237)
  test_pathways_as_strings:				.: (0.000221)
  test_reactions:					.: (0.000247)
  test_references:					.: (0.000221)
  test_remark:						.: (0.000244)
Bio::TestBioKeggPathway_rn00250: 
  test_compounds_as_hash:				.: (0.000528)
  test_compounds_as_strings:				.: (0.000326)
  test_dblinks_as_hash:					.: (0.000298)
  test_dblinks_as_strings:				.: (0.000252)
  test_description:					.: (0.000267)
  test_diseases_as_hash:				.: (0.000264)
  test_diseases_as_strings:				.: (0.000251)
  test_entry_id:					.: (0.000278)
  test_enzymes_as_strings:				.: (0.000251)
  test_genes_as_hash:					.: (0.000235)
  test_genes_as_strings:				.: (0.000235)
  test_keggclass:					.: (0.000268)
  test_ko_pathway:					.: (0.004359)
  test_modules_as_hash:					.: (0.000483)
  test_modules_as_strings:				.: (0.000347)
  test_name:						.: (0.000338)
  test_new:						.: (0.000306)
  test_organism:					.: (0.000302)
  test_orthologs_as_hash:				.: (0.000274)
  test_orthologs_as_strings:				.: (0.000246)
  test_pathways_as_hash:				.: (0.000264)
  test_pathways_as_strings:				.: (0.000273)
  test_reactions_as_hash:				.: (0.000443)
  test_reactions_as_strings:				.: (0.000348)
  test_references:					.: (0.000483)
  test_rel_pathways_as_hash:				.: (0.000357)
  test_rel_pathways_as_strings:				.: (0.000282)
Bio::TestBioLITDB: 
  test_author:						.: (0.000519)
  test_entry_id:					.: (0.000272)
  test_field:						.: (0.000249)
  test_journal:						.: (0.000242)
  test_keyword:						.: (0.000262)
  test_reference:					.: (0.000368)
  test_title:						.: (0.009992)
  test_volume:						.: (0.000704)
Bio::TestBioNBRF: 
  test_aalen:						.: (0.000482)
  test_aaseq:						.: (0.000277)
  test_entry:						.: (0.000237)
  test_length:						.: (0.000235)
  test_nalen:						.: (0.000326)
  test_naseq:						.: (0.000240)
  test_seq:						.: (0.000224)
  test_seq_class:					.: (0.000204)
  test_to_nbrf:						.: (0.000248)
Bio::TestBioTreeOutputPrivate: 
  test_to_newick_format_label:				.: (0.000451)
  test_to_newick_format_leaf:				.: (0.000715)
  test_to_newick_format_leaf_NHX:			.: (0.000279)
Bio::TestBl2seqReport: 
  test_db_len:						.: (0.000761)
  test_db_num:						.: (0.000530)
  test_new:						.: (0.000334)
  test_undefed_methods:					.: (0.000855)
  test_undefed_methods_for_iteration:			.: (0.000831)
Bio::TestBl2seqReportConstants: 
  test_rs:						.: (0.000502)
Bio::TestBl2seqReportHit: 
  test_empty_hits:					.: (0.000500)
  test_hits:						.: (0.000352)
Bio::TestBlast: 
  test_blast_reports_format0:				.: (0.010421)
  test_blast_reports_format0_with_block:		.: (0.001332)
  test_blast_reports_format7:				.: (0.086781)
  test_blast_reports_format7_with_block:		.: (0.012109)
  test_blast_reports_format7_with_parser:		.: (0.015455)
  test_blast_reports_format7_with_parser_with_block:	.: (0.018956)
  test_blast_reports_format8:				.: (0.005090)
  test_blast_reports_format8_with_block:		.: (0.000527)
  test_blast_reports_format8_with_parser:		.: (0.000240)
  test_blast_reports_format8_with_parser_with_block:	.: (0.000165)
  test_blast_reports_xml:				.: (0.012129)
  test_blast_reports_xml_with_block:			.: (0.015877)
  test_blastll:						.: (0.000336)
  test_db:						.: (0.000288)
  test_exec_genomenet:					.: (0.004886)
  test_exec_local:					.: (0.000329)
  test_exec_ncbi:					.: (0.000241)
  test_filter:						.: (0.000265)
  test_format:						.: (0.000240)
  test_make_command_line:				.: (0.000471)
  test_make_command_line_2:				.: (0.000432)
  test_matrix:						.: (0.000219)
  test_new:						.: (0.000272)
  test_new_opt_string:					.: (0.000329)
  test_option:						.: (0.000231)
  test_option_set:					.: (0.000302)
  test_option_set_m0:					.: (0.000261)
  test_options:						.: (0.000201)
  test_output:						.: (0.000207)
  test_parse_result:					.: (0.014967)
  test_parser:						.: (0.000325)
  test_program:						.: (0.000273)
  test_query:						.: (0.000217)
  test_self_local:					.: (0.000292)
  test_self_remote:					.: (0.001857)
  test_server:						.: (0.000311)
Bio::TestBlastNCBIOptions: 
  test_add_options:					.: (0.000480)
  test_delete:						.: (0.000349)
  test_equal_equal:					.: (0.000369)
  test_get:						.: (0.000324)
  test_make_command_line_options:			.: (0.000225)
  test_normalize!:					.: (0.000121)
  test_parse:						.: (0.000142)
  test_set:						.: (0.000321)
Bio::TestBlastReport: 
  test_db:						.: (0.024563)
  test_db_len:						.: (0.015443)
  test_db_num:						.: (0.011525)
  test_each_hit:					.: (0.022824)
  test_each_iteration:					.: (0.011612)
  test_eff_space:					.: (0.011270)
  test_entrez_query:					.: (0.016388)
  test_entropy:						.: (0.015629)
  test_expect:						.: (0.015615)
  test_filter:						.: (0.011619)
  test_gap_extend:					.: (0.019632)
  test_gap_open:					.: (0.011637)
  test_hits:						.: (0.011639)
  test_hsp_len:						.: (0.006599)
  test_inclusion:					.: (0.022219)
  test_iterations:					.: (0.011049)
  test_kappa:						.: (0.010805)
  test_lambda:						.: (0.021221)
  test_matrix:						.: (0.007071)
  test_message:						.: (0.015301)
  test_parameters:					.: (0.016255)
  test_pattern:						.: (0.016369)
  test_program:						.: (0.011642)
  test_query_def:					.: (0.011643)
  test_query_id:					.: (0.017342)
  test_query_len:					.: (0.011422)
  test_reference:					.: (0.015206)
  test_sc_match:					.: (0.012361)
  test_sc_mismatch:					.: (0.016160)
  test_statistics:					.: (0.011169)
  test_version:						.: (0.014887)
Bio::TestBlastReportDefault: 
  test_db:						.: (0.000742)
  test_db_len:						.: (0.000524)
  test_db_num:						.: (0.000479)
  test_each_hit:					.: (0.000484)
  test_each_iteration:					.: (0.000447)
  test_eff_space:					.: (0.000542)
  test_entropy:						.: (0.000447)
  test_expect:						.: (0.000481)
  test_gap_extend:					.: (0.000446)
  test_gap_open:					.: (0.005561)
  test_gapped_entropy:					.: (0.000611)
  test_gapped_kappa:					.: (0.000481)
  test_gapped_lambda:					.: (0.000463)
  test_hits:						.: (0.000461)
  test_iterations:					.: (0.000422)
  test_kappa:						.: (0.000493)
  test_lambda:						.: (0.000466)
  test_matrix:						.: (0.000475)
  test_message:						.: (0.000400)
  test_pattern:						.: (0.000381)
  test_program:						.: (0.000424)
  test_query_def:					.: (0.000448)
  test_query_len:					.: (0.004493)
  test_reference:					.: (0.000621)
  test_sc_match:					.: (0.000580)
  test_sc_mismatch:					.: (0.000542)
  test_version:						.: (0.000463)
Bio::TestBlastReportHit: 
  test_Hit_accession:					.: (0.020515)
  test_Hit_bit_score:					.: (0.011623)
  test_Hit_definition:					.: (0.011666)
  test_Hit_evalue:					.: (0.013683)
  test_Hit_hit_id:					.: (0.015255)
  test_Hit_hsps:					.: (0.015276)
  test_Hit_identity:					.: (0.017777)
  test_Hit_lap_at:					.: (0.011445)
  test_Hit_len:						.: (0.010867)
  test_Hit_midline:					.: (0.008753)
  test_Hit_num:						.: (0.008190)
  test_Hit_overlap:					.: (0.007249)
  test_Hit_query_def:					.: (0.007036)
  test_Hit_query_end:					.: (0.009168)
  test_Hit_query_id:					.: (0.007116)
  test_Hit_query_len:					.: (0.007283)
  test_Hit_query_seq:					.: (0.009192)
  test_Hit_query_start:					.: (0.007220)
  test_Hit_taeget_def:					.: (0.007581)
  test_Hit_target_end:					.: (0.008181)
  test_Hit_target_id:					.: (0.008782)
  test_Hit_target_len:					.: (0.006997)
  test_Hit_target_seq:					.: (0.007314)
  test_Hit_target_start:				.: (0.009283)
Bio::TestBlastReportHitDefault: 
  test_Hit_bit_score:					.: (0.001107)
  test_Hit_definition:					.: (0.000591)
  test_Hit_evalue:					.: (0.000546)
  test_Hit_hsps:					.: (0.000482)
  test_Hit_identity:					.: (0.000479)
  test_Hit_lap_at:					.: (0.000567)
  test_Hit_len:						.: (0.000599)
  test_Hit_midline:					.: (0.000599)
  test_Hit_overlap:					.: (0.000683)
  test_Hit_query_end:					.: (0.000530)
  test_Hit_query_seq:					.: (0.000548)
  test_Hit_query_start:					.: (0.000530)
  test_Hit_taeget_def:					.: (0.000490)
  test_Hit_target_end:					.: (0.000699)
  test_Hit_target_id:					.: (0.000458)
  test_Hit_target_len:					.: (0.000440)
  test_Hit_target_seq:					.: (0.000539)
  test_Hit_target_start:				.: (0.000530)
Bio::TestBlastReportHitMulti: 
  test_Hit_accession:					.: (0.021202)
  test_Hit_bit_score:					.: (0.021849)
  test_Hit_definition:					.: (0.022634)
  test_Hit_evalue:					.: (0.021521)
  test_Hit_hit_id:					.: (0.037116)
  test_Hit_hsps:					.: (0.037437)
  test_Hit_identity:					.: (0.021784)
  test_Hit_lap_at:					.: (0.022494)
  test_Hit_len:						.: (0.023574)
  test_Hit_midline:					.: (0.024282)
  test_Hit_num:						.: (0.021471)
  test_Hit_overlap:					.: (0.024985)
  test_Hit_query_def:					.: (0.022570)
  test_Hit_query_end:					.: (0.021492)
  test_Hit_query_id:					.: (0.020806)
  test_Hit_query_len:					.: (0.021609)
  test_Hit_query_seq:					.: (0.020782)
  test_Hit_query_start:					.: (0.036489)
  test_Hit_taeget_def:					.: (0.020862)
  test_Hit_target_end:					.: (0.021135)
  test_Hit_target_id:					.: (0.027543)
  test_Hit_target_len:					.: (0.020876)
  test_Hit_target_seq:					.: (0.021505)
  test_Hit_target_start:				.: (0.020730)
Bio::TestBlastReportHitMultiREXML: 
  test_Hit_accession:					.: (0.020531)
  test_Hit_bit_score:					.: (0.020323)
  test_Hit_definition:					.: (0.020826)
  test_Hit_evalue:					.: (0.020655)
  test_Hit_hit_id:					.: (0.020314)
  test_Hit_hsps:					.: (0.020116)
  test_Hit_identity:					.: (0.022062)
  test_Hit_lap_at:					.: (0.022272)
  test_Hit_len:						.: (0.020330)
  test_Hit_midline:					.: (0.020126)
  test_Hit_num:						.: (0.020292)
  test_Hit_overlap:					.: (0.020550)
  test_Hit_query_def:					.: (0.020171)
  test_Hit_query_end:					.: (0.020364)
  test_Hit_query_id:					.: (0.020199)
  test_Hit_query_len:					.: (0.020826)
  test_Hit_query_seq:					.: (0.021158)
  test_Hit_query_start:					.: (0.021737)
  test_Hit_taeget_def:					.: (0.021357)
  test_Hit_target_end:					.: (0.020463)
  test_Hit_target_id:					.: (0.021253)
  test_Hit_target_len:					.: (0.021369)
  test_Hit_target_seq:					.: (0.020766)
  test_Hit_target_start:				.: (0.020138)
Bio::TestBlastReportHitREXML: 
  test_Hit_accession:					.: (0.009145)
  test_Hit_bit_score:					.: (0.007089)
  test_Hit_definition:					.: (0.006648)
  test_Hit_evalue:					.: (0.009285)
  test_Hit_hit_id:					.: (0.006976)
  test_Hit_hsps:					.: (0.006789)
  test_Hit_identity:					.: (0.009161)
  test_Hit_lap_at:					.: (0.007032)
  test_Hit_len:						.: (0.006841)
  test_Hit_midline:					.: (0.008935)
  test_Hit_num:						.: (0.007123)
  test_Hit_overlap:					.: (0.007400)
  test_Hit_query_def:					.: (0.008922)
  test_Hit_query_end:					.: (0.006965)
  test_Hit_query_id:					.: (0.006797)
  test_Hit_query_len:					.: (0.008878)
  test_Hit_query_seq:					.: (0.006997)
  test_Hit_query_start:					.: (0.006643)
  test_Hit_taeget_def:					.: (0.008834)
  test_Hit_target_end:					.: (0.007170)
  test_Hit_target_id:					.: (0.006763)
  test_Hit_target_len:					.: (0.009103)
  test_Hit_target_seq:					.: (0.007308)
  test_Hit_target_start:				.: (0.006566)
Bio::TestBlastReportHitTabular: 
  test_Hit_accession:					.: (0.000475)
  test_Hit_bit_score:					.: (0.000304)
  test_Hit_definition:					.: (0.000259)
  test_Hit_evalue:					.: (0.000253)
  test_Hit_hit_id:					.: (0.000227)
  test_Hit_hsps:					.: (0.000219)
  test_Hit_identity:					.: (0.000205)
  test_Hit_lap_at:					.: (0.000236)
  test_Hit_len:						.: (0.000203)
  test_Hit_midline:					.: (0.000249)
  test_Hit_num:						.: (0.000210)
  test_Hit_overlap:					.: (0.000232)
  test_Hit_query_def:					.: (0.000233)
  test_Hit_query_end:					.: (0.000219)
  test_Hit_query_id:					.: (0.000222)
  test_Hit_query_len:					.: (0.000220)
  test_Hit_query_seq:					.: (0.000211)
  test_Hit_query_start:					.: (0.000220)
  test_Hit_taeget_def:					.: (0.000221)
  test_Hit_target_end:					.: (0.000211)
  test_Hit_target_id:					.: (0.000240)
  test_Hit_target_len:					.: (0.000220)
  test_Hit_target_seq:					.: (0.000208)
  test_Hit_target_start:				.: (0.000241)
Bio::TestBlastReportHsp: 
  test_Hsp_align_len:					.: (0.009347)
  test_Hsp_bit_score:					.: (0.006915)
  test_Hsp_density:					.: (0.006980)
  test_Hsp_evalue:					.: (0.009253)
  test_Hsp_gaps:					.: (0.007780)
  test_Hsp_hit_frame:					.: (0.006898)
  test_Hsp_hit_from:					.: (0.008985)
  test_Hsp_hit_to:					.: (0.007015)
  test_Hsp_hseq:					.: (0.008134)
  test_Hsp_identity:					.: (0.009040)
  test_Hsp_midline:					.: (0.007092)
  test_Hsp_mismatch_count:				.: (0.006803)
  test_Hsp_num:						.: (0.009077)
  test_Hsp_pattern_from:				.: (0.006889)
  test_Hsp_pattern_to:					.: (0.006761)
  test_Hsp_percent_identity:				.: (0.008894)
  test_Hsp_positive:					.: (0.006941)
  test_Hsp_qseq:					.: (0.006794)
  test_Hsp_query_frame:					.: (0.010223)
  test_Hsp_query_from:					.: (0.006936)
  test_Hsp_query_to:					.: (0.007253)
  test_Hsp_score:					.: (0.008954)
Bio::TestBlastReportHspDefault: 
  test_Hsp_align_len:					.: (0.000999)
  test_Hsp_bit_score:					.: (0.000592)
  test_Hsp_evalue:					.: (0.000514)
  test_Hsp_gaps:					.: (0.000500)
  test_Hsp_hit_frame:					.: (0.000499)
  test_Hsp_hit_from:					.: (0.000540)
  test_Hsp_hit_to:					.: (0.000552)
  test_Hsp_hseq:					.: (0.000745)
  test_Hsp_identity:					.: (0.000491)
  test_Hsp_midline:					.: (0.000586)
  test_Hsp_percent_identity:				.: (0.000477)
  test_Hsp_positive:					.: (0.000476)
  test_Hsp_qseq:					.: (0.000599)
  test_Hsp_query_frame:					.: (0.000607)
  test_Hsp_query_from:					.: (0.000532)
  test_Hsp_query_to:					.: (0.000514)
  test_Hsp_score:					.: (0.000443)
Bio::TestBlastReportHspMulti: 
  test_Hsp_align_len:					.: (0.021402)
  test_Hsp_bit_score:					.: (0.021019)
  test_Hsp_density:					.: (0.022887)
  test_Hsp_evalue:					.: (0.020604)
  test_Hsp_gaps:					.: (0.020666)
  test_Hsp_hit_frame:					.: (0.021374)
  test_Hsp_hit_from:					.: (0.021121)
  test_Hsp_hit_to:					.: (0.022855)
  test_Hsp_hseq:					.: (0.021104)
  test_Hsp_identity:					.: (0.020927)
  test_Hsp_midline:					.: (0.021407)
  test_Hsp_mismatch_count:				.: (0.020559)
  test_Hsp_num:						.: (0.021472)
  test_Hsp_pattern_from:				.: (0.022211)
  test_Hsp_pattern_to:					.: (0.022308)
  test_Hsp_percent_identity:				.: (0.020934)
  test_Hsp_positive:					.: (0.042834)
  test_Hsp_qseq:					.: (0.026313)
  test_Hsp_query_frame:					.: (0.022935)
  test_Hsp_query_from:					.: (0.022984)
  test_Hsp_query_to:					.: (0.021332)
  test_Hsp_score:					.: (0.020412)
Bio::TestBlastReportHspMultiREXML: 
  test_Hsp_align_len:					.: (0.020582)
  test_Hsp_bit_score:					.: (0.020318)
  test_Hsp_density:					.: (0.020198)
  test_Hsp_evalue:					.: (0.020972)
  test_Hsp_gaps:					.: (0.020446)
  test_Hsp_hit_frame:					.: (0.020514)
  test_Hsp_hit_from:					.: (0.022105)
  test_Hsp_hit_to:					.: (0.021131)
  test_Hsp_hseq:					.: (0.021089)
  test_Hsp_identity:					.: (0.021555)
  test_Hsp_midline:					.: (0.021645)
  test_Hsp_mismatch_count:				.: (0.020293)
  test_Hsp_num:						.: (0.020272)
  test_Hsp_pattern_from:				.: (0.022374)
  test_Hsp_pattern_to:					.: (0.020395)
  test_Hsp_percent_identity:				.: (0.021876)
  test_Hsp_positive:					.: (0.020951)
  test_Hsp_qseq:					.: (0.021737)
  test_Hsp_query_frame:					.: (0.021818)
  test_Hsp_query_from:					.: (0.022134)
  test_Hsp_query_to:					.: (0.022067)
  test_Hsp_score:					.: (0.022528)
Bio::TestBlastReportHspREXML: 
  test_Hsp_align_len:					.: (0.009166)
  test_Hsp_bit_score:					.: (0.007171)
  test_Hsp_density:					.: (0.006576)
  test_Hsp_evalue:					.: (0.009813)
  test_Hsp_gaps:					.: (0.007105)
  test_Hsp_hit_frame:					.: (0.006517)
  test_Hsp_hit_from:					.: (0.009662)
  test_Hsp_hit_to:					.: (0.007151)
  test_Hsp_hseq:					.: (0.006829)
  test_Hsp_identity:					.: (0.008984)
  test_Hsp_midline:					.: (0.007178)
  test_Hsp_mismatch_count:				.: (0.006468)
  test_Hsp_num:						.: (0.009317)
  test_Hsp_pattern_from:				.: (0.007174)
  test_Hsp_pattern_to:					.: (0.006593)
  test_Hsp_percent_identity:				.: (0.009066)
  test_Hsp_positive:					.: (0.007649)
  test_Hsp_qseq:					.: (0.006602)
  test_Hsp_query_frame:					.: (0.009073)
  test_Hsp_query_from:					.: (0.007395)
  test_Hsp_query_to:					.: (0.006596)
  test_Hsp_score:					.: (0.009204)
Bio::TestBlastReportHspTabular: 
  test_Hsp_align_len:					.: (0.000631)
  test_Hsp_bit_score:					.: (0.000321)
  test_Hsp_density:					.: (0.000279)
  test_Hsp_evalue:					.: (0.000269)
  test_Hsp_gaps:					.: (0.000270)
  test_Hsp_hit_frame:					.: (0.000266)
  test_Hsp_hit_from:					.: (0.000255)
  test_Hsp_hit_to:					.: (0.000233)
  test_Hsp_hseq:					.: (0.000225)
  test_Hsp_identity:					.: (0.000221)
  test_Hsp_midline:					.: (0.000214)
  test_Hsp_mismatch_count:				.: (0.000245)
  test_Hsp_num:						.: (0.000224)
  test_Hsp_pattern_from:				.: (0.000206)
  test_Hsp_pattern_to:					.: (0.000217)
  test_Hsp_percent_identity:				.: (0.000349)
  test_Hsp_positive:					.: (0.000265)
  test_Hsp_qseq:					.: (0.000218)
  test_Hsp_query_frame:					.: (0.000219)
  test_Hsp_query_from:					.: (0.000226)
  test_Hsp_query_to:					.: (0.000221)
  test_Hsp_score:					.: (0.000216)
Bio::TestBlastReportIteration: 
  test_hits:						.: (0.007073)
  test_message:						.: (0.008388)
  test_num:						.: (0.007898)
  test_statistics:					.: (0.006971)
Bio::TestBlastReportIterationDefault: 
  test_hits:						.: (0.000754)
  test_message:						.: (0.000497)
  test_num:						.: (0.000487)
Bio::TestBlastReportIterationMulti: 
  test_each:						.: (0.021233)
  test_hits:						.: (0.021705)
  test_message:						.: (0.020602)
  test_num:						.: (0.020486)
  test_query_def:					.: (0.022473)
  test_query_id:					.: (0.021055)
  test_query_len:					.: (0.022148)
  test_statistics:					.: (0.021843)
Bio::TestBlastReportIterationMultiREXML: 
  test_each:						.: (0.021110)
  test_hits:						.: (0.020763)
  test_message:						.: (0.020848)
  test_num:						.: (0.021813)
  test_query_def:					.: (0.021214)
  test_query_id:					.: (0.021270)
  test_query_len:					.: (0.020725)
  test_statistics:					.: (0.020287)
Bio::TestBlastReportIterationREXML: 
  test_hits:						.: (0.006594)
  test_message:						.: (0.009059)
  test_num:						.: (0.007136)
  test_statistics:					.: (0.006994)
Bio::TestBlastReportIterationTabular: 
  test_hits:						.: (0.000473)
  test_message:						.: (0.000274)
  test_num:						.: (0.000263)
  test_statistics:					.: (0.000263)
Bio::TestBlastReportMulti: 
  test_db:						.: (0.022157)
  test_db_len:						.: (0.021731)
  test_db_num:						.: (0.020667)
  test_each_hit:					.: (0.021103)
  test_each_iteration:					.: (0.020421)
  test_eff_space:					.: (0.021742)
  test_entropy:						.: (0.021906)
  test_expect:						.: (0.020408)
  test_filter:						.: (0.020388)
  test_gap_extend:					.: (0.022900)
  test_gap_open:					.: (0.021405)
  test_hits:						.: (0.020882)
  test_hsp_len:						.: (0.020626)
  test_iterations:					.: (0.023187)
  test_kappa:						.: (0.021792)
  test_lambda:						.: (0.059453)
  test_matrix:						.: (0.020806)
  test_message:						.: (0.020574)
  test_parameters:					.: (0.020405)
  test_pattern:						.: (0.020836)
  test_program:						.: (0.020292)
  test_query_def:					.: (0.020427)
  test_query_id:					.: (0.020683)
  test_query_len:					.: (0.020948)
  test_reference:					.: (0.020579)
  test_reports:						.: (0.029620)
  test_statistics:					.: (0.026846)
  test_version:						.: (0.034383)
Bio::TestBlastReportMultiREXML: 
  test_db:						.: (0.034016)
  test_db_len:						.: (0.028483)
  test_db_num:						.: (0.032254)
  test_each_hit:					.: (0.022696)
  test_each_iteration:					.: (0.020457)
  test_eff_space:					.: (0.022659)
  test_entropy:						.: (0.022601)
  test_expect:						.: (0.021289)
  test_filter:						.: (0.022886)
  test_gap_extend:					.: (0.021730)
  test_gap_open:					.: (0.034718)
  test_hits:						.: (0.033387)
  test_hsp_len:						.: (0.040004)
  test_iterations:					.: (0.039642)
  test_kappa:						.: (0.033459)
  test_lambda:						.: (0.036888)
  test_matrix:						.: (0.036366)
  test_message:						.: (0.044485)
  test_parameters:					.: (0.038120)
  test_pattern:						.: (0.031803)
  test_program:						.: (0.020931)
  test_query_def:					.: (0.036459)
  test_query_id:					.: (0.023009)
  test_query_len:					.: (0.021996)
  test_reference:					.: (0.021192)
  test_reports:						.: (0.022799)
  test_statistics:					.: (0.024063)
  test_version:						.: (0.022953)
Bio::TestBlastReportREXML: 
  test_db:						.: (0.010253)
  test_db_len:						.: (0.008039)
  test_db_num:						.: (0.009060)
  test_each_hit:					.: (0.006989)
  test_each_iteration:					.: (0.006682)
  test_eff_space:					.: (0.009759)
  test_entrez_query:					.: (0.007235)
  test_entropy:						.: (0.010319)
  test_expect:						.: (0.007875)
  test_filter:						.: (0.008495)
  test_gap_extend:					.: (0.007964)
  test_gap_open:					.: (0.006918)
  test_hits:						.: (0.008948)
  test_hsp_len:						.: (0.007359)
  test_inclusion:					.: (0.008062)
  test_iterations:					.: (0.007659)
  test_kappa:						.: (0.006854)
  test_lambda:						.: (0.008826)
  test_matrix:						.: (0.007205)
  test_message:						.: (0.008950)
  test_parameters:					.: (0.007313)
  test_pattern:						.: (0.006373)
  test_program:						.: (0.009083)
  test_query_def:					.: (0.007058)
  test_query_id:					.: (0.008829)
  test_query_len:					.: (0.007376)
  test_reference:					.: (0.008292)
  test_sc_match:					.: (0.007975)
  test_sc_mismatch:					.: (0.006934)
  test_statistics:					.: (0.008963)
  test_version:						.: (0.007288)
Bio::TestBlastReportTabular: 
  test_db:						.: (0.000471)
  test_db_len:						.: (0.000287)
  test_db_num:						.: (0.000266)
  test_each_hit:					.: (0.000258)
  test_each_iteration:					.: (0.000250)
  test_eff_space:					.: (0.000261)
  test_entrez_query:					.: (0.000296)
  test_entropy:						.: (0.000246)
  test_expect:						.: (0.000241)
  test_filter:						.: (0.000235)
  test_gap_extend:					.: (0.000231)
  test_gap_open:					.: (0.000230)
  test_hits:						.: (0.000236)
  test_hsp_len:						.: (0.000211)
  test_inclusion:					.: (0.000207)
  test_iterations:					.: (0.000262)
  test_kappa:						.: (0.000264)
  test_lambda:						.: (0.000206)
  test_matrix:						.: (0.000209)
  test_message:						.: (0.000239)
  test_parameters:					.: (0.000239)
  test_pattern:						.: (0.000226)
  test_program:						.: (0.000218)
  test_query_def:					.: (0.000233)
  test_query_id:					.: (0.000213)
  test_query_len:					.: (0.000211)
  test_reference:					.: (0.000214)
  test_sc_match:					.: (0.000260)
  test_sc_mismatch:					.: (0.000243)
  test_statistics:					.: (0.000212)
  test_version:						.: (0.000207)
Bio::TestChain: 
  test_aaseq:						.: (0.000406)
  test_addLigand:					.: (0.000150)
  test_addResidue:					.: (0.000153)
  test_atom_seq:					.: (0.000171)
  test_comp:						.: (0.000189)
  test_each:						.: (0.000154)
  test_each_heterogen:					.: (0.000174)
  test_each_residue:					.: (0.000161)
  test_get_heterogen_by_id:				.: (0.000197)
  test_get_residue_by_id:				.: (0.000167)
  test_inspect:						.: (0.000229)
  test_rehash:						.: (0.000161)
  test_rehash_heterogens:				.: (0.000139)
  test_rehash_residues:					.: (0.000141)
  test_square_brace:					.: (0.000171)
  test_to_s:						.: (0.000175)
Bio::TestChainFinder: 
  test_chains:						.: (0.000335)
  test_each_chain:					.: (0.000180)
  test_find_chain:					.: (0.000169)
Bio::TestClustalWReport::TestClustalWReport: 
  test_alignment:					.: (0.007871)
  test_header:						.: (0.000680)
  test_match_line:					.: (0.000570)
  test_sequence0:					.: (0.000774)
  test_sequence1:					.: (0.000574)
Bio::TestClustalWReport::TestClustalWReportSeqnos: 
  test_alignment:					.: (0.005279)
  test_header:						.: (0.000913)
  test_match_line:					.: (0.001022)
  test_sequence0:					.: (0.000773)
  test_sequence1:					.: (0.000945)
Bio::TestClustalWReport::TestClustalWReportWith2ndArgument: 
  test_alignment:					.: (0.005795)
  test_header:						.: (0.000661)
  test_match_line:					.: (0.000591)
  test_sequence0:					.: (0.000594)
  test_sequence1:					.: (0.000563)
Bio::TestCodonTable: 
  test_Tables:						.: (0.000326)
  test_accessor:					.: (0.000191)
  test_definition:					.: (0.000162)
  test_each:						.: (0.000213)
  test_revtrans:					.: (0.000238)
  test_self_accessor:					.: (0.000179)
  test_self_copy:					.: (0.000645)
  test_set_accessor:					.: (0.048311)
  test_start:						.: (0.000217)
  test_start_codon?:					.: (0.000221)
  test_stop:						.: (0.000184)
  test_stop_codon?:					.: (0.000190)
  test_table:						.: (0.000205)
Bio::TestCodonTableConstants: 
  test_Definitions:					.: (0.000317)
  test_Starts:						.: (0.000198)
  test_Tables:						.: (0.000267)
  test_stops:						.: (0.000188)
Bio::TestColorScheme: 
  test_buried:						.: (0.000967)
Bio::TestCommand: 
  test_command_constants:				.: (0.000335)
  test_escape_shell:					.: (0.000239)
  test_escape_shell_unix:				.: (0.000213)
  test_escape_shell_windows:				.: (0.000214)
  test_make_cgi_params_by_array_of_array:		.: (0.000489)
  test_make_cgi_params_by_array_of_hash:		.: (0.000351)
  test_make_cgi_params_by_array_of_string:		.: (0.000233)
  test_make_cgi_params_by_hash_in_string:		.: (0.000432)
  test_make_cgi_params_by_hash_in_symbol:		.: (0.000588)
  test_make_cgi_params_by_string:			.: (0.000249)
  test_make_command_line:				.: (0.000205)
  test_make_command_line_unix:				.: (0.000196)
  test_make_command_line_windows:			.: (0.000184)
  test_safe_command_line_array:				.: (0.000190)
  test_safe_command_line_array_passthrough:		.: (0.000170)
Bio::TestContingencyTable: 
  test_lite_example:					.: (0.072285)
Bio::TestDB: 
  test_entry_id:					.: (0.000410)
  test_exists:						.: (0.000187)
  test_fetch:						.: (0.000240)
  test_get:						.: (0.000169)
  test_open:						.: (0.000176)
  test_tags:						.: (0.000169)
Bio::TestDataType: 
  test_const_like_method:				.: (0.000690)
  test_pdb_achar:					.: (0.000358)
  test_pdb_atom:					.: (0.000349)
  test_pdb_character:					.: (0.000321)
  test_pdb_date:					.: (0.000295)
  test_pdb_idcode:					.: (0.000306)
  test_pdb_integer:					.: (0.000181)
  test_pdb_list:					.: (0.000189)
  test_pdb_lstring:					.: (0.000311)
  test_pdb_real:					.: (0.000264)
  test_pdb_resudue_name:				.: (0.000319)
  test_pdb_slist:					.: (0.000199)
  test_pdb_string:					.: (0.003625)
  test_pdb_stringrj:					.: (0.000232)
  test_pdb_symop:					.: (0.000364)
  test_specification_list:				.: (0.000195)
Bio::TestEMBL: 
  test_ac:						.: (0.000600)
  test_accession:					.: (0.000390)
  test_cc:						.: (0.000331)
  test_de:						.: (0.001778)
  test_division:					.: (0.000708)
  test_dr:						.: (0.000362)
  test_dt:						.: (0.000340)
  test_dt_created:					.: (0.000331)
  test_dt_iterator:					.: (0.000326)
  test_dt_updated:					.: (0.000577)
  test_each_cds:					.: (0.000520)
  test_each_gene:					.: (0.000416)
  test_entry:						.: (0.000378)
  test_fh:						.: (0.000344)
  test_ft:						.: (0.000673)
  test_ft_accessor:					.: (0.000492)
  test_ft_iterator:					.: (0.000517)
  test_id_line:						.: (0.000379)
  test_id_line_data_class:				.: (0.000388)
  test_id_line_division:				.: (0.000560)
  test_id_line_entry_name:				.: (0.000400)
  test_id_line_iterator:				.: (0.000376)
  test_id_line_molecule_type:				.: (0.000402)
  test_id_line_sequence_length:				.: (0.000369)
  test_kw:						.: (0.000383)
  test_molecule:					.: (0.000547)
  test_oc:						.: (0.000450)
  test_og:						.: (0.000339)
  test_os:						.: (0.000397)
  test_ref:						.: (0.000501)
  test_references:					.: (0.000733)
  test_seq:						.: (0.000586)
  test_sequence_length:					.: (0.000394)
  test_sq:						.: (0.000361)
  test_sq_get:						.: (0.000335)
  test_sv:						.: (0.000320)
  test_version:						.: (0.000372)
Bio::TestEMBL89: 
  test_ac:						.: (0.000709)
  test_accession:					.: (0.000329)
  test_cc:						.: (0.000326)
  test_de:						.: (0.000314)
  test_division:					.: (0.000373)
  test_dr:						.: (0.000294)
  test_dt:						.: (0.000337)
  test_dt_created:					.: (0.000501)
  test_dt_iterator:					.: (0.000310)
  test_dt_updated:					.: (0.000299)
  test_each_cds:					.: (0.000448)
  test_each_gene:					.: (0.001806)
  test_entry:						.: (0.000786)
  test_fh:						.: (0.000344)
  test_ft:						.: (0.000465)
  test_ft_accessor:					.: (0.000420)
  test_ft_iterator:					.: (0.000449)
  test_id_line:						.: (0.000361)
  test_id_line_data_class:				.: (0.000434)
  test_id_line_division:				.: (0.000336)
  test_id_line_entry_name:				.: (0.000344)
  test_id_line_iterator:				.: (0.000335)
  test_id_line_molecule_type:				.: (0.000319)
  test_id_line_sequence_length:				.: (0.000339)
  test_id_line_sequence_version:			.: (0.000348)
  test_kw:						.: (0.000326)
  test_molecule:					.: (0.000373)
  test_oc:						.: (0.000386)
  test_og:						.: (0.000298)
  test_os:						.: (0.000350)
  test_ref:						.: (0.000433)
  test_references:					.: (0.000556)
  test_seq:						.: (0.000537)
  test_sequence_length:					.: (0.000430)
  test_sq:						.: (0.000389)
  test_sq_get:						.: (0.000361)
  test_sv:						.: (0.000390)
  test_version:						.: (0.000814)
Bio::TestEMBLAPI: 
  test_ac:						.: (0.000439)
  test_accessions:					.: (0.000258)
Bio::TestEMBLCommon: 
  test_ac:						.: (0.000325)
  test_accession:					.: (0.000153)
  test_accessions:					.: (0.000148)
  test_de:						.: (0.000147)
  test_definition:					.: (0.000141)
  test_description:					.: (0.000149)
  test_dr:						.: (0.000144)
  test_keywords:					.: (0.000152)
  test_kw:						.: (0.000151)
  test_oc:						.: (0.000138)
  test_og:						.: (0.000142)
  test_os:						.: (0.000788)
  test_ref:						.: (0.000145)
  test_references:					.: (0.000146)
Bio::TestEMBLDB: 
  test_fetch:						.: (0.000389)
  test_p_entry2hash:					.: (0.000139)
Bio::TestEMBLToBioSequence: 
  test_classification:					.: (0.002965)
  test_date_created:					.: (0.000626)
  test_date_modified:					.: (0.000520)
  test_definition:					.: (0.000433)
  test_division:					.: (0.000455)
  test_entry_id:					.: (0.000414)
  test_entry_version:					.: (0.000418)
  test_features:					.: (0.000672)
  test_keywords:					.: (0.000417)
  test_molecule_type:					.: (0.000430)
  test_primary_accession:				.: (0.000412)
  test_references:					.: (0.000769)
  test_release_created:					.: (0.000421)
  test_release_modified:				.: (0.000416)
  test_secondary_accessions:				.: (0.000391)
  test_sequence_version:				.: (0.000415)
  test_species:						.: (0.000377)
  test_topology:					.: (0.000475)
Bio::TestEMBLToBioSequenceRoundTrip: 
  test_classification:					.: (0.002617)
  test_date_created:					.: (0.002398)
  test_date_modified:					.: (0.002905)
  test_definition:					.: (0.002187)
  test_division:					.: (0.002264)
  test_entry_id:					.: (0.006765)
  test_entry_version:					.: (0.003104)
  test_features:					.: (0.002691)
  test_keywords:					.: (0.002455)
  test_molecule_type:					.: (0.002427)
  test_primary_accession:				.: (0.002326)
  test_references:					.: (0.002940)
  test_release_created:					.: (0.002145)
  test_release_modified:				.: (0.002293)
  test_secondary_accessions:				.: (0.007656)
  test_sequence_version:				.: (0.002611)
  test_species:						.: (0.002476)
  test_topology:					.: (0.002442)
Bio::TestFasta: 
  test_db:						.: (0.000341)
  test_format:						.: (0.000171)
  test_format_arg_integer:				.: (0.000188)
  test_format_arg_str:					.: (0.000177)
  test_ktup:						.: (0.000192)
  test_matrix:						.: (0.000147)
  test_option:						.: (0.000210)
  test_options:						.: (0.000155)
  test_output:						.: (0.000277)
  test_program:						.: (0.000154)
  test_server:						.: (0.000145)
Bio::TestFastaDeflineEmb: 
  test_acc_version:					.: (0.000320)
  test_accession:					.: (0.000170)
  test_accessions:					.: (0.000182)
  test_description:					.: (0.000165)
  test_descriptions:					.: (0.000155)
  test_entry_id:					.: (0.000190)
  test_get_all_by_type:					.: (0.000189)
  test_gi:						.: (0.000176)
  test_id_strings:					.: (0.000228)
  test_list_ids:					.: (0.000167)
  test_locus:						.: (0.000170)
  test_words:						.: (0.000202)
Bio::TestFastaDeflineGI1: 
  test_acc_version:					.: (0.000371)
  test_accession:					.: (0.000179)
  test_accessions:					.: (0.000190)
  test_description:					.: (0.000167)
  test_descriptions:					.: (0.000167)
  test_emb:						.: (0.000214)
  test_entry_id:					.: (0.000161)
  test_get_all_by_type:					.: (0.000153)
  test_get_emb:						.: (0.000175)
  test_gi:						.: (0.000182)
  test_id_strings:					.: (0.000245)
  test_list_ids:					.: (0.000181)
  test_locus:						.: (0.000181)
  test_words:						.: (0.000210)
Bio::TestFastaDeflineGI2: 
  test_acc_version:					.: (0.000297)
  test_accession:					.: (0.000180)
  test_accessions:					.: (0.000165)
  test_description:					.: (0.000173)
  test_descriptions:					.: (0.000222)
  test_entry_id:					.: (0.000154)
  test_get_all_by_type:					.: (0.000154)
  test_gi:						.: (0.000155)
  test_id_strings:					.: (0.000209)
  test_list_ids:					.: (0.000163)
  test_locus:						.: (0.000171)
  test_sp:						.: (0.000183)
  test_words:						.: (0.000214)
Bio::TestFastaDeflineGIMultiple: 
  test_acc_version:					.: (0.000403)
  test_accession:					.: (0.000216)
  test_accessions:					.: (0.000209)
  test_description:					.: (0.000204)
  test_descriptions:					.: (0.000193)
  test_entry_id:					.: (0.000180)
  test_get_all_by_type:					.: (0.000183)
  test_gi:						.: (0.000208)
  test_id_strings:					.: (0.000302)
  test_list_ids:					.: (0.000190)
  test_locus:						.: (0.000221)
  test_words:						.: (0.000298)
Bio::TestFastaDeflineSce: 
  test_acc_version:					.: (0.000325)
  test_accession:					.: (0.000192)
  test_accessions:					.: (0.000181)
  test_description:					.: (0.000179)
  test_descriptions:					.: (0.000179)
  test_entry_id:					.: (0.000175)
  test_get_all_by_type:					.: (0.000203)
  test_gi:						.: (0.000222)
  test_id_strings:					.: (0.000278)
  test_list_ids:					.: (0.000207)
  test_locus:						.: (0.000234)
  test_words:						.: (0.000279)
Bio::TestFastaDeflineSimple: 
  test_acc_version:					.: (0.000297)
  test_accession:					.: (0.000166)
  test_accessions:					.: (0.000147)
  test_description:					.: (0.000174)
  test_descriptions:					.: (0.000147)
  test_entry_id:					.: (0.000141)
  test_get_all_by_type:					.: (0.000147)
  test_gi:						.: (0.000146)
  test_id_strings:					.: (0.000185)
  test_list_ids:					.: (0.000151)
  test_locus:						.: (0.000185)
  test_words:						.: (0.000186)
Bio::TestFastaDeflineSwissProt: 
  test_acc_version:					.: (0.000290)
  test_accession:					.: (0.000179)
  test_accessions:					.: (0.000162)
  test_description:					.: (0.000141)
  test_descriptions:					.: (0.000157)
  test_entry_id:					.: (0.000162)
  test_get:						.: (0.000165)
  test_get_all_by_type:					.: (0.000155)
  test_id_strings:					.: (0.000223)
  test_list_ids:					.: (0.000157)
  test_locus:						.: (0.000158)
  test_sp:						.: (0.000196)
  test_words:						.: (0.000225)
Bio::TestFastaDeflineTrembl: 
  test_acc_version:					.: (0.000280)
  test_accession:					.: (0.000173)
  test_accessions:					.: (0.000149)
  test_description:					.: (0.000155)
  test_descriptions:					.: (0.000161)
  test_entry_id:					.: (0.000160)
  test_get:						.: (0.000166)
  test_get_all_by_type:					.: (0.000149)
  test_id_strings:					.: (0.000230)
  test_list_ids:					.: (0.000143)
  test_locus:						.: (0.000188)
  test_tr:						.: (0.000180)
  test_words:						.: (0.000243)
Bio::TestFastaFirstName: 
  test_first_name1:					.: (0.000281)
  test_first_name_multi_identifier:			.: (0.000161)
  test_first_name_single_worded_defintion:		.: (0.000148)
  test_no_definition:					.: (0.000143)
  test_space_before_first_name:				.: (0.000150)
  test_tabbed_defintion:				.: (0.000144)
Bio::TestFastaFormat: 
  test_aalen:						.: (0.000313)
  test_aaseq:						.: (0.000175)
  test_acc_version:					.: (0.000285)
  test_accession:					.: (0.000210)
  test_accessions:					.: (0.000210)
  test_data:						.: (0.000162)
  test_definition:					.: (0.000160)
  test_entry:						.: (0.000162)
  test_entry_id:					.: (0.000203)
  test_entry_overrun:					.: (0.000155)
  test_first_name:					.: (0.000168)
  test_gi:						.: (0.000206)
  test_identifiers:					.: (0.000211)
  test_length:						.: (0.000202)
  test_query:						.: (0.000212)
  test_seq:						.: (0.000188)
Bio::TestFastaFormatConst: 
  test_delimiter:					.: (0.000260)
Bio::TestFastaFormatKeggGenesAA: 
  test_acc_version:					.: (0.000341)
  test_data:						.: (0.000161)
  test_definition:					.: (0.000169)
  test_entry:						.: (0.000163)
  test_entry_id:					.: (0.005662)
  test_first_name:					.: (0.000610)
Bio::TestFastaFormatKeggGenesNT: 
  test_nalen:						.: (0.000388)
  test_naseq:						.: (0.000206)
  test_naseq_class:					.: (0.000218)
Bio::TestFastaFormatSwissProt: 
  test_locus:						.: (0.000383)
Bio::TestFastaInitialize: 
  test_new_1:						.: (0.000605)
  test_option:						.: (0.000154)
  test_option_backward_compatibility:			.: (0.000193)
Bio::TestFastaNumericFormat: 
  test_arg:						.: (0.000370)
  test_data:						.: (0.000211)
  test_definition:					.: (0.000148)
  test_each:						.: (0.000683)
  test_entry:						.: (0.000161)
  test_entry_id:					.: (0.000193)
  test_length:						.: (0.000223)
  test_to_biosequence:					.: (0.001035)
Bio::TestFastaQuery: 
  test_query:						.: (0.000249)
  test_self_local:					.: (0.000119)
  test_self_parser:					.: (0.000113)
  test_self_remote:					.: (0.000116)
Bio::TestFastacmd: 
  test_database:					.: (0.000312)
  test_fastacmd:					.: (0.000143)
  test_methods:						.: (0.000204)
Bio::TestFastq::TestFastq_error_diff_ids: 
  test_validate_format:					.: (0.000908)
Bio::TestFastq::TestFastq_error_double_qual: 
  test_validate_format:					.: (0.000599)
Bio::TestFastq::TestFastq_error_double_seq: 
  test_validate_format:					.: (0.000618)
Bio::TestFastq::TestFastq_error_long_qual: 
  test_validate_format:					.: (0.000639)
Bio::TestFastq::TestFastq_error_no_qual: 
  test_validate_format:					.: (0.000604)
Bio::TestFastq::TestFastq_error_qual_del: 
  test_validate_format:					.: (0.000572)
Bio::TestFastq::TestFastq_error_qual_escape: 
  test_validate_format:					.: (0.000528)
Bio::TestFastq::TestFastq_error_qual_null: 
  test_validate_format:					.: (0.000624)
Bio::TestFastq::TestFastq_error_qual_space: 
  test_validate_format:					.: (0.000573)
Bio::TestFastq::TestFastq_error_qual_tab: 
  test_validate_format:					.: (0.000519)
Bio::TestFastq::TestFastq_error_qual_unit_sep: 
  test_validate_format:					.: (0.000684)
Bio::TestFastq::TestFastq_error_qual_vtab: 
  test_validate_format:					.: (0.000587)
Bio::TestFastq::TestFastq_error_short_qual: 
  test_validate_format:					.: (0.000537)
Bio::TestFastq::TestFastq_error_spaces: 
  test_validate_format:					.: (0.001102)
Bio::TestFastq::TestFastq_error_tabs: 
  test_validate_format:					.: (0.000950)
Bio::TestFastq::TestFastq_error_trunc_at_plus: 
  test_validate_format:					.: (0.000601)
Bio::TestFastq::TestFastq_error_trunc_at_qual: 
  test_validate_format:					.: (0.000637)
Bio::TestFastq::TestFastq_error_trunc_at_seq: 
  test_validate_format:					.: (0.000519)
Bio::TestFastq::TestFastq_illumina_full_range: 
  test_error_probabilities_as_illumina:			.: (0.011280)
  test_error_probabilities_as_sanger:			.: (0.026420)
  test_error_probabilities_as_solexa:			.: (0.012114)
  test_quality_scores_as_illumina:			.: (0.001123)
  test_quality_scores_as_sanger:			.: (0.000470)
  test_quality_scores_as_solexa:			.: (0.000475)
  test_validate_format:					.: (0.000657)
Bio::TestFastq::TestFastq_longreads_original_sanger: 
  test_definition:					.: (0.001350)
  test_entry_id:					.: (0.000811)
  test_error_probabilities:				.: (0.050228)
  test_nalen:						.: (0.000893)
  test_naseq:						.: (0.000814)
  test_quality_scores:					.: (0.001199)
  test_quality_string:					.: (0.000676)
  test_roundtrip:					.: (0.054542)
  test_seq:						.: (0.000965)
  test_sequence_string:					.: (0.000725)
  test_to_biosequence:					.: (0.049769)
  test_to_biosequence_and_output:			.: (0.002910)
  test_to_s:						.: (0.000950)
  test_validate_format:					.: (0.000911)
  test_validate_format_with_array:			.: (0.000750)
Bio::TestFastq::TestFastq_mask: 
  test_mask_20:						.: (0.000725)
  test_mask_20_with_empty_string:			.: (0.000489)
  test_mask_20_with_longer_string:			.: (0.000581)
  test_mask_20_with_x:					.: (0.000411)
  test_mask_60:						.: (0.000458)
Bio::TestFastq::TestFastq_sanger_full_range: 
  test_error_probabilities_as_illumina:			.: (0.002501)
  test_error_probabilities_as_sanger:			.: (0.002875)
  test_error_probabilities_as_solexa:			.: (0.002297)
  test_quality_scores_as_illumina:			.: (0.000449)
  test_quality_scores_as_sanger:			.: (0.000378)
  test_quality_scores_as_solexa:			.: (0.000391)
  test_validate_format:					.: (0.000573)
Bio::TestFastq::TestFastq_solexa_full_range: 
  test_error_probabilities_as_illumina:			.: (0.003568)
  test_error_probabilities_as_sanger:			.: (0.002713)
  test_error_probabilities_as_solexa:			.: (0.002275)
  test_quality_scores_as_illumina:			.: (0.000486)
  test_quality_scores_as_sanger:			.: (0.000387)
  test_quality_scores_as_solexa:			.: (0.000405)
  test_validate_format:					.: (0.000559)
Bio::TestFeature: 
  test_append:						.: (0.000348)
  test_append_nil:					.: (0.000182)
  test_assoc:						.: (0.000201)
  test_each:						.: (0.000176)
  test_feature:						.: (0.000168)
  test_locations:					.: (0.000414)
  test_new:						.: (0.000173)
  test_position:					.: (0.000147)
  test_qualifiers:					.: (0.000138)
Bio::TestFeatures: 
  test_append:						.: (0.000353)
  test_arg:						.: (0.000149)
  test_each:						.: (0.000153)
  test_features:					.: (0.000155)
Bio::TestFlatFile::TestDefaultAutoDetect: 
  test_aaindex1:					.: (0.000907)
  test_aaindex2:					.: (0.000357)
  test_blast:						.: (0.000274)
  test_blastxml:					.: (0.000693)
  test_embl:						.: (0.000455)
  test_embl_oldrelease:					.: (0.000301)
  test_fastaformat:					.: (0.000452)
  test_fastanumericformat:				.: (0.000202)
  test_fastq:						.: (0.000257)
  test_genbank:						.: (0.000324)
  test_genpept:						.: (0.000272)
  test_hmmer:						.: (0.000298)
  test_maxml_cluster:					.: (0.002410)
  test_maxml_sequence:					.: (0.000196)
  test_medline:						.: (0.000250)
  test_prosite:						.: (0.003454)
  test_sptr:						Bio::SPTR is changed to an alias of Bio::UniProtKB. Please use Bio::UniProtKB. Bio::SPTR may be deprecated in the future.
.: (0.002927)
  test_transfac:					.: (0.001525)
Bio::TestFlatFile::TestFlatFileClassMethod: 
  test_auto_0arg:					.: (0.000399)
  test_auto_1arg_filename:				.: (0.000514)
  test_auto_1arg_io:					.: (0.000414)
  test_auto_1arg_io_with_block:				.: (0.000751)
  test_auto_1arg_with_block:				.: (0.000695)
  test_auto_2arg_filename_mode:				.: (0.000481)
  test_auto_2arg_filename_mode_with_block:		.: (0.000668)
  test_auto_3arg:					.: (0.000433)
  test_auto_3arg_with_block:				.: (0.000599)
  test_foreach:						.: (0.000499)
  test_new_2arg_class:					.: (0.000317)
  test_new_2arg_nil:					.: (0.000359)
  test_open_0arg:					.: (0.000191)
  test_open_1arg_class:					.: (0.000175)
  test_open_1arg_filename:				.: (0.000387)
  test_open_1arg_io:					.: (0.000841)
  test_open_1arg_io_with_block:				.: (0.000606)
  test_open_1arg_nil:					.: (0.000203)
  test_open_1arg_with_block:				.: (0.000608)
  test_open_2arg_autodetect:				.: (0.000342)
  test_open_2arg_autodetect_io:				.: (0.000354)
  test_open_2arg_autodetect_io_with_block:		.: (0.000556)
  test_open_2arg_autodetect_with_block:			.: (0.000549)
  test_open_2arg_class:					.: (0.000244)
  test_open_2arg_class_io:				.: (0.000236)
  test_open_2arg_class_io_with_block:			.: (0.000556)
  test_open_2arg_class_with_block:			.: (0.000448)
  test_open_2arg_filename_mode:				.: (0.000402)
  test_open_2arg_filename_mode_with_block:		.: (0.000552)
  test_open_3arg:					.: (0.000541)
  test_open_3arg_with_block:				.: (0.001141)
  test_open_4arg:					.: (0.000938)
  test_to_a:						.: (0.000524)
Bio::TestFlatFile::TestFlatFileFastaFormat: 
  test_autodetect:					.: (0.000492)
  test_close:						.: (0.000222)
  test_dbclass:						.: (0.000202)
  test_dbclass_eq:					.: (0.000242)
  test_dbclass_nil:					.: (0.000392)
  test_each:						.: (0.000382)
  test_each_entry:					.: (0.000470)
  test_ended_pos:					.: (0.000340)
  test_entry_pos_flag:					.: (0.000237)
  test_entry_raw:					.: (0.000409)
  test_eof?:						.: (0.000342)
  test_next_entry:					.: (0.000437)
  test_path:						.: (0.000254)
  test_pos:						.: (0.000313)
  test_raw:						.: (0.000386)
  test_rewind:						.: (0.000343)
  test_start_pos:					.: (0.000320)
  test_start_pos_ended_pos_not_recorded:		.: (0.000346)
  test_to_io:						.: (0.000252)
Bio::TestFlatFile::TestFlatFileWithCustomClass: 
  test_simpleformat:					.: (0.000395)
  test_simpleformat2:					.: (0.000323)
Bio::TestFlatFileBufferedInputStream::TestBufferedInputStream: 
  test_close:						.: (0.000315)
  test_eof_false_after_prefetch:			.: (0.000218)
  test_eof_false_first:					.: (0.000162)
  test_eof_true:					.: (0.000207)
  test_getc:						.: (0.000181)
  test_getc_after_prefetch:				.: (0.000174)
  test_gets:						.: (0.000186)
  test_gets_equal_prefetch_gets:			.: (0.000192)
  test_gets_paragraph_mode:				.: (0.000229)
  test_gets_paragraph_mode_equal_prefetch_gets:		.: (0.000316)
  test_gets_paragraph_mode_within_buffer:		.: (0.000379)
  test_gets_rs:						.: (0.000187)
  test_gets_rs_equal_prefetch_gets:			.: (0.000202)
  test_gets_rs_within_buffer:				.: (0.000305)
  test_pos:						.: (0.000177)
  test_pos=:						.: (0.000187)
  test_prefetch_buffer:					.: (0.000169)
  test_prefetch_gets:					.: (0.000180)
  test_prefetch_gets_with_arg:				.: (0.000195)
  test_rewind:						.: (0.000178)
  test_skip_spaces:					.: (0.000209)
  test_to_io:						.: (0.000196)
  test_ungetc:						.: (0.000247)
  test_ungetc_after_prefetch:				.: (0.000192)
  test_ungets:						.: (0.000191)
Bio::TestFlatFileBufferedInputStream::TestBufferedInputStreamClassMethod: 
  test_self_for_io:					.: (0.000348)
  test_self_open_file:					.: (0.000196)
  test_self_open_file_with_block:			.: (0.038568)
Bio::TestFlatFileBufferedInputStream::TestBufferedInputStreamParseFileOpenArg: 
  test_parse_file_open_arg_int_opt:			.: (0.000393)
  test_parse_file_open_arg_int_perm:			.: (0.000182)
  test_parse_file_open_arg_int_perm_opt:		.: (0.000176)
  test_parse_file_open_arg_integer:			.: (0.005750)
  test_parse_file_open_arg_nil:				.: (0.000196)
  test_parse_file_open_arg_opt:				.: (0.000161)
  test_parse_file_open_arg_opt_with_integer_mode:	.: (0.000116)
  test_parse_file_open_arg_str:				.: (0.000101)
  test_parse_file_open_arg_str_opt:			.: (0.000108)
  test_parse_file_open_arg_str_perm:			.: (0.000100)
  test_parse_file_open_arg_str_perm_opt:		.: (0.000101)
  test_parse_file_open_arg_str_with_enc:		.: (0.000104)
  test_parse_file_open_arg_str_with_ext_enc:		.: (0.000111)
  test_parse_file_open_mode_integer:			.: (0.000103)
  test_parse_file_open_mode_nil:			.: (0.000113)
  test_parse_file_open_mode_str:			.: (0.000122)
  test_parse_file_open_mode_str_with_enc:		.: (0.000114)
  test_parse_file_open_mode_str_with_ext_enc:		.: (0.000110)
Bio::TestFlatFileSplitter::TestTemplate: 
  test_dbclass:						.: (0.000238)
  test_entry:						.: (0.000106)
  test_entry_ended_pos:					.: (0.000107)
  test_entry_pos_flag:					.: (0.000114)
  test_entry_start_pos:					.: (0.000118)
  test_get_entry:					.: (0.000190)
  test_rewind:						.: (0.000124)
  test_skip_leader:					.: (0.000126)
  test_stream:						.: (0.000104)
  test_stream_pos:					.: (0.000130)
  Bio::TestFlatFileSplitter::TestDefault: 
    test_delimiter:					.: (0.000237)
    test_delimiter_overrun:				.: (0.000094)
    test_entry:						.: (0.000144)
    test_entry_ended_pos:				.: (0.000127)
    test_entry_ended_pos_default_nil:			.: (0.005945)
    test_entry_start_pos:				.: (0.000303)
    test_entry_start_pos_default_nil:			.: (0.000172)
    test_get_entry:					.: (0.000255)
    test_get_parsed_entry:				.: (0.000264)
    test_header:					.: (0.000099)
    test_skip_leader:					.: (0.000143)
    test_skip_leader_without_header:			.: (0.000147)
  Bio::TestFlatFileSplitter::TestLineOriented: 
    test_dbclass:					.: (0.003684)
    test_entry_ended_pos:				.: (0.000242)
    test_entry_start_pos:				.: (0.000206)
    test_flag_to_fetch_header:				.: (0.000215)
    test_get_entry:					.: (0.000274)
    test_get_parsed_entry:				.: (0.000445)
    test_rewind:					.: (0.003917)
    test_skip_leader:					.: (0.001002)
Bio::TestGCGMsf: 
  test_alignment:					.: (0.000888)
  test_checksum:					.: (0.000212)
  test_compcheck:					.: (0.000192)
  test_date:						.: (0.000193)
  test_description:					.: (0.000183)
  test_entry_id:					.: (0.000179)
  test_gap_length_weight:				.: (0.000440)
  test_gap_weight:					.: (0.000209)
  test_heading:						.: (0.000197)
  test_length:						.: (0.000194)
  test_seq_type:					.: (0.006713)
  test_symbol_comparison_table:				.: (0.000400)
  test_validate_checksum:				.: (0.000961)
Bio::TestGFF: 
  test_record_class:					.: (0.000616)
  test_records:						.: (0.000256)
Bio::TestGFF2: 
  test_const_version:					.: (0.000466)
  test_gff_version:					.: (0.000535)
  test_metadata:					.: (0.000328)
  test_metadata_size:					.: (0.000328)
  test_records_size:					.: (0.000309)
  test_to_s:						.: (0.000720)
Bio::TestGFF2ComplexAttributes: 
  test_attributes_case1:				.: (0.000261)
  test_attributes_case2:				.: (0.000165)
  test_attributes_incompatible_backslash_semicolon:	.: (0.000218)
Bio::TestGFF2MetaData: 
  test_data:						.: (0.000387)
  test_directive:					.: (0.000093)
  test_parse:						.: (0.000133)
Bio::TestGFF2Record: 
  test_attribute:					.: (0.000426)
  test_attribute_nonexistent:				.: (0.000208)
  test_attributes:					.: (0.000515)
  test_attributes_to_hash:				.: (0.000255)
  test_comment_only?:					.: (0.000313)
  test_delete_attribute:				.: (0.000240)
  test_delete_attribute_multiple:			.: (0.000230)
  test_delete_attribute_multiple2:			.: (0.000252)
  test_delete_attribute_multiple_nil:			.: (0.000220)
  test_delete_attribute_nil:				.: (0.000222)
  test_delete_attribute_nonexistent:			.: (0.000317)
  test_delete_attributes:				.: (0.000234)
  test_delete_attributes_multiple:			.: (0.000229)
  test_delete_attributes_nonexistent:			.: (0.000231)
  test_end:						.: (0.000247)
  test_eqeq:						.: (0.000536)
  test_eqeq_false:					.: (0.000412)
  test_feature:						.: (0.000195)
  test_frame:						.: (0.000262)
  test_get_attribute:					.: (0.000294)
  test_get_attribute_nonexistent:			.: (0.000190)
  test_get_attributes:					.: (0.000260)
  test_get_attributes_nonexistent:			.: (0.000198)
  test_replace_attributes:				.: (0.000226)
  test_replace_attributes_multiple_multiple_over:	.: (0.000541)
  test_replace_attributes_multiple_multiple_same:	.: (0.000353)
  test_replace_attributes_multiple_multiple_two:	.: (0.000234)
  test_replace_attributes_multiple_single:		.: (0.000210)
  test_replace_attributes_nonexistent:			.: (0.000293)
  test_replace_attributes_nonexistent_multiple:		.: (0.006362)
  test_replace_attributes_single_multiple:		.: (0.000549)
  test_score:						.: (0.000206)
  test_self_parse:					.: (0.000531)
  test_seqname:						.: (0.000199)
  test_set_attribute:					.: (0.000387)
  test_set_attribute_multiple:				.: (0.000239)
  test_set_attribute_nonexistent:			.: (0.000215)
  test_sort_attributes_by_tag!:				.: (0.000394)
  test_sort_attributes_by_tag_bang_test2:		.: (0.000266)
  test_sort_attributes_by_tag_bang_with_block:		.: (0.000265)
  test_source:						.: (0.000426)
  test_start:						.: (0.000206)
  test_strand:						.: (0.000193)
  test_to_s:						.: (0.000323)
Bio::TestGFF2RecordEmpty: 
  test_comment:						.: (0.000239)
  test_comment_eq:					.: (0.000095)
  test_comment_only?:					.: (0.000096)
  test_comment_only_false:				.: (0.000099)
  test_to_s:						.: (0.000118)
  test_to_s_not_empty:					.: (0.000162)
Bio::TestGFF3: 
  test_const_version:					.: (0.000611)
  test_gff_version:					.: (0.000508)
  test_records:						.: (0.007417)
  test_sequence_regions:				.: (0.000621)
  test_sequences:					.: (0.000638)
  test_to_s:						.: (0.000915)
Bio::TestGFF3MetaData: 
  test_data:						.: (0.000216)
  test_directive:					.: (0.000090)
  test_parse:						.: (0.000118)
Bio::TestGFF3Record: 
  test_attributes:					.: (0.000335)
  test_end:						.: (0.000201)
  test_feature:						.: (0.000173)
  test_frame:						.: (0.000190)
  test_id:						.: (0.000182)
  test_score:						.: (0.000167)
  test_seqname:						.: (0.000188)
  test_source:						.: (0.000168)
  test_start:						.: (0.000165)
  test_strand:						.: (0.000164)
  test_to_s:						.: (0.000287)
  test_to_s_attr_order_changed:				.: (0.000306)
Bio::TestGFF3RecordEscape: 
  test_escape:						.: (0.000238)
  test_escape_attribute:				.: (0.000119)
  test_escape_seqid:					.: (0.000133)
  test_unescape:					.: (0.000121)
Bio::TestGFF3RecordGap: 
  test___scan_gap:					.: (0.000337)
  test_eqeq:						.: (0.000196)
  test_new_from_sequences_na:				.: (0.000205)
  test_new_from_sequences_na_aa:			.: (0.006727)
  test_new_from_sequences_na_aa_boundary_gap:		.: (0.000542)
  test_new_from_sequences_na_aa_example:		.: (0.000328)
  test_new_from_sequences_na_aa_reverse_frameshift:	.: (0.000222)
  test_new_from_sequences_na_aa_reverse_frameshift_more:.: (0.000197)
  test_process_sequences_na:				.: (0.000196)
  test_process_sequences_na_aa:				.: (0.000176)
  test_process_sequences_na_aa_reverse_frameshift:	.: (0.000158)
  test_process_sequences_na_aa_reverse_frameshift_more:	.: (0.000176)
  test_process_sequences_na_aa_tooshort:		.: (0.000265)
  test_process_sequences_na_tooshort:			.: (0.000203)
  test_to_s:						.: (0.000171)
Bio::TestGFF3RecordMisc: 
  test_attributes_none:					.: (0.000287)
  test_attributes_one:					.: (0.000142)
  test_attributes_with_escaping:			.: (0.000151)
  test_id_multiple:					.: (0.000229)
  test_id_multiple2:					.: (0.000204)
  test_id_replace:					.: (0.000130)
  test_id_set:						.: (0.000138)
  test_initialize_9:					.: (0.000102)
  test_phase:						.: (0.000152)
  test_score:						.: (0.000123)
  test_to_s_void:					.: (0.000122)
Bio::TestGFF3RecordTarget: 
  test_end:						.: (0.000217)
  test_parse:						.: (0.000167)
  test_start:						.: (0.000106)
  test_strand:						.: (0.000104)
  test_target_id:					.: (0.000105)
  test_to_s:						.: (0.000168)
Bio::TestGFF3SequenceRegion: 
  test_end:						.: (0.000308)
  test_parse:						.: (0.000257)
  test_seqid:						.: (0.000111)
  test_start:						.: (0.000092)
  test_to_s:						.: (0.000155)
Bio::TestGFFRecord: 
  test_attributes:					.: (0.000266)
  test_comment:						.: (0.000124)
  test_end:						.: (0.005998)
  test_feature:						.: (0.000277)
  test_frame:						.: (0.000126)
  test_score:						.: (0.000119)
  test_seqname:						.: (0.000113)
  test_source:						.: (0.000111)
  test_start:						.: (0.000111)
  test_strand:						.: (0.000109)
Bio::TestGFFRecordConstruct: 
  test_add_seqname:					.: (0.000232)
Bio::TestGeneAssociation: 
  test_aspect:						.: (0.000255)
  test_assigned_by:					.: (0.000108)
  test_date:						.: (0.000105)
  test_db:						.: (0.000105)
  test_db_object_id:					.: (0.000113)
  test_db_object_name:					.: (0.000111)
  test_db_object_symbol:				.: (0.000110)
  test_db_object_synonym:				.: (0.000115)
  test_db_object_type:					.: (0.000138)
  test_db_reference:					.: (0.000123)
  test_evidence:					.: (0.000118)
  test_goid:						.: (0.000129)
  test_parser:						.: (0.000433)
  test_qualifier:					.: (0.000116)
  test_taxon:						.: (0.000109)
  test_to_str:						.: (0.000123)
  test_with:						.: (0.000111)
Bio::TestGenscanReport: 
  test_date_run:					.: (0.000837)
  test_gccontent:					.: (0.010829)
  test_genscan_version:					.: (0.001084)
  test_isochore:					.: (0.000804)
  test_length:						.: (0.000679)
  test_matrix:						.: (0.001472)
  test_predictions_size:				.: (0.000657)
  test_query_name:					.: (0.000567)
  test_time:						.: (0.000567)
Bio::TestGenscanReportExon: 
  test_acceptor_score:					.: (0.001006)
  test_donor_score:					.: (0.004148)
  test_exon_type:					.: (0.000778)
  test_exon_type_long:					.: (0.000586)
  test_first:						.: (0.000771)
  test_initiation_score:				.: (0.000541)
  test_last:						.: (0.000524)
  test_number:						.: (0.000627)
  test_p_value:						.: (0.007538)
  test_phase:						.: (0.001036)
  test_range:						.: (0.000714)
  test_score:						.: (0.002345)
  test_strand:						.: (0.000725)
  test_t_score:						.: (0.000735)
  test_termination_score:				.: (0.000562)
Bio::TestGenscanReportGene: 
  test_aaseq:						.: (0.000821)
  test_naseq:						.: (0.000611)
  test_number:						.: (0.007286)
  test_polyA:						.: (0.000855)
  test_promoter:					.: (0.000623)
Bio::TestHMMERReportClassMethods: 
  test_reports_ary:					.: (0.000825)
  test_reports_ary_contents:				.: (0.000592)
Bio::TestHMMERReportConstants: 
  test_rs:						.: (0.000216)
Bio::TestHMMERReportHit: 
  test_accession:					.: (0.000716)
  test_append_hsp:					.: (0.011022)
  test_bit_score:					.: (0.001233)
  test_definition:					.: (0.006446)
  test_description:					.: (0.001033)
  test_each:						.: (0.000856)
  test_each_hsp:					.: (0.000706)
  test_entry_id:					.: (0.001537)
  test_evalue:						.: (0.001061)
  test_hit:						.: (0.000684)
  test_hit_id:						.: (0.000705)
  test_hsps:						.: (0.004607)
  test_num:						.: (0.000785)
  test_score:						.: (0.000636)
  test_target_def:					.: (0.000650)
  test_target_id:					.: (0.000594)
Bio::TestHMMERReportHmmpfam: 
  test_domain_top_hits:					.: (0.000808)
  test_each:						.: (0.000713)
  test_each_hit:					.: (0.000929)
  test_histogram:					.: (0.000700)
  test_hits:						.: (0.000888)
  test_hsps:						.: (0.000585)
  test_parameter:					.: (0.000690)
  test_program:						.: (0.000621)
  test_query_info:					.: (0.000672)
  test_statistical_detail:				.: (0.000768)
  test_total_seq_searched:				.: (0.000579)
  test_whole_seq_top_hits:				.: (0.000610)
Bio::TestHMMERReportHmmsearch: 
  test_domain_top_hits:					.: (0.000906)
  test_histogram:					.: (0.007001)
  test_statistical_detail:				.: (0.000968)
  test_total_seq_searched:				.: (0.000735)
  test_whole_seq_top_hit:				.: (0.000714)
Bio::TestHMMERReportHsp: 
  test_accession:					.: (0.000768)
  test_bit_score:					.: (0.000625)
  test_csline:						.: (0.000680)
  test_domain:						.: (0.000579)
  test_evalue:						.: (0.001107)
  test_flatseq:						.: (0.000632)
  test_hmm_f:						.: (0.004132)
  test_hmm_t:						.: (0.000836)
  test_hmmseq:						.: (0.000619)
  test_hsp:						.: (0.000715)
  test_midline:						.: (0.000560)
  test_query_frame:					.: (0.000545)
  test_query_from:					.: (0.004086)
  test_query_seq:					.: (0.000763)
  test_query_to:					.: (0.000627)
  test_rfline:						.: (0.000600)
  test_score:						.: (0.000555)
  test_seq_f:						.: (0.000658)
  test_seq_ft:						.: (0.000631)
  test_seq_t:						.: (0.000820)
  test_set_alignment:					.: (0.000563)
  test_targat_to:					.: (0.000586)
  test_target_frame:					.: (0.000565)
  test_target_from:					.: (0.017194)
  test_target_seq:					.: (0.001070)
Bio::TestHetatmFinder: 
  test_each_hetatm:					.: (0.000475)
  test_find_hetatm:					.: (0.000238)
  test_hetatms:						.: (0.000283)
Bio::TestHeterogen: 
  test_addAtom:						.: (0.001409)
  test_each:						.: (0.000277)
  test_each_hetatm:					.: (0.000193)
  test_get_residue_id_from_atom:			.: (0.000174)
  test_het_atom:					.: (0.000204)
  test_iCode:						.: (0.000158)
  test_inspect:						.: (0.000204)
  test_resSeq:						.: (0.000169)
  test_sort:						.: (0.000548)
  test_square_bracket:					.: (0.000165)
  test_to_s:						.: (0.000252)
  test_update_resudue_id:				.: (0.000164)
Bio::TestHeterogenFinder: 
  test_each_heterogen:					.: (0.000331)
  test_find_heterogen:					.: (0.000144)
  test_heterogens:					.: (0.000167)
Bio::TestIprscanPTxtReport: 
  test_match_accession:					.: (0.000511)
  test_match_description:				.: (0.000164)
  test_match_evalue:					.: (0.000384)
  test_match_ipr_description:				.: (0.000138)
  test_match_ipr_id:					.: (0.000129)
  test_match_match_end:					.: (0.000141)
  test_match_match_start:				.: (0.000143)
  test_match_method:					.: (0.000136)
  test_matches_size:					.: (0.000134)
  test_query_id:					.: (0.000131)
  test_query_length:					.: (0.000141)
Bio::TestIprscanRawReport: 
  test_entry_id:					.: (0.008890)
  test_match_accession:					.: (0.002023)
  test_match_crc64:					.: (0.001496)
  test_match_date:					.: (0.001697)
  test_match_description:				.: (0.001764)
  test_match_evalue:					.: (0.004439)
  test_match_go_terms:					.: (0.011986)
  test_match_ipr_description:				.: (0.002531)
  test_match_ipr_id:					.: (0.005003)
  test_match_match_end:					.: (0.001556)
  test_match_match_start:				.: (0.006080)
  test_match_method:					.: (0.002112)
  test_match_query_id:					.: (0.001301)
  test_match_query_length:				.: (0.009685)
  test_match_status:					.: (0.006392)
  test_obj:						.: (0.001734)
  test_query_id:					.: (0.001598)
  test_query_length:					.: (0.004297)
  test_self_reports_in_raw:				.: (0.007991)
Bio::TestIprscanReport: 
  test_output_raw:					.: (0.000661)
  test_to_raw:						.: (0.010615)
Bio::TestIprscanTxtEntry: 
  test_iprscan_report_class:				.: (0.000733)
  test_match_accession:					.: (0.000444)
  test_match_date:					.: (0.000409)
  test_match_description:				.: (0.000421)
  test_match_evalue:					.: (0.000390)
  test_match_go_terms:					.: (0.000465)
  test_match_ipr_description:				.: (0.000881)
  test_match_ipr_id:					.: (0.000472)
  test_match_match_end:					.: (0.000449)
  test_match_match_start:				.: (0.000414)
  test_match_method:					.: (0.000379)
  test_match_status:					.: (0.000364)
  test_matches_size:					.: (0.000355)
  test_query_id:					.: (0.005630)
  test_query_length:					.: (0.000574)
Bio::TestIprscanTxtEntryList: 
  test_to_hash:						.: (0.000731)
  test_to_hash_match?:					.: (0.000500)
Bio::TestIprscanTxtReport: 
  test_parse_txt:					.: (0.001023)
Bio::TestKeggCompound: 
  test_comment:						.: (0.000468)
  test_dblinks_as_hash:					.: (0.000355)
  test_dblinks_as_strings:				.: (0.000254)
  test_entry_id:					.: (0.000253)
  test_enzymes:						.: (0.000456)
  test_formula:						.: (0.000244)
  test_kcf:						.: (0.000225)
  test_mass:						.: (0.000275)
  test_name:						.: (0.000274)
  test_names:						.: (0.000267)
  test_pathways_as_hash:				.: (0.011145)
  test_pathways_as_strings:				.: (0.000917)
  test_reactions:					.: (0.000571)
  test_remark:						.: (0.000285)
  test_rpairs:						.: (0.000276)
Bio::TestKeggEnzyme: 
  test_all_reac:					.: (0.000606)
  test_classes:						.: (0.000413)
  test_cofactors:					.: (0.000503)
  test_comment:						.: (0.000631)
  test_dblinks_as_hash:					.: (0.000577)
  test_dblinks_as_strings:				.: (0.000556)
  test_diseases:					.: (0.005020)
  test_entry:						.: (0.000650)
  test_entry_id:					.: (0.000542)
  test_genes:						.: (0.089768)
  test_genes_as_hash:					.: (0.012648)
  test_genes_as_strings:				.: (0.005518)
  test_inhibitors:					.: (0.000531)
  test_iubmb_reactions:					.: (0.000487)
  test_kegg_reactions:					.: (0.000472)
  test_motifs:						.: (0.000414)
  test_name:						.: (0.000520)
  test_names:						.: (0.000914)
  test_obsolete?:					.: (0.000588)
  test_orthologs_as_hash:				.: (0.000604)
  test_orthologs_as_strings:				.: (0.000621)
  test_pathways_as_hash:				.: (0.000666)
  test_pathways_as_strings:				.: (0.000599)
  test_products:					.: (0.000597)
  test_reaction:					.: (0.000568)
  test_structures:					.: (0.000915)
  test_substrates:					.: (0.000616)
  test_sysname:						.: (0.000562)
Bio::TestKeggGenesDblinks: 
  test_data:						.: (0.000365)
  test_dblinks_0:					.: (0.000195)
  test_dblinks_1:					.: (0.000177)
  test_dblinks_2:					.: (0.000184)
Bio::TestKeggGenesStructure: 
  test_data:						.: (0.000335)
  test_ids:						.: (0.000225)
  test_ids_in_array:					.: (0.000205)
Bio::TestKeggKGML::TestKGMLEntry1: 
  test_components:					.: (0.005723)
  test_graphics__size:					.: (0.004761)
  test_id:						.: (0.005639)
  test_link:						.: (0.004415)
  test_name:						.: (0.004005)
  test_reaction:					.: (0.004699)
  test_type:						.: (0.004297)
Bio::TestKeggKGML::TestKGMLEntry1234: 
  test_components:					.: (0.008351)
  test_graphics__size:					.: (0.006470)
  test_id:						.: (0.004657)
  test_link:						.: (0.004766)
  test_name:						.: (0.004338)
  test_reaction:					.: (0.004671)
  test_type:						.: (0.004235)
Bio::TestKeggKGML::TestKGMLEntry1Deprecated: 
  test_bgcolor=:					.: (0.004358)
  test_category:					.: (0.004147)
  test_entry_id:					.: (0.008636)
  test_fgcolor=:					.: (0.005599)
  test_height=:						.: (0.004770)
  test_label=:						.: (0.004570)
  test_shape=:						.: (0.004512)
  test_width=:						.: (0.004685)
  test_x=:						.: (0.004394)
  test_y=:						.: (0.004189)
Bio::TestKeggKGML::TestKGMLEntry567: 
  test_components:					.: (0.004315)
  test_graphics__size:					.: (0.008678)
  test_id:						.: (0.005129)
  test_link:						.: (0.004497)
  test_name:						.: (0.006379)
  test_reaction:					.: (0.004612)
  test_type:						.: (0.004667)
Bio::TestKeggKGML::TestKGMLEntrySetter: 
  test_components=:					.: (0.000343)
  test_graphics=:					.: (0.000170)
  test_id=:						.: (0.000177)
  test_link=:						.: (0.000172)
  test_name=:						.: (0.000169)
  test_reaction=:					.: (0.000157)
  test_type=:						.: (0.000162)
Bio::TestKeggKGML::TestKGMLEntrySetterDeprecated: 
  test_bgcolor=:					.: (0.000326)
  test_category=:					.: (0.000187)
  test_entry_id=:					.: (0.000180)
  test_fgcolor=:					.: (0.000182)
  test_height=:						.: (0.000162)
  test_label=:						.: (0.000181)
  test_pathway=:					.: (0.000151)
  test_shape=:						.: (0.000173)
  test_width=:						.: (0.000163)
  test_x=:						.: (0.000159)
  test_y=:						.: (0.000152)
Bio::TestKeggKGML::TestKGMLGraphics1234: 
  test_bgcolor:						.: (0.004404)
  test_coords:						.: (0.004559)
  test_fgcolor:						.: (0.008018)
  test_height:						.: (0.005996)
  test_name:						.: (0.004746)
  test_type:						.: (0.004696)
  test_width:						.: (0.004461)
  test_x:						.: (0.004723)
  test_y:						.: (0.004440)
Bio::TestKeggKGML::TestKGMLGraphics1_0: 
  test_bgcolor:						.: (0.004434)
  test_coords:						.: (0.004364)
  test_fgcolor:						.: (0.007498)
  test_height:						.: (0.005129)
  test_name:						.: (0.004623)
  test_type:						.: (0.004485)
  test_width:						.: (0.004879)
  test_x:						.: (0.004554)
  test_y:						.: (0.004302)
Bio::TestKeggKGML::TestKGMLGraphicsSetter: 
  test_bgcolor=:					.: (0.000338)
  test_coords=:						.: (0.000176)
  test_fgcolor=:					.: (0.000169)
  test_height=:						.: (0.000174)
  test_name=:						.: (0.000169)
  test_type=:						.: (0.000155)
  test_width=:						.: (0.000156)
  test_x=:						.: (0.000158)
  test_y=:						.: (0.000157)
Bio::TestKeggKGML::TestKGMLPathway: 
  test_entries=:					.: (0.004402)
  test_entries__size:					.: (0.007557)
  test_image:						.: (0.005339)
  test_link:						.: (0.005139)
  test_name:						.: (0.004451)
  test_number:						.: (0.004581)
  test_org:						.: (0.004589)
  test_reactions=:					.: (0.004309)
  test_reactions__size:					.: (0.004118)
  test_relations=:					.: (0.004322)
  test_relations__size:					.: (0.007735)
  test_title:						.: (0.005096)
Bio::TestKeggKGML::TestKGMLProduct: 
  test_id:						.: (0.009087)
  test_name:						.: (0.009170)
Bio::TestKeggKGML::TestKGMLProductSetter: 
  test_id=:						.: (0.000354)
  test_initialize_0:					.: (0.000157)
  test_initialize_1:					.: (0.000208)
  test_initialize_2:					.: (0.000167)
  test_name=:						.: (0.000171)
Bio::TestKeggKGML::TestKGMLReaction: 
  test_id:						.: (0.004503)
  test_name:						.: (0.004103)
  test_products:					.: (0.007277)
  test_substrates:					.: (0.005355)
  test_type:						.: (0.004822)
Bio::TestKeggKGML::TestKGMLReactionSetter: 
  test_id=:						.: (0.000432)
  test_name=:						.: (0.000185)
  test_products=:					.: (0.000178)
  test_substraces=:					.: (0.000165)
  test_type=:						.: (0.000177)
Bio::TestKeggKGML::TestKGMLReactionSetterDeprecated: 
  test_direction=:					.: (0.000312)
  test_entry_id=:					.: (0.000181)
Bio::TestKeggKGML::TestKGMLRelation: 
  test_entry1:						.: (0.004591)
  test_entry2:						.: (0.004763)
  test_name:						.: (0.004161)
  test_type:						.: (0.004090)
  test_value:						.: (0.004634)
Bio::TestKeggKGML::TestKGMLRelationDeprecated: 
  test_edge:						.: (0.000363)
  test_node1=:						.: (0.000225)
  test_node2=:						.: (0.000188)
  test_rel=:						.: (0.000194)
Bio::TestKeggKGML::TestKGMLRelationSetter: 
  test_entry1=:						.: (0.000306)
  test_entry2=:						.: (0.000175)
  test_name=:						.: (0.000176)
  test_type=:						.: (0.000173)
  test_value=:						.: (0.000174)
Bio::TestKeggKGML::TestKGMLSubstrate: 
  test_id:						.: (0.012525)
  test_name:						.: (0.009212)
Bio::TestKeggKGML::TestKGMLSubstrateProductSetter: 
  test_id=:						.: (0.000378)
  test_initialize_0:					.: (0.000145)
  test_initialize_1:					.: (0.000141)
  test_initialize_2:					.: (0.000164)
  test_name=:						.: (0.000174)
Bio::TestKeggKGML::TestKGMLSubstrateSetter: 
  test_id=:						.: (0.000399)
  test_initialize_0:					.: (0.000148)
  test_initialize_1:					.: (0.000144)
  test_initialize_2:					.: (0.000149)
  test_name=:						.: (0.000167)
Bio::TestKeggModule: 
  test_compounds:					.: (0.000528)
  test_compounds_as_hash:				.: (0.000442)
  test_compounds_as_strings:				.: (0.000283)
  test_definition:					.: (0.000284)
  test_entry_id:					.: (0.000286)
  test_keggclass:					.: (0.000255)
  test_name:						.: (0.000252)
  test_new:						.: (0.000264)
  test_orthologs:					.: (0.000310)
  test_orthologs_as_array:				.: (0.000722)
  test_orthologs_as_hash:				.: (0.000301)
  test_orthologs_as_strings:				.: (0.000260)
  test_pathways:					.: (0.000255)
  test_pathways_as_hash:				.: (0.000272)
  test_pathways_as_strings:				.: (0.000219)
  test_reactions:					.: (0.000308)
  test_reactions_as_hash:				.: (0.000303)
  test_reactions_as_strings:				.: (0.000262)
Bio::TestKeggOrthology: 
  test_dblinks:						.: (0.000595)
  test_dblinks_as_hash:					.: (0.000534)
  test_dblinks_as_strings:				.: (0.000412)
  test_definition:					.: (0.000480)
  test_entry_id:					.: (0.000403)
  test_genes_as_hash:					.: (0.053528)
  test_genes_as_strings:				.: (0.003113)
  test_keggclass:					.: (0.000600)
  test_keggclasses:					.: (0.000555)
  test_modules:						.: (0.000861)
  test_modules_as_hash:					.: (0.001225)
  test_modules_as_strings:				.: (0.000439)
  test_name:						.: (0.000440)
  test_names:						.: (0.000442)
  test_pathways_as_strings:				.: (0.000473)
  test_pathways_in_keggclass:				.: (0.000512)
  test_references:					.: (0.000562)
Bio::TestKeggPathway_map00052: 
  test_compounds_as_hash:				.: (0.000445)
  test_compounds_as_strings:				.: (0.000273)
  test_dblinks_as_hash:					.: (0.000275)
  test_dblinks_as_strings:				.: (0.000267)
  test_description:					.: (0.000309)
  test_diseases_as_hash:				.: (0.000244)
  test_diseases_as_strings:				.: (0.000244)
  test_entry_id:					.: (0.000263)
  test_enzymes_as_strings:				.: (0.000241)
  test_genes_as_hash:					.: (0.000239)
  test_genes_as_strings:				.: (0.000237)
  test_keggclass:					.: (0.000271)
  test_ko_pathway:					.: (0.000266)
  test_modules_as_hash:					.: (0.000310)
  test_modules_as_strings:				.: (0.000262)
  test_name:						.: (0.000242)
  test_organism:					.: (0.000232)
  test_orthologs_as_hash:				.: (0.000204)
  test_orthologs_as_strings:				.: (0.000202)
  test_pathways_as_hash:				.: (0.000224)
  test_pathways_as_strings:				.: (0.000217)
  test_reactions_as_hash:				.: (0.000210)
  test_reactions_as_strings:				.: (0.000324)
  test_references:					.: (0.000217)
  test_rel_pathways_as_hash:				.: (0.000245)
  test_rel_pathways_as_strings:				.: (0.000225)
Bio::TestKeggReaction: 
  test_definition:					.: (0.000457)
  test_entry_id:					.: (0.001058)
  test_enzymes:						.: (0.000564)
  test_equation:					.: (0.000321)
  test_name:						.: (0.000279)
  test_orthologs_as_hash:				.: (0.000299)
  test_orthologs_as_strings:				.: (0.000283)
  test_pathways_as_hash:				.: (0.000289)
  test_pathways_as_strings:				.: (0.000255)
  test_rpairs_as_hash:					.: (0.000464)
  test_rpairs_as_strings:				.: (0.000382)
  test_rpairs_as_tokens:				.: (0.000321)
Bio::TestLasergene: 
  test_methods:						.: (0.008995)
Bio::TestLocations: 
  test_complement:					.: (0.000425)
  test_hat:						.: (0.000235)
  test_normal:						.: (0.000218)
  test_replace_single_base:				.: (0.000214)
  test_should_not_modify_argument:			.: (0.000199)
Bio::TestLocationsRoundTrip: 
  test_locations_roundtrip:				.: (0.002580)
  test_locations_to_s:					.: (0.001019)
Bio::TestMEDLINE: 
  test_authors:						.: (0.000758)
  test_authors_with_last_name_all_caps:			.: (0.000231)
  test_authors_with_suffix:				.: (0.000180)
Bio::TestMEDLINE_20146148: 
  test_ab:						.: (0.001518)
  test_ad:						.: (0.000385)
  test_au:						.: (0.000322)
  test_authors:						.: (0.000336)
  test_doi:						.: (0.000388)
  test_dp:						.: (0.000476)
  test_ip:						.: (0.000426)
  test_mh:						.: (0.000368)
  test_pages:						.: (0.000352)
  test_pg:						.: (0.000320)
  test_pii:						.: (0.000337)
  test_pmid:						.: (0.000338)
  test_pt:						.: (0.000409)
  test_reference:					.: (0.000554)
  test_self_new:					.: (0.003733)
  test_so:						.: (0.000827)
  test_ta:						.: (0.000374)
  test_ti:						.: (0.000365)
  test_ui:						.: (0.000336)
  test_vi:						.: (0.000503)
  test_year:						.: (0.000490)
Bio::TestMapSimple: 
  test_attributes:					.: (0.001212)
Bio::TestMapping: 
  test_add_mapping_as_map:				.: (0.000445)
  test_add_mapping_as_marker:				.: (0.000239)
  test_contains_marker?:				.: (0.000234)
  test_mapped_to?:					.: (0.000175)
  test_mapping_location_comparison:			.: (0.000360)
  test_mappings_as_map_each:				.: (0.000332)
  test_mappings_as_marker_each:				.: (0.000242)
  test_mappings_on:					.: (0.000230)
  test_multiple_mappings_between_same_marker_and_map:	.: (0.000508)
  test_positions_on:					.: (0.000439)
  test_raise_error_kind_of:				.: (0.000587)
Bio::TestMast: 
  test_check_options_with_empty_opts:			.: (0.000467)
  test_check_options_with_invalid_opts:			.: (0.000250)
  test_check_options_with_valid_opts:			.: (0.000324)
  test_command_to_be_run:				.: (0.000289)
  test_config_defaults:					.: (0.000192)
  test_minimal_config:					.: (0.000201)
  test_more_config:					.: (0.000194)
  test_run:						.: (0.000157)
Bio::TestMastReport: 
  test_parse_hit_list_with_bad_data:			.: (0.000859)
  test_report_has_motifs:				.: (0.000319)
Bio::TestModel: 
  test_addChain:					.: (0.000292)
  test_comp:						.: (0.000281)
  test_each:						.: (0.000160)
  test_each_chain:					.: (0.000138)
  test_inspect:						.: (0.000148)
  test_rehash:						.: (0.000128)
  test_square_brace:					.: (0.000149)
  test_to_s:						.: (0.000182)
Bio::TestModelFinder: 
  test_find_model:					.: (0.000299)
Bio::TestMotif: 
  test_creation_and_attributes:				.: (0.000282)
  test_length:						.: (0.000141)
Bio::TestMyGraph: 
  test_cliquishness:					.: (0.000525)
Bio::TestNA: 
  test_accessor:					.: (0.000242)
  test_na:						.: (0.000142)
  test_name:						.: (0.000135)
  test_names:						.: (0.000137)
  test_to_re:						.: (0.000311)
  test_weight:						.: (0.000154)
  test_weight_rna:					.: (0.000139)
Bio::TestNAConstants: 
  test_NAMES:						.: (0.000257)
  test_NAMES_1_to_name:					.: (0.000138)
  test_WEIGHT:						.: (0.000140)
Bio::TestNATranslate: 
  test_translate:					.: (0.000423)
  test_translate_1:					.: (0.000242)
  test_translate_2:					.: (0.000172)
  test_translate_3:					.: (0.000167)
  test_translate_4:					.: (0.000436)
  test_translate_5:					.: (0.000293)
  test_translate_6:					.: (0.000266)
Bio::TestNCBIDB: 
  test_fetch:						.: (0.000324)
  test_p_entry2hash:					.: (0.000123)
  test_p_subtag2array:					.: (0.000118)
  test_p_toptag2array:					.: (0.000172)
Bio::TestNewick: 
  test_reparse:						.: (0.001375)
  test_reparse_before_lazy_parsing:			.: (0.000467)
  test_string_tree:					.: (0.000794)
Bio::TestNewick2: 
  test_string_tree:					.: (0.000827)
Bio::TestNewickPrivate: 
  test_parse_newick_get_tokens_for_leaf:		.: (0.000406)
  test_parse_newick_leaf:				.: (0.000345)
  test_parse_newick_tokenize:				.: (0.000335)
Bio::TestNexus: 
  test_nexus:						.: (0.006850)
Bio::TestOSLine: 
  test_period_trancation_O63147:			.: (0.000403)
  test_uncapitalized_letter_Q32725_9POAL:		.: (0.000234)
Bio::TestPAMLCodeml::TestCodeml: 
  test_dump_parameters:					.: (0.000301)
  test_load_parameters:					.: (0.000176)
  test_parameters:					.: (0.000129)
  test_set_default_parameters:				.: (0.000158)
Bio::TestPAMLCodeml::TestCodemlControlGeneration: 
  test_control_file_generated:				.: (0.000675)
  test_expected_parameters_set_in_control_file:		.: (0.000563)
Bio::TestPAMLCodeml::TestCodemlInitialize: 
  test_new_with_one_argument:				.: (0.000270)
  test_new_with_parameters:				.: (0.000153)
  test_new_with_two_argument:				.: (0.000154)
  test_new_without_argument:				.: (0.000138)
Bio::TestPAMLCodeml::TestCodemlRates: 
  test_rates_first_position:				.: (0.006812)
  test_rates_hundred_and_fiftieth_position:		.: (0.001123)
  test_rates_last_position:				.: (0.001861)
Bio::TestPAMLCodeml::TestCodemlReport: 
  test_alpha:						.: (0.000827)
  test_tree:						.: (0.000624)
  test_tree_length:					.: (0.000586)
  test_tree_log_likelihood:				.: (0.000635)
Bio::TestPAMLCodeml::TestControlFileUsage: 
  test_correct_parameters_should_be_loaded:		.: (0.000554)
  test_parameters_should_be_loaded_from_control:	.: (0.000337)
Bio::TestPAMLCodeml::TestExpectedErrorsThrown: 
  test_error_thrown_if_seqfile_does_not_specified:	.: (0.001523)
Bio::TestPAMLCodemlReportWithModels::TestCodemlModelM0M3: 
  test_alpha:						.: (0.000572)
  test_dN_dS:						.: (0.000279)
  test_kappa:						.: (0.000253)
  test_lnL:						.: (0.000218)
  test_m3_classes:					.: (0.000295)
  test_m3_lnL:						.: (0.000218)
  test_m3_to_s:						.: (0.000217)
  test_m3_tree:						.: (0.000276)
  test_omega:						.: (0.000224)
  test_to_s:						.: (0.000229)
  test_tree:						.: (0.000275)
  test_tree_length:					.: (0.000246)
Bio::TestPAMLCodemlReportWithModels::TestCodemlPositiveSiteM0M3: 
  test_dN_dS:						.: (0.000562)
  test_p:						.: (0.000383)
  test_position:					.: (0.000366)
  test_probability:					.: (0.000377)
  test_w:						.: (0.000419)
Bio::TestPAMLCodemlReportWithModels::TestCodemlPositiveSitesM0M3: 
  test_graph:						.: (0.000722)
  test_graph_omega:					.: (0.000424)
Bio::TestPAMLCodemlReportWithModels::TestCodemlReportM0M3: 
  test_descr:						.: (0.000504)
  test_footer:						.: (0.000228)
  test_header:						.: (0.000235)
  test_initialize:					.: (0.000241)
  test_models:						.: (0.000376)
  test_nb_sites:					.: (0.000526)
  test_num_codons:					.: (0.000375)
  test_num_sequences:					.: (0.000224)
  test_significant:					.: (0.000240)
Bio::TestPAMLCodemlReportWithModels::TestCodemlReportM7M8: 
  test_models:						.: (0.000371)
  test_nb_sites:					.: (0.000532)
  test_significant:					.: (0.000282)
  test_sites:						.: (0.000985)
Bio::TestPDB: 
  test_accession:					.: (0.001272)
  test_addModel:					.: (0.000934)
  test_authors:						.: (0.000858)
  test_bracket:						.: (0.000732)
  test_classification:					.: (0.000854)
  test_dbref:						.: (0.001062)
  test_definition:					.: (0.000720)
  test_each:						.: (0.000709)
  test_each_model:					.: (0.000695)
  test_entry_id:					.: (0.000776)
  test_helix:						.: (0.000738)
  test_inspect:						.: (0.000663)
  test_jrnl:						.: (0.000718)
  test_keywords:					.: (0.000649)
  test_record:						.: (0.000634)
  test_remark:						.: (0.000782)
  test_seqres:						.: (0.000836)
  test_sheet:						.: (0.000810)
  test_ssbond:						.: (0.000865)
  test_to_s:						.: (0.000942)
  test_turn:						.: (0.000652)
  test_version:						.: (0.000680)
Bio::TestPDBRecord::TestANISOU: 
  test_U11:						.: (0.000439)
  test_U12:						.: (0.007664)
  test_U13:						.: (0.000407)
  test_U22:						.: (0.000216)
  test_U23:						.: (0.000247)
  test_U33:						.: (0.000194)
  test_altLoc:						.: (0.000302)
  test_chainID:						.: (0.000197)
  test_charge:						.: (0.000278)
  test_element:						.: (0.000205)
  test_iCode:						.: (0.000190)
  test_name:						.: (0.000277)
  test_resName:						.: (0.000473)
  test_resSeq:						.: (0.000208)
  test_segID:						.: (0.000194)
  test_serial:						.: (0.000187)
Bio::TestPDBRecord::TestATOM: 
  test_altLoc:						.: (0.000465)
  test_anisou:						.: (0.000177)
  test_chainID:						.: (0.000154)
  test_charge:						.: (0.000142)
  test_comparable:					.: (0.000228)
  test_do_parse:					.: (0.000160)
  test_element:						.: (0.000138)
  test_iCode:						.: (0.000147)
  test_name:						.: (0.000151)
  test_occupancy:					.: (0.000188)
  test_original_data:					.: (0.000164)
  test_record_name:					.: (0.000155)
  test_resName:						.: (0.000147)
  test_resSeq:						.: (0.000147)
  test_residue:						.: (0.000143)
  test_segID:						.: (0.000147)
  test_serial:						.: (0.000174)
  test_sigatm:						.: (0.000166)
  test_tempFactor:					.: (0.000200)
  test_ter:						.: (0.000292)
  test_to_a:						.: (0.000169)
  test_to_s:						.: (0.000181)
  test_x:						.: (0.000160)
  test_xyz:						.: (0.000187)
  test_y:						.: (0.000262)
  test_z:						.: (0.000219)
Bio::TestPDBRecord::TestAUTHOR: 
  test_authorList:					.: (0.000338)
Bio::TestPDBRecord::TestCAVEAT: 
  test_comment:						.: (0.000308)
  test_idcode:						.: (0.000165)
Bio::TestPDBRecord::TestCISPEP: 
  test_chainID1:					.: (0.000330)
  test_chainID2:					.: (0.000175)
  test_icode1:						.: (0.000170)
  test_icode2:						.: (0.000179)
  test_measure:						.: (0.000178)
  test_modNum:						.: (0.000216)
  test_pep1:						.: (0.000166)
  test_pep2:						.: (0.000168)
  test_seqNum1:						.: (0.000202)
  test_seqNum2:						.: (0.000169)
  test_serNum:						.: (0.000163)
Bio::TestPDBRecord::TestCOMPND: 
  test_compound:					.: (0.000312)
Bio::TestPDBRecord::TestCONECT: 
  test_serial:						.: (0.000283)
Bio::TestPDBRecord::TestCRYST1: 
  test_a:						.: (0.000284)
  test_alpha:						.: (0.000152)
  test_b:						.: (0.000264)
  test_beta:						.: (0.000168)
  test_c:						.: (0.000251)
  test_gamma:						.: (0.000431)
  test_sGroup:						.: (0.000187)
  test_z:						.: (0.000162)
Bio::TestPDBRecord::TestDBREF: 
  test_chainID:						.: (0.000402)
  test_database:					.: (0.000294)
  test_dbAccession:					.: (0.000286)
  test_dbIdCode:					.: (0.000246)
  test_dbseqBegin:					.: (0.000205)
  test_dbseqEnd:					.: (0.000253)
  test_idCode:						.: (0.000200)
  test_idbnsBeg:					.: (0.000197)
  test_insertBegin:					.: (0.000183)
  test_insertEnd:					.: (0.000245)
  test_seqBegin:					.: (0.000175)
  test_seqEnd:						.: (0.000181)
Bio::TestPDBRecord::TestDefault: 
  test_text:						.: (0.000310)
Bio::TestPDBRecord::TestENDMDL: 
  test_serial:						.: (0.002462)
Bio::TestPDBRecord::TestEXPDTA: 
  test_technique:					.: (0.002547)
Bio::TestPDBRecord::TestEnd: 
  test_serial:						.: (0.000337)
Bio::TestPDBRecord::TestHEADER: 
  test_classification:					.: (0.001600)
  test_depDate:						.: (0.000204)
  test_idCode:						.: (0.000161)
Bio::TestPDBRecord::TestHET: 
  test_ChainID:						.: (0.000388)
  test_hetID:						.: (0.003093)
  test_iCode:						.: (0.002652)
  test_numHetAtoms:					.: (0.001341)
  test_seqNum:						.: (0.000349)
  test_text:						.: (0.000276)
Bio::TestPDBRecord::TestHETATM: 
  test_altLoc:						.: (0.000831)
  test_anisou:						.: (0.000305)
  test_chainID:						.: (0.001306)
  test_charge:						.: (0.000205)
  test_comparable:					.: (0.000231)
  test_do_parse:					.: (0.001322)
  test_element:						.: (0.000241)
  test_iCode:						.: (0.000177)
  test_name:						.: (0.001668)
  test_occupancy:					.: (0.000288)
  test_original_data:					.: (0.000175)
  test_record_name:					.: (0.000164)
  test_resName:						.: (0.000236)
  test_resSeq:						.: (0.001344)
  test_residue:						.: (0.000151)
  test_segID:						.: (0.000135)
  test_serial:						.: (0.001002)
  test_sigatm:						.: (0.001391)
  test_tempFactor:					.: (0.001317)
  test_ter:						.: (0.000298)
  test_to_a:						.: (0.000165)
  test_to_s:						.: (0.000199)
  test_x:						.: (0.001704)
  test_xyz:						.: (0.000271)
  test_y:						.: (0.000258)
  test_z:						.: (0.001483)
Bio::TestPDBRecord::TestHYDBND: 
  test_Chain1:						.: (0.000414)
  test_ChainH:						.: (0.003875)
  test_ICode1:						.: (0.000364)
  test_altLoc1:						.: (0.004108)
  test_altLoc2:						.: (0.001308)
  test_altLocH:						.: (0.000937)
  test_chainID2:					.: (0.000255)
  test_iCode2:						.: (0.000715)
  test_iCodeH:						.: (0.001256)
  test_name1:						.: (0.001371)
  test_name2:						.: (0.000254)
  test_nameH:						.: (0.001189)
  test_resName1:					.: (0.000277)
  test_resName2:					.: (0.003276)
  test_resSeq1:						.: (0.001332)
  test_resSeq2:						.: (0.000276)
  test_resSeqH:						.: (0.001404)
  test_sym1:						.: (0.001423)
  test_sym2:						.: (0.002029)
Bio::TestPDBRecord::TestKEYWDS: 
  test_keywds:						.: (0.000585)
Bio::TestPDBRecord::TestLINK: 
  test_altLoc1:						.: (0.000542)
  test_altLoc2:						.: (0.000286)
  test_chainID1:					.: (0.000211)
  test_chainID2:					.: (0.000293)
  test_iCode1:						.: (0.000220)
  test_iCode2:						.: (0.000192)
  test_name1:						.: (0.000184)
  test_name2:						.: (0.000335)
  test_resName1:					.: (0.000191)
  test_resName2:					.: (0.000216)
  test_resSeq1:						.: (0.000177)
  test_resSeq2:						.: (0.001191)
  test_sym1:						.: (0.000224)
  test_sym2:						.: (0.000185)
Bio::TestPDBRecord::TestMASTER: 
  test_numConect:					.: (0.000326)
  test_numCoord:					.: (0.000141)
  test_numHelix:					.: (0.000290)
  test_numHet:						.: (0.000165)
  test_numRemark:					.: (0.000154)
  test_numSeq:						.: (0.000152)
  test_numSheet:					.: (0.000153)
  test_numSite:						.: (0.000147)
  test_numTer:						.: (0.000147)
  test_numTurn:						.: (0.000155)
  test_numXform:					.: (0.000152)
Bio::TestPDBRecord::TestMODEL: 
  test_serial:						.: (0.000271)
Bio::TestPDBRecord::TestMODRES: 
  test_chainID:						.: (0.000477)
  test_comment:						.: (0.000204)
  test_iCode:						.: (0.000545)
  test_idCode:						.: (0.000298)
  test_resName:						.: (0.000256)
  test_seqNum:						.: (0.000304)
  test_stdRes:						.: (0.000169)
Bio::TestPDBRecord::TestMTRIX1: 
  test_Mn1:						.: (0.000333)
  test_Mn2:						.: (0.000148)
  test_Mn3:						.: (0.000144)
  test_Vn:						.: (0.000166)
  test_iGiven:						.: (0.000317)
  test_serial:						.: (0.000158)
Bio::TestPDBRecord::TestMTRIX2: 
  test_Mn1:						.: (0.000306)
  test_Mn2:						.: (0.000237)
  test_Mn3:						.: (0.000150)
  test_Vn:						.: (0.000138)
  test_iGiven:						.: (0.000151)
  test_serial:						.: (0.000149)
Bio::TestPDBRecord::TestMTRIX3: 
  test_Mn1:						.: (0.000371)
  test_Mn2:						.: (0.000156)
  test_Mn3:						.: (0.000171)
  test_Vn:						.: (0.000463)
  test_iGiven:						.: (0.000153)
  test_serial:						.: (0.000132)
Bio::TestPDBRecord::TestOBSLTE: 
  test_idCode:						.: (0.000426)
  test_rIdCode:						.: (0.000200)
  test_repDate:						.: (0.000169)
Bio::TestPDBRecord::TestORIGX1: 
  test_On1:						.: (0.000325)
  test_On2:						.: (0.000289)
  test_On3:						.: (0.000152)
  test_Tn:						.: (0.000228)
Bio::TestPDBRecord::TestREVDAT: 
  test_modDate:						.: (0.000384)
  test_modId:						.: (0.000165)
  test_modNum:						.: (0.000144)
  test_modType:						.: (0.000274)
  test_record:						.: (0.000172)
Bio::TestPDBRecord::TestRemarkN: 
  test_remarkNum:					.: (0.000277)
  test_text:						.: (0.000209)
Bio::TestPDBRecord::TestSCALE1: 
  test_Sn1:						.: (0.000650)
  test_Sn2:						.: (0.000221)
  test_Sn3:						.: (0.000149)
  test_Un:						.: (0.000211)
Bio::TestPDBRecord::TestSCALE2: 
  test_Sn1:						.: (0.000293)
  test_Sn2:						.: (0.000147)
  test_Sn3:						.: (0.000245)
  test_Un:						.: (0.000142)
Bio::TestPDBRecord::TestSCALE3: 
  test_Sn1:						.: (0.000311)
  test_Sn2:						.: (0.000145)
  test_Sn3:						.: (0.000141)
  test_Un:						.: (0.000139)
Bio::TestPDBRecord::TestSEQADV: 
  test_chainID:						.: (0.000312)
  test_conflict:					.: (0.000168)
  test_database:					.: (0.000174)
  test_dbIdCode:					.: (0.000178)
  test_dbRes:						.: (0.000160)
  test_dbSeq:						.: (0.000316)
  test_iCode:						.: (0.000345)
  test_idCode:						.: (0.000186)
  test_resName:						.: (0.000278)
  test_seqNum:						.: (0.000179)
Bio::TestPDBRecord::TestSEQRES: 
  test_chainID:						.: (0.000307)
  test_numRes:						.: (0.000243)
  test_resName:						.: (0.000183)
Bio::TestPDBRecord::TestSHEET: 
  test_curAtom:						.: (0.000327)
  test_curChainId:					.: (0.000191)
  test_curICode:					.: (0.000317)
  test_curResName:					.: (0.000200)
  test_curResSeq:					.: (0.000203)
  test_endChainID:					.: (0.000238)
  test_endICode:					.: (0.000202)
  test_endResName:					.: (0.000192)
  test_endSeqNum:					.: (0.000183)
  test_initChainID:					.: (0.000185)
  test_initICode:					.: (0.000296)
  test_initResName:					.: (0.000265)
  test_initSeqNum:					.: (0.000184)
  test_numStrands:					.: (0.000181)
  test_prevAtom:					.: (0.000182)
  test_prevChainId:					.: (0.000188)
  test_prevICode:					.: (0.000206)
  test_prevResName:					.: (0.000186)
  test_prevResSeq:					.: (0.000287)
  test_sense:						.: (0.000288)
  test_sheetID:						.: (0.000314)
  test_strand:						.: (0.000287)
Bio::TestPDBRecord::TestSIGATM: 
  test_altLoc:						.: (0.000480)
  test_chainID:						.: (0.000277)
  test_charge:						.: (0.000338)
  test_element:						.: (0.000207)
  test_iCode:						.: (0.000230)
  test_name:						.: (0.000168)
  test_resName:						.: (0.000249)
  test_resSeq:						.: (0.000192)
  test_segID:						.: (0.000173)
  test_serial:						.: (0.000183)
  test_sigOcc:						.: (0.000185)
  test_sigTemp:						.: (0.000252)
  test_sigX:						.: (0.000182)
  test_sigY:						.: (0.000261)
  test_sigZ:						.: (0.000253)
Bio::TestPDBRecord::TestSIGUIJ: 
  test_SigmaU11:					.: (0.000412)
  test_SigmaU12:					.: (0.000173)
  test_SigmaU13:					.: (0.000176)
  test_SigmaU22:					.: (0.000226)
  test_SigmaU23:					.: (0.000178)
  test_SigmaU33:					.: (0.000171)
  test_altLoc:						.: (0.000178)
  test_chainID:						.: (0.000171)
  test_charge:						.: (0.000192)
  test_element:						.: (0.000207)
  test_iCode:						.: (0.000178)
  test_name:						.: (0.000175)
  test_resName:						.: (0.000168)
  test_resSeq:						.: (0.000172)
  test_segID:						.: (0.000173)
  test_serial:						.: (0.000175)
Bio::TestPDBRecord::TestSITE: 
  test_chainID1:					.: (0.000457)
  test_chainID2:					.: (0.000175)
  test_chainID3:					.: (0.000185)
  test_chainID4:					.: (0.000260)
  test_iCode1:						.: (0.000192)
  test_iCode2:						.: (0.000173)
  test_iCode3:						.: (0.000174)
  test_iCode4:						.: (0.000300)
  test_numRes:						.: (0.000185)
  test_resName1:					.: (0.000177)
  test_resName2:					.: (0.000183)
  test_resName3:					.: (0.000593)
  test_resName4:					.: (0.000203)
  test_seq1:						.: (0.000170)
  test_seq2:						.: (0.000173)
  test_seq3:						.: (0.000189)
  test_seq4:						.: (0.000173)
  test_seqNum:						.: (0.000177)
  test_siteID:						.: (0.000176)
Bio::TestPDBRecord::TestSLTBRG: 
  test_altLoc1:						.: (0.000364)
  test_altLoc2:						.: (0.000238)
  test_atom1:						.: (0.000154)
  test_atom2:						.: (0.000173)
  test_chainID1:					.: (0.000169)
  test_chainID2:					.: (0.000165)
  test_iCode1:						.: (0.000190)
  test_iCode2:						.: (0.000323)
  test_resName1:					.: (0.000221)
  test_resName2:					.: (0.000279)
  test_resSeq1:						.: (0.000264)
  test_resSeq2:						.: (0.000189)
  test_sym1:						.: (0.000169)
  test_sym2:						.: (0.000224)
Bio::TestPDBRecord::TestSOURCE: 
  test_srcName:						.: (0.000442)
Bio::TestPDBRecord::TestSPRSDE: 
  test_idCode:						.: (0.000313)
  test_sIdCode:						.: (0.000267)
  test_sprsdeDate:					.: (0.000164)
Bio::TestPDBRecord::TestTER: 
  test_chainID:						.: (0.000288)
  test_iCode:						.: (0.000150)
  test_resName:						.: (0.000157)
  test_resSeq:						.: (0.000177)
  test_serial:						.: (0.000224)
Bio::TestPDBRecord::TestTITLE: 
  test_title:						.: (0.000474)
Bio::TestPDBRecord::TestTVECT: 
  test_serial:						.: (0.000372)
  test_t1:						.: (0.000149)
  test_t2:						.: (0.000150)
  test_t3:						.: (0.000219)
  test_text:						.: (0.000157)
Bio::TestPROSITE: 
  test_ac:						.: (0.001834)
  test_cc:						.: (0.000954)
  test_de:						.: (0.001068)
  test_division:					.: (0.001160)
  test_dr:						.: (0.018634)
  test_dt:						.: (0.001007)
  test_false_neg:					.: (0.001025)
  test_false_pos:					.: (0.001118)
  test_false_positive_sequences:			.: (0.001095)
  test_list_falsenegative:				.: (0.020956)
  test_list_falsepositive:				.: (0.014765)
  test_list_potentialhit:				.: (0.014949)
  test_list_truepositive:				.: (0.014588)
  test_list_unknown:					.: (0.012422)
  test_list_xref:					.: (0.014911)
  test_ma:						.: (0.001418)
  test_max_repeat:					.: (0.001083)
  test_name:						.: (0.001006)
  test_nr:						.: (0.001035)
  test_pa:						.: (0.000972)
  test_pa2re:						.: (0.001148)
  test_partial:						.: (0.001116)
  test_pdb_xref:					.: (0.001062)
  test_pdoc_xref:					.: (0.001123)
  test_positive:					.: (0.001220)
  test_positive_hits:					.: (0.003460)
  test_positive_sequences:				.: (0.001626)
  test_release:						.: (0.001238)
  test_ru:						.: (0.001109)
  test_self_pa2re:					.: (0.001025)
  test_site:						.: (0.001648)
  test_skip_flag:					.: (0.001195)
  test_swissprot_release_number:			.: (0.001210)
  test_swissprot_release_sequences:			.: (0.001158)
  test_taxon_range:					.: (0.001143)
  test_total:						.: (0.003361)
  test_total_hits:					.: (0.001359)
  test_total_sequences:					.: (0.001485)
  test_unknown:						.: (0.001110)
  test_unknown_hits:					.: (0.001033)
  test_unknown_sequences:				.: (0.001493)
Bio::TestPROSITEConst: 
  test_delimiter:					.: (0.000317)
  test_tagsize:						.: (0.000214)
Bio::TestPTS1: 
  test_function_set:					.: (0.000308)
  test_function_set_number_1:				.: (0.000207)
  test_function_set_number_2:				.: (0.000194)
  test_function_set_number_3:				.: (0.000141)
  test_function_show:					.: (0.000128)
Bio::TestPTS1Constant: 
  test_FUNCTION:					.: (0.000394)
Bio::TestPTS1New: 
  test_fungi:						.: (0.000249)
  test_general:						.: (0.000139)
  test_metazoa:						.: (0.000176)
Bio::TestQualifier: 
  test_qualifier:					.: (0.000261)
  test_value:						.: (0.000143)
Bio::TestREBASE: 
  test_methods:						.: (0.000877)
Bio::TestRPSBlast::TestRPSBlastHSP: 
  test_align_len:					.: (0.001059)
  test_bit_score:					.: (0.000770)
  test_evalue:						.: (0.000693)
  test_gaps:						.: (0.000773)
  test_hit_from:					.: (0.000831)
  test_hit_to:						.: (0.000671)
  test_hseq:						.: (0.000627)
  test_identity:					.: (0.000629)
  test_midline:						.: (0.000602)
  test_percent_identity:				.: (0.000757)
  test_positive:					.: (0.000594)
  test_qseq:						.: (0.000724)
  test_query_from:					.: (0.000608)
  test_query_to:					.: (0.000750)
  test_score:						.: (0.000719)
Bio::TestRPSBlast::TestRPSBlastReport: 
  test_db:						.: (0.000801)
  test_hits_size:					.: (0.001129)
  test_iterations_size:					.: (0.001405)
  test_program:						.: (0.000655)
  test_query_def:					.: (0.001196)
  test_query_len:					.: (0.001081)
  test_version:						.: (0.000587)
  test_version_date:					.: (0.003406)
  test_version_number:					.: (0.000854)
Bio::TestRPSBlast::TestRPSBlastReportHit: 
  test_bit_score:					.: (0.001049)
  test_definition:					.: (0.000815)
  test_evalue:						.: (0.000688)
  test_hsps_size:					.: (0.000616)
  test_identity:					.: (0.000702)
  test_lap_at:						.: (0.000768)
  test_len:						.: (0.001570)
  test_midline:						.: (0.000727)
  test_overlap:						.: (0.000794)
  test_query_end:					.: (0.000755)
  test_query_seq:					.: (0.000669)
  test_query_start:					.: (0.000649)
  test_target_def:					.: (0.000647)
  test_target_end:					.: (0.000754)
  test_target_len:					.: (0.000758)
  test_target_seq:					.: (0.000739)
  test_target_start:					.: (0.000627)
Bio::TestRPSBlast::TestRPSBlastSplitter: 
  test_entry_pos:					.: (0.000511)
  test_get_entry:					.: (0.000596)
  test_rewind:						.: (0.000186)
  test_skip_leader:					.: (0.000379)
Bio::TestReference: 
  test_abstract:					.: (0.000282)
  test_affiliations:					.: (0.000140)
  test_authors:						.: (0.000136)
  test_format_bibitem:					.: (0.000194)
  test_format_bibtex:					.: (0.000280)
  test_format_bibtex_with_arguments:			.: (0.000218)
  test_format_cell:					.: (0.000168)
  test_format_current:					.: (0.000163)
  test_format_endnote:					.: (0.000167)
  test_format_general:					.: (0.000216)
  test_format_genome_biol:				.: (0.000162)
  test_format_genome_res:				.: (0.000194)
  test_format_nar:					.: (0.000260)
  test_format_nature:					.: (0.000179)
  test_format_rd:					.: (0.000253)
  test_format_science:					.: (0.000330)
  test_format_trends:					.: (0.000170)
  test_issue:						.: (0.000136)
  test_journal:						.: (0.000261)
  test_mesh:						.: (0.000151)
  test_pages:						.: (0.000137)
  test_pubmed:						.: (0.000189)
  test_pubmed_url:					.: (0.000134)
  test_url:						.: (0.000186)
  test_volume:						.: (0.000136)
  test_year:						.: (0.000124)
Bio::TestReference_noURL: 
  test_format_endnote:					.: (0.000334)
  test_url:						.: (0.000155)
Bio::TestReferences: 
  test_append:						.: (0.000312)
  test_each:						.: (0.000160)
Bio::TestRelation: 
  test_comparison_operator:				.: (0.000440)
  test_uniq:						.: (0.002264)
Bio::TestResidue: 
  test_addAtom:						.: (0.002019)
  test_each:						.: (0.000305)
  test_each_atom:					.: (0.006361)
  test_get_residue_id_from_atom:			.: (0.004040)
  test_het_atom:					.: (0.000271)
  test_iCode:						.: (0.002092)
  test_inspect:						.: (0.000358)
  test_resSeq:						.: (0.003573)
  test_sort:						.: (0.000363)
  test_square_bracket:					.: (0.002078)
  test_to_s:						.: (0.000324)
  test_update_resudue_id:				.: (0.003204)
Bio::TestResidueFinder: 
  test_each_residue:					.: (0.003409)
  test_find_residue:					.: (0.000317)
  test_residues:					.: (0.000259)
Bio::TestRestrictionEnzyme::TestAnalysis: 
  test_cut:						.: (0.111235)
  test_cut_from_bio_sequence_na:			.: (0.025026)
  test_cut_without_permutations:			.: (0.013414)
  test_view_ranges:					.: (0.018851)
Bio::TestRestrictionEnzyme::TestAnalysisCalculatedCuts: 
  test_cuts:						.: (0.001062)
  test_cuts_after_remove_incomplete_cuts:		.: (0.000597)
  test_strands_for_display:				.: (0.001605)
  test_strands_for_display_current:			.: (0.001145)
Bio::TestRestrictionEnzyme::TestAnalysisSequenceRange: 
  test_fragments:					.: (0.000694)
  test_fragments_for_display_1:				.: (0.000646)
  test_fragments_for_display_10:			.: (0.000723)
  test_fragments_for_display_2:				.: (0.000660)
  test_fragments_for_display_3:				.: (0.000865)
  test_fragments_for_display_4:				.: (0.000770)
  test_fragments_for_display_5:				.: (0.000636)
  test_fragments_for_display_6:				.: (0.003527)
  test_fragments_for_display_7:				.: (0.000633)
  test_fragments_for_display_8:				.: (0.000626)
  test_fragments_for_display_9:				.: (0.000903)
Bio::TestRestrictionEnzyme::TestCutRanges: 
  test_obj_2:						.: (0.000496)
  test_obj_3:						.: (0.000277)
  test_obj_7:						.: (0.000240)
  test_obj_z:						.: (0.000230)
Bio::TestRestrictionEnzyme::TestCutSymbol: 
  test_methods:						.: (0.000388)
Bio::TestRestrictionEnzyme::TestDenseIntArray: 
  test_bracket:						.: (0.000317)
  test_bracket_eq:					.: (0.000214)
  test_concat:						.: (0.000223)
  test_delete:						.: (0.000506)
  test_dup:						.: (0.000468)
  test_each:						.: (0.000227)
  test_eqeq:						.: (0.000189)
  test_eqeq_false:					.: (0.000377)
  test_eqeq_other:					.: (0.000169)
  test_eqeq_self:					.: (0.000204)
  test_include?:					.: (0.000145)
  test_internal_data:					.: (0.000145)
  test_internal_data_eq:				.: (0.000201)
  test_length:						.: (0.000140)
  test_ltlt:						.: (0.000156)
  test_ltlt_larger:					.: (0.000226)
  test_ltlt_middle:					.: (0.000156)
  test_plus:						.: (0.000246)
  test_plus_error:					.: (0.000210)
  test_push:						.: (0.000296)
  test_reverse_each:					.: (0.000378)
  test_self_bracket:					.: (0.000220)
  test_self_new:					.: (0.000189)
  test_size:						.: (0.000276)
  test_sort!:						.: (0.000149)
  test_to_a:						.: (0.000148)
  test_uniq!:						.: (0.000198)
  test_unshift:						.: (0.000218)
Bio::TestRestrictionEnzyme::TestDoubleStranded: 
  test_argument_error:					.: (0.004058)
  test_complement:					.: (0.003223)
  test_complement_with_cut_symbols:			.: (0.003647)
  test_cut_locations:					.: (0.012164)
  test_cut_locations_in_enzyme_notation:		.: (0.017580)
  test_primary:						.: (0.017854)
  test_primary_with_cut_symbols:			.: (0.016473)
  test_to_re:						.: (0.003845)
Bio::TestRestrictionEnzyme::TestDoubleStrandedAlignedStrands: 
  test_align:						.: (0.001383)
  test_align_with_cuts:					.: (0.000843)
  test_argument_error:					.: (0.001455)
  test_ds:						.: (0.000757)
Bio::TestRestrictionEnzyme::TestDoubleStrandedCutLocationPair: 
  test_argument_error:					.: (0.000509)
  test_complement:					.: (0.000253)
  test_contents:					.: (0.000470)
  test_primary:						.: (0.000225)
Bio::TestRestrictionEnzyme::TestDoubleStrandedCutLocationPairInEnzymeNotation: 
  test_argument_error:					.: (0.000449)
  test_complement:					.: (0.000230)
  test_contents:					.: (0.000224)
  test_primary:						.: (0.000266)
Bio::TestRestrictionEnzyme::TestDoubleStrandedCutLocations: 
  test_complement:					.: (0.000353)
  test_contents:					.: (0.000210)
  test_primary:						.: (0.000209)
Bio::TestRestrictionEnzyme::TestDoubleStrandedCutLocationsInEnzymeNotation: 
  test_complement:					.: (0.000351)
  test_complement_to_array_index:			.: (0.000433)
  test_complement_to_array_index_class:			.: (0.000242)
  test_contents:					.: (0.000179)
  test_primary:						.: (0.000176)
  test_primary_to_array_index:				.: (0.000271)
  test_primary_to_array_index_class:			.: (0.000221)
  test_to_array_index:					.: (0.000365)
  test_to_array_index_class:				.: (0.000527)
Bio::TestRestrictionEnzyme::TestRestrictionEnzyme: 
  test_enzyme_name:					.: (0.000452)
  test_rebase:						.: (0.000184)
Bio::TestRestrictionEnzyme::TestSingleStrand: 
  test_argument_error:					.: (0.000749)
  test_creation_with_no_cuts:				.: (0.000635)
  test_cut_locations:					.: (0.000386)
  test_cut_locations_in_enzyme_notation:		.: (0.000393)
  test_orientation:					.: (0.000612)
  test_pattern:						.: (0.000441)
  test_pattern_palindromic?:				.: (0.000465)
  test_stripped:					.: (0.000435)
  test_to_re:						.: (0.000346)
  test_with_cut_symbols:				.: (0.000419)
  test_with_spaces:					.: (0.000652)
Bio::TestRestrictionEnzyme::TestSingleStrandComplement: 
  test_argument_error:					.: (0.000931)
  test_creation_with_no_cuts:				.: (0.000774)
  test_cut_locations:					.: (0.000435)
  test_cut_locations_in_enzyme_notation:		.: (0.000387)
  test_orientation:					.: (0.000557)
  test_pattern:						.: (0.000466)
  test_pattern_palindromic?:				.: (0.000539)
  test_stripped:					.: (0.000555)
  test_to_re:						.: (0.000476)
  test_with_cut_symbols:				.: (0.000554)
  test_with_spaces:					.: (0.000576)
Bio::TestRestrictionEnzyme::TestSingleStrandCutLocationsInEnzymeNotation: 
  test_argument_error:					.: (0.000490)
  test_initialize_with_pattern:				.: (0.000377)
  test_max:						.: (0.000287)
  test_min:						.: (0.000191)
  test_to_array_index:					.: (0.000209)
Bio::TestRestrictionEnzyme::TestSortedNumArray: 
  test_bracket:						.: (0.000330)
  test_bracket_eq:					.: (0.000207)
  test_concat:						.: (0.000148)
  test_delete:						.: (0.000133)
  test_dup:						.: (0.000173)
  test_each:						.: (0.000191)
  test_eqeq:						.: (0.000137)
  test_eqeq_false:					.: (0.000125)
  test_eqeq_other:					.: (0.000171)
  test_eqeq_self:					.: (0.000130)
  test_include?:					.: (0.000143)
  test_internal_data_hash:				.: (0.000131)
  test_internal_data_hash_eq:				.: (0.000155)
  test_length:						.: (0.000130)
  test_ltlt:						.: (0.000149)
  test_ltlt_noeffect:					.: (0.000139)
  test_plus:						.: (0.000136)
  test_plus_error:					.: (0.000199)
  test_private_push_element:				.: (0.000145)
  test_private_push_element_intermediate:		.: (0.000143)
  test_private_push_element_last:			.: (0.000135)
  test_private_push_element_noeffect:			.: (0.000135)
  test_private_sorted_keys:				.: (0.000135)
  test_private_unshift_element:				.: (0.000163)
  test_private_unshift_element_first:			.: (0.000156)
  test_private_unshift_element_intermediate:		.: (0.000141)
  test_private_unshift_element_noeffect:		.: (0.000137)
  test_push:						.: (0.000142)
  test_reverse_each:					.: (0.000173)
  test_self_bracket:					.: (0.000140)
  test_self_new:					.: (0.000170)
  test_size:						.: (0.000134)
  test_sort!:						.: (0.000142)
  test_to_a:						.: (0.000125)
  test_uniq!:						.: (0.000123)
  test_unshift:						.: (0.000146)
Bio::TestRestrictionEnzyme::TestStringFormatting: 
  test_add_spacing:					.: (0.000306)
  test_left_padding:					.: (0.000192)
  test_right_padding:					.: (0.000146)
  test_strip_padding:					.: (0.000154)
Bio::TestSOFT: 
  test_dataset:						.: (0.011050)
  test_series:						.: (0.005521)
Bio::TestSOSUIReport: 
  test_entry_id:					.: (0.000459)
  test_prediction:					.: (0.000244)
  test_tmh:						.: (0.000226)
  test_tmhs:						.: (0.000274)
Bio::TestSOSUIReportConst: 
  test_delimiter:					.: (0.000330)
  test_rs:						.: (0.000156)
Bio::TestSOSUITMH: 
  test_grade:						.: (0.000363)
  test_range:						.: (0.000221)
  test_sequence:					.: (0.000221)
Bio::TestSampleGraph: 
  test_bellman_ford:					.: (0.000461)
  test_bfs_shortest_path:				.: (0.000258)
  test_breadth_first_search:				.: (0.000217)
  test_depth_first_search:				.: (0.000373)
  test_dijkstra:					.: (0.000283)
  test_dump_list:					.: (0.000274)
  test_dump_matrix:					.: (0.000566)
  test_extract_subgraph_by_label:			.: (0.000224)
  test_extract_subgraph_by_list:			.: (0.000212)
  test_extract_subgraph_retains_disconnected_nodes:	.: (0.000185)
  test_small_world_aka_node_degree_histogram:		.: (0.000213)
  test_to_matrix:					.: (0.000360)
  test_to_matrix_fixed_index:				.: (0.000266)
  test_undirected_cliquishness:				.: (0.000310)
Bio::TestScf_version_2: 
  test_complement:					.: (0.005112)
  test_seq:						.: (0.004536)
  test_to_biosequence:					.: (0.004948)
Bio::TestScf_version_3: 
  test_complement:					.: (0.013092)
  test_seq:						.: (0.012386)
  test_to_biosequence:					.: (0.012332)
Bio::TestSequence: 
  test_AA_new_blank_sequence:				.: (0.000373)
  test_AA_new_sequence_all_legal_symbols:		.: (0.000197)
  test_AA_new_sequence_removes_whitespace:		.: (0.000178)
  test_AA_new_sequence_upcases_symbols:			.: (0.000175)
  test_DNA_new_blank_sequence:				.: (0.000176)
  test_DNA_new_sequence_downcases_symbols:		.: (0.000171)
  test_DNA_new_sequence_removes_whitespace:		.: (0.000176)
  test_NA_randomize_with_counts:			.: (0.000618)
  test_NA_randomize_with_counts_and_block:		.: (0.000762)
  test_RNA_new_sequence:				.: (0.000207)
  test_ambiguous_dna_sequence_complement:		.: (0.000180)
  test_ambiguous_rna_sequence_complement:		.: (0.000176)
  test_amino_acid_codes:				.: (0.000219)
  test_amino_acid_molecular_weight:			.: (0.000274)
  test_amino_acid_names:				.: (0.000226)
  test_amino_acid_randomize_can_be_chained:		.: (0.007452)
  test_amino_acid_randomize_has_same_composition:	.: (0.000604)
  test_consecutive_amino_acid_randomizes_are_not_equal:	.: (0.000942)
  test_dna_composition:					.: (0.000294)
  test_dna_gc_percent:					.: (0.000228)
  test_dna_molecular_weight:				.: (0.000246)
  test_dna_pikachu:					.: (0.000179)
  test_dna_sequence_complement:				.: (0.000165)
  test_dna_sequence_translate:				.: (0.000622)
  test_dna_to_re:					.: (0.000214)
  test_element_reference_operator_with_one_argument:	.: (0.000148)
  test_element_reference_operator_with_two_arguments:	.: (0.000138)
  test_invalid_nucleic_acid_illegal_bases:		.: (0.000186)
  test_invalid_nucleic_acid_illegal_bases_more:		.: (0.000211)
  test_nucleic_acid_names:				.: (0.000213)
  test_randomize_dna_can_be_chained:			.: (0.000320)
  test_randomize_dna_retains_composition:		.: (0.000261)
  test_randomize_dna_with_block:			.: (0.000307)
  test_rna_composition:					.: (0.000178)
  test_rna_gc_percent:					.: (0.000184)
  test_rna_molecular_weight:				.: (0.000672)
  test_rna_pikachu:					.: (0.000265)
  test_rna_sequence_complement:				.: (0.000217)
  test_rna_sequence_translate:				.: (0.000623)
  test_rna_to_re:					.: (0.000359)
  test_total:						.: (0.000193)
  test_two_consecutive_dna_randomizations_not_equal:	.: (0.000302)
  test_valid_dna_sequence_illegal_bases:		.: (0.000179)
Bio::TestSequenceAA: 
  test_codes:						.: (0.000391)
  test_molecular_weight:				.: (0.000307)
  test_names:						.: (0.000518)
  test_to_re:						.: (0.000339)
  test_to_s:						.: (0.000249)
Bio::TestSequenceAACompat: 
  test_aa_self_randomize:				.: (0.000365)
Bio::TestSequenceAANew: 
  test_new:						.: (0.000236)
  test_new_n:						.: (0.000146)
  test_new_r:						.: (0.000139)
  test_new_t:						.: (0.000132)
Bio::TestSequenceCommon::TestSequenceCommon: 
  test_composition:					.: (0.000342)
  test_concat:						.: (0.000154)
  test_push:						.: (0.000135)
  test_seq:						.: (0.000137)
  test_splicing:					.: (0.000260)
  test_sum:						.: (0.000132)
  test_to_s:						.: (0.000127)
  test_to_str:						.: (0.000129)
  test_total:						.: (0.000145)
  test_window_search:					.: (0.000445)
Bio::TestSequenceCommon::TestSequenceCommonNormalize: 
  test_no_normalize:					.: (0.000265)
  test_normalize_A:					.: (0.000134)
  test_normalize_a:					.: (0.000161)
Bio::TestSequenceCommon::TestSequenceCommonRandomize: 
  test_randomize:					.: (0.001207)
  test_randomize_with_block:				.: (0.002807)
  test_randomize_with_hash:				.: (0.000856)
  test_randomize_with_hash_block:			.: (0.002892)
Bio::TestSequenceCommon::TestSequenceCommonRandomizeChi2: 
  test_randomize_equiprobability:			O
===============================================================================
Omission: test randomly failing skipped [test_randomize_equiprobability(Bio::TestSequenceCommon::TestSequenceCommonRandomizeChi2)]
/build/reproducible-path/ruby-bio-2.0.5/test/unit/bio/sequence/test_common.rb:324:in `test_randomize_equiprobability'
===============================================================================
: (0.001524)
  test_randomize_with_hash_equiprobability:		O
===============================================================================
Omission: test randomly failing skipped [test_randomize_with_hash_equiprobability(Bio::TestSequenceCommon::TestSequenceCommonRandomizeChi2)]
/build/reproducible-path/ruby-bio-2.0.5/test/unit/bio/sequence/test_common.rb:330:in `test_randomize_with_hash_equiprobability'
===============================================================================
: (0.001326)
Bio::TestSequenceCommon::TestSequenceCommonSubseq: 
  test_subseq_returns_RuntimeError_blank_sequence_default_end:	.: (0.000459)
  test_subseq_returns_RuntimeError_start_less_than_one:	.: (0.000301)
  test_subseq_returns_subsequence:			.: (0.000173)
  test_to_s_returns_self_as_string:			.: (0.000268)
Bio::TestSequenceCommon::TestSequenceCommonWindowSearch: 
  test_window_search_with_width_3_default_step_no_residual:	.: (0.000325)
  test_window_search_with_width_3_step_two_with_residual:	.: (0.000181)
Bio::TestSequenceCompat::TestSequenceCommonCompat: 
  test_to_fasta:					.: (0.000427)
Bio::TestSequenceCompat::TestSequenceCompat: 
  test_to_s:						.: (0.000441)
Bio::TestSequenceCompat::TestSequenceNACompat: 
  test_aa_self_randomize:				.: (0.000317)
  test_na_self_randomize:				.: (0.000207)
Bio::TestSequenceDBLink: 
  test_database:					.: (0.000262)
  test_id:						.: (0.000131)
  test_secondary_ids:					.: (0.000134)
Bio::TestSequenceDBLinkClassMethods: 
  test_parse_embl_DR_line:				.: (0.000271)
  test_parse_uniprot_DR_line:				.: (0.000174)
Bio::TestSequenceFormatFormatterFasta_numeric: 
  test_output:						.: (0.000675)
  test_output_width_35:					.: (0.000376)
  test_output_width_nil:				.: (0.000306)
Bio::TestSequenceFormatFormatterQual: 
  test_output:						.: (0.000577)
  test_output_after_adding_sequence:			.: (0.000496)
  test_output_after_truncating_sequence:		.: (0.000391)
  test_output_from_error_probabilities:			.: (0.001900)
  test_output_width45:					.: (0.000321)
  test_output_with_converting_score_phred2solexa:	.: (0.000676)
  test_output_with_converting_score_solexa2phred:	.: (0.000333)
  test_output_with_default_score:			.: (0.000265)
Bio::TestSequenceMasker: 
  test_mask:						.: (0.000337)
  test_mask_with_enumerator:				.: (0.000202)
  test_mask_with_enumerator_empty_mask_char:		.: (0.000176)
  test_mask_with_enumerator_excess:			.: (0.000352)
  test_mask_with_enumerator_longer_mask_char:		.: (0.000180)
  test_mask_with_enumerator_shorter:			.: (0.000210)
  test_mask_with_error_probability:			.: (0.000194)
  test_mask_with_quality_score:				.: (0.000182)
Bio::TestSequenceNA: 
  test_at_content:					.: (0.000370)
  test_at_skew:						.: (0.000522)
  test_codon_usage:					.: (0.000257)
  test_complement:					.: (0.000173)
  test_dna:						.: (0.000167)
  test_dna!:						.: (0.000247)
  test_forward_complement:				.: (0.000301)
  test_gc_content:					.: (0.000334)
  test_gc_percent:					.: (0.000279)
  test_gc_skew:						.: (0.000433)
  test_iliegal_bases:					.: (0.000174)
  test_molecular_weight:				.: (0.000407)
  test_names:						.: (0.000322)
  test_reverse_complement:				.: (0.000256)
  test_rna:						.: (0.000230)
  test_rna!:						.: (0.000164)
  test_splicing:					.: (0.000392)
  test_to_re:						.: (0.000271)
  test_to_s:						.: (0.000153)
Bio::TestSequenceNACommon: 
  test_composition:					.: (0.000294)
  test_concat:						.: (0.000139)
  test_push:						.: (0.000121)
  test_seq:						.: (0.000125)
  test_splicing:					.: (0.000233)
  test_sum:						.: (0.000132)
  test_to_s:						.: (0.000118)
  test_to_str:						.: (0.000121)
  test_total:						.: (0.000166)
  test_window_search:					.: (0.000242)
Bio::TestSequenceNANew: 
  test_new:						.: (0.000261)
  test_new_n:						.: (0.000150)
  test_new_r:						.: (0.000130)
  test_new_t:						.: (0.000125)
Bio::TestSequenceNATranslation: 
  test_translate:					.: (0.000537)
  test_translate_0:					.: (0.000602)
  test_translate_1:					.: (0.000265)
  test_translate_2:					.: (0.000466)
  test_translate_3:					.: (0.000279)
  test_translate_4:					.: (0.000280)
  test_translate_5:					.: (0.000340)
  test_translate_6:					.: (0.000256)
  test_translate_7:					.: (0.000413)
  test_translate_given_codon_table:			.: (0.033319)
  test_translate_n1:					.: (0.000611)
  test_translate_n2:					.: (0.000518)
  test_translate_n3:					.: (0.000508)
  test_translate_unknown_o:				.: (0.000340)
  test_translate_unknown_x:				.: (0.000344)
Bio::TestSequenceQualityScore::TestConverter: 
  test_convert_nothing:					.: (0.000350)
  test_convert_scores_from_phred_to_solexa:		.: (0.000376)
  test_convert_scores_from_solexa_to_phred:		.: (0.000216)
Bio::TestSequenceQualityScore::TestPhred: 
  test_convert_nothing:					.: (0.000301)
  test_convert_scores_from_phred:			.: (0.000171)
  test_convert_scores_from_phred_to_solexa:		.: (0.000353)
  test_convert_scores_from_solexa:			.: (0.000217)
  test_convert_scores_from_solexa_to_phred:		.: (0.000206)
  test_convert_scores_to_phred:				.: (0.000148)
  test_convert_scores_to_solexa:			.: (0.000395)
  test_p2q:						.: (0.000200)
  test_phred_p2q:					.: (0.000211)
  test_phred_q2p:					.: (0.001361)
  test_q2p:						.: (0.001504)
  test_quality_score_type:				.: (0.000145)
  test_self_convert_scores_to_solexa:			.: (0.000467)
  test_self_p2q:					.: (0.000192)
  test_self_q2p:					.: (0.001328)
Bio::TestSequenceQualityScore::TestSolexa: 
  test_convert_nothing:					.: (0.000532)
  test_convert_scores_from_phred:			.: (0.000367)
  test_convert_scores_from_phred_to_solexa:		.: (0.000354)
  test_convert_scores_from_solexa:			.: (0.000129)
  test_convert_scores_from_solexa_to_phred:		.: (0.000175)
  test_convert_scores_to_phred:				.: (0.000173)
  test_convert_scores_to_solexa:			.: (0.000126)
  test_p2q:						.: (0.000221)
  test_q2p:						.: (0.002201)
  test_quality_score_type:				.: (0.000150)
  test_self_convert_scores_to_phred:			.: (0.000203)
  test_self_p2q:					.: (0.000214)
  test_self_q2p:					.: (0.001484)
  test_solexa_p2q:					.: (0.000235)
  test_solexa_q2p:					.: (0.001740)
Bio::TestSequenceRuby3::TestSequenceCommon: 
  test_capitalize:					.: (0.000508)
  test_center:						.: (0.000311)
  test_chomp:						.: (0.000286)
  test_chop:						.: (0.000230)
  test_delete:						.: (0.000274)
  test_delete_prefix:					.: (0.000192)
  test_delete_suffix:					.: (0.000467)
  test_downcase:					.: (0.000232)
  test_each_char:					.: (0.000332)
  test_each_char_enum:					.: (0.000346)
  test_each_grapheme_cluster:				.: (0.000759)
  test_each_grapheme_cluster_enum:			.: (0.000372)
  test_each_line:					.: (0.000219)
  test_each_line_enum:					.: (0.000295)
  test_gsub:						.: (0.000257)
  test_gsub_with_block:					.: (0.000455)
  test_ljust:						.: (0.000176)
  test_lstrip:						.: (0.000173)
  test_multiply:					.: (0.000279)
  test_next:						.: (0.000193)
  test_reverse:						.: (0.000153)
  test_rjust:						.: (0.000177)
  test_rstrip:						.: (0.000149)
  test_slice:						.: (0.000154)
  test_slice2:						.: (0.000149)
  test_split:						.: (0.000184)
  test_squeeze:						.: (0.006851)
  test_strip:						.: (0.000221)
  test_sub:						.: (0.000190)
  test_sub_with_block:					.: (0.000411)
  test_succ:						.: (0.000174)
  test_swapcase:					.: (0.000158)
  test_tr:						.: (0.000168)
  test_tr_s:						.: (0.000159)
  test_upcase:						.: (0.000154)
Bio::TestSequenceRuby3::TestSequenceCommonPartition: 
  test_partition:					.: (0.000333)
  test_partition_nomatch:				.: (0.000178)
  test_partition_sep_TSeq:				.: (0.000204)
  test_partition_sep_regexp:				.: (0.000189)
Bio::TestSequenceRuby3::TestSequenceCommonRpartition: 
  test_rpartition:					.: (0.001056)
  test_rpartition_nomatch:				.: (0.000264)
  test_rpartition_sep_TSeq:				.: (0.000248)
  test_rpartition_sep_regexp:				.: (0.000263)
Bio::TestShRNA: 
  test_blocK_it:					.: (0.029377)
  test_blocK_it_:					.: (0.023007)
  test_blocK_it_BLOCK_IT:				.: (0.021592)
  test_blocK_it_BLOCK_iT:				.: (0.020989)
  test_blocK_it_piGene:					.: (0.020671)
  test_bottom_strand:					.: (0.020963)
  test_bottom_strand_class:				.: (0.021289)
  test_bottom_strand_nil:				.: (0.020561)
  test_design:						.: (0.027630)
  test_design_BLOCK_IT:					.: (0.021731)
  test_report:						.: (0.021559)
  test_report_before_design:				.: (0.021791)
  test_top_strand:					.: (0.022262)
  test_top_strand_class:				.: (0.021800)
  test_top_strand_nil:					.: (0.020710)
Bio::TestShRNANew: 
  test_new:						.: (0.000517)
Bio::TestSiRNA: 
  test_antisense_size:					.: (0.000342)
  test_design:						.: (0.022880)
  test_design_reynolds:					.: (0.027159)
  test_design_uitei:					.: (0.020967)
  test_max_gc_percent:					.: (0.000209)
  test_min_gc_percent:					.: (0.000175)
  test_reynolds:					.: (0.026883)
  test_reynolds?:					.: (0.000255)
  test_uitei:						.: (0.021940)
  test_uitei?:						.: (0.000232)
Bio::TestSiRNANew: 
  test_new:						.: (0.000666)
Bio::TestSiRNAPair: 
  test_antisense:					.: (0.021361)
  test_gc_percent:					.: (0.023340)
  test_report:						.: (0.022148)
  test_rule:						.: (0.021828)
  test_sense:						.: (0.022022)
  test_start:						.: (0.022395)
  test_stop:						.: (0.021423)
  test_target:						.: (0.024393)
Bio::TestSiRNAPairNew: 
  test_new:						.: (0.000504)
Bio::TestSim4Report: 
  test_all_hits:					.: (0.000578)
  test_each:						.: (0.000389)
  test_each_hit:					.: (0.000298)
  test_hits:						.: (0.000301)
  test_num_hits:					.: (0.000273)
  test_query_def:					.: (0.000264)
  test_query_id:					.: (0.000271)
  test_query_len:					.: (0.000286)
  test_seq1:						.: (0.000335)
Bio::TestSim4Report2: 
  test_all_hits:					.: (0.000632)
  test_each:						.: (0.000307)
  test_each_hit:					.: (0.000270)
  test_hits:						.: (0.000269)
  test_num_hits:					.: (0.000248)
  test_query_def:					.: (0.000260)
  test_query_id:					.: (0.000263)
  test_query_len:					.: (0.000259)
  test_seq1:						.: (0.000277)
Bio::TestSim4Report4: 
  test_all_hits:					.: (0.001092)
  test_each:						.: (0.000305)
  test_each_hit:					.: (0.000274)
  test_hits:						.: (0.000277)
  test_num_hits:					.: (0.000251)
  test_query_def:					.: (0.000241)
  test_query_id:					.: (0.000245)
  test_query_len:					.: (0.000233)
  test_seq1:						.: (0.000324)
Bio::TestSim4ReportHit: 
  test_align:						.: (0.000455)
  test_complement?:					.: (0.000236)
  test_definition:					.: (0.000224)
  test_each:						.: (0.000403)
  test_exons:						.: (0.000356)
  test_hit_id:						.: (0.000225)
  test_hsps:						.: (0.000325)
  test_introns:						.: (0.000341)
  test_len:						.: (0.000232)
  test_query_def:					.: (0.000224)
  test_query_id:					.: (0.000223)
  test_query_len:					.: (0.000226)
  test_segmentpairs:					.: (0.000379)
  test_seq1:						.: (0.000266)
  test_seq2:						.: (0.000251)
  test_target_def:					.: (0.000217)
  test_target_id:					.: (0.000213)
  test_target_len:					.: (0.000226)
Bio::TestSim4ReportHit2: 
  test_align:						.: (0.000454)
  test_complement?:					.: (0.000340)
  test_definition:					.: (0.000219)
  test_each:						.: (0.000526)
  test_exons:						.: (0.000505)
  test_hit_id:						.: (0.000315)
  test_hsps:						.: (0.000495)
  test_introns:						.: (0.000516)
  test_len:						.: (0.000313)
  test_query_def:					.: (0.000345)
  test_query_id:					.: (0.000254)
  test_query_len:					.: (0.000291)
  test_segmentpairs:					.: (0.000509)
  test_seq1:						.: (0.000287)
  test_seq2:						.: (0.000360)
  test_target_def:					.: (0.000329)
  test_target_id:					.: (0.000298)
  test_target_len:					.: (0.000286)
Bio::TestSim4ReportHit4: 
  test_align:						.: (0.000663)
  test_complement?:					.: (0.000290)
  test_definition:					.: (0.000250)
  test_each:						.: (0.002958)
  test_exons:						.: (0.000894)
  test_hit_id:						.: (0.000356)
  test_hsps:						.: (0.000472)
  test_introns:						.: (0.000465)
  test_len:						.: (0.000249)
  test_query_def:					.: (0.000236)
  test_query_id:					.: (0.000235)
  test_query_len:					.: (0.000234)
  test_segmentpairs:					.: (0.001262)
  test_seq1:						.: (0.000636)
  test_seq2:						.: (0.000322)
  test_target_def:					.: (0.000262)
  test_target_id:					.: (0.000260)
  test_target_len:					.: (0.000305)
Bio::TestSim4ReportSegment: 
  test_from:						.: (0.000286)
  test_self_new:					.: (0.000188)
  test_seq:						.: (0.000137)
  test_to:						.: (0.000137)
Bio::TestSim4ReportSegmentPair2_exon: 
  test_align_len:					.: (0.000695)
  test_direction:					.: (0.000879)
  test_hit_from:					.: (0.000503)
  test_hit_to:						.: (0.000386)
  test_hseq:						.: (0.000473)
  test_midline:						.: (0.000462)
  test_percent_identity:				.: (0.000447)
  test_qseq:						.: (0.000387)
  test_query_from:					.: (0.000446)
  test_query_to:					.: (0.000430)
  test_seq1:						.: (0.000519)
  test_seq2:						.: (0.000506)
Bio::TestSim4ReportSegmentPair2_intron: 
  test_align_len:					.: (0.000840)
  test_direction:					.: (0.000445)
  test_hit_from:					.: (0.000384)
  test_hit_to:						.: (0.000338)
  test_hseq:						.: (0.000419)
  test_midline:						.: (0.000349)
  test_percent_identity:				.: (0.000337)
  test_qseq:						.: (0.000312)
  test_query_from:					.: (0.000416)
  test_query_to:					.: (0.000320)
  test_seq1:						.: (0.000590)
  test_seq2:						.: (0.000368)
Bio::TestSim4ReportSegmentPair4_exon: 
  test_align_len:					.: (0.000510)
  test_direction:					.: (0.000362)
  test_hit_from:					.: (0.000362)
  test_hit_to:						.: (0.000363)
  test_hseq:						.: (0.000368)
  test_midline:						.: (0.000377)
  test_percent_identity:				.: (0.000355)
  test_qseq:						.: (0.000438)
  test_query_from:					.: (0.000305)
  test_query_to:					.: (0.000398)
  test_seq1:						.: (0.000402)
  test_seq2:						.: (0.000393)
Bio::TestSim4ReportSegmentPair4_intron: 
  test_align_len:					.: (0.000552)
  test_direction:					.: (0.000370)
  test_hit_from:					.: (0.000442)
  test_hit_to:						.: (0.001189)
  test_hseq:						.: (0.000562)
  test_midline:						.: (0.000463)
  test_percent_identity:				.: (0.000400)
  test_qseq:						.: (0.000533)
  test_query_from:					.: (0.000473)
  test_query_to:					.: (0.000426)
  test_seq1:						.: (0.000422)
  test_seq2:						.: (0.000522)
Bio::TestSim4ReportSegmentPair4_intron1: 
  test_align_len:					.: (0.000673)
  test_direction:					.: (0.000515)
  test_hit_from:					.: (0.000399)
  test_hit_to:						.: (0.000502)
  test_hseq:						.: (0.000473)
  test_midline:						.: (0.000460)
  test_percent_identity:				.: (0.000381)
  test_qseq:						.: (0.000469)
  test_query_from:					.: (0.000480)
  test_query_to:					.: (0.000402)
  test_seq1:						.: (0.000451)
  test_seq2:						.: (0.000485)
Bio::TestSim4ReportSegmentPair_exon: 
  test_align_len:					.: (0.000491)
  test_direction:					.: (0.000322)
  test_hit_from:					.: (0.000304)
  test_hit_to:						.: (0.000293)
  test_hseq:						.: (0.000764)
  test_midline:						.: (0.000390)
  test_percent_identity:				.: (0.000344)
  test_qseq:						.: (0.000324)
  test_query_from:					.: (0.000305)
  test_query_to:					.: (0.000327)
  test_seq1:						.: (0.000538)
  test_seq2:						.: (0.000377)
Bio::TestSim4ReportSegmentPair_intron: 
  test_align_len:					.: (0.001455)
  test_direction:					.: (0.000896)
  test_hit_from:					.: (0.000557)
  test_hit_to:						.: (0.000502)
  test_hseq:						.: (0.000479)
  test_midline:						.: (0.000443)
  test_percent_identity:				.: (0.000422)
  test_qseq:						.: (0.000446)
  test_query_from:					.: (0.000395)
  test_query_to:					.: (0.000428)
  test_seq1:						.: (0.000845)
  test_seq2:						.: (0.000497)
Bio::TestSim4ReportSeqDesc: 
  test_definition:					.: (0.000436)
  test_entry_id:					.: (0.000214)
  test_filename:					.: (0.000221)
  test_len:						.: (0.000234)
  test_self_new:					.: (0.000246)
  test_self_parse:					.: (0.000220)
Bio::TestTMHMMReport: 
  test_entry_id:					.: (0.000580)
  test_exp_aas_in_tmhs:					.: (0.000326)
  test_exp_first_60aa:					.: (0.000324)
  test_helix:						.: (0.000377)
  test_predicted_tmhs:					.: (0.000658)
  test_query_len:					.: (0.000326)
  test_tmhs:						.: (0.000336)
  test_to_s:						.: (0.000411)
  test_total_prob_of_N_in:				.: (0.000316)
Bio::TestTMHMMReport_reports: 
  test_reports:						.: (0.001528)
Bio::TestTMHMMTMH: 
  test_entry_id:					.: (0.000499)
  test_pos:						.: (0.000319)
  test_range:						.: (0.000307)
  test_status:						.: (0.000302)
  test_version:						.: (0.000431)
Bio::TestTargetPReport: 
  test_cleavage_site_prediction:			.: (0.000556)
  test_cutoff:						.: (0.000272)
  test_entry_id:					.: (0.000334)
  test_length:						.: (0.000234)
  test_loc:						.: (0.000325)
  test_name:						.: (0.000238)
  test_networks:					.: (0.000228)
  test_prediction:					.: (0.000399)
  test_query_len:					.: (0.000235)
  test_query_sequences:					.: (0.000296)
  test_rc:						.: (0.000338)
  test_version:						.: (0.000246)
Bio::TestTargetPReportConst: 
  test_delimiter:					.: (0.000345)
  test_rs:						.: (0.000139)
Bio::TestTogoWSAccessWait: 
  test_reset_togows_access_wait:			.: (0.000242)
  test_togows_access_wait:				.: (2.000568)
Bio::TestTogoWSREST: 
  test_debug:						.: (0.000672)
  test_debug_default:					.: (0.000478)
  test_internal_http:					.: (0.005613)
Bio::TestTogoWSRESTclassMethod: 
  test_convert:						.: (0.000362)
  test_entry:						.: (0.000346)
  test_entry_database_list:				.: (0.000150)
  test_new:						.: (0.000340)
  test_new_with_uri_object:				.: (0.000364)
  test_new_with_uri_string:				.: (0.000284)
  test_retrieve:					.: (0.000156)
  test_search:						.: (0.000151)
  test_search_database_list:				.: (0.000146)
Bio::TestTogoWSRESTprivate: 
  test_make_path:					.: (0.000502)
  test_prepare_return_value:				.: (0.000320)
Bio::TestTopologicalSort: 
  test_dfs_topological_sort:				.: (0.001461)
Bio::TestTree: 
  test_get_edge_distance:				.: (0.000353)
  test_get_edge_distance_string:			.: (0.000217)
  test_get_node_name:					.: (0.000183)
  test_initialize:					.: (0.000180)
  test_options:						.: (0.000159)
  test_root:						.: (0.000139)
  test_root=:						.: (0.000264)
Bio::TestTree2: 
  test_add_edge:					.: (0.000490)
  test_add_node:					.: (0.000295)
  test_adjacency_matrix:				.: (0.000307)
  test_adjacency_matrix_with_block:			.: (0.000637)
  test_adjacent_nodes:					.: (0.000281)
  test_adjacent_nodes_nonexistent:			.: (0.000225)
  test_ancestors:					.: (0.000262)
  test_children:					.: (0.000326)
  test_clear:						.: (0.000246)
  test_clear_node:					.: (0.000271)
  test_clear_node_nonexistent:				.: (0.000315)
  test_collect_edge!:					.: (0.000325)
  test_collect_node!:					.: (0.000317)
  test_concat:						.: (0.000311)
  test_descendents:					.: (0.000239)
  test_distance_matrix:					.: (0.000585)
  test_each_edge:					.: (0.000292)
  test_each_node:					.: (0.000240)
  test_each_out_edge:					.: (0.000544)
  test_each_out_edge_chimpanzee:			.: (0.000239)
  test_each_out_edge_human:				.: (0.000219)
  test_each_out_edge_mammals:				.: (0.000259)
  test_each_out_edge_nonexistent:			.: (0.000225)
  test_each_out_edge_primates:				.: (0.000399)
  test_each_out_edge_rat:				.: (0.000265)
  test_each_out_edge_rodents:				.: (0.000260)
  test_edges:						.: (0.000212)
  test_get_edge:					.: (0.000348)
  test_get_edge_indirect:				.: (0.000203)
  test_get_edge_merged:					.: (0.000218)
  test_get_edge_nonexistent:				.: (0.000201)
  test_get_node_bootstrap:				.: (0.000215)
  test_get_node_bootstrap_string=:			.: (0.000222)
  test_get_node_by_name:				.: (0.000319)
  test_get_node_by_name_noexistent:			.: (0.000200)
  test_include?:					.: (0.000285)
  test_include_nonexistent:				.: (0.000213)
  test_insert_node:					.: (0.000281)
  test_leaves:						.: (0.000257)
  test_leaves_noargs:					.: (0.000227)
  test_lowest_common_ancestor:				.: (0.000230)
  test_nodes:						.: (0.000224)
  test_number_of_edges:					.: (0.000213)
  test_number_of_nodes:					.: (0.000201)
  test_out_degree:					.: (0.000243)
  test_out_degree_nonexistent:				.: (0.000217)
  test_out_edges:					.: (0.000322)
  test_out_edges_mammals:				.: (0.000353)
  test_out_edges_nonexistent:				.: (0.000218)
  test_out_edges_primates:				.: (0.000284)
  test_out_edges_rodents:				.: (0.000284)
  test_parent:						.: (0.000260)
  test_path:						.: (0.000234)
  test_remove_edge:					.: (0.000233)
  test_remove_edge_if:					.: (0.000237)
  test_remove_edge_if_nothing_removed:			.: (0.000250)
  test_remove_edge_nonexistent:				.: (0.000296)
  test_remove_node:					.: (0.000250)
  test_remove_node_if:					.: (0.000227)
  test_remove_node_if_false:				.: (0.000225)
  test_remove_node_nonexistent:				.: (0.000278)
  test_remove_nonsense_nodes:				.: (0.000279)
  test_subtree:						.: (0.000384)
  test_subtree_with_all_paths:				.: (0.000387)
  test_total_distance:					.: (0.000382)
Bio::TestTreeEdge: 
  test_distance:					.: (0.000351)
  test_distance=:					.: (0.000219)
  test_distance_string:					.: (0.000173)
  test_distance_string=:				.: (0.000207)
  test_initialize:					.: (0.000223)
  test_inspect:						.: (0.000183)
  test_to_s:						.: (0.000364)
Bio::TestTreeNode: 
  test_bootstrap:					.: (0.000275)
  test_bootstrap=:					.: (0.000174)
  test_bootstrap_string:				.: (0.000130)
  test_bootstrap_string=:				.: (0.000189)
  test_initialize:					.: (0.000247)
  test_inspect:						.: (0.000163)
  test_name:						.: (0.000136)
  test_to_s:						.: (0.000134)
Bio::TestUniProt: 
  test_gene_name:					.: (0.002706)
Bio::TestUniProtKB: 
  test_ac:						.: (0.009341)
  test_accession:					.: (0.003286)
  test_cc:						.: (0.021336)
  test_cc_alternative_products:				.: (0.039564)
  test_cc_database:					.: (0.005115)
  test_cc_mass_spectrometry:				.: (0.005393)
  test_de:						.: (0.002245)
  test_dr:						.: (0.006267)
  test_dr_with_key:					.: (0.005569)
  test_dr_with_key_empty:				.: (0.004111)
  test_dt:						.: (0.005759)
  test_dt_annotation:					.: (0.003227)
  test_dt_created:					.: (0.002264)
  test_dt_sequence:					.: (0.002253)
  test_entry:						.: (0.002698)
  test_ft:						.: (0.009598)
  test_gene_name:					.: (0.002972)
  test_gene_names:					.: (0.002332)
  test_gn:						.: (0.002813)
  test_gn_old_parser:					.: (0.002300)
  test_gn_uniprot_parser:				.: (0.002298)
  test_id_line:						.: (0.006225)
  test_id_line_data_class:				.: (0.002728)
  test_id_line_entry_name:				.: (0.002391)
  test_id_line_molecule_type:				.: (0.002735)
  test_id_line_sequence_length:				.: (0.002084)
  test_kw:						.: (0.002384)
  test_molecule:					.: (0.004697)
  test_oc:						.: (0.004876)
  test_og_1:						.: (0.002675)
  test_og_2:						.: (0.002473)
  test_og_3:						.: (0.002819)
  test_og_4:						.: (0.002140)
  test_og_5:						.: (0.002203)
  test_og_6:						.: (0.005215)
  test_os:						.: (0.003253)
  test_os_access:					.: (0.002370)
  test_os_access2:					.: (0.002463)
  test_ox:						.: (0.002746)
  test_protein_name:					.: (0.002275)
  test_ref:						.: (0.008889)
  test_seq:						.: (0.002905)
  test_sequence_length:					.: (0.002975)
  test_sq:						.: (0.002065)
  test_sq_crc64:					.: (0.002213)
  test_sq_len:						.: (0.005216)
  test_sq_mw:						.: (0.003337)
  test_synonyms:					.: (0.002530)
Bio::TestUniProtKB_CC: 
  test_allergen:					.: (0.000571)
  test_alternative_products_access_as_hash:		.: (0.000324)
  test_alternative_products_ai:				.: (0.000385)
  test_alternative_products_apu:			.: (0.000496)
  test_alternative_products_as:				.: (0.000414)
  test_alternative_products_rf:				.: (0.000178)
  test_biophysicochemical_properties:			.: (0.000482)
  test_biotechnology:					.: (0.000331)
  test_catalytic_activity:				.: (0.000293)
  test_caution:						.: (0.000305)
  test_cofactor:					.: (0.000292)
  test_developmental_stage:				.: (0.000327)
  test_disease:						.: (0.000415)
  test_domain:						.: (0.000395)
  test_enzyme_regulation:				.: (0.000290)
  test_function:					.: (0.000295)
  test_induction:					.: (0.000254)
  test_interaction:					.: (0.000307)
  test_mass_spectrometry:				.: (0.000321)
  test_miscellaneous:					.: (0.000251)
  test_pathway:						.: (0.000314)
  test_pharmaceutical:					.: (0.000271)
  test_polymorphism:					.: (0.000386)
  test_ptm:						.: (0.000249)
  test_rna_editing:					.: (0.000346)
  test_similarity:					.: (0.000304)
  test_subcellular_location:				.: (0.000822)
  test_subunit:						.: (0.000231)
  test_tissue_specificity:				.: (0.000275)
  test_toxic_dose:					.: (0.000233)
  test_web_resource:					.: (0.000334)
Bio::TestUniProtKB_CC_WEB_RESOURCE_since_rel12_2: 
  test_cc_web_resource:					.: (0.000463)
Bio::TestUniProtKB_DE_since_rel14_0: 
  test_private_parse_DE_line_rel14:			.: (0.000481)
  test_protein_name:					.: (0.000332)
  test_synonyms:					.: (0.000397)
Bio::TestUniProtKB_ID_since_rel9_0: 
  test_aalen:						.: (0.000377)
  test_entry:						.: (0.000182)
  test_entry_id:					.: (0.000160)
  test_entry_name:					.: (0.000171)
  test_id_line:						.: (0.000176)
  test_molecule:					.: (0.000184)
  test_sequence_length:					.: (0.000190)
Bio::TestUniProtKB_P03589: 
  test_ac:						.: (0.000670)
  test_accession:					.: (0.000457)
  test_cc:						.: (0.000663)
  test_cc_alternative_products:				.: (0.000564)
  test_cc_database:					.: (0.000569)
  test_cc_mass_spectrometry:				.: (0.000649)
  test_de:						.: (0.000457)
  test_dr:						.: (0.000647)
  test_dr_with_key:					.: (0.000602)
  test_dr_with_key_empty:				.: (0.000595)
  test_dt:						.: (0.000434)
  test_dt_annotation:					.: (0.000436)
  test_dt_created:					.: (0.000419)
  test_dt_sequence:					.: (0.000445)
  test_entry:						.: (0.000435)
  test_ft:						.: (0.000610)
  test_gene_name:					.: (0.000501)
  test_gene_names:					.: (0.000455)
  test_gn:						.: (0.003173)
  test_gn_old_parser:					.: (0.000547)
  test_gn_uniprot_parser:				.: (0.000547)
  test_id_line:						.: (0.000570)
  test_id_line_data_class:				.: (0.001252)
  test_id_line_entry_name:				.: (0.000820)
  test_id_line_sequence_length:				.: (0.000431)
  test_kw:						.: (0.000505)
  test_oc:						.: (0.000560)
  test_oh:						.: (0.001167)
  test_os:						.: (0.000459)
  test_os_access:					.: (0.000438)
  test_os_access2:					.: (0.000487)
  test_ox:						.: (0.000802)
  test_protein_name:					.: (0.000467)
  test_protein_name_after_calling_de:			.: (0.000538)
  test_ref:						.: (0.000539)
  test_seq:						.: (0.000960)
  test_sequence_length:					.: (0.000499)
  test_sq:						.: (0.000479)
  test_sq_crc64:					.: (0.000514)
  test_sq_len:						.: (0.000588)
  test_sq_mw:						.: (0.000504)
  test_synonyms:					.: (0.000540)
Bio::TestUniProtKB_P28907: 
  test_ac:						.: (0.001370)
  test_accession:					.: (0.001221)
  test_cc:						.: (0.001679)
  test_cc_alternative_products:				.: (0.002223)
  test_cc_database:					.: (0.001471)
  test_cc_mass_spectrometry:				.: (0.001422)
  test_de:						.: (0.001081)
  test_dr:						.: (0.005647)
  test_dr_with_key:					.: (0.003857)
  test_dr_with_key_empty:				.: (0.003794)
  test_dt:						.: (0.001085)
  test_dt_annotation:					.: (0.001067)
  test_dt_created:					.: (0.004187)
  test_dt_sequence:					.: (0.002046)
  test_entry:						.: (0.001710)
  test_ft:						.: (0.002067)
  test_gene_name:					.: (0.001278)
  test_gene_names:					.: (0.001157)
  test_gn:						.: (0.001146)
  test_gn_old_parser:					.: (0.001165)
  test_gn_uniprot_parser:				.: (0.001181)
  test_id_line:						.: (0.001424)
  test_id_line_data_class:				.: (0.001056)
  test_id_line_entry_name:				.: (0.000960)
  test_id_line_sequence_length:				.: (0.000976)
  test_kw:						.: (0.001102)
  test_oc:						.: (0.001044)
  test_os:						.: (0.001069)
  test_os_access:					.: (0.001086)
  test_os_access2:					.: (0.003960)
  test_ox:						.: (0.002090)
  test_protein_name:					.: (0.001697)
  test_protein_name_after_calling_de:			.: (0.001478)
  test_ref:						.: (0.003334)
  test_seq:						.: (0.001179)
  test_sequence_length:					.: (0.001250)
  test_sq:						.: (0.001094)
  test_sq_crc64:					.: (0.001646)
  test_sq_len:						.: (0.001058)
  test_sq_mw:						.: (0.001048)
  test_synonyms:					.: (0.001075)
  test_synonyms_after_calling_de:			.: (0.001171)
Bio::TestUniProtKB_P49144: 
  test_ac:						.: (0.000794)
  test_accession:					.: (0.000604)
  test_cc:						.: (0.000988)
  test_cc_alternative_products:				.: (0.000978)
  test_cc_database:					.: (0.003840)
  test_cc_mass_spectrometry:				.: (0.001008)
  test_de:						.: (0.000734)
  test_dr:						.: (0.001871)
  test_dr_with_key:					.: (0.001641)
  test_dr_with_key_empty:				.: (0.001279)
  test_dt:						.: (0.000634)
  test_dt_annotation:					.: (0.000774)
  test_dt_created:					.: (0.000581)
  test_dt_sequence:					.: (0.000550)
  test_entry:						.: (0.000838)
  test_ft:						.: (0.001436)
  test_gene_name:					.: (0.001398)
  test_gene_names:					.: (0.000704)
  test_gn:						.: (0.000594)
  test_gn_old_parser:					.: (0.000641)
  test_gn_uniprot_parser:				.: (0.000632)
  test_id_line:						.: (0.000519)
  test_id_line_data_class:				.: (0.000549)
  test_id_line_entry_name:				.: (0.000571)
  test_id_line_sequence_length:				.: (0.000550)
  test_kw:						.: (0.000627)
  test_oc:						.: (0.000606)
  test_os:						.: (0.000596)
  test_os_access:					.: (0.000610)
  test_os_access2:					.: (0.000620)
  test_ox:						.: (0.000615)
  test_protein_name:					.: (0.000652)
  test_protein_name_after_calling_de:			.: (0.000623)
  test_ref:						.: (0.003439)
  test_seq:						.: (0.001063)
  test_sequence_length:					.: (0.000716)
  test_sq:						.: (0.001468)
  test_sq_crc64:					.: (0.000728)
  test_sq_len:						.: (0.001184)
  test_sq_mw:						.: (0.000825)
  test_synonyms:					.: (0.001006)
  test_synonyms_after_calling_de:			.: (0.000779)
Bio::TestUniProtKB_Ref: 
  test_RA:						.: (0.000519)
  test_RC:						.: (0.000342)
  test_RG:						.: (0.000299)
  test_RL:						.: (0.000335)
  test_RN:						.: (0.000458)
  test_RP:						.: (0.000383)
  test_RT:						.: (0.000297)
  test_RX:						.: (0.000301)
  test_ref:						.: (0.000312)
Bio::TestUniProtKB_SwissProtRel41_0: 
  test_multiple_RP_lines:				.: (0.000354)
Bio::TestUniProtKB_SwissProtRel41_1: 
  test_alternative_products:				.: (0.000548)
  test_alternative_products_with_ft:			.: (0.000848)
Bio::TestUniProtKB_SwissProtRel41_10: 
  test_RC_lines:					.: (0.000462)
Bio::TestUniProtKB_SwissProtRel41_20: 
  test_CC_allergen:					.: (0.000426)
  test_RL_lines:					.: (0.000221)
Bio::TestUniProtKB_SwissProtRel42_6: 
  test_CC_rna_editing:					.: (0.000531)
Bio::TestUniProtKB_UniProtRel1_12: 
  test_DOI_in_RX_line:					.: (0.000317)
  test_RG_line:						.: (0.000238)
Bio::TestUniProtKB_UniProtRel2_0: 
  test_GN_line:						.: (0.000623)
Bio::TestUniProtKB_UniProtRel2_1: 
  test_CC_mass_spectrometry:				.: (0.000373)
Bio::TestUniProtKB_UniProtRel2_3: 
  test_DR_PDB:						.: (0.000298)
  test_RL_line:						.: (0.000252)
Bio::TestUniProtKB_UniProtRel3_4: 
  test_CC_biophysiochemical_properties:			.: (0.000712)
  test_RP_line:						.: (0.000313)
Bio::TestUniProtKB_UniProtRel3_5: 
  test_entry_name_format:				.: (0.000244)
Bio::TestUniProtKB_UniProtRel4_0: 
  test_CC_interaction:					.: (0.000388)
  test_CC_interaction_Different_isoforms_of_the_current_protein_are_shown_to_interact_with_the_same_protein:	.: (0.000274)
  test_CC_interaction_The_source_organisms_of_the_interacting_proteins_are_different:	.: (0.000292)
  test_CC_interaction_isoform:				.: (0.000264)
  test_CC_interaction_no_gene_name:			.: (0.000342)
  test_CC_interaction_self_association:			.: (0.000333)
Bio::TestUniProtKB_UniProtRel5_0: 
  test_DR_line:						.: (0.000369)
Bio::TestUniProtKB_UniProtRel5_4: 
  test_multiple_cofactors:				.: (0.000382)
Bio::TestUniProtKB_UniProtRel6_0: 
  test_OG_line:						.: (0.000426)
Bio::TestUniProtKB_UniProtRel6_1: 
  test_FT_metal:					.: (0.000398)
Bio::TestUniProtKB_UniProtRel6_5: 
  test_HI_line:						.: (0.000360)
Bio::TestUniProtKB_UniProtRel7_0: 
  test_CC_copyright_statement:				.: (0.000340)
  test_DT_line:						.: (0.000255)
Bio::TestUniProtKB_UniProtRel7_6: 
  test_10000aa:						.: (0.003220)
Bio::TestUniProtKB_UniProtRel8_0: 
  test_CC_alternative_products:				.: (0.000690)
  test_CC_web_resource:					.: (0.000145)
  test_FT_VER_SEQ:					.: (0.000274)
  test_OH_line_exception:				.: (0.000334)
  test_OH_lines:					.: (0.000374)
Bio::TestUtils: 
  test_centreOfGravity:					.: (0.000614)
  test_dihedral_angle:					.: (0.000501)
  test_distance:					.: (0.000503)
  test_geometricCentre:					.: (0.000301)
  test_rad2deg:						.: (0.000244)
Bio::TestWeightedGraph: 
  test_bellman_ford_on_negative_weighted_graph:		.: (0.000368)
  test_dijkstra_on_weighted_graph:			.: (0.000201)

Finished in 13.27748936 seconds.
-------------------------------------------------------------------------------
3941 tests, 21601 assertions, 0 failures, 0 errors, 0 pendings, 2 omissions, 0 notifications
100% passed
-------------------------------------------------------------------------------
296.82 tests/s, 1626.89 assertions/s
/usr/bin/ruby3.1 /usr/bin/gem2deb-test-runner

┌──────────────────────────────────────────────────────────────────────────────┐
│ Run tests for ruby3.1 from debian/ruby-tests.rake                            │
└──────────────────────────────────────────────────────────────────────────────┘

RUBYLIB=/build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/lib/ruby/vendor_ruby:. GEM_PATH=/build/reproducible-path/ruby-bio-2.0.5/debian/ruby-bio/usr/share/rubygems-integration/all:/build/reproducible-path/ruby-bio-2.0.5/debian/.debhelper/generated/_source/home/.local/share/gem/ruby/3.1.0:/var/lib/gems/3.1.0:/usr/local/lib/ruby/gems/3.1.0:/usr/lib/ruby/gems/3.1.0:/usr/lib/aarch64-linux-gnu/ruby/gems/3.1.0:/usr/share/rubygems-integration/3.1.0:/usr/share/rubygems-integration/all:/usr/lib/aarch64-linux-gnu/rubygems-integration/3.1.0 ruby3.1 -S rake --rakelibdir /gem2deb-nonexistent -f debian/ruby-tests.rake
/usr/bin/ruby3.1 -w -I"test" /usr/share/rubygems-integration/all/gems/rake-13.2.1/lib/rake/rake_test_loader.rb "test/functional/bio/sequence/test_output_embl.rb" "test/functional/bio/test_command.rb" "test/unit/bio/appl/bl2seq/test_report.rb" "test/unit/bio/appl/blast/test_ncbioptions.rb" "test/unit/bio/appl/blast/test_report.rb" "test/unit/bio/appl/blast/test_rpsblast.rb" "test/unit/bio/appl/clustalw/test_report.rb" "test/unit/bio/appl/gcg/test_msf.rb" "test/unit/bio/appl/genscan/test_report.rb" "test/unit/bio/appl/hmmer/test_report.rb" "test/unit/bio/appl/iprscan/test_report.rb" "test/unit/bio/appl/mafft/test_report.rb" "test/unit/bio/appl/meme/mast/test_report.rb" "test/unit/bio/appl/meme/test_mast.rb" "test/unit/bio/appl/meme/test_motif.rb" "test/unit/bio/appl/paml/codeml/test_rates.rb" "test/unit/bio/appl/paml/codeml/test_report.rb" "test/unit/bio/appl/paml/codeml/test_report_single.rb" "test/unit/bio/appl/paml/test_codeml.rb" "test/unit/bio/appl/sim4/test_report.rb" "test/unit/bio/appl/sosui/test_report.rb" "test/unit/bio/appl/targetp/test_report.rb" "test/unit/bio/appl/test_blast.rb" "test/unit/bio/appl/test_fasta.rb" "test/unit/bio/appl/test_pts1.rb" "test/unit/bio/appl/tmhmm/test_report.rb" "test/unit/bio/data/test_aa.rb" "test/unit/bio/data/test_codontable.rb" "test/unit/bio/data/test_na.rb" "test/unit/bio/db/embl/test_common.rb" "test/unit/bio/db/embl/test_embl.rb" "test/unit/bio/db/embl/test_embl_rel89.rb" "test/unit/bio/db/embl/test_embl_to_bioseq.rb" "test/unit/bio/db/embl/test_uniprot.rb" "test/unit/bio/db/embl/test_uniprotkb.rb" "test/unit/bio/db/embl/test_uniprotkb_P03589.rb" "test/unit/bio/db/embl/test_uniprotkb_P28907.rb" "test/unit/bio/db/embl/test_uniprotkb_P49144.rb" "test/unit/bio/db/embl/test_uniprotkb_new_part.rb" "test/unit/bio/db/fasta/test_defline.rb" "test/unit/bio/db/fasta/test_defline_misc.rb" "test/unit/bio/db/fasta/test_format_qual.rb" "test/unit/bio/db/genbank/test_common.rb" "test/unit/bio/db/genbank/test_genbank.rb" "test/unit/bio/db/genbank/test_genpept.rb" "test/unit/bio/db/kegg/test_compound.rb" "test/unit/bio/db/kegg/test_drug.rb" "test/unit/bio/db/kegg/test_enzyme.rb" "test/unit/bio/db/kegg/test_genes.rb" "test/unit/bio/db/kegg/test_genome.rb" "test/unit/bio/db/kegg/test_glycan.rb" "test/unit/bio/db/kegg/test_kgml.rb" "test/unit/bio/db/kegg/test_module.rb" "test/unit/bio/db/kegg/test_orthology.rb" "test/unit/bio/db/kegg/test_pathway.rb" "test/unit/bio/db/kegg/test_reaction.rb" "test/unit/bio/db/pdb/test_pdb.rb" "test/unit/bio/db/sanger_chromatogram/test_abif.rb" "test/unit/bio/db/sanger_chromatogram/test_scf.rb" "test/unit/bio/db/test_aaindex.rb" "test/unit/bio/db/test_fasta.rb" "test/unit/bio/db/test_fastq.rb" "test/unit/bio/db/test_gff.rb" "test/unit/bio/db/test_go.rb" "test/unit/bio/db/test_lasergene.rb" "test/unit/bio/db/test_litdb.rb" "test/unit/bio/db/test_medline.rb" "test/unit/bio/db/test_nbrf.rb" "test/unit/bio/db/test_newick.rb" "test/unit/bio/db/test_nexus.rb" "test/unit/bio/db/test_prosite.rb" "test/unit/bio/db/test_qual.rb" "test/unit/bio/db/test_rebase.rb" "test/unit/bio/db/test_soft.rb" "test/unit/bio/io/flatfile/test_autodetection.rb" "test/unit/bio/io/flatfile/test_buffer.rb" "test/unit/bio/io/flatfile/test_splitter.rb" "test/unit/bio/io/test_fastacmd.rb" "test/unit/bio/io/test_flatfile.rb" "test/unit/bio/io/test_togows.rb" "test/unit/bio/sequence/test_aa.rb" "test/unit/bio/sequence/test_common.rb" "test/unit/bio/sequence/test_compat.rb" "test/unit/bio/sequence/test_dblink.rb" "test/unit/bio/sequence/test_na.rb" "test/unit/bio/sequence/test_quality_score.rb" "test/unit/bio/sequence/test_ruby3.rb" "test/unit/bio/sequence/test_sequence_masker.rb" "test/unit/bio/test_alignment.rb" "test/unit/bio/test_command.rb" "test/unit/bio/test_db.rb" "test/unit/bio/test_feature.rb" "test/unit/bio/test_location.rb" "test/unit/bio/test_map.rb" "test/unit/bio/test_pathway.rb" "test/unit/bio/test_reference.rb" "test/unit/bio/test_sequence.rb" "test/unit/bio/test_tree.rb" "test/unit/bio/util/restriction_enzyme/analysis/test_calculated_cuts.rb" "test/unit/bio/util/restriction_enzyme/analysis/test_cut_ranges.rb" "test/unit/bio/util/restriction_enzyme/analysis/test_sequence_range.rb" "test/unit/bio/util/restriction_enzyme/double_stranded/test_aligned_strands.rb" "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_location_pair.rb" "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_location_pair_in_enzyme_notation.rb" "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_locations.rb" "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_locations_in_enzyme_notation.rb" "test/unit/bio/util/restriction_enzyme/single_strand/test_cut_locations_in_enzyme_notation.rb" "test/unit/bio/util/restriction_enzyme/test_analysis.rb" "test/unit/bio/util/restriction_enzyme/test_cut_symbol.rb" "test/unit/bio/util/restriction_enzyme/test_dense_int_array.rb" "test/unit/bio/util/restriction_enzyme/test_double_stranded.rb" "test/unit/bio/util/restriction_enzyme/test_single_strand.rb" "test/unit/bio/util/restriction_enzyme/test_single_strand_complement.rb" "test/unit/bio/util/restriction_enzyme/test_sorted_num_array.rb" "test/unit/bio/util/restriction_enzyme/test_string_formatting.rb" "test/unit/bio/util/test_color_scheme.rb" "test/unit/bio/util/test_contingency_table.rb" "test/unit/bio/util/test_restriction_enzyme.rb" "test/unit/bio/util/test_sirna.rb"  -v
Bio::UniProt is an alias of Bio::UniProtKB. Please use Bio::UniProtKB. Bio::UniProt may be deprecated in the future.
Loaded suite /usr/share/rubygems-integration/all/gems/rake-13.2.1/lib/rake/rake_test_loader
Started
Bio::External2go: 
  test_db_ids:						.: (0.000567)
  test_dbs:						.: (0.000281)
  test_go_ids:						.: (0.000230)
  test_go_terms:					.: (0.000225)
  test_parser:						.: (0.000378)
  test_set_date:					.: (0.000277)
  test_set_desc:					.: (0.000226)
  test_to_str:						.: (0.000298)
Bio::FuncTestCommandBackports: 
  test_mktmpdir_with_block:				.: (0.000637)
  test_mktmpdir_without_block:				.: (0.000510)
  test_remove_entry_secure:				.: (0.000395)
Bio::FuncTestCommandCallMisc1: 
  test_call_command:					.: (0.029699)
  test_call_command_fork:				.: (0.000231)
  test_call_command_open3:				.: (0.031564)
  test_call_command_popen:				.: (0.023807)
Bio::FuncTestCommandCallSimple: 
  test_call_command:					.: (0.015793)
  test_call_command_fork:				.: (0.000132)
  test_call_command_open3:				.: (0.019345)
  test_call_command_popen:				.: (0.031851)
Bio::FuncTestCommandCallWithSpace: 
  test_call_command:					.: (0.023770)
  test_call_command_fork:				.: (0.000174)
  test_call_command_open3:				.: (0.031652)
  test_call_command_popen:				.: (0.028274)
Bio::FuncTestCommandChdir: 
  test_call_command_chdir:				.: (0.015315)
  test_call_command_fork_chdir:				.: (0.000420)
  test_call_command_popen_chdir:			.: (0.018912)
  test_query_command_chdir:				.: (0.007836)
  test_query_command_fork_chdir:			.: (0.000404)
  test_query_command_popen_chdir:			.: (0.019211)
Bio::FuncTestCommandQuery: 
  test_query_command:					.: (0.067495)
  test_query_command_fork:				.: (0.011778)
  test_query_command_open3:				.: (0.055833)
  test_query_command_popen:				.: (0.059778)
Bio::FuncTestCommandTmpdir: 
  test_close!:						.: (0.015080)
  test_initialize:					.: (0.000545)
  test_path:						.: (0.000350)
  test_path_after_close:				.: (0.000532)
Bio::FuncTestSequenceOutputEMBL: 
  test_output_embl:					.: (0.017718)
  test_output_fasta:					.: (0.011434)
Bio::NCBIDB::TestCommon: 
  test_acc_version:					.: (0.000716)
  test_accession:					.: (0.000270)
  test_accessions:					.: (0.000247)
  test_comment:						.: (0.000213)
  test_common_name:					.: (0.000255)
  test_definition:					.: (0.000245)
  test_features:					.: (0.000393)
  test_gi:						.: (0.000239)
  test_keywords:					.: (0.000218)
  test_locus:						.: (0.000165)
  test_nid:						.: (0.000225)
  test_organism:					.: (0.006376)
  test_origin:						.: (0.000324)
  test_references:					.: (0.000575)
  test_segment:						.: (0.018844)
  test_source:						.: (0.000451)
  test_taxonomy:					.: (0.018760)
  test_version:						.: (0.000352)
  test_versions:					.: (0.000275)
Bio::TestAA: 
  test_13:						.: (0.000394)
  test_1n:						.: (0.000176)
  test_name2one:					.: (0.018513)
  test_name2three:					.: (0.000265)
  test_one2name:					.: (0.000174)
  test_one2three:					.: (0.000171)
  test_three2name:					.: (0.000153)
  test_three2one:					.: (0.000407)
  test_to_1_1:						.: (0.000171)
  test_to_1_3:						.: (0.000195)
  test_to_1_name:					.: (0.000187)
  test_to_3_1:						.: (0.000161)
  test_to_3_3:						.: (0.000151)
  test_to_3_name:					.: (0.000184)
  test_to_re:						.: (0.000216)
Bio::TestAAConstants: 
  test_bio_aminoacid:					.: (0.000291)
Bio::TestAAindex: 
  test_api:						.: (0.000284)
  test_auto_aax1:					.: (0.000901)
  test_auto_aax2:					.: (0.000305)
Bio::TestAAindex1: 
  test_author:						.: (0.000419)
  test_comment:						.: (0.000270)
  test_correlation_coefficient:				.: (0.000410)
  test_dblinks:						.: (0.000254)
  test_definition:					.: (0.000292)
  test_entry_id:					.: (0.000243)
  test_index:						.: (0.000732)
  test_journal:						.: (0.006536)
  test_title:						.: (0.000450)
Bio::TestAAindex2: 
  test_access_A_R:					.: (0.000892)
  test_access_R_A:					.: (0.000968)
  test_author:						.: (0.000427)
  test_cols:						.: (0.000227)
  test_comment:						.: (0.000277)
  test_dblinks:						.: (0.000261)
  test_definition:					.: (0.000270)
  test_entry_id:					.: (0.000267)
  test_journal:						.: (0.000271)
  test_matrix:						.: (0.000889)
  test_matrix_1_2:					.: (0.000684)
  test_matrix_2_2:					.: (0.000569)
  test_matrix_A_R:					.: (0.006978)
  test_matrix_R_A:					.: (0.000823)
  test_matrix_determinant:				.: (0.002811)
  test_matrix_rank:					.: (0.002551)
  test_matrix_transpose:				.: (0.000738)
  test_rows:						.: (0.000528)
  test_title:						.: (0.007289)
Bio::TestAAindexConstant: 
  test_delimiter:					.: (0.000343)
  test_tagsize:						.: (0.000159)
Bio::TestAbif: 
  test_complement:					.: (0.006309)
  test_seq:						.: (0.010007)
  test_to_biosequence:					.: (0.015167)
Bio::TestActsLikeMap: 
  test_mixin:						.: (0.000388)
Bio::TestActsLikeMapAndMarker: 
  test_mixin:						.: (0.000388)
Bio::TestActsLikeMarker: 
  test_mixin:						.: (0.000329)
Bio::TestAlignment: 
  test_add_seq_no_key:					.: (0.000386)
  test_add_seq_using_seq_with_aaseq_method:		.: (0.000233)
  test_add_seq_using_seq_with_definition_method:	.: (0.000187)
  test_add_seq_using_seq_with_entry_id_method:		.: (0.000198)
  test_add_seq_using_seq_with_naseq_method:		.: (0.000458)
  test_add_seq_using_seq_with_seq_method:		.: (0.000202)
  test_consensus_iupac_gap_modes:			.: (0.004849)
  test_consensus_iupac_missing_char:			.: (0.000381)
  test_consensus_iupac_missing_char_option:		.: (0.000284)
  test_consensus_iupac_no_gaps:				.: (0.000300)
  test_consensus_iupac_of_ambiguous_bases:		.: (0.000339)
  test_consensus_iupac_yields_correct_ambiguous_bases:	.: (0.002931)
  test_consensus_opt_gap_mode:				.: (0.000575)
  test_consensus_opt_missing_char:			.: (0.000259)
  test_consensus_string_no_gaps:			.: (0.002021)
  test_consensus_threshold_four_sequences:		.: (0.000427)
  test_consensus_threshold_two_sequences:		.: (0.000393)
  test_convert_match:					.: (0.000282)
  test_convert_unmatch:					.: (0.000198)
  test_convert_unmatch_different_length_sequences_truncates_seq_if_last_matched:.: (0.000189)
  test_convert_unmatch_different_match_char:		.: (0.000221)
  test_convert_unmatch_multiple_sequences:		.: (0.000258)
  test_default_gap_char:				.: (0.000131)
  test_default_gap_regexp_matches_default_gap_char:	.: (0.000170)
  test_default_missing_char:				.: (0.000174)
  test_each_site_equal_length:				.: (0.000191)
  test_each_site_unequal_length:			.: (0.000244)
  test_equals:						.: (0.000222)
  test_match_line_protein:				.: (0.000501)
  test_normalizebang_extends_sequences_with_gaps:	.: (0.000221)
  test_seq_length_is_max_seq_length:			.: (0.000234)
  test_seq_length_when_one_sequence:			.: (0.000175)
  test_seqclass_String_seq_not_present_no_seqclass_set:	.: (0.000169)
  test_seqclass_when_seqclass_set:			.: (0.000157)
  test_seqclass_when_sequence_used:			.: (0.000219)
  test_seqclass_when_sequence_used_no_seqclass_set:	.: (0.000183)
  test_set_and_get_gap_char:				.: (0.000169)
  test_store_cannot_override_key:			.: (0.000235)
  test_store_with_default_keys_and_user_defined_keys:	.: (0.000163)
  test_store_with_nil_key_uses_next_number_for_key:	.: (0.000148)
Bio::TestAlignmentEnumerableExtension: 
  test_alignment_collect:				.: (0.000318)
  test_alignment_concat:				.: (0.000272)
  test_alignment_length:				.: (0.000164)
  test_alignment_lstrip!:				.: (0.000219)
  test_alignment_lstrip_nil:				.: (0.000202)
  test_alignment_normalize!:				.: (0.000151)
  test_alignment_rstrip!:				.: (0.000267)
  test_alignment_rstrip_nil:				.: (0.000157)
  test_alignment_site:					.: (0.000165)
  test_alignment_slice:					.: (0.000200)
  test_alignment_strip!:				.: (0.000255)
  test_alignment_strip_nil:				.: (0.000224)
  test_alignment_subseq:				.: (0.000190)
  test_alignment_window:				.: (0.000184)
  test_collect_each_site:				.: (0.000174)
  test_consensus_each_site_default:			.: (0.000198)
  test_consensus_each_site_gap_mode_1:			.: (0.000225)
  test_consensus_each_site_gap_mode_minus1:		.: (0.000732)
  test_consensus_iupac:					.: (0.000414)
  test_consensus_string_default:			.: (0.000208)
  test_consensus_string_half:				.: (0.000177)
  test_convert_match:					.: (0.000187)
  test_convert_unmatch:					.: (0.000169)
  test_each_seq:					.: (0.000197)
  test_each_site:					.: (0.000212)
  test_each_site_step:					.: (0.000222)
  test_each_window:					.: (0.000231)
  test_match_line:					.: (0.000701)
  test_match_line_amino:				.: (0.000969)
  test_match_line_nuc:					.: (0.000269)
  test_private_alignment_site:				.: (0.000154)
  test_remove_all_gaps!:				.: (0.000226)
  test_seqclass:					.: (0.000158)
  test_seqclass=:					.: (0.000160)
  test_seqclass_default:				.: (0.000232)
Bio::TestAlignmentMultiFastaFormat: 
  test_alignment:					.: (0.002637)
  test_determine_seq_method:				.: (0.001504)
  test_entries:						.: (0.000464)
Bio::TestAlignmentOutput: 
  test_avoid_same_name:					.: (0.000393)
  test_avoid_same_name_numbering:			.: (0.000282)
  test_clustal_have_same_name_true:			.: (0.000203)
  test_have_same_name_false:				.: (0.000231)
Bio::TestAlignmentPropertyMethods: 
  test_gap_char=:					.: (0.000351)
  test_gap_char_default:				.: (0.000233)
  test_gap_char_never_nil:				.: (0.000195)
  test_gap_regexp:					.: (0.000160)
  test_gap_regexp=:					.: (0.000236)
  test_gap_regexp_never_nil:				.: (0.000192)
  test_get_all_property_default:			.: (0.000180)
  test_get_all_property_nodefault:			.: (0.000170)
  test_is_gap_default_false:				.: (0.000171)
  test_is_gap_default_true:				.: (0.000198)
  test_is_gap_nodefault_false:				.: (0.000154)
  test_is_gap_nodefault_true:				.: (0.000174)
  test_missing_char=:					.: (0.000151)
  test_missing_char_default:				.: (0.000142)
  test_missing_char_never_nil:				.: (0.000188)
  test_seqclass=:					.: (0.000149)
  test_seqclass_default:				.: (0.000157)
  test_seqclass_never_nil:				.: (0.000191)
  test_set_all_property:				.: (0.000158)
Bio::TestAlignmentSite: 
  test_consensus_iupac:					.: (0.000587)
  test_consensus_string_50percent:			.: (0.000241)
  test_consensus_string_50percent_nil:			.: (0.000154)
  test_consensus_string_default:			.: (0.000164)
  test_consensus_string_default_nil:			.: (0.000175)
  test_has_gap_false:					.: (0.000155)
  test_has_gap_true:					.: (0.000133)
  test_match_line_amino_100percent:			.: (0.000230)
  test_match_line_amino_missing:			.: (0.000213)
  test_match_line_amino_strong:				.: (0.000212)
  test_match_line_amino_weak:				.: (0.000199)
  test_match_line_nuc_100percent:			.: (0.000165)
  test_match_line_nuc_missing:				.: (0.000168)
  test_remove_gaps!:					.: (0.000146)
  test_remove_gaps_bang_not_removed:			.: (0.000181)
Bio::TestAtomFinder: 
  test_atoms:						.: (0.013064)
  test_each_atom:					.: (0.000374)
  test_find_atom:					.: (0.000278)
Bio::TestBioFastaDefline: 
  test_acc_version:					.: (0.000601)
  test_accession:					.: (0.000530)
  test_accessions:					.: (0.000511)
  test_description:					.: (0.000399)
  test_descriptions:					.: (0.000374)
  test_entry_id:					.: (0.000351)
  test_get:						.: (0.000396)
  test_get_all_by_type:					.: (0.000331)
  test_get_by_type:					.: (0.000347)
  test_gi:						.: (0.000405)
  test_id_strings:					.: (0.000599)
  test_locus:						.: (0.000331)
  test_method_missing:					.: (0.000398)
  test_to_s:						.: (0.000379)
  test_words:						.: (0.000602)
Bio::TestBioGOOntology: 
  test_dag_edit_format_parser:				.: (0.000911)
  test_goid2term:					.: (0.000439)
  test_parse_goids:					.: (0.000429)
Bio::TestBioGenBank: 
  test_basecount:					.: (0.000514)
  test_circular:					.: (0.000336)
  test_classification:					.: (0.000400)
  test_date:						.: (0.000351)
  test_date_modified:					.: (0.000686)
  test_division:					.: (0.006977)
  test_each_cds_feature:				.: (0.000917)
  test_each_cds_qualifiers:				.: (0.001224)
  test_each_gene:					.: (0.000845)
  test_entry_id:					.: (0.000399)
  test_length:						.: (0.000355)
  test_locus_circular:					.: (0.000379)
  test_locus_class:					.: (0.000733)
  test_locus_date:					.: (0.000504)
  test_locus_division:					.: (0.000371)
  test_locus_entry_id:					.: (0.000429)
  test_locus_length:					.: (0.000385)
  test_locus_natype:					.: (0.000386)
  test_locus_strand:					.: (0.000388)
  test_natype:						.: (0.000359)
  test_seq:						.: (0.000654)
  test_seq_len:						.: (0.000483)
  test_strand:						.: (0.000379)
  test_strandedness:					.: (0.000323)
  test_to_biosequence:					.: (0.002155)
Bio::TestBioGenPept: 
  test_circular:					.: (0.000488)
  test_date:						.: (0.000279)
  test_dbsource:					.: (0.000251)
  test_division:					.: (0.000266)
  test_entry_id:					.: (0.000481)
  test_length:						.: (0.000325)
  test_locus:						.: (0.000251)
  test_seq:						.: (0.000284)
  test_seq_len:						.: (0.000271)
Bio::TestBioKEGGGENES_b0529: 
  test_aalen:						.: (0.000545)
  test_aaseq:						.: (0.000328)
  test_chromosome:					.: (0.000273)
  test_codon_usage:					.: (0.000654)
  test_cu_list:						.: (0.000258)
  test_dblinks_as_hash:					.: (0.000317)
  test_dblinks_as_strings:				.: (0.000277)
  test_definition:					.: (0.000339)
  test_division:					.: (0.000374)
  test_eclinks:						.: (0.000337)
  test_entry:						.: (0.000258)
  test_entry_id:					.: (0.000393)
  test_gbposition:					.: (0.000297)
  test_gene:						.: (0.000279)
  test_genes:						.: (0.000255)
  test_keggclass:					.: (0.000308)
  test_keggclasses:					.: (0.000327)
  test_locations:					.: (0.000484)
  test_motifs_as_hash:					.: (0.000333)
  test_motifs_as_strings:				.: (0.000377)
  test_name:						.: (0.000305)
  test_names_as_array:					.: (0.000303)
  test_new:						.: (0.000284)
  test_ntlen:						.: (0.000344)
  test_ntseq:						.: (0.000387)
  test_organism:					.: (0.000353)
  test_orthologs_as_hash:				.: (0.000324)
  test_orthologs_as_strings:				.: (0.000267)
  test_pathway:						.: (0.000514)
  test_pathway_after_pathways_as_strings:		.: (0.000335)
  test_pathway_before_pathways_as_strings:		.: (0.000363)
  test_pathways_as_hash:				.: (0.000325)
  test_pathways_as_strings:				.: (0.000270)
  test_position:					.: (0.000296)
  test_structure:					.: (0.000279)
Bio::TestBioKEGGGENOME_T00005: 
  test_chromosomes:					.: (0.001113)
  test_comment:						.: (0.000391)
  test_data_source:					.: (0.000457)
  test_definition:					.: (0.000351)
  test_disease:						.: (0.000357)
  test_entry_id:					.: (0.000368)
  test_lineage:						.: (0.000418)
  test_nalen:						.: (0.000408)
  test_name:						.: (0.000384)
  test_new:						.: (0.000382)
  test_num_gene:					.: (0.000375)
  test_num_rna:						.: (0.000364)
  test_original_databases:				.: (0.000479)
  test_original_db:					.: (0.000401)
  test_plasmids:					.: (0.000353)
  test_references:					.: (0.001954)
  test_statistics:					.: (0.000499)
  test_taxid:						.: (0.000457)
  test_taxonomy:					.: (0.000452)
Bio::TestBioKEGGGENOME_T00070: 
  test_chromosomes:					.: (0.000491)
  test_comment:						.: (0.000457)
  test_data_source:					.: (0.000301)
  test_definition:					.: (0.000292)
  test_disease:						.: (0.000371)
  test_entry_id:					.: (0.000290)
  test_lineage:						.: (0.000343)
  test_nalen:						.: (0.000303)
  test_name:						.: (0.000328)
  test_new:						.: (0.000390)
  test_num_gene:					.: (0.000291)
  test_num_rna:						.: (0.000262)
  test_original_databases:				.: (0.000311)
  test_original_db:					.: (0.000339)
  test_plasmids:					.: (0.000393)
  test_references:					.: (0.000429)
  test_statistics:					.: (0.000266)
  test_taxid:						.: (0.000396)
  test_taxonomy:					.: (0.000334)
Bio::TestBioKEGGPATHWAY_ec00072: 
  test_compounds_as_hash:				.: (0.000454)
  test_compounds_as_strings:				.: (0.000273)
  test_dblinks_as_hash:					.: (0.000221)
  test_dblinks_as_strings:				.: (0.000233)
  test_description:					.: (0.000259)
  test_diseases_as_hash:				.: (0.000230)
  test_diseases_as_strings:				.: (0.000225)
  test_entry_id:					.: (0.000342)
  test_enzymes_as_strings:				.: (0.000245)
  test_genes_as_hash:					.: (0.000226)
  test_genes_as_strings:				.: (0.000226)
  test_keggclass:					.: (0.000270)
  test_ko_pathway:					.: (0.000289)
  test_modules_as_hash:					.: (0.000254)
  test_modules_as_strings:				.: (0.000236)
  test_name:						.: (0.000249)
  test_new:						.: (0.000261)
  test_organism:					.: (0.000259)
  test_orthologs_as_hash:				.: (0.000363)
  test_orthologs_as_strings:				.: (0.000264)
  test_pathways_as_hash:				.: (0.000246)
  test_pathways_as_strings:				.: (0.000220)
  test_reactions_as_hash:				.: (0.000248)
  test_reactions_as_strings:				.: (0.000218)
  test_references:					.: (0.000218)
  test_rel_pathways_as_hash:				.: (0.000270)
  test_rel_pathways_as_strings:				.: (0.000218)
Bio::TestBioKEGGPATHWAY_hsa00790: 
  test_compounds_as_hash:				.: (0.000698)
  test_compounds_as_strings:				.: (0.000389)
  test_dblinks_as_hash:					.: (0.000256)
  test_dblinks_as_strings:				.: (0.000264)
  test_description:					.: (0.000262)
  test_diseases_as_hash:				.: (0.000245)
  test_diseases_as_strings:				.: (0.000267)
  test_entry_id:					.: (0.000277)
  test_enzymes_as_strings:				.: (0.000297)
  test_genes_as_hash:					.: (0.000486)
  test_genes_as_strings:				.: (0.000285)
  test_keggclass:					.: (0.000278)
  test_ko_pathway:					.: (0.000290)
  test_modules_as_hash:					.: (0.000262)
  test_modules_as_strings:				.: (0.000281)
  test_name:						.: (0.000289)
  test_new:						.: (0.000297)
  test_organism:					.: (0.000390)
  test_orthologs_as_hash:				.: (0.000297)
  test_orthologs_as_strings:				.: (0.000259)
  test_pathways_as_hash:				.: (0.000270)
  test_pathways_as_strings:				.: (0.000291)
  test_reactions_as_hash:				.: (0.000300)
  test_reactions_as_strings:				.: (0.000257)
  test_references:					.: (0.000294)
  test_rel_pathways_as_hash:				.: (0.000295)
  test_rel_pathways_as_strings:				.: (0.000300)
Bio::TestBioKEGGPATHWAY_ko00312: 
  test_compounds_as_hash:				.: (0.000453)
  test_compounds_as_strings:				.: (0.000262)
  test_dblinks_as_hash:					.: (0.000218)
  test_dblinks_as_strings:				.: (0.000269)
  test_description:					.: (0.000237)
  test_diseases_as_hash:				.: (0.000229)
  test_diseases_as_strings:				.: (0.000232)
  test_entry_id:					.: (0.000264)
  test_enzymes_as_strings:				.: (0.000219)
  test_genes_as_hash:					.: (0.000221)
  test_genes_as_strings:				.: (0.000232)
  test_keggclass:					.: (0.000265)
  test_ko_pathway:					.: (0.000223)
  test_modules_as_hash:					.: (0.000213)
  test_modules_as_strings:				.: (0.000233)
  test_name:						.: (0.000237)
  test_new:						.: (0.000244)
  test_organism:					.: (0.000260)
  test_orthologs_as_hash:				.: (0.000289)
  test_orthologs_as_strings:				.: (0.000238)
  test_pathways_as_hash:				.: (0.000241)
  test_pathways_as_strings:				.: (0.000229)
  test_reactions_as_hash:				.: (0.000418)
  test_reactions_as_strings:				.: (0.000253)
  test_references:					.: (0.000254)
  test_rel_pathways_as_hash:				.: (0.000231)
  test_rel_pathways_as_strings:				.: (0.000239)
Bio::TestBioKEGGPATHWAY_map00030: 
  test_compounds_as_hash:				.: (0.000382)
  test_compounds_as_strings:				.: (0.000253)
  test_dblinks_as_hash:					.: (0.000263)
  test_dblinks_as_strings:				.: (0.000245)
  test_description:					.: (0.000564)
  test_diseases_as_hash:				.: (0.000290)
  test_diseases_as_strings:				.: (0.000244)
  test_entry_id:					.: (0.000265)
  test_enzymes_as_strings:				.: (0.000239)
  test_genes_as_hash:					.: (0.000243)
  test_genes_as_strings:				.: (0.000240)
  test_keggclass:					.: (0.000257)
  test_ko_pathway:					.: (0.000276)
  test_modules_as_hash:					.: (0.000578)
  test_modules_as_strings:				.: (0.000441)
  test_name:						.: (0.000322)
  test_new:						.: (0.000275)
  test_organism:					.: (0.000297)
  test_orthologs_as_hash:				.: (0.000300)
  test_orthologs_as_strings:				.: (0.000277)
  test_pathways_as_hash:				.: (0.000293)
  test_pathways_as_strings:				.: (0.000259)
  test_reactions_as_hash:				.: (0.000282)
  test_reactions_as_strings:				.: (0.000468)
  test_references:					.: (0.000703)
  test_rel_pathways_as_hash:				.: (0.000347)
  test_rel_pathways_as_strings:				.: (0.000301)
Bio::TestBioKeggDRUG: 
  test_activity:					.: (0.000545)
  test_comment:						.: (0.000415)
  test_dblinks_as_hash:					.: (0.000394)
  test_dblinks_as_strings:				.: (0.000301)
  test_entry_id:					.: (0.000289)
  test_formula:						.: (0.000275)
  test_kcf:						.: (0.000283)
  test_mass:						.: (0.000277)
  test_name:						.: (0.000305)
  test_names:						.: (0.000357)
  test_pathways_as_hash:				.: (0.000305)
  test_pathways_as_strings:				.: (0.000259)
  test_products:					.: (0.000322)
  test_remark:						.: (0.000305)
Bio::TestBioKeggGLYCAN: 
  test_comment:						.: (0.000430)
  test_composition:					.: (0.000297)
  test_compounds:					.: (0.000267)
  test_dblinks_as_hash:					.: (0.000478)
  test_dblinks_as_strings:				.: (0.000304)
  test_entry_id:					.: (0.000259)
  test_enzymes:						.: (0.000404)
  test_kcf:						.: (0.000261)
  test_keggclass:					.: (0.000276)
  test_mass:						.: (0.000273)
  test_name:						.: (0.000391)
  test_orthologs_as_hash:				.: (0.000340)
  test_orthologs_as_strings:				.: (0.000263)
  test_pathways_as_hash:				.: (0.000257)
  test_pathways_as_strings:				.: (0.000232)
  test_reactions:					.: (0.000303)
  test_references:					.: (0.000299)
  test_remark:						.: (0.000257)
Bio::TestBioKeggGLYCAN_G01366: 
  test_comment:						.: (0.000538)
  test_composition:					.: (0.000312)
  test_compounds:					.: (0.000296)
  test_dblinks_as_hash:					.: (0.000307)
  test_dblinks_as_strings:				.: (0.000269)
  test_entry_id:					.: (0.000284)
  test_enzymes:						.: (0.000281)
  test_kcf:						.: (0.000232)
  test_keggclass:					.: (0.000592)
  test_mass:						.: (0.000325)
  test_name:						.: (0.000254)
  test_orthologs_as_hash:				.: (0.000269)
  test_orthologs_as_strings:				.: (0.000270)
  test_pathways_as_hash:				.: (0.000230)
  test_pathways_as_strings:				.: (0.000209)
  test_reactions:					.: (0.000288)
  test_references:					.: (0.000237)
  test_remark:						.: (0.000275)
Bio::TestBioKeggPathway_rn00250: 
  test_compounds_as_hash:				.: (0.000891)
  test_compounds_as_strings:				.: (0.000361)
  test_dblinks_as_hash:					.: (0.000276)
  test_dblinks_as_strings:				.: (0.000258)
  test_description:					.: (0.000287)
  test_diseases_as_hash:				.: (0.000310)
  test_diseases_as_strings:				.: (0.000270)
  test_entry_id:					.: (0.000645)
  test_enzymes_as_strings:				.: (0.000259)
  test_genes_as_hash:					.: (0.000270)
  test_genes_as_strings:				.: (0.000283)
  test_keggclass:					.: (0.000304)
  test_ko_pathway:					.: (0.000275)
  test_modules_as_hash:					.: (0.000380)
  test_modules_as_strings:				.: (0.000300)
  test_name:						.: (0.000542)
  test_new:						.: (0.000350)
  test_organism:					.: (0.000286)
  test_orthologs_as_hash:				.: (0.000268)
  test_orthologs_as_strings:				.: (0.000269)
  test_pathways_as_hash:				.: (0.000282)
  test_pathways_as_strings:				.: (0.000250)
  test_reactions_as_hash:				.: (0.000873)
  test_reactions_as_strings:				.: (0.000390)
  test_references:					.: (0.000530)
  test_rel_pathways_as_hash:				.: (0.000372)
  test_rel_pathways_as_strings:				.: (0.000482)
Bio::TestBioLITDB: 
  test_author:						.: (0.000415)
  test_entry_id:					.: (0.000322)
  test_field:						.: (0.000264)
  test_journal:						.: (0.000231)
  test_keyword:						.: (0.000298)
  test_reference:					.: (0.000428)
  test_title:						.: (0.000289)
  test_volume:						.: (0.000485)
Bio::TestBioNBRF: 
  test_aalen:						.: (0.000391)
  test_aaseq:						.: (0.000258)
  test_entry:						.: (0.000204)
  test_length:						.: (0.000203)
  test_nalen:						.: (0.000319)
  test_naseq:						.: (0.000267)
  test_seq:						.: (0.000210)
  test_seq_class:					.: (0.000209)
  test_to_nbrf:						.: (0.000265)
Bio::TestBioTreeOutputPrivate: 
  test_to_newick_format_label:				.: (0.000361)
  test_to_newick_format_leaf:				.: (0.000319)
  test_to_newick_format_leaf_NHX:			.: (0.000231)
Bio::TestBl2seqReport: 
  test_db_len:						.: (0.000695)
  test_db_num:						.: (0.000498)
  test_new:						.: (0.000329)
  test_undefed_methods:					.: (0.001062)
  test_undefed_methods_for_iteration:			.: (0.000820)
Bio::TestBl2seqReportConstants: 
  test_rs:						.: (0.000258)
Bio::TestBl2seqReportHit: 
  test_empty_hits:					.: (0.000437)
  test_hits:						.: (0.000331)
Bio::TestBlast: 
  test_blast_reports_format0:				.: (0.004973)
  test_blast_reports_format0_with_block:		.: (0.000899)
  test_blast_reports_format7:				.: (0.009413)
  test_blast_reports_format7_with_block:		.: (0.009873)
  test_blast_reports_format7_with_parser:		.: (0.056005)
  test_blast_reports_format7_with_parser_with_block:	.: (0.010572)
  test_blast_reports_format8:				.: (0.000918)
  test_blast_reports_format8_with_block:		.: (0.000701)
  test_blast_reports_format8_with_parser:		.: (0.000402)
  test_blast_reports_format8_with_parser_with_block:	.: (0.000356)
  test_blast_reports_xml:				.: (0.009578)
  test_blast_reports_xml_with_block:			.: (0.008866)
  test_blastll:						.: (0.000319)
  test_db:						.: (0.000284)
  test_exec_genomenet:					.: (0.000226)
  test_exec_local:					.: (0.000480)
  test_exec_ncbi:					.: (0.000233)
  test_filter:						.: (0.000242)
  test_format:						.: (0.000294)
  test_make_command_line:				.: (0.000631)
  test_make_command_line_2:				.: (0.000425)
  test_matrix:						.: (0.000233)
  test_new:						.: (0.000557)
  test_new_opt_string:					.: (0.000376)
  test_option:						.: (0.000466)
  test_option_set:					.: (0.000311)
  test_option_set_m0:					.: (0.000262)
  test_options:						.: (0.000198)
  test_output:						.: (0.000191)
  test_parse_result:					.: (0.009923)
  test_parser:						.: (0.000322)
  test_program:						.: (0.000209)
  test_query:						.: (0.000392)
  test_self_local:					.: (0.000373)
  test_self_remote:					.: (0.001692)
  test_server:						.: (0.000278)
Bio::TestBlastNCBIOptions: 
  test_add_options:					.: (0.000460)
  test_delete:						.: (0.000630)
  test_equal_equal:					.: (0.000424)
  test_get:						.: (0.000351)
  test_make_command_line_options:			.: (0.000326)
  test_normalize!:					.: (0.000248)
  test_parse:						.: (0.000293)
  test_set:						.: (0.001937)
Bio::TestBlastReport: 
  test_db:						.: (0.009584)
  test_db_len:						.: (0.009216)
  test_db_num:						.: (0.008870)
  test_each_hit:					.: (0.008980)
  test_each_iteration:					.: (0.009002)
  test_eff_space:					.: (0.010854)
  test_entrez_query:					.: (0.008975)
  test_entropy:						.: (0.008803)
  test_expect:						.: (0.010424)
  test_filter:						.: (0.008682)
  test_gap_extend:					.: (0.010081)
  test_gap_open:					.: (0.009328)
  test_hits:						.: (0.008716)
  test_hsp_len:						.: (0.008558)
  test_inclusion:					.: (0.009301)
  test_iterations:					.: (0.010548)
  test_kappa:						.: (0.009967)
  test_lambda:						.: (0.008608)
  test_matrix:						.: (0.008510)
  test_message:						.: (0.008804)
  test_parameters:					.: (0.010001)
  test_pattern:						.: (0.009291)
  test_program:						.: (0.009892)
  test_query_def:					.: (0.009273)
  test_query_id:					.: (0.009160)
  test_query_len:					.: (0.011285)
  test_reference:					.: (0.009894)
  test_sc_match:					.: (0.009112)
  test_sc_mismatch:					.: (0.008602)
  test_statistics:					.: (0.009596)
  test_version:						.: (0.010926)
Bio::TestBlastReportDefault: 
  test_db:						.: (0.001034)
  test_db_len:						.: (0.000577)
  test_db_num:						.: (0.000552)
  test_each_hit:					.: (0.000527)
  test_each_iteration:					.: (0.000457)
  test_eff_space:					.: (0.000597)
  test_entropy:						.: (0.000663)
  test_expect:						.: (0.000820)
  test_gap_extend:					.: (0.000584)
  test_gap_open:					.: (0.000544)
  test_gapped_entropy:					.: (0.000487)
  test_gapped_kappa:					.: (0.000440)
  test_gapped_lambda:					.: (0.000428)
  test_hits:						.: (0.000418)
  test_iterations:					.: (0.000553)
  test_kappa:						.: (0.000529)
  test_lambda:						.: (0.000506)
  test_matrix:						.: (0.000504)
  test_message:						.: (0.000404)
  test_pattern:						.: (0.000371)
  test_program:						.: (0.000381)
  test_query_def:					.: (0.000497)
  test_query_len:					.: (0.000496)
  test_reference:					.: (0.000420)
  test_sc_match:					.: (0.000472)
  test_sc_mismatch:					.: (0.000441)
  test_version:						.: (0.000392)
Bio::TestBlastReportHit: 
  test_Hit_accession:					.: (0.009530)
  test_Hit_bit_score:					.: (0.010070)
  test_Hit_definition:					.: (0.009380)
  test_Hit_evalue:					.: (0.015245)
  test_Hit_hit_id:					.: (0.009586)
  test_Hit_hsps:					.: (0.009246)
  test_Hit_identity:					.: (0.009462)
  test_Hit_lap_at:					.: (0.009069)
  test_Hit_len:						.: (0.010222)
  test_Hit_midline:					.: (0.009544)
  test_Hit_num:						.: (0.009544)
  test_Hit_overlap:					.: (0.009603)
  test_Hit_query_def:					.: (0.009323)
  test_Hit_query_end:					.: (0.010581)
  test_Hit_query_id:					.: (0.009420)
  test_Hit_query_len:					.: (0.008925)
  test_Hit_query_seq:					.: (0.008936)
  test_Hit_query_start:					.: (0.009827)
  test_Hit_taeget_def:					.: (0.009701)
  test_Hit_target_end:					.: (0.009503)
  test_Hit_target_id:					.: (0.009010)
  test_Hit_target_len:					.: (0.008889)
  test_Hit_target_seq:					.: (0.010165)
  test_Hit_target_start:				.: (0.009345)
Bio::TestBlastReportHitDefault: 
  test_Hit_bit_score:					.: (0.000858)
  test_Hit_definition:					.: (0.000613)
  test_Hit_evalue:					.: (0.000521)
  test_Hit_hsps:					.: (0.000464)
  test_Hit_identity:					.: (0.000472)
  test_Hit_lap_at:					.: (0.000624)
  test_Hit_len:						.: (0.000557)
  test_Hit_midline:					.: (0.000577)
  test_Hit_overlap:					.: (0.000452)
  test_Hit_query_end:					.: (0.000545)
  test_Hit_query_seq:					.: (0.000559)
  test_Hit_query_start:					.: (0.000647)
  test_Hit_taeget_def:					.: (0.000493)
  test_Hit_target_end:					.: (0.000521)
  test_Hit_target_id:					.: (0.000400)
  test_Hit_target_len:					.: (0.000386)
  test_Hit_target_seq:					.: (0.000497)
  test_Hit_target_start:				.: (0.000487)
Bio::TestBlastReportHitMulti: 
  test_Hit_accession:					.: (0.025873)
  test_Hit_bit_score:					.: (0.025588)
  test_Hit_definition:					.: (0.026704)
  test_Hit_evalue:					.: (0.025731)
  test_Hit_hit_id:					.: (0.024451)
  test_Hit_hsps:					.: (0.026950)
  test_Hit_identity:					.: (0.030755)
  test_Hit_lap_at:					.: (0.039535)
  test_Hit_len:						.: (0.027937)
  test_Hit_midline:					.: (0.029179)
  test_Hit_num:						.: (0.028025)
  test_Hit_overlap:					.: (0.027992)
  test_Hit_query_def:					.: (0.030524)
  test_Hit_query_end:					.: (0.026188)
  test_Hit_query_id:					.: (0.028249)
  test_Hit_query_len:					.: (0.029629)
  test_Hit_query_seq:					.: (0.024754)
  test_Hit_query_start:					.: (0.027249)
  test_Hit_taeget_def:					.: (0.027872)
  test_Hit_target_end:					.: (0.025017)
  test_Hit_target_id:					.: (0.027081)
  test_Hit_target_len:					.: (0.028180)
  test_Hit_target_seq:					.: (0.028258)
  test_Hit_target_start:				.: (0.026644)
Bio::TestBlastReportHitMultiREXML: 
  test_Hit_accession:					.: (0.027809)
  test_Hit_bit_score:					.: (0.024719)
  test_Hit_definition:					.: (0.026468)
  test_Hit_evalue:					.: (0.027332)
  test_Hit_hit_id:					.: (0.024863)
  test_Hit_hsps:					.: (0.026525)
  test_Hit_identity:					.: (0.027499)
  test_Hit_lap_at:					.: (0.026642)
  test_Hit_len:						.: (0.026401)
  test_Hit_midline:					.: (0.027146)
  test_Hit_num:						.: (0.028858)
  test_Hit_overlap:					.: (0.026096)
  test_Hit_query_def:					.: (0.028262)
  test_Hit_query_end:					.: (0.026254)
  test_Hit_query_id:					.: (0.025660)
  test_Hit_query_len:					.: (0.027433)
  test_Hit_query_seq:					.: (0.026490)
  test_Hit_query_start:					.: (0.026159)
  test_Hit_taeget_def:					.: (0.027107)
  test_Hit_target_end:					.: (0.027562)
  test_Hit_target_id:					.: (0.025025)
  test_Hit_target_len:					.: (0.026848)
  test_Hit_target_seq:					.: (0.027136)
  test_Hit_target_start:				.: (0.025384)
Bio::TestBlastReportHitREXML: 
  test_Hit_accession:					.: (0.011034)
  test_Hit_bit_score:					.: (0.009723)
  test_Hit_definition:					.: (0.009333)
  test_Hit_evalue:					.: (0.009075)
  test_Hit_hit_id:					.: (0.009182)
  test_Hit_hsps:					.: (0.010516)
  test_Hit_identity:					.: (0.009297)
  test_Hit_lap_at:					.: (0.009360)
  test_Hit_len:						.: (0.009239)
  test_Hit_midline:					.: (0.010650)
  test_Hit_num:						.: (0.009358)
  test_Hit_overlap:					.: (0.009297)
  test_Hit_query_def:					.: (0.009130)
  test_Hit_query_end:					.: (0.009162)
  test_Hit_query_id:					.: (0.010555)
  test_Hit_query_len:					.: (0.009794)
  test_Hit_query_seq:					.: (0.009166)
  test_Hit_query_start:					.: (0.009323)
  test_Hit_taeget_def:					.: (0.010293)
  test_Hit_target_end:					.: (0.009892)
  test_Hit_target_id:					.: (0.009205)
  test_Hit_target_len:					.: (0.009029)
  test_Hit_target_seq:					.: (0.009210)
  test_Hit_target_start:				.: (0.010609)
Bio::TestBlastReportHitTabular: 
  test_Hit_accession:					.: (0.000621)
  test_Hit_bit_score:					.: (0.000319)
  test_Hit_definition:					.: (0.000273)
  test_Hit_evalue:					.: (0.000271)
  test_Hit_hit_id:					.: (0.000286)
  test_Hit_hsps:					.: (0.000267)
  test_Hit_identity:					.: (0.000260)
  test_Hit_lap_at:					.: (0.000279)
  test_Hit_len:						.: (0.000255)
  test_Hit_midline:					.: (0.000481)
  test_Hit_num:						.: (0.000320)
  test_Hit_overlap:					.: (0.000268)
  test_Hit_query_def:					.: (0.000234)
  test_Hit_query_end:					.: (0.000218)
  test_Hit_query_id:					.: (0.000226)
  test_Hit_query_len:					.: (0.000218)
  test_Hit_query_seq:					.: (0.000216)
  test_Hit_query_start:					.: (0.000223)
  test_Hit_taeget_def:					.: (0.000231)
  test_Hit_target_end:					.: (0.000331)
  test_Hit_target_id:					.: (0.000232)
  test_Hit_target_len:					.: (0.000225)
  test_Hit_target_seq:					.: (0.000226)
  test_Hit_target_start:				.: (0.000378)
Bio::TestBlastReportHsp: 
  test_Hsp_align_len:					.: (0.009886)
  test_Hsp_bit_score:					.: (0.008967)
  test_Hsp_density:					.: (0.009242)
  test_Hsp_evalue:					.: (0.011328)
  test_Hsp_gaps:					.: (0.010021)
  test_Hsp_hit_frame:					.: (0.009228)
  test_Hsp_hit_from:					.: (0.009055)
  test_Hsp_hit_to:					.: (0.009444)
  test_Hsp_hseq:					.: (0.010985)
  test_Hsp_identity:					.: (0.009378)
  test_Hsp_midline:					.: (0.008916)
  test_Hsp_mismatch_count:				.: (0.009078)
  test_Hsp_num:						.: (0.010983)
  test_Hsp_pattern_from:				.: (0.010009)
  test_Hsp_pattern_to:					.: (0.009366)
  test_Hsp_percent_identity:				.: (0.009209)
  test_Hsp_positive:					.: (0.009663)
  test_Hsp_qseq:					.: (0.011270)
  test_Hsp_query_frame:					.: (0.009774)
  test_Hsp_query_from:					.: (0.009024)
  test_Hsp_query_to:					.: (0.008940)
  test_Hsp_score:					.: (0.009616)
Bio::TestBlastReportHspDefault: 
  test_Hsp_align_len:					.: (0.001007)
  test_Hsp_bit_score:					.: (0.000619)
  test_Hsp_evalue:					.: (0.000864)
  test_Hsp_gaps:					.: (0.000629)
  test_Hsp_hit_frame:					.: (0.000580)
  test_Hsp_hit_from:					.: (0.000691)
  test_Hsp_hit_to:					.: (0.000697)
  test_Hsp_hseq:					.: (0.000929)
  test_Hsp_identity:					.: (0.000602)
  test_Hsp_midline:					.: (0.000652)
  test_Hsp_percent_identity:				.: (0.000514)
  test_Hsp_positive:					.: (0.000547)
  test_Hsp_qseq:					.: (0.000620)
  test_Hsp_query_frame:					.: (0.000471)
  test_Hsp_query_from:					.: (0.000737)
  test_Hsp_query_to:					.: (0.000518)
  test_Hsp_score:					.: (0.000445)
Bio::TestBlastReportHspMulti: 
  test_Hsp_align_len:					.: (0.025035)
  test_Hsp_bit_score:					.: (0.027919)
  test_Hsp_density:					.: (0.077489)
  test_Hsp_evalue:					.: (0.027761)
  test_Hsp_gaps:					.: (0.028914)
  test_Hsp_hit_frame:					.: (0.027063)
  test_Hsp_hit_from:					.: (0.026106)
  test_Hsp_hit_to:					.: (0.027384)
  test_Hsp_hseq:					.: (0.025420)
  test_Hsp_identity:					.: (0.026526)
  test_Hsp_midline:					.: (0.027817)
  test_Hsp_mismatch_count:				.: (0.024328)
  test_Hsp_num:						.: (0.027023)
  test_Hsp_pattern_from:				.: (0.031242)
  test_Hsp_pattern_to:					.: (0.025888)
  test_Hsp_percent_identity:				.: (0.027590)
  test_Hsp_positive:					.: (0.025524)
  test_Hsp_qseq:					.: (0.027937)
  test_Hsp_query_frame:					.: (0.027437)
  test_Hsp_query_from:					.: (0.024573)
  test_Hsp_query_to:					.: (0.027405)
  test_Hsp_score:					.: (0.026166)
Bio::TestBlastReportHspMultiREXML: 
  test_Hsp_align_len:					.: (0.026005)
  test_Hsp_bit_score:					.: (0.038516)
  test_Hsp_density:					.: (0.047656)
  test_Hsp_evalue:					.: (0.051596)
  test_Hsp_gaps:					.: (0.036876)
  test_Hsp_hit_frame:					.: (0.026160)
  test_Hsp_hit_from:					.: (0.040452)
  test_Hsp_hit_to:					.: (0.051343)
  test_Hsp_hseq:					.: (0.026241)
  test_Hsp_identity:					.: (0.033024)
  test_Hsp_midline:					.: (0.025479)
  test_Hsp_mismatch_count:				.: (0.026455)
  test_Hsp_num:						.: (0.028035)
  test_Hsp_pattern_from:				.: (0.025074)
  test_Hsp_pattern_to:					.: (0.027766)
  test_Hsp_percent_identity:				.: (0.026680)
  test_Hsp_positive:					.: (0.025627)
  test_Hsp_qseq:					.: (0.027040)
  test_Hsp_query_frame:					.: (0.025242)
  test_Hsp_query_from:					.: (0.027270)
  test_Hsp_query_to:					.: (0.029530)
  test_Hsp_score:					.: (0.025082)
Bio::TestBlastReportHspREXML: 
  test_Hsp_align_len:					.: (0.011297)
  test_Hsp_bit_score:					.: (0.010340)
  test_Hsp_density:					.: (0.009834)
  test_Hsp_evalue:					.: (0.008973)
  test_Hsp_gaps:					.: (0.009338)
  test_Hsp_hit_frame:					.: (0.009480)
  test_Hsp_hit_from:					.: (0.010157)
  test_Hsp_hit_to:					.: (0.009534)
  test_Hsp_hseq:					.: (0.009000)
  test_Hsp_identity:					.: (0.008934)
  test_Hsp_midline:					.: (0.009371)
  test_Hsp_mismatch_count:				.: (0.011010)
  test_Hsp_num:						.: (0.009857)
  test_Hsp_pattern_from:				.: (0.009011)
  test_Hsp_pattern_to:					.: (0.008873)
  test_Hsp_percent_identity:				.: (0.009283)
  test_Hsp_positive:					.: (0.011141)
  test_Hsp_qseq:					.: (0.010021)
  test_Hsp_query_frame:					.: (0.009165)
  test_Hsp_query_from:					.: (0.009071)
  test_Hsp_query_to:					.: (0.009242)
  test_Hsp_score:					.: (0.010368)
Bio::TestBlastReportHspTabular: 
  test_Hsp_align_len:					.: (0.000774)
  test_Hsp_bit_score:					.: (0.000301)
  test_Hsp_density:					.: (0.000284)
  test_Hsp_evalue:					.: (0.000280)
  test_Hsp_gaps:					.: (0.000263)
  test_Hsp_hit_frame:					.: (0.000280)
  test_Hsp_hit_from:					.: (0.000297)
  test_Hsp_hit_to:					.: (0.000259)
  test_Hsp_hseq:					.: (0.000263)
  test_Hsp_identity:					.: (0.000252)
  test_Hsp_midline:					.: (0.000243)
  test_Hsp_mismatch_count:				.: (0.000240)
  test_Hsp_num:						.: (0.000481)
  test_Hsp_pattern_from:				.: (0.000305)
  test_Hsp_pattern_to:					.: (0.000219)
  test_Hsp_percent_identity:				.: (0.000254)
  test_Hsp_positive:					.: (0.000211)
  test_Hsp_qseq:					.: (0.000207)
  test_Hsp_query_frame:					.: (0.000220)
  test_Hsp_query_from:					.: (0.000231)
  test_Hsp_query_to:					.: (0.000208)
  test_Hsp_score:					.: (0.000204)
Bio::TestBlastReportIteration: 
  test_hits:						.: (0.009400)
  test_message:						.: (0.018129)
  test_num:						.: (0.008982)
  test_statistics:					.: (0.010538)
Bio::TestBlastReportIterationDefault: 
  test_hits:						.: (0.000893)
  test_message:						.: (0.000592)
  test_num:						.: (0.000502)
Bio::TestBlastReportIterationMulti: 
  test_each:						.: (0.026484)
  test_hits:						.: (0.027512)
  test_message:						.: (0.025049)
  test_num:						.: (0.026886)
  test_query_def:					.: (0.027763)
  test_query_id:					.: (0.026737)
  test_query_len:					.: (0.028401)
  test_statistics:					.: (0.036597)
Bio::TestBlastReportIterationMultiREXML: 
  test_each:						.: (0.026186)
  test_hits:						.: (0.031028)
  test_message:						.: (0.026478)
  test_num:						.: (0.034603)
  test_query_def:					.: (0.043945)
  test_query_id:					.: (0.025648)
  test_query_len:					.: (0.026378)
  test_statistics:					.: (0.028245)
Bio::TestBlastReportIterationREXML: 
  test_hits:						.: (0.009365)
  test_message:						.: (0.009002)
  test_num:						.: (0.009889)
  test_statistics:					.: (0.010582)
Bio::TestBlastReportIterationTabular: 
  test_hits:						.: (0.000579)
  test_message:						.: (0.000337)
  test_num:						.: (0.000319)
  test_statistics:					.: (0.000301)
Bio::TestBlastReportMulti: 
  test_db:						.: (0.026213)
  test_db_len:						.: (0.029151)
  test_db_num:						.: (0.025457)
  test_each_hit:					.: (0.027144)
  test_each_iteration:					.: (0.028119)
  test_eff_space:					.: (0.025070)
  test_entropy:						.: (0.030289)
  test_expect:						.: (0.028259)
  test_filter:						.: (0.026364)
  test_gap_extend:					.: (0.027393)
  test_gap_open:					.: (0.027553)
  test_hits:						.: (0.025341)
  test_hsp_len:						.: (0.027262)
  test_iterations:					.: (0.027696)
  test_kappa:						.: (0.025312)
  test_lambda:						.: (0.027628)
  test_matrix:						.: (0.027984)
  test_message:						.: (0.026832)
  test_parameters:					.: (0.028099)
  test_pattern:						.: (0.028442)
  test_program:						.: (0.025191)
  test_query_def:					.: (0.028270)
  test_query_id:					.: (0.029387)
  test_query_len:					.: (0.025685)
  test_reference:					.: (0.032268)
  test_reports:						.: (0.028847)
  test_statistics:					.: (0.031330)
  test_version:						.: (0.027543)
Bio::TestBlastReportMultiREXML: 
  test_db:						.: (0.029334)
  test_db_len:						.: (0.029143)
  test_db_num:						.: (0.031397)
  test_each_hit:					.: (0.030471)
  test_each_iteration:					.: (0.028474)
  test_eff_space:					.: (0.029983)
  test_entropy:						.: (0.033494)
  test_expect:						.: (0.027558)
  test_filter:						.: (0.027742)
  test_gap_extend:					.: (0.027579)
  test_gap_open:					.: (0.027720)
  test_hits:						.: (0.027519)
  test_hsp_len:						.: (0.027683)
  test_iterations:					.: (0.030044)
  test_kappa:						.: (0.026410)
  test_lambda:						.: (0.027317)
  test_matrix:						.: (0.027537)
  test_message:						.: (0.025946)
  test_parameters:					.: (0.027238)
  test_pattern:						.: (0.028745)
  test_program:						.: (0.030314)
  test_query_def:					.: (0.032898)
  test_query_id:					.: (0.033284)
  test_query_len:					.: (0.027841)
  test_reference:					.: (0.028314)
  test_reports:						.: (0.029574)
  test_statistics:					.: (0.030424)
  test_version:						.: (0.025755)
Bio::TestBlastReportREXML: 
  test_db:						.: (0.013434)
  test_db_len:						.: (0.010477)
  test_db_num:						.: (0.009278)
  test_each_hit:					.: (0.008879)
  test_each_iteration:					.: (0.011581)
  test_eff_space:					.: (0.011125)
  test_entrez_query:					.: (0.010161)
  test_entropy:						.: (0.008968)
  test_expect:						.: (0.009450)
  test_filter:						.: (0.011708)
  test_gap_extend:					.: (0.009743)
  test_gap_open:					.: (0.009029)
  test_hits:						.: (0.011896)
  test_hsp_len:						.: (0.010118)
  test_inclusion:					.: (0.009578)
  test_iterations:					.: (0.012027)
  test_kappa:						.: (0.010479)
  test_lambda:						.: (0.011523)
  test_matrix:						.: (0.011179)
  test_message:						.: (0.010347)
  test_parameters:					.: (0.011800)
  test_pattern:						.: (0.011947)
  test_program:						.: (0.013268)
  test_query_def:					.: (0.009484)
  test_query_id:					.: (0.011223)
  test_query_len:					.: (0.009117)
  test_reference:					.: (0.011538)
  test_sc_match:					.: (0.012063)
  test_sc_mismatch:					.: (0.009757)
  test_statistics:					.: (0.009942)
  test_version:						.: (0.010449)
Bio::TestBlastReportTabular: 
  test_db:						.: (0.000609)
  test_db_len:						.: (0.000248)
  test_db_num:						.: (0.000228)
  test_each_hit:					.: (0.000271)
  test_each_iteration:					.: (0.000226)
  test_eff_space:					.: (0.000230)
  test_entrez_query:					.: (0.000389)
  test_entropy:						.: (0.000275)
  test_expect:						.: (0.000223)
  test_filter:						.: (0.000217)
  test_gap_extend:					.: (0.000213)
  test_gap_open:					.: (0.000217)
  test_hits:						.: (0.000236)
  test_hsp_len:						.: (0.000234)
  test_inclusion:					.: (0.000194)
  test_iterations:					.: (0.000194)
  test_kappa:						.: (0.000194)
  test_lambda:						.: (0.000192)
  test_matrix:						.: (0.000198)
  test_message:						.: (0.000208)
  test_parameters:					.: (0.000203)
  test_pattern:						.: (0.000364)
  test_program:						.: (0.000234)
  test_query_def:					.: (0.000211)
  test_query_id:					.: (0.000197)
  test_query_len:					.: (0.000212)
  test_reference:					.: (0.000202)
  test_sc_match:					.: (0.000199)
  test_sc_mismatch:					.: (0.000197)
  test_statistics:					.: (0.000203)
  test_version:						.: (0.000195)
Bio::TestChain: 
  test_aaseq:						.: (0.000428)
  test_addLigand:					.: (0.000161)
  test_addResidue:					.: (0.000296)
  test_atom_seq:					.: (0.000176)
  test_comp:						.: (0.000214)
  test_each:						.: (0.000155)
  test_each_heterogen:					.: (0.000159)
  test_each_residue:					.: (0.000159)
  test_get_heterogen_by_id:				.: (0.000157)
  test_get_residue_by_id:				.: (0.000146)
  test_inspect:						.: (0.000200)
  test_rehash:						.: (0.000157)
  test_rehash_heterogens:				.: (0.000128)
  test_rehash_residues:					.: (0.000488)
  test_square_brace:					.: (0.000179)
  test_to_s:						.: (0.000181)
Bio::TestChainFinder: 
  test_chains:						.: (0.000572)
  test_each_chain:					.: (0.000178)
  test_find_chain:					.: (0.000151)
Bio::TestClustalWReport::TestClustalWReport: 
  test_alignment:					.: (0.007708)
  test_header:						.: (0.000703)
  test_match_line:					.: (0.000585)
  test_sequence0:					.: (0.000737)
  test_sequence1:					.: (0.000599)
Bio::TestClustalWReport::TestClustalWReportSeqnos: 
  test_alignment:					.: (0.006288)
  test_header:						.: (0.001381)
  test_match_line:					.: (0.000904)
  test_sequence0:					.: (0.000759)
  test_sequence1:					.: (0.000994)
Bio::TestClustalWReport::TestClustalWReportWith2ndArgument: 
  test_alignment:					.: (0.007369)
  test_header:						.: (0.000945)
  test_match_line:					.: (0.000667)
  test_sequence0:					.: (0.000619)
  test_sequence1:					.: (0.000690)
Bio::TestCodonTable: 
  test_Tables:						.: (0.000319)
  test_accessor:					.: (0.000187)
  test_definition:					.: (0.000160)
  test_each:						.: (0.000178)
  test_revtrans:					.: (0.000234)
  test_self_accessor:					.: (0.000152)
  test_self_copy:					.: (0.000666)
  test_set_accessor:					.: (0.113062)
  test_start:						.: (0.000208)
  test_start_codon?:					.: (0.000186)
  test_stop:						.: (0.000168)
  test_stop_codon?:					.: (0.000197)
  test_table:						.: (0.000192)
Bio::TestCodonTableConstants: 
  test_Definitions:					.: (0.000337)
  test_Starts:						.: (0.000230)
  test_Tables:						.: (0.000152)
  test_stops:						.: (0.000182)
Bio::TestColorScheme: 
  test_buried:						.: (0.001098)
Bio::TestCommand: 
  test_command_constants:				.: (0.000298)
  test_escape_shell:					.: (0.000220)
  test_escape_shell_unix:				.: (0.000185)
  test_escape_shell_windows:				.: (0.000200)
  test_make_cgi_params_by_array_of_array:		.: (0.000351)
  test_make_cgi_params_by_array_of_hash:		.: (0.000313)
  test_make_cgi_params_by_array_of_string:		.: (0.000195)
  test_make_cgi_params_by_hash_in_string:		.: (0.000549)
  test_make_cgi_params_by_hash_in_symbol:		.: (0.000408)
  test_make_cgi_params_by_string:			.: (0.000222)
  test_make_command_line:				.: (0.000179)
  test_make_command_line_unix:				.: (0.000168)
  test_make_command_line_windows:			.: (0.000160)
  test_safe_command_line_array:				.: (0.000200)
  test_safe_command_line_array_passthrough:		.: (0.000164)
Bio::TestContingencyTable: 
  test_lite_example:					.: (0.110103)
Bio::TestDB: 
  test_entry_id:					.: (0.000414)
  test_exists:						.: (0.000204)
  test_fetch:						.: (0.000230)
  test_get:						.: (0.000186)
  test_open:						.: (0.000162)
  test_tags:						.: (0.000177)
Bio::TestDataType: 
  test_const_like_method:				.: (0.000609)
  test_pdb_achar:					.: (0.000325)
  test_pdb_atom:					.: (0.000291)
  test_pdb_character:					.: (0.000322)
  test_pdb_date:					.: (0.000278)
  test_pdb_idcode:					.: (0.000296)
  test_pdb_integer:					.: (0.000167)
  test_pdb_list:					.: (0.000169)
  test_pdb_lstring:					.: (0.000253)
  test_pdb_real:					.: (0.000202)
  test_pdb_resudue_name:				.: (0.000260)
  test_pdb_slist:					.: (0.000163)
  test_pdb_string:					.: (0.000279)
  test_pdb_stringrj:					.: (0.000155)
  test_pdb_symop:					.: (0.000264)
  test_specification_list:				.: (0.000179)
Bio::TestEMBL: 
  test_ac:						.: (0.000569)
  test_accession:					.: (0.000362)
  test_cc:						.: (0.000439)
  test_de:						.: (0.000388)
  test_division:					.: (0.000377)
  test_dr:						.: (0.000368)
  test_dt:						.: (0.000343)
  test_dt_created:					.: (0.000448)
  test_dt_iterator:					.: (0.000341)
  test_dt_updated:					.: (0.000319)
  test_each_cds:					.: (0.000518)
  test_each_gene:					.: (0.000624)
  test_entry:						.: (0.000459)
  test_fh:						.: (0.000341)
  test_ft:						.: (0.002391)
  test_ft_accessor:					.: (0.000549)
  test_ft_iterator:					.: (0.000637)
  test_id_line:						.: (0.001762)
  test_id_line_data_class:				.: (0.000531)
  test_id_line_division:				.: (0.000489)
  test_id_line_entry_name:				.: (0.000441)
  test_id_line_iterator:				.: (0.000402)
  test_id_line_molecule_type:				.: (0.000509)
  test_id_line_sequence_length:				.: (0.000393)
  test_kw:						.: (0.000414)
  test_molecule:					.: (0.000410)
  test_oc:						.: (0.000535)
  test_og:						.: (0.000354)
  test_os:						.: (0.000399)
  test_ref:						.: (0.000562)
  test_references:					.: (0.000600)
  test_seq:						.: (0.000580)
  test_sequence_length:					.: (0.000494)
  test_sq:						.: (0.000374)
  test_sq_get:						.: (0.000363)
  test_sv:						.: (0.000340)
  test_version:						.: (0.000336)
Bio::TestEMBL89: 
  test_ac:						.: (0.000492)
  test_accession:					.: (0.000351)
  test_cc:						.: (0.000305)
  test_de:						.: (0.000336)
  test_division:					.: (0.000413)
  test_dr:						.: (0.000306)
  test_dt:						.: (0.000316)
  test_dt_created:					.: (0.000303)
  test_dt_iterator:					.: (0.000317)
  test_dt_updated:					.: (0.000321)
  test_each_cds:					.: (0.001839)
  test_each_gene:					.: (0.000983)
  test_entry:						.: (0.000531)
  test_fh:						.: (0.000402)
  test_ft:						.: (0.000471)
  test_ft_accessor:					.: (0.000439)
  test_ft_iterator:					.: (0.000535)
  test_id_line:						.: (0.000382)
  test_id_line_data_class:				.: (0.000386)
  test_id_line_division:				.: (0.000389)
  test_id_line_entry_name:				.: (0.000498)
  test_id_line_iterator:				.: (0.000381)
  test_id_line_molecule_type:				.: (0.000349)
  test_id_line_sequence_length:				.: (0.000346)
  test_id_line_sequence_version:			.: (0.000456)
  test_kw:						.: (0.000385)
  test_molecule:					.: (0.000400)
  test_oc:						.: (0.000422)
  test_og:						.: (0.000410)
  test_os:						.: (0.000367)
  test_ref:						.: (0.000406)
  test_references:					.: (0.000549)
  test_seq:						.: (0.000562)
  test_sequence_length:					.: (0.000361)
  test_sq:						.: (0.000411)
  test_sq_get:						.: (0.000374)
  test_sv:						.: (0.000365)
  test_version:						.: (0.000343)
Bio::TestEMBLAPI: 
  test_ac:						.: (0.000345)
  test_accessions:					.: (0.000197)
Bio::TestEMBLCommon: 
  test_ac:						.: (0.000269)
  test_accession:					.: (0.000139)
  test_accessions:					.: (0.000135)
  test_de:						.: (0.000162)
  test_definition:					.: (0.000134)
  test_description:					.: (0.000130)
  test_dr:						.: (0.000129)
  test_keywords:					.: (0.000130)
  test_kw:						.: (0.000132)
  test_oc:						.: (0.000126)
  test_og:						.: (0.000134)
  test_os:						.: (0.000132)
  test_ref:						.: (0.000132)
  test_references:					.: (0.000120)
Bio::TestEMBLDB: 
  test_fetch:						.: (0.000356)
  test_p_entry2hash:					.: (0.000137)
Bio::TestEMBLToBioSequence: 
  test_classification:					.: (0.002448)
  test_date_created:					.: (0.000643)
  test_date_modified:					.: (0.000513)
  test_definition:					.: (0.000422)
  test_division:					.: (0.000445)
  test_entry_id:					.: (0.000462)
  test_entry_version:					.: (0.000414)
  test_features:					.: (0.000521)
  test_keywords:					.: (0.000425)
  test_molecule_type:					.: (0.000514)
  test_primary_accession:				.: (0.000406)
  test_references:					.: (0.000580)
  test_release_created:					.: (0.000462)
  test_release_modified:				.: (0.000399)
  test_secondary_accessions:				.: (0.000401)
  test_sequence_version:				.: (0.000425)
  test_species:						.: (0.000446)
  test_topology:					.: (0.000425)
Bio::TestEMBLToBioSequenceRoundTrip: 
  test_classification:					.: (0.002532)
  test_date_created:					.: (0.002275)
  test_date_modified:					.: (0.002632)
  test_definition:					.: (0.002718)
  test_division:					.: (0.002644)
  test_entry_id:					.: (0.002820)
  test_entry_version:					.: (0.002796)
  test_features:					.: (0.009147)
  test_keywords:					.: (0.002945)
  test_molecule_type:					.: (0.002894)
  test_primary_accession:				.: (0.002691)
  test_references:					.: (0.002802)
  test_release_created:					.: (0.002721)
  test_release_modified:				.: (0.002531)
  test_secondary_accessions:				.: (0.002535)
  test_sequence_version:				.: (0.002546)
  test_species:						.: (0.002476)
  test_topology:					.: (0.002437)
Bio::TestFasta: 
  test_db:						.: (0.000321)
  test_format:						.: (0.000178)
  test_format_arg_integer:				.: (0.000181)
  test_format_arg_str:					.: (0.000154)
  test_ktup:						.: (0.000154)
  test_matrix:						.: (0.000154)
  test_option:						.: (0.000324)
  test_options:						.: (0.000165)
  test_output:						.: (0.000126)
  test_program:						.: (0.000130)
  test_server:						.: (0.000151)
Bio::TestFastaDeflineEmb: 
  test_acc_version:					.: (0.000303)
  test_accession:					.: (0.000200)
  test_accessions:					.: (0.000169)
  test_description:					.: (0.000147)
  test_descriptions:					.: (0.000150)
  test_entry_id:					.: (0.000137)
  test_get_all_by_type:					.: (0.000180)
  test_gi:						.: (0.000157)
  test_id_strings:					.: (0.000208)
  test_list_ids:					.: (0.000167)
  test_locus:						.: (0.000157)
  test_words:						.: (0.000199)
Bio::TestFastaDeflineGI1: 
  test_acc_version:					.: (0.000337)
  test_accession:					.: (0.000172)
  test_accessions:					.: (0.000204)
  test_description:					.: (0.000165)
  test_descriptions:					.: (0.000166)
  test_emb:						.: (0.000178)
  test_entry_id:					.: (0.000154)
  test_get_all_by_type:					.: (0.000158)
  test_get_emb:						.: (0.000155)
  test_gi:						.: (0.000159)
  test_id_strings:					.: (0.000319)
  test_list_ids:					.: (0.000156)
  test_locus:						.: (0.000205)
  test_words:						.: (0.000219)
Bio::TestFastaDeflineGI2: 
  test_acc_version:					.: (0.000273)
  test_accession:					.: (0.000169)
  test_accessions:					.: (0.000160)
  test_description:					.: (0.000152)
  test_descriptions:					.: (0.000161)
  test_entry_id:					.: (0.000163)
  test_get_all_by_type:					.: (0.000162)
  test_gi:						.: (0.000151)
  test_id_strings:					.: (0.000325)
  test_list_ids:					.: (0.000153)
  test_locus:						.: (0.000215)
  test_sp:						.: (0.000180)
  test_words:						.: (0.000199)
Bio::TestFastaDeflineGIMultiple: 
  test_acc_version:					.: (0.000316)
  test_accession:					.: (0.000192)
  test_accessions:					.: (0.000199)
  test_description:					.: (0.000171)
  test_descriptions:					.: (0.000180)
  test_entry_id:					.: (0.000297)
  test_get_all_by_type:					.: (0.000178)
  test_gi:						.: (0.000212)
  test_id_strings:					.: (0.000318)
  test_list_ids:					.: (0.000189)
  test_locus:						.: (0.000188)
  test_words:						.: (0.000273)
Bio::TestFastaDeflineSce: 
  test_acc_version:					.: (0.000288)
  test_accession:					.: (0.000202)
  test_accessions:					.: (0.000205)
  test_description:					.: (0.000194)
  test_descriptions:					.: (0.000194)
  test_entry_id:					.: (0.000183)
  test_get_all_by_type:					.: (0.000219)
  test_gi:						.: (0.000200)
  test_id_strings:					.: (0.000267)
  test_list_ids:					.: (0.000194)
  test_locus:						.: (0.000174)
  test_words:						.: (0.000255)
Bio::TestFastaDeflineSimple: 
  test_acc_version:					.: (0.000267)
  test_accession:					.: (0.000169)
  test_accessions:					.: (0.000151)
  test_description:					.: (0.000138)
  test_descriptions:					.: (0.000187)
  test_entry_id:					.: (0.000137)
  test_get_all_by_type:					.: (0.000138)
  test_gi:						.: (0.000150)
  test_id_strings:					.: (0.000202)
  test_list_ids:					.: (0.000147)
  test_locus:						.: (0.000154)
  test_words:						.: (0.000168)
Bio::TestFastaDeflineSwissProt: 
  test_acc_version:					.: (0.000285)
  test_accession:					.: (0.000161)
  test_accessions:					.: (0.000150)
  test_description:					.: (0.000148)
  test_descriptions:					.: (0.000227)
  test_entry_id:					.: (0.000159)
  test_get:						.: (0.000166)
  test_get_all_by_type:					.: (0.000152)
  test_id_strings:					.: (0.000219)
  test_list_ids:					.: (0.000157)
  test_locus:						.: (0.000159)
  test_sp:						.: (0.000177)
  test_words:						.: (0.000215)
Bio::TestFastaDeflineTrembl: 
  test_acc_version:					.: (0.000282)
  test_accession:					.: (0.002108)
  test_accessions:					.: (0.000274)
  test_description:					.: (0.000483)
  test_descriptions:					.: (0.000152)
  test_entry_id:					.: (0.000161)
  test_get:						.: (0.000169)
  test_get_all_by_type:					.: (0.000187)
  test_id_strings:					.: (0.000270)
  test_list_ids:					.: (0.000162)
  test_locus:						.: (0.000160)
  test_tr:						.: (0.000183)
  test_words:						.: (0.000270)
Bio::TestFastaFirstName: 
  test_first_name1:					.: (0.000303)
  test_first_name_multi_identifier:			.: (0.000391)
  test_first_name_single_worded_defintion:		.: (0.000157)
  test_no_definition:					.: (0.000143)
  test_space_before_first_name:				.: (0.000149)
  test_tabbed_defintion:				.: (0.000172)
Bio::TestFastaFormat: 
  test_aalen:						.: (0.000315)
  test_aaseq:						.: (0.000170)
  test_acc_version:					.: (0.000254)
  test_accession:					.: (0.000236)
  test_accessions:					.: (0.000238)
  test_data:						.: (0.000187)
  test_definition:					.: (0.000173)
  test_entry:						.: (0.000170)
  test_entry_id:					.: (0.000237)
  test_entry_overrun:					.: (0.000550)
  test_first_name:					.: (0.000198)
  test_gi:						.: (0.000243)
  test_identifiers:					.: (0.000209)
  test_length:						.: (0.000183)
  test_query:						.: (0.000176)
  test_seq:						.: (0.000162)
Bio::TestFastaFormatConst: 
  test_delimiter:					.: (0.000268)
Bio::TestFastaFormatKeggGenesAA: 
  test_acc_version:					.: (0.000339)
  test_data:						.: (0.000239)
  test_definition:					.: (0.000192)
  test_entry:						.: (0.000165)
  test_entry_id:					.: (0.000486)
  test_first_name:					.: (0.000264)
Bio::TestFastaFormatKeggGenesNT: 
  test_nalen:						.: (0.000338)
  test_naseq:						.: (0.000154)
  test_naseq_class:					.: (0.000178)
Bio::TestFastaFormatSwissProt: 
  test_locus:						.: (0.000368)
Bio::TestFastaInitialize: 
  test_new_1:						.: (0.000511)
  test_option:						.: (0.000155)
  test_option_backward_compatibility:			.: (0.000188)
Bio::TestFastaNumericFormat: 
  test_arg:						.: (0.000588)
  test_data:						.: (0.000186)
  test_definition:					.: (0.000134)
  test_each:						.: (0.000172)
  test_entry:						.: (0.000146)
  test_entry_id:					.: (0.000195)
  test_length:						.: (0.000185)
  test_to_biosequence:					.: (0.000943)
Bio::TestFastaQuery: 
  test_query:						.: (0.000229)
  test_self_local:					.: (0.000103)
  test_self_parser:					.: (0.000103)
  test_self_remote:					.: (0.000226)
Bio::TestFastacmd: 
  test_database:					.: (0.000303)
  test_fastacmd:					.: (0.000140)
  test_methods:						.: (0.000185)
Bio::TestFastq::TestFastq_error_diff_ids: 
  test_validate_format:					.: (0.004798)
Bio::TestFastq::TestFastq_error_double_qual: 
  test_validate_format:					.: (0.000794)
Bio::TestFastq::TestFastq_error_double_seq: 
  test_validate_format:					.: (0.000645)
Bio::TestFastq::TestFastq_error_long_qual: 
  test_validate_format:					.: (0.000948)
Bio::TestFastq::TestFastq_error_no_qual: 
  test_validate_format:					.: (0.000782)
Bio::TestFastq::TestFastq_error_qual_del: 
  test_validate_format:					.: (0.000638)
Bio::TestFastq::TestFastq_error_qual_escape: 
  test_validate_format:					.: (0.000628)
Bio::TestFastq::TestFastq_error_qual_null: 
  test_validate_format:					.: (0.000773)
Bio::TestFastq::TestFastq_error_qual_space: 
  test_validate_format:					.: (0.000633)
Bio::TestFastq::TestFastq_error_qual_tab: 
  test_validate_format:					.: (0.000540)
Bio::TestFastq::TestFastq_error_qual_unit_sep: 
  test_validate_format:					.: (0.000803)
Bio::TestFastq::TestFastq_error_qual_vtab: 
  test_validate_format:					.: (0.000606)
Bio::TestFastq::TestFastq_error_short_qual: 
  test_validate_format:					.: (0.000515)
Bio::TestFastq::TestFastq_error_spaces: 
  test_validate_format:					.: (0.001249)
Bio::TestFastq::TestFastq_error_tabs: 
  test_validate_format:					.: (0.001329)
Bio::TestFastq::TestFastq_error_trunc_at_plus: 
  test_validate_format:					.: (0.000676)
Bio::TestFastq::TestFastq_error_trunc_at_qual: 
  test_validate_format:					.: (0.000535)
Bio::TestFastq::TestFastq_error_trunc_at_seq: 
  test_validate_format:					.: (0.000486)
Bio::TestFastq::TestFastq_illumina_full_range: 
  test_error_probabilities_as_illumina:			.: (0.002290)
  test_error_probabilities_as_sanger:			.: (0.002206)
  test_error_probabilities_as_solexa:			.: (0.002266)
  test_quality_scores_as_illumina:			.: (0.000761)
  test_quality_scores_as_sanger:			.: (0.000399)
  test_quality_scores_as_solexa:			.: (0.000411)
  test_validate_format:					.: (0.000561)
Bio::TestFastq::TestFastq_longreads_original_sanger: 
  test_definition:					.: (0.001141)
  test_entry_id:					.: (0.000830)
  test_error_probabilities:				.: (0.097253)
  test_nalen:						.: (0.001251)
  test_naseq:						.: (0.000972)
  test_quality_scores:					.: (0.001679)
  test_quality_string:					.: (0.000992)
  test_roundtrip:					.: (0.057803)
  test_seq:						.: (0.001474)
  test_sequence_string:					.: (0.000889)
  test_to_biosequence:					.: (0.048377)
  test_to_biosequence_and_output:			.: (0.003883)
  test_to_s:						.: (0.000952)
  test_validate_format:					.: (0.000834)
  test_validate_format_with_array:			.: (0.000933)
Bio::TestFastq::TestFastq_mask: 
  test_mask_20:						.: (0.001317)
  test_mask_20_with_empty_string:			.: (0.000631)
  test_mask_20_with_longer_string:			.: (0.000538)
  test_mask_20_with_x:					.: (0.000474)
  test_mask_60:						.: (0.000508)
Bio::TestFastq::TestFastq_sanger_full_range: 
  test_error_probabilities_as_illumina:			.: (0.002743)
  test_error_probabilities_as_sanger:			.: (0.002562)
  test_error_probabilities_as_solexa:			.: (0.002721)
  test_quality_scores_as_illumina:			.: (0.000527)
  test_quality_scores_as_sanger:			.: (0.000439)
  test_quality_scores_as_solexa:			.: (0.000618)
  test_validate_format:					.: (0.000577)
Bio::TestFastq::TestFastq_solexa_full_range: 
  test_error_probabilities_as_illumina:			.: (0.002239)
  test_error_probabilities_as_sanger:			.: (0.002050)
  test_error_probabilities_as_solexa:			.: (0.003395)
  test_quality_scores_as_illumina:			.: (0.000707)
  test_quality_scores_as_sanger:			.: (0.000501)
  test_quality_scores_as_solexa:			.: (0.000411)
  test_validate_format:					.: (0.000554)
Bio::TestFeature: 
  test_append:						.: (0.000329)
  test_append_nil:					.: (0.000172)
  test_assoc:						.: (0.000184)
  test_each:						.: (0.000157)
  test_feature:						.: (0.000139)
  test_locations:					.: (0.000360)
  test_new:						.: (0.000098)
  test_position:					.: (0.000062)
  test_qualifiers:					.: (0.000054)
Bio::TestFeatures: 
  test_append:						.: (0.000231)
  test_arg:						.: (0.000061)
  test_each:						.: (0.000054)
  test_features:					.: (0.000056)
Bio::TestFlatFile::TestDefaultAutoDetect: 
  test_aaindex1:					.: (0.000723)
  test_aaindex2:					.: (0.000315)
  test_blast:						.: (0.000164)
  test_blastxml:					.: (0.000566)
  test_embl:						.: (0.000204)
  test_embl_oldrelease:					.: (0.000165)
  test_fastaformat:					.: (0.000328)
  test_fastanumericformat:				.: (0.000104)
  test_fastq:						.: (0.000118)
  test_genbank:						.: (0.000470)
  test_genpept:						.: (0.000321)
  test_hmmer:						.: (0.000300)
  test_maxml_cluster:					.: (0.002545)
  test_maxml_sequence:					.: (0.000256)
  test_medline:						.: (0.000249)
  test_prosite:						.: (0.003516)
  test_sptr:						Bio::SPTR is changed to an alias of Bio::UniProtKB. Please use Bio::UniProtKB. Bio::SPTR may be deprecated in the future.
.: (0.002986)
  test_transfac:					.: (0.001562)
Bio::TestFlatFile::TestFlatFileClassMethod: 
  test_auto_0arg:					.: (0.000357)
  test_auto_1arg_filename:				.: (0.000522)
  test_auto_1arg_io:					.: (0.000435)
  test_auto_1arg_io_with_block:				.: (0.000894)
  test_auto_1arg_with_block:				.: (0.000695)
  test_auto_2arg_filename_mode:				.: (0.000446)
  test_auto_2arg_filename_mode_with_block:		.: (0.000656)
  test_auto_3arg:					.: (0.000570)
  test_auto_3arg_with_block:				.: (0.000730)
  test_foreach:						.: (0.000571)
  test_new_2arg_class:					.: (0.000251)
  test_new_2arg_nil:					.: (0.000355)
  test_open_0arg:					.: (0.000184)
  test_open_1arg_class:					.: (0.000163)
  test_open_1arg_filename:				.: (0.000573)
  test_open_1arg_io:					.: (0.000427)
  test_open_1arg_io_with_block:				.: (0.000628)
  test_open_1arg_nil:					.: (0.000186)
  test_open_1arg_with_block:				.: (0.000580)
  test_open_2arg_autodetect:				.: (0.000518)
  test_open_2arg_autodetect_io:				.: (0.000357)
  test_open_2arg_autodetect_io_with_block:		.: (0.000600)
  test_open_2arg_autodetect_with_block:			.: (0.000678)
  test_open_2arg_class:					.: (0.000244)
  test_open_2arg_class_io:				.: (0.000239)
  test_open_2arg_class_io_with_block:			.: (0.000502)
  test_open_2arg_class_with_block:			.: (0.000456)
  test_open_2arg_filename_mode:				.: (0.000389)
  test_open_2arg_filename_mode_with_block:		.: (0.000595)
  test_open_3arg:					.: (0.000723)
  test_open_3arg_with_block:				.: (0.001131)
  test_open_4arg:					.: (0.001129)
  test_to_a:						.: (0.000565)
Bio::TestFlatFile::TestFlatFileFastaFormat: 
  test_autodetect:					.: (0.000536)
  test_close:						.: (0.000283)
  test_dbclass:						.: (0.000209)
  test_dbclass_eq:					.: (0.000239)
  test_dbclass_nil:					.: (0.000316)
  test_each:						.: (0.000349)
  test_each_entry:					.: (0.000446)
  test_ended_pos:					.: (0.000364)
  test_entry_pos_flag:					.: (0.000339)
  test_entry_raw:					.: (0.000434)
  test_eof?:						.: (0.000472)
  test_next_entry:					.: (0.000456)
  test_path:						.: (0.000233)
  test_pos:						.: (0.000373)
  test_raw:						.: (0.000389)
  test_rewind:						.: (0.000304)
  test_start_pos:					.: (0.000297)
  test_start_pos_ended_pos_not_recorded:		.: (0.000292)
  test_to_io:						.: (0.000226)
Bio::TestFlatFile::TestFlatFileWithCustomClass: 
  test_simpleformat:					.: (0.000639)
  test_simpleformat2:					.: (0.000400)
Bio::TestFlatFileBufferedInputStream::TestBufferedInputStream: 
  test_close:						.: (0.000320)
  test_eof_false_after_prefetch:			.: (0.000256)
  test_eof_false_first:					.: (0.000169)
  test_eof_true:					.: (0.000229)
  test_getc:						.: (0.000211)
  test_getc_after_prefetch:				.: (0.000174)
  test_gets:						.: (0.000199)
  test_gets_equal_prefetch_gets:			.: (0.000191)
  test_gets_paragraph_mode:				.: (0.000219)
  test_gets_paragraph_mode_equal_prefetch_gets:		.: (0.000349)
  test_gets_paragraph_mode_within_buffer:		.: (0.000416)
  test_gets_rs:						.: (0.000296)
  test_gets_rs_equal_prefetch_gets:			.: (0.000213)
  test_gets_rs_within_buffer:				.: (0.000316)
  test_pos:						.: (0.000177)
  test_pos=:						.: (0.000183)
  test_prefetch_buffer:					.: (0.000208)
  test_prefetch_gets:					.: (0.000183)
  test_prefetch_gets_with_arg:				.: (0.000190)
  test_rewind:						.: (0.000184)
  test_skip_spaces:					.: (0.000201)
  test_to_io:						.: (0.000191)
  test_ungetc:						.: (0.000187)
  test_ungetc_after_prefetch:				.: (0.000182)
  test_ungets:						.: (0.000189)
Bio::TestFlatFileBufferedInputStream::TestBufferedInputStreamClassMethod: 
  test_self_for_io:					.: (0.000593)
  test_self_open_file:					.: (0.000205)
  test_self_open_file_with_block:			.: (0.000214)
Bio::TestFlatFileBufferedInputStream::TestBufferedInputStreamParseFileOpenArg: 
  test_parse_file_open_arg_int_opt:			.: (0.000322)
  test_parse_file_open_arg_int_perm:			.: (0.000158)
  test_parse_file_open_arg_int_perm_opt:		.: (0.000140)
  test_parse_file_open_arg_integer:			.: (0.000129)
  test_parse_file_open_arg_nil:				.: (0.000128)
  test_parse_file_open_arg_opt:				.: (0.000188)
  test_parse_file_open_arg_opt_with_integer_mode:	.: (0.000151)
  test_parse_file_open_arg_str:				.: (0.000143)
  test_parse_file_open_arg_str_opt:			.: (0.000151)
  test_parse_file_open_arg_str_perm:			.: (0.000145)
  test_parse_file_open_arg_str_perm_opt:		.: (0.000144)
  test_parse_file_open_arg_str_with_enc:		.: (0.000152)
  test_parse_file_open_arg_str_with_ext_enc:		.: (0.000148)
  test_parse_file_open_mode_integer:			.: (0.000352)
  test_parse_file_open_mode_nil:			.: (0.000266)
  test_parse_file_open_mode_str:			.: (0.000147)
  test_parse_file_open_mode_str_with_enc:		.: (0.000157)
  test_parse_file_open_mode_str_with_ext_enc:		.: (0.000147)
Bio::TestFlatFileSplitter::TestTemplate: 
  test_dbclass:						.: (0.000293)
  test_entry:						.: (0.000157)
  test_entry_ended_pos:					.: (0.000190)
  test_entry_pos_flag:					.: (0.000170)
  test_entry_start_pos:					.: (0.000158)
  test_get_entry:					.: (0.000218)
  test_rewind:						.: (0.000167)
  test_skip_leader:					.: (0.000192)
  test_stream:						.: (0.000178)
  test_stream_pos:					.: (0.000173)
  Bio::TestFlatFileSplitter::TestDefault: 
    test_delimiter:					.: (0.000444)
    test_delimiter_overrun:				.: (0.000147)
    test_entry:						.: (0.000230)
    test_entry_ended_pos:				.: (0.000209)
    test_entry_ended_pos_default_nil:			.: (0.000176)
    test_entry_start_pos:				.: (0.000180)
    test_entry_start_pos_default_nil:			.: (0.000158)
    test_get_entry:					.: (0.000233)
    test_get_parsed_entry:				.: (0.000253)
    test_header:					.: (0.000171)
    test_skip_leader:					.: (0.000194)
    test_skip_leader_without_header:			.: (0.000191)
  Bio::TestFlatFileSplitter::TestLineOriented: 
    test_dbclass:					.: (0.000414)
    test_entry_ended_pos:				.: (0.000289)
    test_entry_start_pos:				.: (0.000243)
    test_flag_to_fetch_header:				.: (0.000252)
    test_get_entry:					.: (0.000276)
    test_get_parsed_entry:				.: (0.000268)
    test_rewind:					.: (0.000394)
    test_skip_leader:					.: (0.000163)
Bio::TestGCGMsf: 
  test_alignment:					.: (0.000901)
  test_checksum:					.: (0.000277)
  test_compcheck:					.: (0.000354)
  test_date:						.: (0.000236)
  test_description:					.: (0.000244)
  test_entry_id:					.: (0.000220)
  test_gap_length_weight:				.: (0.000280)
  test_gap_weight:					.: (0.000235)
  test_heading:						.: (0.000219)
  test_length:						.: (0.000230)
  test_seq_type:					.: (0.000226)
  test_symbol_comparison_table:				.: (0.000233)
  test_validate_checksum:				.: (0.001422)
Bio::TestGFF: 
  test_record_class:					.: (0.000670)
  test_records:						.: (0.000319)
Bio::TestGFF2: 
  test_const_version:					.: (0.000544)
  test_gff_version:					.: (0.000501)
  test_metadata:					.: (0.000360)
  test_metadata_size:					.: (0.000356)
  test_records_size:					.: (0.000382)
  test_to_s:						.: (0.000710)
Bio::TestGFF2ComplexAttributes: 
  test_attributes_case1:				.: (0.000342)
  test_attributes_case2:				.: (0.000213)
  test_attributes_incompatible_backslash_semicolon:	.: (0.000226)
Bio::TestGFF2MetaData: 
  test_data:						.: (0.000458)
  test_directive:					.: (0.000150)
  test_parse:						.: (0.000164)
Bio::TestGFF2Record: 
  test_attribute:					.: (0.000502)
  test_attribute_nonexistent:				.: (0.000269)
  test_attributes:					.: (0.000279)
  test_attributes_to_hash:				.: (0.000476)
  test_comment_only?:					.: (0.000245)
  test_delete_attribute:				.: (0.000269)
  test_delete_attribute_multiple:			.: (0.000281)
  test_delete_attribute_multiple2:			.: (0.000336)
  test_delete_attribute_multiple_nil:			.: (0.000263)
  test_delete_attribute_nil:				.: (0.000426)
  test_delete_attribute_nonexistent:			.: (0.000287)
  test_delete_attributes:				.: (0.000273)
  test_delete_attributes_multiple:			.: (0.000288)
  test_delete_attributes_nonexistent:			.: (0.000263)
  test_end:						.: (0.000305)
  test_eqeq:						.: (0.000657)
  test_eqeq_false:					.: (0.000470)
  test_feature:						.: (0.000234)
  test_frame:						.: (0.000387)
  test_get_attribute:					.: (0.000306)
  test_get_attribute_nonexistent:			.: (0.000228)
  test_get_attributes:					.: (0.000314)
  test_get_attributes_nonexistent:			.: (0.000246)
  test_replace_attributes:				.: (0.000268)
  test_replace_attributes_multiple_multiple_over:	.: (0.000361)
  test_replace_attributes_multiple_multiple_same:	.: (0.000271)
  test_replace_attributes_multiple_multiple_two:	.: (0.000255)
  test_replace_attributes_multiple_single:		.: (0.004729)
  test_replace_attributes_nonexistent:			.: (0.000365)
  test_replace_attributes_nonexistent_multiple:		.: (0.000347)
  test_replace_attributes_single_multiple:		.: (0.000346)
  test_score:						.: (0.000304)
  test_self_parse:					.: (0.000901)
  test_seqname:						.: (0.000284)
  test_set_attribute:					.: (0.000312)
  test_set_attribute_multiple:				.: (0.000317)
  test_set_attribute_nonexistent:			.: (0.000610)
  test_sort_attributes_by_tag!:				.: (0.000360)
  test_sort_attributes_by_tag_bang_test2:		.: (0.000329)
  test_sort_attributes_by_tag_bang_with_block:		.: (0.000373)
  test_source:						.: (0.000285)
  test_start:						.: (0.000253)
  test_strand:						.: (0.000508)
  test_to_s:						.: (0.000382)
Bio::TestGFF2RecordEmpty: 
  test_comment:						.: (0.000300)
  test_comment_eq:					.: (0.000141)
  test_comment_only?:					.: (0.000167)
  test_comment_only_false:				.: (0.000201)
  test_to_s:						.: (0.000193)
  test_to_s_not_empty:					.: (0.000259)
Bio::TestGFF3: 
  test_const_version:					.: (0.001062)
  test_gff_version:					.: (0.000484)
  test_records:						.: (0.000853)
  test_sequence_regions:				.: (0.000494)
  test_sequences:					.: (0.000706)
  test_to_s:						.: (0.001125)
Bio::TestGFF3MetaData: 
  test_data:						.: (0.000281)
  test_directive:					.: (0.000132)
  test_parse:						.: (0.000152)
Bio::TestGFF3Record: 
  test_attributes:					.: (0.000448)
  test_end:						.: (0.000275)
  test_feature:						.: (0.000444)
  test_frame:						.: (0.000245)
  test_id:						.: (0.000240)
  test_score:						.: (0.000226)
  test_seqname:						.: (0.000259)
  test_source:						.: (0.000236)
  test_start:						.: (0.000460)
  test_strand:						.: (0.000236)
  test_to_s:						.: (0.000421)
  test_to_s_attr_order_changed:				.: (0.000472)
Bio::TestGFF3RecordEscape: 
  test_escape:						.: (0.000605)
  test_escape_attribute:				.: (0.000238)
  test_escape_seqid:					.: (0.000219)
  test_unescape:					.: (0.000200)
Bio::TestGFF3RecordGap: 
  test___scan_gap:					.: (0.000464)
  test_eqeq:						.: (0.000283)
  test_new_from_sequences_na:				.: (0.000271)
  test_new_from_sequences_na_aa:			.: (0.000537)
  test_new_from_sequences_na_aa_boundary_gap:		.: (0.000405)
  test_new_from_sequences_na_aa_example:		.: (0.000320)
  test_new_from_sequences_na_aa_reverse_frameshift:	.: (0.000333)
  test_new_from_sequences_na_aa_reverse_frameshift_more:.: (0.000322)
  test_process_sequences_na:				.: (0.000300)
  test_process_sequences_na_aa:				.: (0.000485)
  test_process_sequences_na_aa_reverse_frameshift:	.: (0.000234)
  test_process_sequences_na_aa_reverse_frameshift_more:	.: (0.000230)
  test_process_sequences_na_aa_tooshort:		.: (0.000339)
  test_process_sequences_na_tooshort:			.: (0.000284)
  test_to_s:						.: (0.000236)
Bio::TestGFF3RecordMisc: 
  test_attributes_none:					.: (0.000690)
  test_attributes_one:					.: (0.000195)
  test_attributes_with_escaping:			.: (0.000185)
  test_id_multiple:					.: (0.000281)
  test_id_multiple2:					.: (0.000252)
  test_id_replace:					.: (0.000184)
  test_id_set:						.: (0.000200)
  test_initialize_9:					.: (0.000138)
  test_phase:						.: (0.000422)
  test_score:						.: (0.000183)
  test_to_s_void:					.: (0.000183)
Bio::TestGFF3RecordTarget: 
  test_end:						.: (0.000289)
  test_parse:						.: (0.000215)
  test_start:						.: (0.000143)
  test_strand:						.: (0.000141)
  test_target_id:					.: (0.000140)
  test_to_s:						.: (0.000228)
Bio::TestGFF3SequenceRegion: 
  test_end:						.: (0.000292)
  test_parse:						.: (0.000481)
  test_seqid:						.: (0.000148)
  test_start:						.: (0.000137)
  test_to_s:						.: (0.000226)
Bio::TestGFFRecord: 
  test_attributes:					.: (0.000319)
  test_comment:						.: (0.000171)
  test_end:						.: (0.000162)
  test_feature:						.: (0.000157)
  test_frame:						.: (0.000158)
  test_score:						.: (0.000165)
  test_seqname:						.: (0.000172)
  test_source:						.: (0.000160)
  test_start:						.: (0.000390)
  test_strand:						.: (0.000193)
Bio::TestGFFRecordConstruct: 
  test_add_seqname:					.: (0.000282)
Bio::TestGeneAssociation: 
  test_aspect:						.: (0.000328)
  test_assigned_by:					.: (0.000163)
  test_date:						.: (0.000161)
  test_db:						.: (0.000181)
  test_db_object_id:					.: (0.000154)
  test_db_object_name:					.: (0.000159)
  test_db_object_symbol:				.: (0.000156)
  test_db_object_synonym:				.: (0.000170)
  test_db_object_type:					.: (0.000163)
  test_db_reference:					.: (0.000420)
  test_evidence:					.: (0.000184)
  test_goid:						.: (0.000185)
  test_parser:						.: (0.000593)
  test_qualifier:					.: (0.000179)
  test_taxon:						.: (0.000158)
  test_to_str:						.: (0.000207)
  test_with:						.: (0.000206)
Bio::TestGenscanReport: 
  test_date_run:					.: (0.001189)
  test_gccontent:					.: (0.000665)
  test_genscan_version:					.: (0.000947)
  test_isochore:					.: (0.000697)
  test_length:						.: (0.000717)
  test_matrix:						.: (0.000856)
  test_predictions_size:				.: (0.000609)
  test_query_name:					.: (0.000839)
  test_time:						.: (0.000641)
Bio::TestGenscanReportExon: 
  test_acceptor_score:					.: (0.000992)
  test_donor_score:					.: (0.000625)
  test_exon_type:					.: (0.000588)
  test_exon_type_long:					.: (0.000757)
  test_first:						.: (0.000645)
  test_initiation_score:				.: (0.000760)
  test_last:						.: (0.000631)
  test_number:						.: (0.000625)
  test_p_value:						.: (0.000773)
  test_phase:						.: (0.000703)
  test_range:						.: (0.000799)
  test_score:						.: (0.000631)
  test_strand:						.: (0.000617)
  test_t_score:						.: (0.000771)
  test_termination_score:				.: (0.000614)
Bio::TestGenscanReportGene: 
  test_aaseq:						.: (0.000860)
  test_naseq:						.: (0.008625)
  test_number:						.: (0.008384)
  test_polyA:						.: (0.003878)
  test_promoter:					.: (0.009203)
Bio::TestHMMERReportClassMethods: 
  test_reports_ary:					.: (0.004875)
  test_reports_ary_contents:				.: (0.005023)
Bio::TestHMMERReportConstants: 
  test_rs:						.: (0.003753)
Bio::TestHMMERReportHit: 
  test_accession:					.: (0.003337)
  test_append_hsp:					.: (0.008569)
  test_bit_score:					.: (0.000814)
  test_definition:					.: (0.000753)
  test_description:					.: (0.000943)
  test_each:						.: (0.000738)
  test_each_hsp:					.: (0.000713)
  test_entry_id:					.: (0.000680)
  test_evalue:						.: (0.000680)
  test_hit:						.: (0.000667)
  test_hit_id:						.: (0.000646)
  test_hsps:						.: (0.000934)
  test_num:						.: (0.000703)
  test_score:						.: (0.000646)
  test_target_def:					.: (0.000640)
  test_target_id:					.: (0.000905)
Bio::TestHMMERReportHmmpfam: 
  test_domain_top_hits:					.: (0.000777)
  test_each:						.: (0.000637)
  test_each_hit:					.: (0.000760)
  test_histogram:					.: (0.000616)
  test_hits:						.: (0.000602)
  test_hsps:						.: (0.000580)
  test_parameter:					.: (0.000772)
  test_program:						.: (0.000620)
  test_query_info:					.: (0.000600)
  test_statistical_detail:				.: (0.000780)
  test_total_seq_searched:				.: (0.000625)
  test_whole_seq_top_hits:				.: (0.000601)
Bio::TestHMMERReportHmmsearch: 
  test_domain_top_hits:					.: (0.000865)
  test_histogram:					.: (0.000930)
  test_statistical_detail:				.: (0.000739)
  test_total_seq_searched:				.: (0.000692)
  test_whole_seq_top_hit:				.: (0.000862)
Bio::TestHMMERReportHsp: 
  test_accession:					.: (0.000829)
  test_bit_score:					.: (0.000614)
  test_csline:						.: (0.000785)
  test_domain:						.: (0.000665)
  test_evalue:						.: (0.000582)
  test_flatseq:						.: (0.000622)
  test_hmm_f:						.: (0.000879)
  test_hmm_t:						.: (0.000643)
  test_hmmseq:						.: (0.000596)
  test_hsp:						.: (0.000898)
  test_midline:						.: (0.000717)
  test_query_frame:					.: (0.000598)
  test_query_from:					.: (0.000598)
  test_query_seq:					.: (0.000781)
  test_query_to:					.: (0.000680)
  test_rfline:						.: (0.000574)
  test_score:						.: (0.000560)
  test_seq_f:						.: (0.000774)
  test_seq_ft:						.: (0.000602)
  test_seq_t:						.: (0.000609)
  test_set_alignment:					.: (0.000759)
  test_targat_to:					.: (0.000634)
  test_target_frame:					.: (0.000605)
  test_target_from:					.: (0.000547)
  test_target_seq:					.: (0.000634)
Bio::TestHetatmFinder: 
  test_each_hetatm:					.: (0.000526)
  test_find_hetatm:					.: (0.000268)
  test_hetatms:						.: (0.000308)
Bio::TestHeterogen: 
  test_addAtom:						.: (0.000363)
  test_each:						.: (0.000483)
  test_each_hetatm:					.: (0.000253)
  test_get_residue_id_from_atom:			.: (0.000260)
  test_het_atom:					.: (0.000235)
  test_iCode:						.: (0.000186)
  test_inspect:						.: (0.000336)
  test_resSeq:						.: (0.000188)
  test_sort:						.: (0.000227)
  test_square_bracket:					.: (0.000448)
  test_to_s:						.: (0.000394)
  test_update_resudue_id:				.: (0.000204)
Bio::TestHeterogenFinder: 
  test_each_heterogen:					.: (0.000353)
  test_find_heterogen:					.: (0.000181)
  test_heterogens:					.: (0.000219)
Bio::TestIprscanPTxtReport: 
  test_match_accession:					.: (0.000364)
  test_match_description:				.: (0.000198)
  test_match_evalue:					.: (0.000481)
  test_match_ipr_description:				.: (0.000184)
  test_match_ipr_id:					.: (0.000174)
  test_match_match_end:					.: (0.000198)
  test_match_match_start:				.: (0.000200)
  test_match_method:					.: (0.000178)
  test_matches_size:					.: (0.000194)
  test_query_id:					.: (0.000191)
  test_query_length:					.: (0.000222)
Bio::TestIprscanRawReport: 
  test_entry_id:					.: (0.002291)
  test_match_accession:					.: (0.001873)
  test_match_crc64:					.: (0.001904)
  test_match_date:					.: (0.002050)
  test_match_description:				.: (0.001851)
  test_match_evalue:					.: (0.004761)
  test_match_go_terms:					.: (0.002268)
  test_match_ipr_description:				.: (0.001982)
  test_match_ipr_id:					.: (0.002198)
  test_match_match_end:					.: (0.001992)
  test_match_match_start:				.: (0.002065)
  test_match_method:					.: (0.002083)
  test_match_query_id:					.: (0.001788)
  test_match_query_length:				.: (0.001639)
  test_match_status:					.: (0.001899)
  test_obj:						.: (0.001725)
  test_query_id:					.: (0.001748)
  test_query_length:					.: (0.001884)
  test_self_reports_in_raw:				.: (0.005227)
Bio::TestIprscanReport: 
  test_output_raw:					.: (0.000979)
  test_to_raw:						.: (0.000542)
Bio::TestIprscanTxtEntry: 
  test_iprscan_report_class:				.: (0.000684)
  test_match_accession:					.: (0.000772)
  test_match_date:					.: (0.000512)
  test_match_description:				.: (0.000493)
  test_match_evalue:					.: (0.000467)
  test_match_go_terms:					.: (0.000650)
  test_match_ipr_description:				.: (0.000533)
  test_match_ipr_id:					.: (0.000469)
  test_match_match_end:					.: (0.000436)
  test_match_match_start:				.: (0.000598)
  test_match_method:					.: (0.000461)
  test_match_status:					.: (0.000412)
  test_matches_size:					.: (0.000413)
  test_query_id:					.: (0.000456)
  test_query_length:					.: (0.000642)
Bio::TestIprscanTxtEntryList: 
  test_to_hash:						.: (0.000662)
  test_to_hash_match?:					.: (0.000542)
Bio::TestIprscanTxtReport: 
  test_parse_txt:					.: (0.001200)
Bio::TestKeggCompound: 
  test_comment:						.: (0.000595)
  test_dblinks_as_hash:					.: (0.000624)
  test_dblinks_as_strings:				.: (0.000378)
  test_entry_id:					.: (0.000329)
  test_enzymes:						.: (0.000621)
  test_formula:						.: (0.000334)
  test_kcf:						.: (0.000288)
  test_mass:						.: (0.000549)
  test_name:						.: (0.000323)
  test_names:						.: (0.000323)
  test_pathways_as_hash:				.: (0.000463)
  test_pathways_as_strings:				.: (0.000340)
  test_reactions:					.: (0.000753)
  test_remark:						.: (0.000341)
  test_rpairs:						.: (0.000305)
Bio::TestKeggEnzyme: 
  test_all_reac:					.: (0.000658)
  test_classes:						.: (0.000476)
  test_cofactors:					.: (0.000694)
  test_comment:						.: (0.000548)
  test_dblinks_as_hash:					.: (0.000545)
  test_dblinks_as_strings:				.: (0.000486)
  test_diseases:					.: (0.000461)
  test_entry:						.: (0.000469)
  test_entry_id:					.: (0.000509)
  test_genes:						.: (0.009607)
  test_genes_as_hash:					.: (0.013924)
  test_genes_as_strings:				.: (0.003700)
  test_inhibitors:					.: (0.000649)
  test_iubmb_reactions:					.: (0.000610)
  test_kegg_reactions:					.: (0.000606)
  test_motifs:						.: (0.000549)
  test_name:						.: (0.000617)
  test_names:						.: (0.000900)
  test_obsolete?:					.: (0.000546)
  test_orthologs_as_hash:				.: (0.000557)
  test_orthologs_as_strings:				.: (0.000492)
  test_pathways_as_hash:				.: (0.000622)
  test_pathways_as_strings:				.: (0.000543)
  test_products:					.: (0.000806)
  test_reaction:					.: (0.000548)
  test_structures:					.: (0.000665)
  test_substrates:					.: (0.000558)
  test_sysname:						.: (0.000519)
Bio::TestKeggGenesDblinks: 
  test_data:						.: (0.000457)
  test_dblinks_0:					.: (0.000190)
  test_dblinks_1:					.: (0.000172)
  test_dblinks_2:					.: (0.000168)
Bio::TestKeggGenesStructure: 
  test_data:						.: (0.000332)
  test_ids:						.: (0.000231)
  test_ids_in_array:					.: (0.000257)
Bio::TestKeggKGML::TestKGMLEntry1: 
  test_components:					.: (0.006221)
  test_graphics__size:					.: (0.008812)
  test_id:						.: (0.009763)
  test_link:						.: (0.006939)
  test_name:						.: (0.006585)
  test_reaction:					.: (0.023811)
  test_type:						.: (0.041050)
Bio::TestKeggKGML::TestKGMLEntry1234: 
  test_components:					.: (0.006069)
  test_graphics__size:					.: (0.006229)
  test_id:						.: (0.005872)
  test_link:						.: (0.006199)
  test_name:						.: (0.005583)
  test_reaction:					.: (0.005988)
  test_type:						.: (0.006539)
Bio::TestKeggKGML::TestKGMLEntry1Deprecated: 
  test_bgcolor=:					.: (0.005731)
  test_category:					.: (0.005373)
  test_entry_id:					.: (0.005420)
  test_fgcolor=:					.: (0.006790)
  test_height=:						.: (0.006361)
  test_label=:						.: (0.005682)
  test_shape=:						.: (0.006246)
  test_width=:						.: (0.006964)
  test_x=:						.: (0.005434)
  test_y=:						.: (0.005534)
Bio::TestKeggKGML::TestKGMLEntry567: 
  test_components:					.: (0.005321)
  test_graphics__size:					.: (0.005231)
  test_id:						.: (0.005426)
  test_link:						.: (0.005417)
  test_name:						.: (0.006648)
  test_reaction:					.: (0.005671)
  test_type:						.: (0.006202)
Bio::TestKeggKGML::TestKGMLEntrySetter: 
  test_components=:					.: (0.000557)
  test_graphics=:					.: (0.000190)
  test_id=:						.: (0.000193)
  test_link=:						.: (0.000178)
  test_name=:						.: (0.000189)
  test_reaction=:					.: (0.000187)
  test_type=:						.: (0.000176)
Bio::TestKeggKGML::TestKGMLEntrySetterDeprecated: 
  test_bgcolor=:					.: (0.000351)
  test_category=:					.: (0.000199)
  test_entry_id=:					.: (0.000188)
  test_fgcolor=:					.: (0.000350)
  test_height=:						.: (0.000185)
  test_label=:						.: (0.000194)
  test_pathway=:					.: (0.000172)
  test_shape=:						.: (0.000187)
  test_width=:						.: (0.000169)
  test_x=:						.: (0.000156)
  test_y=:						.: (0.000162)
Bio::TestKeggKGML::TestKGMLGraphics1234: 
  test_bgcolor:						.: (0.005354)
  test_coords:						.: (0.005494)
  test_fgcolor:						.: (0.007940)
  test_height:						.: (0.005423)
  test_name:						.: (0.007003)
  test_type:						.: (0.005705)
  test_width:						.: (0.006124)
  test_x:						.: (0.005572)
  test_y:						.: (0.005753)
Bio::TestKeggKGML::TestKGMLGraphics1_0: 
  test_bgcolor:						.: (0.005530)
  test_coords:						.: (0.005742)
  test_fgcolor:						.: (0.006183)
  test_height:						.: (0.005830)
  test_name:						.: (0.005623)
  test_type:						.: (0.005546)
  test_width:						.: (0.005364)
  test_x:						.: (0.005686)
  test_y:						.: (0.005510)
Bio::TestKeggKGML::TestKGMLGraphicsSetter: 
  test_bgcolor=:					.: (0.000372)
  test_coords=:						.: (0.000203)
  test_fgcolor=:					.: (0.000193)
  test_height=:						.: (0.000202)
  test_name=:						.: (0.000174)
  test_type=:						.: (0.000155)
  test_width=:						.: (0.000158)
  test_x=:						.: (0.000158)
  test_y=:						.: (0.000335)
Bio::TestKeggKGML::TestKGMLPathway: 
  test_entries=:					.: (0.005620)
  test_entries__size:					.: (0.006846)
  test_image:						.: (0.005525)
  test_link:						.: (0.005477)
  test_name:						.: (0.005360)
  test_number:						.: (0.007806)
  test_org:						.: (0.005270)
  test_reactions=:					.: (0.005447)
  test_reactions__size:					.: (0.006768)
  test_relations=:					.: (0.007938)
  test_relations__size:					.: (0.005760)
  test_title:						.: (0.005474)
Bio::TestKeggKGML::TestKGMLProduct: 
  test_id:						.: (0.010662)
  test_name:						.: (0.012204)
Bio::TestKeggKGML::TestKGMLProductSetter: 
  test_id=:						.: (0.000445)
  test_initialize_0:					.: (0.000174)
  test_initialize_1:					.: (0.000185)
  test_initialize_2:					.: (0.000180)
  test_name=:						.: (0.000234)
Bio::TestKeggKGML::TestKGMLReaction: 
  test_id:						.: (0.005867)
  test_name:						.: (0.006887)
  test_products:					.: (0.005510)
  test_substrates:					.: (0.005665)
  test_type:						.: (0.005804)
Bio::TestKeggKGML::TestKGMLReactionSetter: 
  test_id=:						.: (0.000348)
  test_name=:						.: (0.000185)
  test_products=:					.: (0.000176)
  test_substraces=:					.: (0.000169)
  test_type=:						.: (0.000176)
Bio::TestKeggKGML::TestKGMLReactionSetterDeprecated: 
  test_direction=:					.: (0.000326)
  test_entry_id=:					.: (0.000196)
Bio::TestKeggKGML::TestKGMLRelation: 
  test_entry1:						.: (0.005802)
  test_entry2:						.: (0.006948)
  test_name:						.: (0.006122)
  test_type:						.: (0.005734)
  test_value:						.: (0.005814)
Bio::TestKeggKGML::TestKGMLRelationDeprecated: 
  test_edge:						.: (0.000350)
  test_node1=:						.: (0.000220)
  test_node2=:						.: (0.000191)
  test_rel=:						.: (0.000201)
Bio::TestKeggKGML::TestKGMLRelationSetter: 
  test_entry1=:						.: (0.000308)
  test_entry2=:						.: (0.000173)
  test_name=:						.: (0.000336)
  test_type=:						.: (0.000175)
  test_value=:						.: (0.000173)
Bio::TestKeggKGML::TestKGMLSubstrate: 
  test_id:						.: (0.010972)
  test_name:						.: (0.011757)
Bio::TestKeggKGML::TestKGMLSubstrateProductSetter: 
  test_id=:						.: (0.000364)
  test_initialize_0:					.: (0.000252)
  test_initialize_1:					.: (0.000181)
  test_initialize_2:					.: (0.000166)
  test_name=:						.: (0.000196)
Bio::TestKeggKGML::TestKGMLSubstrateSetter: 
  test_id=:						.: (0.000348)
  test_initialize_0:					.: (0.000177)
  test_initialize_1:					.: (0.000161)
  test_initialize_2:					.: (0.000158)
  test_name=:						.: (0.000174)
Bio::TestKeggModule: 
  test_compounds:					.: (0.000571)
  test_compounds_as_hash:				.: (0.000381)
  test_compounds_as_strings:				.: (0.000352)
  test_definition:					.: (0.000325)
  test_entry_id:					.: (0.000457)
  test_keggclass:					.: (0.000329)
  test_name:						.: (0.000245)
  test_new:						.: (0.000315)
  test_orthologs:					.: (0.000338)
  test_orthologs_as_array:				.: (0.000348)
  test_orthologs_as_hash:				.: (0.000310)
  test_orthologs_as_strings:				.: (0.000274)
  test_pathways:					.: (0.000426)
  test_pathways_as_hash:				.: (0.000289)
  test_pathways_as_strings:				.: (0.000234)
  test_reactions:					.: (0.000313)
  test_reactions_as_hash:				.: (0.000449)
  test_reactions_as_strings:				.: (0.000283)
Bio::TestKeggOrthology: 
  test_dblinks:						.: (0.000593)
  test_dblinks_as_hash:					.: (0.000589)
  test_dblinks_as_strings:				.: (0.000443)
  test_definition:					.: (0.000431)
  test_entry_id:					.: (0.000438)
  test_genes_as_hash:					.: (0.008185)
  test_genes_as_strings:				.: (0.002883)
  test_keggclass:					.: (0.000669)
  test_keggclasses:					.: (0.000759)
  test_modules:						.: (0.000490)
  test_modules_as_hash:					.: (0.000452)
  test_modules_as_strings:				.: (0.000435)
  test_name:						.: (0.000445)
  test_names:						.: (0.000446)
  test_pathways_as_strings:				.: (0.000420)
  test_pathways_in_keggclass:				.: (0.000677)
  test_references:					.: (0.000644)
Bio::TestKeggPathway_map00052: 
  test_compounds_as_hash:				.: (0.000443)
  test_compounds_as_strings:				.: (0.000344)
  test_dblinks_as_hash:					.: (0.000282)
  test_dblinks_as_strings:				.: (0.000528)
  test_description:					.: (0.000325)
  test_diseases_as_hash:				.: (0.000273)
  test_diseases_as_strings:				.: (0.000242)
  test_entry_id:					.: (0.000397)
  test_enzymes_as_strings:				.: (0.000237)
  test_genes_as_hash:					.: (0.000262)
  test_genes_as_strings:				.: (0.000261)
  test_keggclass:					.: (0.000266)
  test_ko_pathway:					.: (0.000246)
  test_modules_as_hash:					.: (0.000291)
  test_modules_as_strings:				.: (0.000255)
  test_name:						.: (0.000248)
  test_organism:					.: (0.000254)
  test_orthologs_as_hash:				.: (0.000294)
  test_orthologs_as_strings:				.: (0.000238)
  test_pathways_as_hash:				.: (0.000282)
  test_pathways_as_strings:				.: (0.000254)
  test_reactions_as_hash:				.: (0.000236)
  test_reactions_as_strings:				.: (0.000249)
  test_references:					.: (0.000243)
  test_rel_pathways_as_hash:				.: (0.000275)
  test_rel_pathways_as_strings:				.: (0.000239)
Bio::TestKeggReaction: 
  test_definition:					.: (0.000598)
  test_entry_id:					.: (0.000315)
  test_enzymes:						.: (0.000337)
  test_equation:					.: (0.000279)
  test_name:						.: (0.000261)
  test_orthologs_as_hash:				.: (0.000293)
  test_orthologs_as_strings:				.: (0.000267)
  test_pathways_as_hash:				.: (0.000458)
  test_pathways_as_strings:				.: (0.000353)
  test_rpairs_as_hash:					.: (0.000312)
  test_rpairs_as_strings:				.: (0.000299)
  test_rpairs_as_tokens:				.: (0.000371)
Bio::TestLasergene: 
  test_methods:						.: (0.005297)
Bio::TestLocations: 
  test_complement:					.: (0.000419)
  test_hat:						.: (0.000237)
  test_normal:						.: (0.000420)
  test_replace_single_base:				.: (0.000243)
  test_should_not_modify_argument:			.: (0.000189)
Bio::TestLocationsRoundTrip: 
  test_locations_roundtrip:				.: (0.002511)
  test_locations_to_s:					.: (0.003882)
Bio::TestMEDLINE: 
  test_authors:						.: (0.001057)
  test_authors_with_last_name_all_caps:			.: (0.000219)
  test_authors_with_suffix:				.: (0.000209)
Bio::TestMEDLINE_20146148: 
  test_ab:						.: (0.000663)
  test_ad:						.: (0.000820)
  test_au:						.: (0.000513)
  test_authors:						.: (0.000411)
  test_doi:						.: (0.000409)
  test_dp:						.: (0.000666)
  test_ip:						.: (0.000416)
  test_mh:						.: (0.000466)
  test_pages:						.: (0.000378)
  test_pg:						.: (0.000355)
  test_pii:						.: (0.000415)
  test_pmid:						.: (0.000373)
  test_pt:						.: (0.000373)
  test_reference:					.: (0.000939)
  test_self_new:					.: (0.000538)
  test_so:						.: (0.000400)
  test_ta:						.: (0.000393)
  test_ti:						.: (0.000589)
  test_ui:						.: (0.000462)
  test_vi:						.: (0.000371)
  test_year:						.: (0.000391)
Bio::TestMapSimple: 
  test_attributes:					.: (0.000353)
Bio::TestMapping: 
  test_add_mapping_as_map:				.: (0.001152)
  test_add_mapping_as_marker:				.: (0.000277)
  test_contains_marker?:				.: (0.000189)
  test_mapped_to?:					.: (0.000166)
  test_mapping_location_comparison:			.: (0.000375)
  test_mappings_as_map_each:				.: (0.000171)
  test_mappings_as_marker_each:				.: (0.000227)
  test_mappings_on:					.: (0.000227)
  test_multiple_mappings_between_same_marker_and_map:	.: (0.000516)
  test_positions_on:					.: (0.000234)
  test_raise_error_kind_of:				.: (0.000443)
Bio::TestMast: 
  test_check_options_with_empty_opts:			.: (0.000448)
  test_check_options_with_invalid_opts:			.: (0.000311)
  test_check_options_with_valid_opts:			.: (0.000225)
  test_command_to_be_run:				.: (0.000256)
  test_config_defaults:					.: (0.000227)
  test_minimal_config:					.: (0.000230)
  test_more_config:					.: (0.000218)
  test_run:						.: (0.000366)
Bio::TestMastReport: 
  test_parse_hit_list_with_bad_data:			.: (0.000528)
  test_report_has_motifs:				.: (0.000437)
Bio::TestModel: 
  test_addChain:					.: (0.000282)
  test_comp:						.: (0.000175)
  test_each:						.: (0.000168)
  test_each_chain:					.: (0.000153)
  test_inspect:						.: (0.000152)
  test_rehash:						.: (0.000136)
  test_square_brace:					.: (0.000173)
  test_to_s:						.: (0.000160)
Bio::TestModelFinder: 
  test_find_model:					.: (0.000304)
Bio::TestMotif: 
  test_creation_and_attributes:				.: (0.000303)
  test_length:						.: (0.000134)
Bio::TestMyGraph: 
  test_cliquishness:					.: (0.000446)
Bio::TestNA: 
  test_accessor:					.: (0.000255)
  test_na:						.: (0.000139)
  test_name:						.: (0.000146)
  test_names:						.: (0.000140)
  test_to_re:						.: (0.000425)
  test_weight:						.: (0.000154)
  test_weight_rna:					.: (0.000177)
Bio::TestNAConstants: 
  test_NAMES:						.: (0.000276)
  test_NAMES_1_to_name:					.: (0.000138)
  test_WEIGHT:						.: (0.000138)
Bio::TestNATranslate: 
  test_translate:					.: (0.000447)
  test_translate_1:					.: (0.000268)
  test_translate_2:					.: (0.000181)
  test_translate_3:					.: (0.000159)
  test_translate_4:					.: (0.000334)
  test_translate_5:					.: (0.000187)
  test_translate_6:					.: (0.000182)
Bio::TestNCBIDB: 
  test_fetch:						.: (0.000357)
  test_p_entry2hash:					.: (0.000131)
  test_p_subtag2array:					.: (0.000118)
  test_p_toptag2array:					.: (0.000126)
Bio::TestNewick: 
  test_reparse:						.: (0.001000)
  test_reparse_before_lazy_parsing:			.: (0.000669)
  test_string_tree:					.: (0.000815)
Bio::TestNewick2: 
  test_string_tree:					.: (0.000635)
Bio::TestNewickPrivate: 
  test_parse_newick_get_tokens_for_leaf:		.: (0.000296)
  test_parse_newick_leaf:				.: (0.000250)
  test_parse_newick_tokenize:				.: (0.000731)
Bio::TestNexus: 
  test_nexus:						.: (0.008481)
Bio::TestOSLine: 
  test_period_trancation_O63147:			.: (0.000421)
  test_uncapitalized_letter_Q32725_9POAL:		.: (0.000217)
Bio::TestPAMLCodeml::TestCodeml: 
  test_dump_parameters:					.: (0.000309)
  test_load_parameters:					.: (0.000195)
  test_parameters:					.: (0.000171)
  test_set_default_parameters:				.: (0.000170)
Bio::TestPAMLCodeml::TestCodemlControlGeneration: 
  test_control_file_generated:				.: (0.000953)
  test_expected_parameters_set_in_control_file:		.: (0.000571)
Bio::TestPAMLCodeml::TestCodemlInitialize: 
  test_new_with_one_argument:				.: (0.000313)
  test_new_with_parameters:				.: (0.000193)
  test_new_with_two_argument:				.: (0.000204)
  test_new_without_argument:				.: (0.000151)
Bio::TestPAMLCodeml::TestCodemlRates: 
  test_rates_first_position:				.: (0.001345)
  test_rates_hundred_and_fiftieth_position:		.: (0.001203)
  test_rates_last_position:				.: (0.001222)
Bio::TestPAMLCodeml::TestCodemlReport: 
  test_alpha:						.: (0.005989)
  test_tree:						.: (0.005618)
  test_tree_length:					.: (0.005829)
  test_tree_log_likelihood:				.: (0.005598)
Bio::TestPAMLCodeml::TestControlFileUsage: 
  test_correct_parameters_should_be_loaded:		.: (0.000802)
  test_parameters_should_be_loaded_from_control:	.: (0.000336)
Bio::TestPAMLCodeml::TestExpectedErrorsThrown: 
  test_error_thrown_if_seqfile_does_not_specified:	.: (0.001244)
Bio::TestPAMLCodemlReportWithModels::TestCodemlModelM0M3: 
  test_alpha:						.: (0.000436)
  test_dN_dS:						.: (0.000271)
  test_kappa:						.: (0.000256)
  test_lnL:						.: (0.000243)
  test_m3_classes:					.: (0.000512)
  test_m3_lnL:						.: (0.000319)
  test_m3_to_s:						.: (0.000247)
  test_m3_tree:						.: (0.000546)
  test_omega:						.: (0.000239)
  test_to_s:						.: (0.000232)
  test_tree:						.: (0.000497)
  test_tree_length:					.: (0.000247)
Bio::TestPAMLCodemlReportWithModels::TestCodemlPositiveSiteM0M3: 
  test_dN_dS:						.: (0.000561)
  test_p:						.: (0.000622)
  test_position:					.: (0.000401)
  test_probability:					.: (0.000374)
  test_w:						.: (0.000376)
Bio::TestPAMLCodemlReportWithModels::TestCodemlPositiveSitesM0M3: 
  test_graph:						.: (0.005086)
  test_graph_omega:					.: (0.000659)
Bio::TestPAMLCodemlReportWithModels::TestCodemlReportM0M3: 
  test_descr:						.: (0.000448)
  test_footer:						.: (0.000249)
  test_header:						.: (0.000565)
  test_initialize:					.: (0.000693)
  test_models:						.: (0.000275)
  test_nb_sites:					.: (0.000675)
  test_num_codons:					.: (0.000308)
  test_num_sequences:					.: (0.000248)
  test_significant:					.: (0.000290)
Bio::TestPAMLCodemlReportWithModels::TestCodemlReportM7M8: 
  test_models:						.: (0.000772)
  test_nb_sites:					.: (0.000333)
  test_significant:					.: (0.000299)
  test_sites:						.: (0.001345)
Bio::TestPDB: 
  test_accession:					.: (0.001458)
  test_addModel:					.: (0.000799)
  test_authors:						.: (0.000816)
  test_bracket:						.: (0.000981)
  test_classification:					.: (0.000769)
  test_dbref:						.: (0.001103)
  test_definition:					.: (0.000733)
  test_each:						.: (0.000972)
  test_each_model:					.: (0.000782)
  test_entry_id:					.: (0.001105)
  test_helix:						.: (0.001050)
  test_inspect:						.: (0.003904)
  test_jrnl:						.: (0.000901)
  test_keywords:					.: (0.001018)
  test_record:						.: (0.000745)
  test_remark:						.: (0.001114)
  test_seqres:						.: (0.000921)
  test_sheet:						.: (0.001483)
  test_ssbond:						.: (0.000740)
  test_to_s:						.: (0.001242)
  test_turn:						.: (0.000770)
  test_version:						.: (0.000859)
Bio::TestPDBRecord::TestANISOU: 
  test_U11:						.: (0.001140)
  test_U12:						.: (0.000249)
  test_U13:						.: (0.000276)
  test_U22:						.: (0.000303)
  test_U23:						.: (0.000209)
  test_U33:						.: (0.000203)
  test_altLoc:						.: (0.000202)
  test_chainID:						.: (0.000189)
  test_charge:						.: (0.000171)
  test_element:						.: (0.000169)
  test_iCode:						.: (0.000521)
  test_name:						.: (0.000192)
  test_resName:						.: (0.000341)
  test_resSeq:						.: (0.000182)
  test_segID:						.: (0.000169)
  test_serial:						.: (0.000174)
Bio::TestPDBRecord::TestATOM: 
  test_altLoc:						.: (0.000298)
  test_anisou:						.: (0.000141)
  test_chainID:						.: (0.000150)
  test_charge:						.: (0.000137)
  test_comparable:					.: (0.000170)
  test_do_parse:					.: (0.000143)
  test_element:						.: (0.000189)
  test_iCode:						.: (0.000334)
  test_name:						.: (0.000145)
  test_occupancy:					.: (0.000176)
  test_original_data:					.: (0.000159)
  test_record_name:					.: (0.000147)
  test_resName:						.: (0.000152)
  test_resSeq:						.: (0.000149)
  test_residue:						.: (0.000143)
  test_segID:						.: (0.000150)
  test_serial:						.: (0.000134)
  test_sigatm:						.: (0.000139)
  test_tempFactor:					.: (0.000196)
  test_ter:						.: (0.000148)
  test_to_a:						.: (0.000189)
  test_to_s:						.: (0.000221)
  test_x:						.: (0.000182)
  test_xyz:						.: (0.000198)
  test_y:						.: (0.000335)
  test_z:						.: (0.000164)
Bio::TestPDBRecord::TestAUTHOR: 
  test_authorList:					.: (0.000422)
Bio::TestPDBRecord::TestCAVEAT: 
  test_comment:						.: (0.000318)
  test_idcode:						.: (0.000179)
Bio::TestPDBRecord::TestCISPEP: 
  test_chainID1:					.: (0.000361)
  test_chainID2:					.: (0.000187)
  test_icode1:						.: (0.000200)
  test_icode2:						.: (0.000182)
  test_measure:						.: (0.000435)
  test_modNum:						.: (0.000211)
  test_pep1:						.: (0.000180)
  test_pep2:						.: (0.000175)
  test_seqNum1:						.: (0.000201)
  test_seqNum2:						.: (0.000223)
  test_serNum:						.: (0.000166)
Bio::TestPDBRecord::TestCOMPND: 
  test_compound:					.: (0.000327)
Bio::TestPDBRecord::TestCONECT: 
  test_serial:						.: (0.000287)
Bio::TestPDBRecord::TestCRYST1: 
  test_a:						.: (0.000299)
  test_alpha:						.: (0.000172)
  test_b:						.: (0.000397)
  test_beta:						.: (0.000164)
  test_c:						.: (0.000295)
  test_gamma:						.: (0.000155)
  test_sGroup:						.: (0.000156)
  test_z:						.: (0.000179)
Bio::TestPDBRecord::TestDBREF: 
  test_chainID:						.: (0.000356)
  test_database:					.: (0.000219)
  test_dbAccession:					.: (0.000210)
  test_dbIdCode:					.: (0.000204)
  test_dbseqBegin:					.: (0.000211)
  test_dbseqEnd:					.: (0.000197)
  test_idCode:						.: (0.000181)
  test_idbnsBeg:					.: (0.000209)
  test_insertBegin:					.: (0.000182)
  test_insertEnd:					.: (0.000192)
  test_seqBegin:					.: (0.000185)
  test_seqEnd:						.: (0.000191)
Bio::TestPDBRecord::TestDefault: 
  test_text:						.: (0.000292)
Bio::TestPDBRecord::TestENDMDL: 
  test_serial:						.: (0.000283)
Bio::TestPDBRecord::TestEXPDTA: 
  test_technique:					.: (0.000264)
Bio::TestPDBRecord::TestEnd: 
  test_serial:						.: (0.000265)
Bio::TestPDBRecord::TestHEADER: 
  test_classification:					.: (0.000325)
  test_depDate:						.: (0.000163)
  test_idCode:						.: (0.000146)
Bio::TestPDBRecord::TestHET: 
  test_ChainID:						.: (0.000289)
  test_hetID:						.: (0.000195)
  test_iCode:						.: (0.000173)
  test_numHetAtoms:					.: (0.000156)
  test_seqNum:						.: (0.000156)
  test_text:						.: (0.000311)
Bio::TestPDBRecord::TestHETATM: 
  test_altLoc:						.: (0.000317)
  test_anisou:						.: (0.000162)
  test_chainID:						.: (0.000153)
  test_charge:						.: (0.000328)
  test_comparable:					.: (0.000226)
  test_do_parse:					.: (0.000149)
  test_element:						.: (0.000142)
  test_iCode:						.: (0.000140)
  test_name:						.: (0.000144)
  test_occupancy:					.: (0.000192)
  test_original_data:					.: (0.000158)
  test_record_name:					.: (0.000162)
  test_resName:						.: (0.000146)
  test_resSeq:						.: (0.000163)
  test_residue:						.: (0.000147)
  test_segID:						.: (0.000138)
  test_serial:						.: (0.000143)
  test_sigatm:						.: (0.000135)
  test_tempFactor:					.: (0.000238)
  test_ter:						.: (0.004189)
  test_to_a:						.: (0.000201)
  test_to_s:						.: (0.000225)
  test_x:						.: (0.000195)
  test_xyz:						.: (0.000402)
  test_y:						.: (0.000285)
  test_z:						.: (0.006585)
Bio::TestPDBRecord::TestHYDBND: 
  test_Chain1:						.: (0.000994)
  test_ChainH:						.: (0.005982)
  test_ICode1:						.: (0.000279)
  test_altLoc1:						.: (0.000239)
  test_altLoc2:						.: (0.006711)
  test_altLocH:						.: (0.000307)
  test_chainID2:					.: (0.000244)
  test_iCode2:						.: (0.006121)
  test_iCodeH:						.: (0.000279)
  test_name1:						.: (0.006932)
  test_name2:						.: (0.000304)
  test_nameH:						.: (0.000232)
  test_resName1:					.: (0.000319)
  test_resName2:					.: (0.000241)
  test_resSeq1:						.: (0.010144)
  test_resSeq2:						.: (0.000383)
  test_resSeqH:						.: (0.000249)
  test_sym1:						.: (0.000235)
  test_sym2:						.: (0.000229)
Bio::TestPDBRecord::TestKEYWDS: 
  test_keywds:						.: (0.000353)
Bio::TestPDBRecord::TestLINK: 
  test_altLoc1:						.: (0.000377)
  test_altLoc2:						.: (0.000221)
  test_chainID1:					.: (0.000222)
  test_chainID2:					.: (0.000219)
  test_iCode1:						.: (0.000530)
  test_iCode2:						.: (0.000213)
  test_name1:						.: (0.000209)
  test_name2:						.: (0.000214)
  test_resName1:					.: (0.000214)
  test_resName2:					.: (0.000189)
  test_resSeq1:						.: (0.000209)
  test_resSeq2:						.: (0.000210)
  test_sym1:						.: (0.000189)
  test_sym2:						.: (0.000177)
Bio::TestPDBRecord::TestMASTER: 
  test_numConect:					.: (0.000304)
  test_numCoord:					.: (0.000158)
  test_numHelix:					.: (0.000169)
  test_numHet:						.: (0.000149)
  test_numRemark:					.: (0.000141)
  test_numSeq:						.: (0.000194)
  test_numSheet:					.: (0.000158)
  test_numSite:						.: (0.000152)
  test_numTer:						.: (0.000161)
  test_numTurn:						.: (0.000149)
  test_numXform:					.: (0.000151)
Bio::TestPDBRecord::TestMODEL: 
  test_serial:						.: (0.000314)
Bio::TestPDBRecord::TestMODRES: 
  test_chainID:						.: (0.000324)
  test_comment:						.: (0.000190)
  test_iCode:						.: (0.000179)
  test_idCode:						.: (0.000526)
  test_resName:						.: (0.000178)
  test_seqNum:						.: (0.000170)
  test_stdRes:						.: (0.000173)
Bio::TestPDBRecord::TestMTRIX1: 
  test_Mn1:						.: (0.000313)
  test_Mn2:						.: (0.000154)
  test_Mn3:						.: (0.000151)
  test_Vn:						.: (0.000156)
  test_iGiven:						.: (0.000155)
  test_serial:						.: (0.000149)
Bio::TestPDBRecord::TestMTRIX2: 
  test_Mn1:						.: (0.000296)
  test_Mn2:						.: (0.000180)
  test_Mn3:						.: (0.000151)
  test_Vn:						.: (0.000372)
  test_iGiven:						.: (0.000150)
  test_serial:						.: (0.000138)
Bio::TestPDBRecord::TestMTRIX3: 
  test_Mn1:						.: (0.000286)
  test_Mn2:						.: (0.000148)
  test_Mn3:						.: (0.000148)
  test_Vn:						.: (0.000154)
  test_iGiven:						.: (0.000159)
  test_serial:						.: (0.000150)
Bio::TestPDBRecord::TestOBSLTE: 
  test_idCode:						.: (0.000355)
  test_rIdCode:						.: (0.000162)
  test_repDate:						.: (0.000152)
Bio::TestPDBRecord::TestORIGX1: 
  test_On1:						.: (0.000291)
  test_On2:						.: (0.000393)
  test_On3:						.: (0.000180)
  test_Tn:						.: (0.000166)
Bio::TestPDBRecord::TestREVDAT: 
  test_modDate:						.: (0.000319)
  test_modId:						.: (0.000182)
  test_modNum:						.: (0.000217)
  test_modType:						.: (0.000185)
  test_record:						.: (0.000196)
Bio::TestPDBRecord::TestRemarkN: 
  test_remarkNum:					.: (0.000293)
  test_text:						.: (0.000148)
Bio::TestPDBRecord::TestSCALE1: 
  test_Sn1:						.: (0.000304)
  test_Sn2:						.: (0.000158)
  test_Sn3:						.: (0.000142)
  test_Un:						.: (0.000370)
Bio::TestPDBRecord::TestSCALE2: 
  test_Sn1:						.: (0.000334)
  test_Sn2:						.: (0.000150)
  test_Sn3:						.: (0.000151)
  test_Un:						.: (0.000148)
Bio::TestPDBRecord::TestSCALE3: 
  test_Sn1:						.: (0.000291)
  test_Sn2:						.: (0.000155)
  test_Sn3:						.: (0.000153)
  test_Un:						.: (0.000149)
Bio::TestPDBRecord::TestSEQADV: 
  test_chainID:						.: (0.000320)
  test_conflict:					.: (0.000194)
  test_database:					.: (0.000221)
  test_dbIdCode:					.: (0.000437)
  test_dbRes:						.: (0.000181)
  test_dbSeq:						.: (0.000185)
  test_iCode:						.: (0.000187)
  test_idCode:						.: (0.000168)
  test_resName:						.: (0.000175)
  test_seqNum:						.: (0.000186)
Bio::TestPDBRecord::TestSEQRES: 
  test_chainID:						.: (0.000315)
  test_numRes:						.: (0.000175)
  test_resName:						.: (0.000180)
Bio::TestPDBRecord::TestSHEET: 
  test_curAtom:						.: (0.000581)
  test_curChainId:					.: (0.000194)
  test_curICode:					.: (0.000191)
  test_curResName:					.: (0.000206)
  test_curResSeq:					.: (0.000208)
  test_endChainID:					.: (0.000208)
  test_endICode:					.: (0.000197)
  test_endResName:					.: (0.000193)
  test_endSeqNum:					.: (0.000187)
  test_initChainID:					.: (0.000185)
  test_initICode:					.: (0.000207)
  test_initResName:					.: (0.000194)
  test_initSeqNum:					.: (0.000188)
  test_numStrands:					.: (0.000191)
  test_prevAtom:					.: (0.000194)
  test_prevChainId:					.: (0.000331)
  test_prevICode:					.: (0.000207)
  test_prevResName:					.: (0.000198)
  test_prevResSeq:					.: (0.000193)
  test_sense:						.: (0.000421)
  test_sheetID:						.: (0.000200)
  test_strand:						.: (0.000235)
Bio::TestPDBRecord::TestSIGATM: 
  test_altLoc:						.: (0.000377)
  test_chainID:						.: (0.000216)
  test_charge:						.: (0.000215)
  test_element:						.: (0.000203)
  test_iCode:						.: (0.000211)
  test_name:						.: (0.000208)
  test_resName:						.: (0.000213)
  test_resSeq:						.: (0.000200)
  test_segID:						.: (0.000247)
  test_serial:						.: (0.000467)
  test_sigOcc:						.: (0.000220)
  test_sigTemp:						.: (0.000208)
  test_sigX:						.: (0.000201)
  test_sigY:						.: (0.000265)
  test_sigZ:						.: (0.000180)
Bio::TestPDBRecord::TestSIGUIJ: 
  test_SigmaU11:					.: (0.000367)
  test_SigmaU12:					.: (0.000214)
  test_SigmaU13:					.: (0.000202)
  test_SigmaU22:					.: (0.000191)
  test_SigmaU23:					.: (0.000180)
  test_SigmaU33:					.: (0.000176)
  test_altLoc:						.: (0.000174)
  test_chainID:						.: (0.000377)
  test_charge:						.: (0.000170)
  test_element:						.: (0.000171)
  test_iCode:						.: (0.000170)
  test_name:						.: (0.000168)
  test_resName:						.: (0.000169)
  test_resSeq:						.: (0.000215)
  test_segID:						.: (0.000165)
  test_serial:						.: (0.000223)
Bio::TestPDBRecord::TestSITE: 
  test_chainID1:					.: (0.000342)
  test_chainID2:					.: (0.000202)
  test_chainID3:					.: (0.000389)
  test_chainID4:					.: (0.000176)
  test_iCode1:						.: (0.000175)
  test_iCode2:						.: (0.000232)
  test_iCode3:						.: (0.000180)
  test_iCode4:						.: (0.000176)
  test_numRes:						.: (0.000236)
  test_resName1:					.: (0.000193)
  test_resName2:					.: (0.000173)
  test_resName3:					.: (0.000186)
  test_resName4:					.: (0.000177)
  test_seq1:						.: (0.000184)
  test_seq2:						.: (0.000183)
  test_seq3:						.: (0.000243)
  test_seq4:						.: (0.000178)
  test_seqNum:						.: (0.000174)
  test_siteID:						.: (0.000174)
Bio::TestPDBRecord::TestSLTBRG: 
  test_altLoc1:						.: (0.000348)
  test_altLoc2:						.: (0.000172)
  test_atom1:						.: (0.000169)
  test_atom2:						.: (0.000158)
  test_chainID1:					.: (0.000159)
  test_chainID2:					.: (0.000154)
  test_iCode1:						.: (0.000157)
  test_iCode2:						.: (0.000149)
  test_resName1:					.: (0.000400)
  test_resName2:					.: (0.000169)
  test_resSeq1:						.: (0.000157)
  test_resSeq2:						.: (0.000160)
  test_sym1:						.: (0.000194)
  test_sym2:						.: (0.000228)
Bio::TestPDBRecord::TestSOURCE: 
  test_srcName:						.: (0.000344)
Bio::TestPDBRecord::TestSPRSDE: 
  test_idCode:						.: (0.000320)
  test_sIdCode:						.: (0.000184)
  test_sprsdeDate:					.: (0.000176)
Bio::TestPDBRecord::TestTER: 
  test_chainID:						.: (0.000317)
  test_iCode:						.: (0.000176)
  test_resName:						.: (0.000261)
  test_resSeq:						.: (0.000199)
  test_serial:						.: (0.000113)
Bio::TestPDBRecord::TestTITLE: 
  test_title:						.: (0.000176)
Bio::TestPDBRecord::TestTVECT: 
  test_serial:						.: (0.000138)
  test_t1:						.: (0.000060)
  test_t2:						.: (0.000051)
  test_t3:						.: (0.000052)
  test_text:						.: (0.000057)
Bio::TestPROSITE: 
  test_ac:						.: (0.001224)
  test_cc:						.: (0.001263)
  test_de:						.: (0.001117)
  test_division:					.: (0.001078)
  test_dr:						.: (0.012140)
  test_dt:						.: (0.000997)
  test_false_neg:					.: (0.004520)
  test_false_pos:					.: (0.001307)
  test_false_positive_sequences:			.: (0.001205)
  test_list_falsenegative:				.: (0.013577)
  test_list_falsepositive:				.: (0.012182)
  test_list_potentialhit:				.: (0.015139)
  test_list_truepositive:				.: (0.013993)
  test_list_unknown:					.: (0.014289)
  test_list_xref:					.: (0.016612)
  test_ma:						.: (0.001378)
  test_max_repeat:					.: (0.001600)
  test_name:						.: (0.001517)
  test_nr:						.: (0.001812)
  test_pa:						.: (0.001690)
  test_pa2re:						.: (0.001756)
  test_partial:						.: (0.001628)
  test_pdb_xref:					.: (0.001484)
  test_pdoc_xref:					.: (0.023896)
  test_positive:					.: (0.036231)
  test_positive_hits:					.: (0.001881)
  test_positive_sequences:				.: (0.001892)
  test_release:						.: (0.001484)
  test_ru:						.: (0.001528)
  test_self_pa2re:					.: (0.001391)
  test_site:						.: (0.001417)
  test_skip_flag:					.: (0.002127)
  test_swissprot_release_number:			.: (0.001545)
  test_swissprot_release_sequences:			.: (0.001508)
  test_taxon_range:					.: (0.001209)
  test_total:						.: (0.001234)
  test_total_hits:					.: (0.001358)
  test_total_sequences:					.: (0.001165)
  test_unknown:						.: (0.001203)
  test_unknown_hits:					.: (0.001407)
  test_unknown_sequences:				.: (0.001241)
Bio::TestPROSITEConst: 
  test_delimiter:					.: (0.000185)
  test_tagsize:						.: (0.000042)
Bio::TestPTS1: 
  test_function_set:					.: (0.000133)
  test_function_set_number_1:				.: (0.000061)
  test_function_set_number_2:				.: (0.000053)
  test_function_set_number_3:				.: (0.000053)
  test_function_show:					.: (0.000047)
Bio::TestPTS1Constant: 
  test_FUNCTION:					.: (0.000116)
Bio::TestPTS1New: 
  test_fungi:						.: (0.000115)
  test_general:						.: (0.000051)
  test_metazoa:						.: (0.000051)
Bio::TestQualifier: 
  test_qualifier:					.: (0.000118)
  test_value:						.: (0.000154)
Bio::TestREBASE: 
  test_methods:						.: (0.000970)
Bio::TestRPSBlast::TestRPSBlastHSP: 
  test_align_len:					.: (0.000813)
  test_bit_score:					.: (0.000520)
  test_evalue:						.: (0.000477)
  test_gaps:						.: (0.000463)
  test_hit_from:					.: (0.000486)
  test_hit_to:						.: (0.000805)
  test_hseq:						.: (0.000513)
  test_identity:					.: (0.000477)
  test_midline:						.: (0.000496)
  test_percent_identity:				.: (0.000452)
  test_positive:					.: (0.000436)
  test_qseq:						.: (0.000484)
  test_query_from:					.: (0.001062)
  test_query_to:					.: (0.000569)
  test_score:						.: (0.000479)
Bio::TestRPSBlast::TestRPSBlastReport: 
  test_db:						.: (0.000556)
  test_hits_size:					.: (0.000985)
  test_iterations_size:					.: (0.001237)
  test_program:						.: (0.000465)
  test_query_def:					.: (0.000898)
  test_query_len:					.: (0.000893)
  test_version:						.: (0.000410)
  test_version_date:					.: (0.000673)
  test_version_number:					.: (0.000462)
Bio::TestRPSBlast::TestRPSBlastReportHit: 
  test_bit_score:					.: (0.000625)
  test_definition:					.: (0.000475)
  test_evalue:						.: (0.000446)
  test_hsps_size:					.: (0.000403)
  test_identity:					.: (0.000430)
  test_lap_at:						.: (0.000721)
  test_len:						.: (0.000488)
  test_midline:						.: (0.000488)
  test_overlap:						.: (0.000438)
  test_query_end:					.: (0.000440)
  test_query_seq:					.: (0.000455)
  test_query_start:					.: (0.000473)
  test_target_def:					.: (0.000420)
  test_target_end:					.: (0.000714)
  test_target_len:					.: (0.000488)
  test_target_seq:					.: (0.000457)
  test_target_start:					.: (0.000472)
Bio::TestRPSBlast::TestRPSBlastSplitter: 
  test_entry_pos:					.: (0.000386)
  test_get_entry:					.: (0.000299)
  test_rewind:						.: (0.000070)
  test_skip_leader:					.: (0.000142)
Bio::TestReference: 
  test_abstract:					.: (0.000141)
  test_affiliations:					.: (0.000079)
  test_authors:						.: (0.000042)
  test_format_bibitem:					.: (0.000114)
  test_format_bibtex:					.: (0.000142)
  test_format_bibtex_with_arguments:			.: (0.000133)
  test_format_cell:					.: (0.000060)
  test_format_current:					.: (0.000164)
  test_format_endnote:					.: (0.000082)
  test_format_general:					.: (0.000096)
  test_format_genome_biol:				.: (0.000059)
  test_format_genome_res:				.: (0.000097)
  test_format_nar:					.: (0.000055)
  test_format_nature:					.: (0.000085)
  test_format_rd:					.: (0.000062)
  test_format_science:					.: (0.000107)
  test_format_trends:					.: (0.000049)
  test_issue:						.: (0.000061)
  test_journal:						.: (0.000041)
  test_mesh:						.: (0.000044)
  test_pages:						.: (0.000059)
  test_pubmed:						.: (0.000039)
  test_pubmed_url:					.: (0.000045)
  test_url:						.: (0.000062)
  test_volume:						.: (0.000038)
  test_year:						.: (0.000037)
Bio::TestReference_noURL: 
  test_format_endnote:					.: (0.000181)
  test_url:						.: (0.000070)
Bio::TestReferences: 
  test_append:						.: (0.000183)
  test_each:						.: (0.000056)
Bio::TestRelation: 
  test_comparison_operator:				.: (0.000161)
  test_uniq:						.: (0.000070)
Bio::TestResidue: 
  test_addAtom:						.: (0.000255)
  test_each:						.: (0.000117)
  test_each_atom:					.: (0.000100)
  test_get_residue_id_from_atom:			.: (0.000112)
  test_het_atom:					.: (0.000073)
  test_iCode:						.: (0.000080)
  test_inspect:						.: (0.000115)
  test_resSeq:						.: (0.000380)
  test_sort:						.: (0.000183)
  test_square_bracket:					.: (0.000127)
  test_to_s:						.: (0.000151)
  test_update_resudue_id:				.: (0.000115)
Bio::TestResidueFinder: 
  test_each_residue:					.: (0.000219)
  test_find_residue:					.: (0.000065)
  test_residues:					.: (0.000097)
Bio::TestRestrictionEnzyme::TestAnalysis: 
  test_cut:						.: (0.075353)
  test_cut_from_bio_sequence_na:			.: (0.023242)
  test_cut_without_permutations:			.: (0.014426)
  test_view_ranges:					.: (0.013601)
Bio::TestRestrictionEnzyme::TestAnalysisCalculatedCuts: 
  test_cuts:						.: (0.001047)
  test_cuts_after_remove_incomplete_cuts:		.: (0.000564)
  test_strands_for_display:				.: (0.003675)
  test_strands_for_display_current:			.: (0.000598)
Bio::TestRestrictionEnzyme::TestAnalysisSequenceRange: 
  test_fragments:					.: (0.001573)
  test_fragments_for_display_1:				.: (0.000752)
  test_fragments_for_display_10:			.: (0.000912)
  test_fragments_for_display_2:				.: (0.000748)
  test_fragments_for_display_3:				.: (0.001449)
  test_fragments_for_display_4:				.: (0.000898)
  test_fragments_for_display_5:				.: (0.000556)
  test_fragments_for_display_6:				.: (0.000603)
  test_fragments_for_display_7:				.: (0.000538)
  test_fragments_for_display_8:				.: (0.000527)
  test_fragments_for_display_9:				.: (0.000522)
Bio::TestRestrictionEnzyme::TestCutRanges: 
  test_obj_2:						.: (0.000431)
  test_obj_3:						.: (0.000541)
  test_obj_7:						.: (0.000270)
  test_obj_z:						.: (0.000265)
Bio::TestRestrictionEnzyme::TestCutSymbol: 
  test_methods:						.: (0.000423)
Bio::TestRestrictionEnzyme::TestDenseIntArray: 
  test_bracket:						.: (0.000327)
  test_bracket_eq:					.: (0.000237)
  test_concat:						.: (0.000185)
  test_delete:						.: (0.000213)
  test_dup:						.: (0.000366)
  test_each:						.: (0.000204)
  test_eqeq:						.: (0.000157)
  test_eqeq_false:					.: (0.000138)
  test_eqeq_other:					.: (0.000156)
  test_eqeq_self:					.: (0.000138)
  test_include?:					.: (0.000150)
  test_internal_data:					.: (0.000159)
  test_internal_data_eq:				.: (0.000171)
  test_length:						.: (0.000149)
  test_ltlt:						.: (0.000156)
  test_ltlt_larger:					.: (0.000145)
  test_ltlt_middle:					.: (0.000168)
  test_plus:						.: (0.000180)
  test_plus_error:					.: (0.000304)
  test_push:						.: (0.000160)
  test_reverse_each:					.: (0.000184)
  test_self_bracket:					.: (0.000140)
  test_self_new:					.: (0.000168)
  test_size:						.: (0.000140)
  test_sort!:						.: (0.000138)
  test_to_a:						.: (0.000140)
  test_uniq!:						.: (0.000135)
  test_unshift:						.: (0.000193)
Bio::TestRestrictionEnzyme::TestDoubleStranded: 
  test_argument_error:					.: (0.003393)
  test_complement:					.: (0.002975)
  test_complement_with_cut_symbols:			.: (0.003236)
  test_cut_locations:					.: (0.002936)
  test_cut_locations_in_enzyme_notation:		.: (0.002798)
  test_primary:						.: (0.002912)
  test_primary_with_cut_symbols:			.: (0.002936)
  test_to_re:						.: (0.002657)
Bio::TestRestrictionEnzyme::TestDoubleStrandedAlignedStrands: 
  test_align:						.: (0.001036)
  test_align_with_cuts:					.: (0.000801)
  test_argument_error:					.: (0.001033)
  test_ds:						.: (0.000784)
Bio::TestRestrictionEnzyme::TestDoubleStrandedCutLocationPair: 
  test_argument_error:					.: (0.000492)
  test_complement:					.: (0.000368)
  test_contents:					.: (0.000229)
  test_primary:						.: (0.000224)
Bio::TestRestrictionEnzyme::TestDoubleStrandedCutLocationPairInEnzymeNotation: 
  test_argument_error:					.: (0.000442)
  test_complement:					.: (0.000224)
  test_contents:					.: (0.000231)
  test_primary:						.: (0.000232)
Bio::TestRestrictionEnzyme::TestDoubleStrandedCutLocations: 
  test_complement:					.: (0.000469)
  test_contents:					.: (0.000221)
  test_primary:						.: (0.000198)
Bio::TestRestrictionEnzyme::TestDoubleStrandedCutLocationsInEnzymeNotation: 
  test_complement:					.: (0.000386)
  test_complement_to_array_index:			.: (0.000251)
  test_complement_to_array_index_class:			.: (0.000239)
  test_contents:					.: (0.000194)
  test_primary:						.: (0.000190)
  test_primary_to_array_index:				.: (0.000233)
  test_primary_to_array_index_class:			.: (0.000218)
  test_to_array_index:					.: (0.000376)
  test_to_array_index_class:				.: (0.000392)
Bio::TestRestrictionEnzyme::TestRestrictionEnzyme: 
  test_enzyme_name:					.: (0.000484)
  test_rebase:						.: (0.000205)
Bio::TestRestrictionEnzyme::TestSingleStrand: 
  test_argument_error:					.: (0.000903)
  test_creation_with_no_cuts:				.: (0.000466)
  test_cut_locations:					.: (0.000411)
  test_cut_locations_in_enzyme_notation:		.: (0.000511)
  test_orientation:					.: (0.000388)
  test_pattern:						.: (0.000411)
  test_pattern_palindromic?:				.: (0.000641)
  test_stripped:					.: (0.000392)
  test_to_re:						.: (0.000362)
  test_with_cut_symbols:				.: (0.000422)
  test_with_spaces:					.: (0.000645)
Bio::TestRestrictionEnzyme::TestSingleStrandComplement: 
  test_argument_error:					.: (0.002275)
  test_creation_with_no_cuts:				.: (0.000646)
  test_cut_locations:					.: (0.000519)
  test_cut_locations_in_enzyme_notation:		.: (0.000451)
  test_orientation:					.: (0.000547)
  test_pattern:						.: (0.000471)
  test_pattern_palindromic?:				.: (0.000486)
  test_stripped:					.: (0.000487)
  test_to_re:						.: (0.000433)
  test_with_cut_symbols:				.: (0.000432)
  test_with_spaces:					.: (0.000574)
Bio::TestRestrictionEnzyme::TestSingleStrandCutLocationsInEnzymeNotation: 
  test_argument_error:					.: (0.000497)
  test_initialize_with_pattern:				.: (0.000337)
  test_max:						.: (0.000188)
  test_min:						.: (0.000191)
  test_to_array_index:					.: (0.000239)
Bio::TestRestrictionEnzyme::TestSortedNumArray: 
  test_bracket:						.: (0.000302)
  test_bracket_eq:					.: (0.000334)
  test_concat:						.: (0.000149)
  test_delete:						.: (0.000139)
  test_dup:						.: (0.000182)
  test_each:						.: (0.000181)
  test_eqeq:						.: (0.000147)
  test_eqeq_false:					.: (0.000141)
  test_eqeq_other:					.: (0.000134)
  test_eqeq_self:					.: (0.000133)
  test_include?:					.: (0.000170)
  test_internal_data_hash:				.: (0.000147)
  test_internal_data_hash_eq:				.: (0.000160)
  test_length:						.: (0.000138)
  test_ltlt:						.: (0.000141)
  test_ltlt_noeffect:					.: (0.000148)
  test_plus:						.: (0.000284)
  test_plus_error:					.: (0.000220)
  test_private_push_element:				.: (0.000181)
  test_private_push_element_intermediate:		.: (0.000151)
  test_private_push_element_last:			.: (0.000141)
  test_private_push_element_noeffect:			.: (0.000134)
  test_private_sorted_keys:				.: (0.000134)
  test_private_unshift_element:				.: (0.000132)
  test_private_unshift_element_first:			.: (0.000140)
  test_private_unshift_element_intermediate:		.: (0.000152)
  test_private_unshift_element_noeffect:		.: (0.000127)
  test_push:						.: (0.000158)
  test_reverse_each:					.: (0.000209)
  test_self_bracket:					.: (0.000127)
  test_self_new:					.: (0.000156)
  test_size:						.: (0.000222)
  test_sort!:						.: (0.000131)
  test_to_a:						.: (0.000135)
  test_uniq!:						.: (0.000123)
  test_unshift:						.: (0.000140)
Bio::TestRestrictionEnzyme::TestStringFormatting: 
  test_add_spacing:					.: (0.000322)
  test_left_padding:					.: (0.000163)
  test_right_padding:					.: (0.000152)
  test_strip_padding:					.: (0.000166)
Bio::TestSOFT: 
  test_dataset:						.: (0.004994)
  test_series:						.: (0.010044)
Bio::TestSOSUIReport: 
  test_entry_id:					.: (0.000418)
  test_prediction:					.: (0.000366)
  test_tmh:						.: (0.000227)
  test_tmhs:						.: (0.000239)
Bio::TestSOSUIReportConst: 
  test_delimiter:					.: (0.000278)
  test_rs:						.: (0.000158)
Bio::TestSOSUITMH: 
  test_grade:						.: (0.000352)
  test_range:						.: (0.000228)
  test_sequence:					.: (0.000211)
Bio::TestSampleGraph: 
  test_bellman_ford:					.: (0.000503)
  test_bfs_shortest_path:				.: (0.000393)
  test_breadth_first_search:				.: (0.000232)
  test_depth_first_search:				.: (0.000341)
  test_dijkstra:					.: (0.000349)
  test_dump_list:					.: (0.000302)
  test_dump_matrix:					.: (0.000387)
  test_extract_subgraph_by_label:			.: (0.000433)
  test_extract_subgraph_by_list:			.: (0.000266)
  test_extract_subgraph_retains_disconnected_nodes:	.: (0.000202)
  test_small_world_aka_node_degree_histogram:		.: (0.000196)
  test_to_matrix:					.: (0.000384)
  test_to_matrix_fixed_index:				.: (0.000300)
  test_undirected_cliquishness:				.: (0.000341)
Bio::TestScf_version_2: 
  test_complement:					.: (0.008875)
  test_seq:						.: (0.007976)
  test_to_biosequence:					.: (0.006978)
Bio::TestScf_version_3: 
  test_complement:					.: (0.022207)
  test_seq:						.: (0.023429)
  test_to_biosequence:					.: (0.021629)
Bio::TestSequence: 
  test_AA_new_blank_sequence:				.: (0.000367)
  test_AA_new_sequence_all_legal_symbols:		.: (0.000181)
  test_AA_new_sequence_removes_whitespace:		.: (0.000169)
  test_AA_new_sequence_upcases_symbols:			.: (0.000161)
  test_DNA_new_blank_sequence:				.: (0.000172)
  test_DNA_new_sequence_downcases_symbols:		.: (0.000174)
  test_DNA_new_sequence_removes_whitespace:		.: (0.000170)
  test_NA_randomize_with_counts:			.: (0.000822)
  test_NA_randomize_with_counts_and_block:		.: (0.000846)
  test_RNA_new_sequence:				.: (0.000170)
  test_ambiguous_dna_sequence_complement:		.: (0.000164)
  test_ambiguous_rna_sequence_complement:		.: (0.000161)
  test_amino_acid_codes:				.: (0.000196)
  test_amino_acid_molecular_weight:			.: (0.000362)
  test_amino_acid_names:				.: (0.000201)
  test_amino_acid_randomize_can_be_chained:		.: (0.000971)
  test_amino_acid_randomize_has_same_composition:	.: (0.000634)
  test_consecutive_amino_acid_randomizes_are_not_equal:	.: (0.000573)
  test_dna_composition:					.: (0.000202)
  test_dna_gc_percent:					.: (0.000202)
  test_dna_molecular_weight:				.: (0.000261)
  test_dna_pikachu:					.: (0.000170)
  test_dna_sequence_complement:				.: (0.000146)
  test_dna_sequence_translate:				.: (0.000459)
  test_dna_to_re:					.: (0.000207)
  test_element_reference_operator_with_one_argument:	.: (0.000148)
  test_element_reference_operator_with_two_arguments:	.: (0.000142)
  test_invalid_nucleic_acid_illegal_bases:		.: (0.000190)
  test_invalid_nucleic_acid_illegal_bases_more:		.: (0.000186)
  test_nucleic_acid_names:				.: (0.000161)
  test_randomize_dna_can_be_chained:			.: (0.000460)
  test_randomize_dna_retains_composition:		.: (0.000291)
  test_randomize_dna_with_block:			.: (0.000291)
  test_rna_composition:					.: (0.000158)
  test_rna_gc_percent:					.: (0.000170)
  test_rna_molecular_weight:				.: (0.000203)
  test_rna_pikachu:					.: (0.000149)
  test_rna_sequence_complement:				.: (0.000138)
  test_rna_sequence_translate:				.: (0.000375)
  test_rna_to_re:					.: (0.000216)
  test_total:						.: (0.000158)
  test_two_consecutive_dna_randomizations_not_equal:	.: (0.000244)
  test_valid_dna_sequence_illegal_bases:		.: (0.000162)
Bio::TestSequenceAA: 
  test_codes:						.: (0.000276)
  test_molecular_weight:				.: (0.000194)
  test_names:						.: (0.000170)
  test_to_re:						.: (0.000196)
  test_to_s:						.: (0.000124)
Bio::TestSequenceAACompat: 
  test_aa_self_randomize:				.: (0.000316)
Bio::TestSequenceAANew: 
  test_new:						.: (0.000232)
  test_new_n:						.: (0.000134)
  test_new_r:						.: (0.000134)
  test_new_t:						.: (0.000145)
Bio::TestSequenceCommon::TestSequenceCommon: 
  test_composition:					.: (0.000302)
  test_concat:						.: (0.000175)
  test_push:						.: (0.000136)
  test_seq:						.: (0.000133)
  test_splicing:					.: (0.000262)
  test_sum:						.: (0.000165)
  test_to_s:						.: (0.000163)
  test_to_str:						.: (0.000166)
  test_total:						.: (0.000176)
  test_window_search:					.: (0.000286)
Bio::TestSequenceCommon::TestSequenceCommonNormalize: 
  test_no_normalize:					.: (0.000594)
  test_normalize_A:					.: (0.000166)
  test_normalize_a:					.: (0.000164)
Bio::TestSequenceCommon::TestSequenceCommonRandomize: 
  test_randomize:					.: (0.000969)
  test_randomize_with_block:				.: (0.002613)
  test_randomize_with_hash:				.: (0.000975)
  test_randomize_with_hash_block:			.: (0.003791)
Bio::TestSequenceCommon::TestSequenceCommonRandomizeChi2: 
  test_randomize_equiprobability:			O
===============================================================================
Omission: test randomly failing skipped [test_randomize_equiprobability(Bio::TestSequenceCommon::TestSequenceCommonRandomizeChi2)]
/build/reproducible-path/ruby-bio-2.0.5/test/unit/bio/sequence/test_common.rb:324:in `test_randomize_equiprobability'
===============================================================================
: (0.001357)
  test_randomize_with_hash_equiprobability:		O
===============================================================================
Omission: test randomly failing skipped [test_randomize_with_hash_equiprobability(Bio::TestSequenceCommon::TestSequenceCommonRandomizeChi2)]
/build/reproducible-path/ruby-bio-2.0.5/test/unit/bio/sequence/test_common.rb:330:in `test_randomize_with_hash_equiprobability'
===============================================================================
: (0.001108)
Bio::TestSequenceCommon::TestSequenceCommonSubseq: 
  test_subseq_returns_RuntimeError_blank_sequence_default_end:	.: (0.000366)
  test_subseq_returns_RuntimeError_start_less_than_one:	.: (0.000170)
  test_subseq_returns_subsequence:			.: (0.000146)
  test_to_s_returns_self_as_string:			.: (0.000150)
Bio::TestSequenceCommon::TestSequenceCommonWindowSearch: 
  test_window_search_with_width_3_default_step_no_residual:	.: (0.000273)
  test_window_search_with_width_3_step_two_with_residual:	.: (0.000153)
Bio::TestSequenceCompat::TestSequenceCommonCompat: 
  test_to_fasta:					.: (0.000429)
Bio::TestSequenceCompat::TestSequenceCompat: 
  test_to_s:						.: (0.000229)
Bio::TestSequenceCompat::TestSequenceNACompat: 
  test_aa_self_randomize:				.: (0.000310)
  test_na_self_randomize:				.: (0.000218)
Bio::TestSequenceDBLink: 
  test_database:					.: (0.000241)
  test_id:						.: (0.000176)
  test_secondary_ids:					.: (0.000160)
Bio::TestSequenceDBLinkClassMethods: 
  test_parse_embl_DR_line:				.: (0.000301)
  test_parse_uniprot_DR_line:				.: (0.000195)
Bio::TestSequenceFormatFormatterFasta_numeric: 
  test_output:						.: (0.000926)
  test_output_width_35:					.: (0.000342)
  test_output_width_nil:				.: (0.000515)
Bio::TestSequenceFormatFormatterQual: 
  test_output:						.: (0.000527)
  test_output_after_adding_sequence:			.: (0.000394)
  test_output_after_truncating_sequence:		.: (0.000281)
  test_output_from_error_probabilities:			.: (0.009821)
  test_output_width45:					.: (0.000469)
  test_output_with_converting_score_phred2solexa:	.: (0.000641)
  test_output_with_converting_score_solexa2phred:	.: (0.000394)
  test_output_with_default_score:			.: (0.000344)
Bio::TestSequenceMasker: 
  test_mask:						.: (0.000435)
  test_mask_with_enumerator:				.: (0.000279)
  test_mask_with_enumerator_empty_mask_char:		.: (0.000218)
  test_mask_with_enumerator_excess:			.: (0.000480)
  test_mask_with_enumerator_longer_mask_char:		.: (0.005654)
  test_mask_with_enumerator_shorter:			.: (0.000358)
  test_mask_with_error_probability:			.: (0.000261)
  test_mask_with_quality_score:				.: (0.000226)
Bio::TestSequenceNA: 
  test_at_content:					.: (0.000497)
  test_at_skew:						.: (0.000286)
  test_codon_usage:					.: (0.000209)
  test_complement:					.: (0.000181)
  test_dna:						.: (0.000190)
  test_dna!:						.: (0.000183)
  test_forward_complement:				.: (0.000458)
  test_gc_content:					.: (0.000310)
  test_gc_percent:					.: (0.000245)
  test_gc_skew:						.: (0.000367)
  test_iliegal_bases:					.: (0.000161)
  test_molecular_weight:				.: (0.000176)
  test_names:						.: (0.000233)
  test_reverse_complement:				.: (0.000197)
  test_rna:						.: (0.000143)
  test_rna!:						.: (0.000326)
  test_splicing:					.: (0.000241)
  test_to_re:						.: (0.000276)
  test_to_s:						.: (0.000141)
Bio::TestSequenceNACommon: 
  test_composition:					.: (0.000316)
  test_concat:						.: (0.000147)
  test_push:						.: (0.000144)
  test_seq:						.: (0.000144)
  test_splicing:					.: (0.000231)
  test_sum:						.: (0.000139)
  test_to_s:						.: (0.000131)
  test_to_str:						.: (0.000129)
  test_total:						.: (0.000143)
  test_window_search:					.: (0.000454)
Bio::TestSequenceNANew: 
  test_new:						.: (0.000273)
  test_new_n:						.: (0.000153)
  test_new_r:						.: (0.000143)
  test_new_t:						.: (0.000173)
Bio::TestSequenceNATranslation: 
  test_translate:					.: (0.000500)
  test_translate_0:					.: (0.000638)
  test_translate_1:					.: (0.000588)
  test_translate_2:					.: (0.000310)
  test_translate_3:					.: (0.000301)
  test_translate_4:					.: (0.000303)
  test_translate_5:					.: (0.000288)
  test_translate_6:					.: (0.000272)
  test_translate_7:					.: (0.000436)
  test_translate_given_codon_table:			.: (0.031802)
  test_translate_n1:					.: (0.000589)
  test_translate_n2:					.: (0.000551)
  test_translate_n3:					.: (0.000459)
  test_translate_unknown_o:				.: (0.000318)
  test_translate_unknown_x:				.: (0.000349)
Bio::TestSequenceQualityScore::TestConverter: 
  test_convert_nothing:					.: (0.000299)
  test_convert_scores_from_phred_to_solexa:		.: (0.000375)
  test_convert_scores_from_solexa_to_phred:		.: (0.000219)
Bio::TestSequenceQualityScore::TestPhred: 
  test_convert_nothing:					.: (0.000281)
  test_convert_scores_from_phred:			.: (0.000163)
  test_convert_scores_from_phred_to_solexa:		.: (0.000387)
  test_convert_scores_from_solexa:			.: (0.000225)
  test_convert_scores_from_solexa_to_phred:		.: (0.000206)
  test_convert_scores_to_phred:				.: (0.000144)
  test_convert_scores_to_solexa:			.: (0.000356)
  test_p2q:						.: (0.000207)
  test_phred_p2q:					.: (0.000197)
  test_phred_q2p:					.: (0.001803)
  test_q2p:						.: (0.001671)
  test_quality_score_type:				.: (0.000188)
  test_self_convert_scores_to_solexa:			.: (0.000413)
  test_self_p2q:					.: (0.000205)
  test_self_q2p:					.: (0.001607)
Bio::TestSequenceQualityScore::TestSolexa: 
  test_convert_nothing:					.: (0.000671)
  test_convert_scores_from_phred:			.: (0.000397)
  test_convert_scores_from_phred_to_solexa:		.: (0.000325)
  test_convert_scores_from_solexa:			.: (0.000138)
  test_convert_scores_from_solexa_to_phred:		.: (0.000191)
  test_convert_scores_to_phred:				.: (0.000186)
  test_convert_scores_to_solexa:			.: (0.000120)
  test_p2q:						.: (0.000233)
  test_q2p:						.: (0.001719)
  test_quality_score_type:				.: (0.000144)
  test_self_convert_scores_to_phred:			.: (0.000222)
  test_self_p2q:					.: (0.000221)
  test_self_q2p:					.: (0.005413)
  test_solexa_p2q:					.: (0.004010)
  test_solexa_q2p:					.: (0.032311)
Bio::TestSequenceRuby3::TestSequenceCommon: 
  test_capitalize:					.: (0.004536)
  test_center:						.: (0.000241)
  test_chomp:						.: (0.000222)
  test_chop:						.: (0.004689)
  test_delete:						.: (0.000254)
  test_delete_prefix:					.: (0.000188)
  test_delete_suffix:					.: (0.000208)
  test_downcase:					.: (0.000178)
  test_each_char:					.: (0.004022)
  test_each_char_enum:					.: (0.000380)
  test_each_grapheme_cluster:				.: (0.000700)
  test_each_grapheme_cluster_enum:			.: (0.000265)
  test_each_line:					.: (0.003758)
  test_each_line_enum:					.: (0.000269)
  test_gsub:						.: (0.003991)
  test_gsub_with_block:					.: (0.000660)
  test_ljust:						.: (0.000209)
  test_lstrip:						.: (0.000190)
  test_multiply:					.: (0.000185)
  test_next:						.: (0.000187)
  test_reverse:						.: (0.000187)
  test_rjust:						.: (0.000183)
  test_rstrip:						.: (0.000179)
  test_slice:						.: (0.000192)
  test_slice2:						.: (0.000192)
  test_split:						.: (0.000245)
  test_squeeze:						.: (0.000196)
  test_strip:						.: (0.000173)
  test_sub:						.: (0.000192)
  test_sub_with_block:					.: (0.000389)
  test_succ:						.: (0.000179)
  test_swapcase:					.: (0.000183)
  test_tr:						.: (0.000180)
  test_tr_s:						.: (0.000181)
  test_upcase:						.: (0.000165)
Bio::TestSequenceRuby3::TestSequenceCommonPartition: 
  test_partition:					.: (0.000386)
  test_partition_nomatch:				.: (0.000186)
  test_partition_sep_TSeq:				.: (0.000388)
  test_partition_sep_regexp:				.: (0.000203)
Bio::TestSequenceRuby3::TestSequenceCommonRpartition: 
  test_rpartition:					.: (0.000312)
  test_rpartition_nomatch:				.: (0.000169)
  test_rpartition_sep_TSeq:				.: (0.000174)
  test_rpartition_sep_regexp:				.: (0.000180)
Bio::TestShRNA: 
  test_blocK_it:					.: (0.017116)
  test_blocK_it_:					.: (0.019880)
  test_blocK_it_BLOCK_IT:				.: (0.034860)
  test_blocK_it_BLOCK_iT:				.: (0.033420)
  test_blocK_it_piGene:					.: (0.027056)
  test_bottom_strand:					.: (0.027648)
  test_bottom_strand_class:				.: (0.029356)
  test_bottom_strand_nil:				.: (0.027098)
  test_design:						.: (0.027300)
  test_design_BLOCK_IT:					.: (0.035317)
  test_report:						.: (0.027633)
  test_report_before_design:				.: (0.027653)
  test_top_strand:					.: (0.031643)
  test_top_strand_class:				.: (0.027635)
  test_top_strand_nil:					.: (0.027629)
Bio::TestShRNANew: 
  test_new:						.: (0.000521)
Bio::TestSiRNA: 
  test_antisense_size:					.: (0.000301)
  test_design:						.: (0.033584)
  test_design_reynolds:					.: (0.035641)
  test_design_uitei:					.: (0.027916)
  test_max_gc_percent:					.: (0.000216)
  test_min_gc_percent:					.: (0.000172)
  test_reynolds:					.: (0.038765)
  test_reynolds?:					.: (0.000294)
  test_uitei:						.: (0.027219)
  test_uitei?:						.: (0.000287)
Bio::TestSiRNANew: 
  test_new:						.: (0.000574)
Bio::TestSiRNAPair: 
  test_antisense:					.: (0.034257)
  test_gc_percent:					.: (0.029999)
  test_report:						.: (0.023640)
  test_rule:						.: (0.035641)
  test_sense:						.: (0.023513)
  test_start:						.: (0.027112)
  test_stop:						.: (0.040770)
  test_target:						.: (0.043999)
Bio::TestSiRNAPairNew: 
  test_new:						.: (0.000364)
Bio::TestSim4Report: 
  test_all_hits:					.: (0.000354)
  test_each:						.: (0.000160)
  test_each_hit:					.: (0.000132)
  test_hits:						.: (0.000136)
  test_num_hits:					.: (0.000235)
  test_query_def:					.: (0.000129)
  test_query_id:					.: (0.000104)
  test_query_len:					.: (0.000102)
  test_seq1:						.: (0.000142)
Bio::TestSim4Report2: 
  test_all_hits:					.: (0.000256)
  test_each:						.: (0.000131)
  test_each_hit:					.: (0.000115)
  test_hits:						.: (0.000117)
  test_num_hits:					.: (0.004340)
  test_query_def:					.: (0.000290)
  test_query_id:					.: (0.000117)
  test_query_len:					.: (0.000104)
  test_seq1:						.: (0.000144)
Bio::TestSim4Report4: 
  test_all_hits:					.: (0.000276)
  test_each:						.: (0.000145)
  test_each_hit:					.: (0.000120)
  test_hits:						.: (0.000121)
  test_num_hits:					.: (0.000214)
  test_query_def:					.: (0.000113)
  test_query_id:					.: (0.000091)
  test_query_len:					.: (0.000092)
  test_seq1:						.: (0.000136)
Bio::TestSim4ReportHit: 
  test_align:						.: (0.000288)
  test_complement?:					.: (0.000106)
  test_definition:					.: (0.000095)
  test_each:						.: (0.000324)
  test_exons:						.: (0.000258)
  test_hit_id:						.: (0.000106)
  test_hsps:						.: (0.004520)
  test_introns:						.: (0.000286)
  test_len:						.: (0.000106)
  test_query_def:					.: (0.000099)
  test_query_id:					.: (0.000091)
  test_query_len:					.: (0.000091)
  test_segmentpairs:					.: (0.000310)
  test_seq1:						.: (0.000173)
  test_seq2:						.: (0.000132)
  test_target_def:					.: (0.000092)
  test_target_id:					.: (0.000098)
  test_target_len:					.: (0.000090)
Bio::TestSim4ReportHit2: 
  test_align:						.: (0.000296)
  test_complement?:					.: (0.000108)
  test_definition:					.: (0.000092)
  test_each:						.: (0.000319)
  test_exons:						.: (0.000231)
  test_hit_id:						.: (0.000107)
  test_hsps:						.: (0.000187)
  test_introns:						.: (0.004484)
  test_len:						.: (0.000199)
  test_query_def:					.: (0.000099)
  test_query_id:					.: (0.000085)
  test_query_len:					.: (0.000178)
  test_segmentpairs:					.: (0.000259)
  test_seq1:						.: (0.000136)
  test_seq2:						.: (0.000119)
  test_target_def:					.: (0.000091)
  test_target_id:					.: (0.000085)
  test_target_len:					.: (0.000081)
Bio::TestSim4ReportHit4: 
  test_align:						.: (0.000335)
  test_complement?:					.: (0.000112)
  test_definition:					.: (0.000207)
  test_each:						.: (0.000342)
  test_exons:						.: (0.000282)
  test_hit_id:						.: (0.000121)
  test_hsps:						.: (0.000231)
  test_introns:						.: (0.004689)
  test_len:						.: (0.000244)
  test_query_def:					.: (0.000127)
  test_query_id:					.: (0.000115)
  test_query_len:					.: (0.000115)
  test_segmentpairs:					.: (0.000318)
  test_seq1:						.: (0.000152)
  test_seq2:						.: (0.000133)
  test_target_def:					.: (0.000098)
  test_target_id:					.: (0.000234)
  test_target_len:					.: (0.000148)
Bio::TestSim4ReportSegment: 
  test_from:						.: (0.000164)
  test_self_new:					.: (0.000069)
  test_seq:						.: (0.000045)
  test_to:						.: (0.000039)
Bio::TestSim4ReportSegmentPair2_exon: 
  test_align_len:					.: (0.000311)
  test_direction:					.: (0.000185)
  test_hit_from:					.: (0.000181)
  test_hit_to:						.: (0.004724)
  test_hseq:						.: (0.000369)
  test_midline:						.: (0.000181)
  test_percent_identity:				.: (0.000191)
  test_qseq:						.: (0.000178)
  test_query_from:					.: (0.000169)
  test_query_to:					.: (0.000167)
  test_seq1:						.: (0.000320)
  test_seq2:						.: (0.000229)
Bio::TestSim4ReportSegmentPair2_intron: 
  test_align_len:					.: (0.000309)
  test_direction:					.: (0.000179)
  test_hit_from:					.: (0.000163)
  test_hit_to:						.: (0.000165)
  test_hseq:						.: (0.000158)
  test_midline:						.: (0.004537)
  test_percent_identity:				.: (0.000351)
  test_qseq:						.: (0.000204)
  test_query_from:					.: (0.000176)
  test_query_to:					.: (0.000173)
  test_seq1:						.: (0.000200)
  test_seq2:						.: (0.000288)
Bio::TestSim4ReportSegmentPair4_exon: 
  test_align_len:					.: (0.000395)
  test_direction:					.: (0.000241)
  test_hit_from:					.: (0.000214)
  test_hit_to:						.: (0.000206)
  test_hseq:						.: (0.000289)
  test_midline:						.: (0.000216)
  test_percent_identity:				.: (0.000181)
  test_qseq:						.: (0.000449)
  test_query_from:					.: (0.000250)
  test_query_to:					.: (0.000295)
  test_seq1:						.: (0.000253)
  test_seq2:						.: (0.000211)
Bio::TestSim4ReportSegmentPair4_intron: 
  test_align_len:					.: (0.000318)
  test_direction:					.: (0.000287)
  test_hit_from:					.: (0.000208)
  test_hit_to:						.: (0.000181)
  test_hseq:						.: (0.000179)
  test_midline:						.: (0.000178)
  test_percent_identity:				.: (0.000328)
  test_qseq:						.: (0.000230)
  test_query_from:					.: (0.000186)
  test_query_to:					.: (0.004424)
  test_seq1:						.: (0.000382)
  test_seq2:						.: (0.000416)
Bio::TestSim4ReportSegmentPair4_intron1: 
  test_align_len:					.: (0.000356)
  test_direction:					.: (0.000214)
  test_hit_from:					.: (0.000199)
  test_hit_to:						.: (0.000337)
  test_hseq:						.: (0.000243)
  test_midline:						.: (0.000188)
  test_percent_identity:				.: (0.000183)
  test_qseq:						.: (0.000178)
  test_query_from:					.: (0.000300)
  test_query_to:					.: (0.000224)
  test_seq1:						.: (0.004583)
  test_seq2:						.: (0.000328)
Bio::TestSim4ReportSegmentPair_exon: 
  test_align_len:					.: (0.000310)
  test_direction:					.: (0.000160)
  test_hit_from:					.: (0.000164)
  test_hit_to:						.: (0.000167)
  test_hseq:						.: (0.000139)
  test_midline:						.: (0.000133)
  test_percent_identity:				.: (0.000131)
  test_qseq:						.: (0.000132)
  test_query_from:					.: (0.000264)
  test_query_to:					.: (0.000143)
  test_seq1:						.: (0.000178)
  test_seq2:						.: (0.000160)
Bio::TestSim4ReportSegmentPair_intron: 
  test_align_len:					.: (0.000287)
  test_direction:					.: (0.004469)
  test_hit_from:					.: (0.000366)
  test_hit_to:						.: (0.000187)
  test_hseq:						.: (0.000146)
  test_midline:						.: (0.000138)
  test_percent_identity:				.: (0.000137)
  test_qseq:						.: (0.000134)
  test_query_from:					.: (0.000219)
  test_query_to:					.: (0.000158)
  test_seq1:						.: (0.000172)
  test_seq2:						.: (0.000180)
Bio::TestSim4ReportSeqDesc: 
  test_definition:					.: (0.000168)
  test_entry_id:					.: (0.000047)
  test_filename:					.: (0.000043)
  test_len:						.: (0.000042)
  test_self_new:					.: (0.000056)
  test_self_parse:					.: (0.000063)
Bio::TestTMHMMReport: 
  test_entry_id:					.: (0.000410)
  test_exp_aas_in_tmhs:					.: (0.000167)
  test_exp_first_60aa:					.: (0.000158)
  test_helix:						.: (0.004503)
  test_predicted_tmhs:					.: (0.000360)
  test_query_len:					.: (0.000166)
  test_tmhs:						.: (0.000168)
  test_to_s:						.: (0.000235)
  test_total_prob_of_N_in:				.: (0.000357)
Bio::TestTMHMMReport_reports: 
  test_reports:						.: (0.000189)
Bio::TestTMHMMTMH: 
  test_entry_id:					.: (0.000279)
  test_pos:						.: (0.000193)
  test_range:						.: (0.000178)
  test_status:						.: (0.000334)
  test_version:						.: (0.000164)
Bio::TestTargetPReport: 
  test_cleavage_site_prediction:			.: (0.000254)
  test_cutoff:						.: (0.000497)
  test_entry_id:					.: (0.000506)
  test_length:						.: (0.000287)
  test_loc:						.: (0.000269)
  test_name:						.: (0.000236)
  test_networks:					.: (0.000247)
  test_prediction:					.: (0.000251)
  test_query_len:					.: (0.000245)
  test_query_sequences:					.: (0.000232)
  test_rc:						.: (0.000248)
  test_version:						.: (0.000260)
Bio::TestTargetPReportConst: 
  test_delimiter:					.: (0.000273)
  test_rs:						.: (0.000149)
Bio::TestTogoWSAccessWait: 
  test_reset_togows_access_wait:			.: (0.000263)
  test_togows_access_wait:				.: (2.005995)
Bio::TestTogoWSREST: 
  test_debug:						.: (0.000504)
  test_debug_default:					.: (0.000103)
  test_internal_http:					.: (0.000108)
Bio::TestTogoWSRESTclassMethod: 
  test_convert:						.: (0.000131)
  test_entry:						.: (0.000046)
  test_entry_database_list:				.: (0.000041)
  test_new:						.: (0.000121)
  test_new_with_uri_object:				.: (0.000128)
  test_new_with_uri_string:				.: (0.000104)
  test_retrieve:					.: (0.000043)
  test_search:						.: (0.000227)
  test_search_database_list:				.: (0.000040)
Bio::TestTogoWSRESTprivate: 
  test_make_path:					.: (0.000265)
  test_prepare_return_value:				.: (0.000139)
Bio::TestTopologicalSort: 
  test_dfs_topological_sort:				.: (0.000272)
Bio::TestTree: 
  test_get_edge_distance:				.: (0.000167)
  test_get_edge_distance_string:			.: (0.000083)
  test_get_node_name:					.: (0.000056)
  test_initialize:					.: (0.000063)
  test_options:						.: (0.000051)
  test_root:						.: (0.000087)
  test_root=:						.: (0.000064)
Bio::TestTree2: 
  test_add_edge:					.: (0.000274)
  test_add_node:					.: (0.000135)
  test_adjacency_matrix:				.: (0.000163)
  test_adjacency_matrix_with_block:			.: (0.000134)
  test_adjacent_nodes:					.: (0.000131)
  test_adjacent_nodes_nonexistent:			.: (0.000082)
  test_ancestors:					.: (0.000103)
  test_children:					.: (0.000089)
  test_clear:						.: (0.000217)
  test_clear_node:					.: (0.000114)
  test_clear_node_nonexistent:				.: (0.000166)
  test_collect_edge!:					.: (0.000166)
  test_collect_node!:					.: (0.000162)
  test_concat:						.: (0.000147)
  test_descendents:					.: (0.000104)
  test_distance_matrix:					.: (0.000323)
  test_each_edge:					.: (0.000253)
  test_each_node:					.: (0.004379)
  test_each_out_edge:					.: (0.000191)
  test_each_out_edge_chimpanzee:			.: (0.000102)
  test_each_out_edge_human:				.: (0.000096)
  test_each_out_edge_mammals:				.: (0.000115)
  test_each_out_edge_nonexistent:			.: (0.000087)
  test_each_out_edge_primates:				.: (0.000124)
  test_each_out_edge_rat:				.: (0.000093)
  test_each_out_edge_rodents:				.: (0.000281)
  test_edges:						.: (0.000098)
  test_get_edge:					.: (0.000183)
  test_get_edge_indirect:				.: (0.000072)
  test_get_edge_merged:					.: (0.000094)
  test_get_edge_nonexistent:				.: (0.000073)
  test_get_node_bootstrap:				.: (0.000076)
  test_get_node_bootstrap_string=:			.: (0.000080)
  test_get_node_by_name:				.: (0.000120)
  test_get_node_by_name_noexistent:			.: (0.000135)
  test_include?:					.: (0.000107)
  test_include_nonexistent:				.: (0.000074)
  test_insert_node:					.: (0.000143)
  test_leaves:						.: (0.000311)
  test_leaves_noargs:					.: (0.000113)
  test_lowest_common_ancestor:				.: (0.000115)
  test_nodes:						.: (0.000092)
  test_number_of_edges:					.: (0.000086)
  test_number_of_nodes:					.: (0.000090)
  test_out_degree:					.: (0.000126)
  test_out_degree_nonexistent:				.: (0.000097)
  test_out_edges:					.: (0.000121)
  test_out_edges_mammals:				.: (0.000441)
  test_out_edges_nonexistent:				.: (0.000101)
  test_out_edges_primates:				.: (0.000128)
  test_out_edges_rodents:				.: (0.000124)
  test_parent:						.: (0.000113)
  test_path:						.: (0.000095)
  test_remove_edge:					.: (0.000099)
  test_remove_edge_if:					.: (0.000117)
  test_remove_edge_if_nothing_removed:			.: (0.000123)
  test_remove_edge_nonexistent:				.: (0.000575)
  test_remove_node:					.: (0.000147)
  test_remove_node_if:					.: (0.000091)
  test_remove_node_if_false:				.: (0.003393)
  test_remove_node_nonexistent:				.: (0.000177)
  test_remove_nonsense_nodes:				.: (0.000141)
  test_subtree:						.: (0.000160)
  test_subtree_with_all_paths:				.: (0.000263)
  test_total_distance:					.: (0.000109)
Bio::TestTreeEdge: 
  test_distance:					.: (0.000459)
  test_distance=:					.: (0.000080)
  test_distance_string:					.: (0.000041)
  test_distance_string=:				.: (0.000064)
  test_initialize:					.: (0.000068)
  test_inspect:						.: (0.000046)
  test_to_s:						.: (0.000042)
Bio::TestTreeNode: 
  test_bootstrap:					.: (0.000139)
  test_bootstrap=:					.: (0.000068)
  test_bootstrap_string:				.: (0.000041)
  test_bootstrap_string=:				.: (0.000081)
  test_initialize:					.: (0.000067)
  test_inspect:						.: (0.000075)
  test_name:						.: (0.000048)
  test_to_s:						.: (0.000059)
Bio::TestUniProt: 
  test_gene_name:					.: (0.003556)
Bio::TestUniProtKB: 
  test_ac:						.: (0.003685)
  test_accession:					.: (0.003132)
  test_cc:						.: (0.004277)
  test_cc_alternative_products:				.: (0.004847)
  test_cc_database:					.: (0.004630)
  test_cc_mass_spectrometry:				.: (0.004846)
  test_de:						.: (0.003127)
  test_dr:						.: (0.004361)
  test_dr_with_key:					.: (0.004491)
  test_dr_with_key_empty:				.: (0.005024)
  test_dt:						.: (0.049628)
  test_dt_annotation:					.: (0.072722)
  test_dt_created:					.: (0.003564)
  test_dt_sequence:					.: (0.003201)
  test_entry:						.: (0.003802)
  test_ft:						.: (0.007743)
  test_gene_name:					.: (0.003509)
  test_gene_names:					.: (0.003389)
  test_gn:						.: (0.003746)
  test_gn_old_parser:					.: (0.003564)
  test_gn_uniprot_parser:				.: (0.003885)
  test_id_line:						.: (0.003374)
  test_id_line_data_class:				.: (0.003419)
  test_id_line_entry_name:				.: (0.003137)
  test_id_line_molecule_type:				.: (0.003452)
  test_id_line_sequence_length:				.: (0.003498)
  test_kw:						.: (0.005325)
  test_molecule:					.: (0.003883)
  test_oc:						.: (0.003515)
  test_og_1:						.: (0.003528)
  test_og_2:						.: (0.003529)
  test_og_3:						.: (0.003228)
  test_og_4:						.: (0.003381)
  test_og_5:						.: (0.003762)
  test_og_6:						.: (0.003875)
  test_os:						.: (0.003592)
  test_os_access:					.: (0.003804)
  test_os_access2:					.: (0.003494)
  test_ox:						.: (0.003446)
  test_protein_name:					.: (0.003159)
  test_ref:						.: (0.008563)
  test_seq:						.: (0.003998)
  test_sequence_length:					.: (0.003820)
  test_sq:						.: (0.003354)
  test_sq_crc64:					.: (0.003319)
  test_sq_len:						.: (0.003447)
  test_sq_mw:						.: (0.003407)
  test_synonyms:					.: (0.003526)
Bio::TestUniProtKB_CC: 
  test_allergen:					.: (0.000465)
  test_alternative_products_access_as_hash:		.: (0.000564)
  test_alternative_products_ai:				.: (0.000409)
  test_alternative_products_apu:			.: (0.000649)
  test_alternative_products_as:				.: (0.000401)
  test_alternative_products_rf:				.: (0.000181)
  test_biophysicochemical_properties:			.: (0.000760)
  test_biotechnology:					.: (0.000343)
  test_catalytic_activity:				.: (0.000311)
  test_caution:						.: (0.000302)
  test_cofactor:					.: (0.000260)
  test_developmental_stage:				.: (0.000272)
  test_disease:						.: (0.000326)
  test_domain:						.: (0.000350)
  test_enzyme_regulation:				.: (0.000238)
  test_function:					.: (0.000525)
  test_induction:					.: (0.000274)
  test_interaction:					.: (0.000308)
  test_mass_spectrometry:				.: (0.000322)
  test_miscellaneous:					.: (0.000297)
  test_pathway:						.: (0.000298)
  test_pharmaceutical:					.: (0.000267)
  test_polymorphism:					.: (0.000344)
  test_ptm:						.: (0.000266)
  test_rna_editing:					.: (0.000563)
  test_similarity:					.: (0.000238)
  test_subcellular_location:				.: (0.000277)
  test_subunit:						.: (0.000218)
  test_tissue_specificity:				.: (0.000333)
  test_toxic_dose:					.: (0.000227)
  test_web_resource:					.: (0.000323)
Bio::TestUniProtKB_CC_WEB_RESOURCE_since_rel12_2: 
  test_cc_web_resource:					.: (0.000428)
Bio::TestUniProtKB_DE_since_rel14_0: 
  test_private_parse_DE_line_rel14:			.: (0.000683)
  test_protein_name:					.: (0.000321)
  test_synonyms:					.: (0.000371)
Bio::TestUniProtKB_ID_since_rel9_0: 
  test_aalen:						.: (0.000341)
  test_entry:						.: (0.000197)
  test_entry_id:					.: (0.000172)
  test_entry_name:					.: (0.000461)
  test_id_line:						.: (0.000171)
  test_molecule:					.: (0.000162)
  test_sequence_length:					.: (0.000156)
Bio::TestUniProtKB_P03589: 
  test_ac:						.: (0.000673)
  test_accession:					.: (0.000563)
  test_cc:						.: (0.001089)
  test_cc_alternative_products:				.: (0.000739)
  test_cc_database:					.: (0.000982)
  test_cc_mass_spectrometry:				.: (0.000756)
  test_de:						.: (0.000528)
  test_dr:						.: (0.000961)
  test_dr_with_key:					.: (0.000720)
  test_dr_with_key_empty:				.: (0.000859)
  test_dt:						.: (0.000511)
  test_dt_annotation:					.: (0.000625)
  test_dt_created:					.: (0.000522)
  test_dt_sequence:					.: (0.000483)
  test_entry:						.: (0.000744)
  test_ft:						.: (0.000700)
  test_gene_name:					.: (0.000557)
  test_gene_names:					.: (0.000789)
  test_gn:						.: (0.000678)
  test_gn_old_parser:					.: (0.000577)
  test_gn_uniprot_parser:				.: (0.000811)
  test_id_line:						.: (0.000529)
  test_id_line_data_class:				.: (0.000485)
  test_id_line_entry_name:				.: (0.000670)
  test_id_line_sequence_length:				.: (0.000482)
  test_kw:						.: (0.000554)
  test_oc:						.: (0.000781)
  test_oh:						.: (0.000884)
  test_os:						.: (0.000887)
  test_os_access:					.: (0.000549)
  test_os_access2:					.: (0.000554)
  test_ox:						.: (0.000701)
  test_protein_name:					.: (0.000598)
  test_protein_name_after_calling_de:			.: (0.000592)
  test_ref:						.: (0.000693)
  test_seq:						.: (0.000799)
  test_sequence_length:					.: (0.000461)
  test_sq:						.: (0.000722)
  test_sq_crc64:					.: (0.000572)
  test_sq_len:						.: (0.000534)
  test_sq_mw:						.: (0.000700)
  test_synonyms:					.: (0.000553)
Bio::TestUniProtKB_P28907: 
  test_ac:						.: (0.001628)
  test_accession:					.: (0.001526)
  test_cc:						.: (0.001973)
  test_cc_alternative_products:				.: (0.002069)
  test_cc_database:					.: (0.002005)
  test_cc_mass_spectrometry:				.: (0.002403)
  test_de:						.: (0.001589)
  test_dr:						.: (0.005945)
  test_dr_with_key:					.: (0.003341)
  test_dr_with_key_empty:				.: (0.003676)
  test_dt:						.: (0.001534)
  test_dt_annotation:					.: (0.001437)
  test_dt_created:					.: (0.001592)
  test_dt_sequence:					.: (0.001470)
  test_entry:						.: (0.001436)
  test_ft:						.: (0.002430)
  test_gene_name:					.: (0.001630)
  test_gene_names:					.: (0.001428)
  test_gn:						.: (0.001464)
  test_gn_old_parser:					.: (0.001563)
  test_gn_uniprot_parser:				.: (0.001626)
  test_id_line:						.: (0.001359)
  test_id_line_data_class:				.: (0.001343)
  test_id_line_entry_name:				.: (0.001382)
  test_id_line_sequence_length:				.: (0.001638)
  test_kw:						.: (0.001412)
  test_oc:						.: (0.001390)
  test_os:						.: (0.007706)
  test_os_access:					.: (0.001518)
  test_os_access2:					.: (0.001757)
  test_ox:						.: (0.001447)
  test_protein_name:					.: (0.001364)
  test_protein_name_after_calling_de:			.: (0.005259)
  test_ref:						.: (0.002382)
  test_seq:						.: (0.001588)
  test_sequence_length:					.: (0.001538)
  test_sq:						.: (0.001381)
  test_sq_crc64:					.: (0.001429)
  test_sq_len:						.: (0.007350)
  test_sq_mw:						.: (0.001383)
  test_synonyms:					.: (0.001607)
  test_synonyms_after_calling_de:			.: (0.001520)
Bio::TestUniProtKB_P49144: 
  test_ac:						.: (0.001109)
  test_accession:					.: (0.005576)
  test_cc:						.: (0.001269)
  test_cc_alternative_products:				.: (0.001109)
  test_cc_database:					.: (0.000940)
  test_cc_mass_spectrometry:				.: (0.001282)
  test_de:						.: (0.000719)
  test_dr:						.: (0.009974)
  test_dr_with_key:					.: (0.001585)
  test_dr_with_key_empty:				.: (0.001411)
  test_dt:						.: (0.000951)
  test_dt_annotation:					.: (0.000633)
  test_dt_created:					.: (0.006804)
  test_dt_sequence:					.: (0.000965)
  test_entry:						.: (0.000997)
  test_ft:						.: (0.001744)
  test_gene_name:					.: (0.003291)
  test_gene_names:					.: (0.001067)
  test_gn:						.: (0.001002)
  test_gn_old_parser:					.: (0.000757)
  test_gn_uniprot_parser:				.: (0.001002)
  test_id_line:						.: (0.000683)
  test_id_line_data_class:				.: (0.000737)
  test_id_line_entry_name:				.: (0.000868)
  test_id_line_sequence_length:				.: (0.000800)
  test_kw:						.: (0.000851)
  test_oc:						.: (0.000703)
  test_os:						.: (0.000827)
  test_os_access:					.: (0.000746)
  test_os_access2:					.: (0.000852)
  test_ox:						.: (0.000671)
  test_protein_name:					.: (0.000928)
  test_protein_name_after_calling_de:			.: (0.000783)
  test_ref:						.: (0.000977)
  test_seq:						.: (0.000945)
  test_sequence_length:					.: (0.000652)
  test_sq:						.: (0.000885)
  test_sq_crc64:					.: (0.000680)
  test_sq_len:						.: (0.000900)
  test_sq_mw:						.: (0.000810)
  test_synonyms:					.: (0.000768)
  test_synonyms_after_calling_de:			.: (0.000966)
Bio::TestUniProtKB_Ref: 
  test_RA:						.: (0.000495)
  test_RC:						.: (0.000358)
  test_RG:						.: (0.000337)
  test_RL:						.: (0.000510)
  test_RN:						.: (0.000321)
  test_RP:						.: (0.000319)
  test_RT:						.: (0.000308)
  test_RX:						.: (0.000468)
  test_ref:						.: (0.000311)
Bio::TestUniProtKB_SwissProtRel41_0: 
  test_multiple_RP_lines:				.: (0.000327)
Bio::TestUniProtKB_SwissProtRel41_1: 
  test_alternative_products:				.: (0.000619)
  test_alternative_products_with_ft:			.: (0.000905)
Bio::TestUniProtKB_SwissProtRel41_10: 
  test_RC_lines:					.: (0.000408)
Bio::TestUniProtKB_SwissProtRel41_20: 
  test_CC_allergen:					.: (0.000390)
  test_RL_lines:					.: (0.000195)
Bio::TestUniProtKB_SwissProtRel42_6: 
  test_CC_rna_editing:					.: (0.000812)
Bio::TestUniProtKB_UniProtRel1_12: 
  test_DOI_in_RX_line:					.: (0.000339)
  test_RG_line:						.: (0.000199)
Bio::TestUniProtKB_UniProtRel2_0: 
  test_GN_line:						.: (0.000564)
Bio::TestUniProtKB_UniProtRel2_1: 
  test_CC_mass_spectrometry:				.: (0.000398)
Bio::TestUniProtKB_UniProtRel2_3: 
  test_DR_PDB:						.: (0.000586)
  test_RL_line:						.: (0.000208)
Bio::TestUniProtKB_UniProtRel3_4: 
  test_CC_biophysiochemical_properties:			.: (0.000717)
  test_RP_line:						.: (0.000292)
Bio::TestUniProtKB_UniProtRel3_5: 
  test_entry_name_format:				.: (0.000208)
Bio::TestUniProtKB_UniProtRel4_0: 
  test_CC_interaction:					.: (0.000365)
  test_CC_interaction_Different_isoforms_of_the_current_protein_are_shown_to_interact_with_the_same_protein:	.: (0.000278)
  test_CC_interaction_The_source_organisms_of_the_interacting_proteins_are_different:	.: (0.000268)
  test_CC_interaction_isoform:				.: (0.000232)
  test_CC_interaction_no_gene_name:			.: (0.000222)
  test_CC_interaction_self_association:			.: (0.000241)
Bio::TestUniProtKB_UniProtRel5_0: 
  test_DR_line:						.: (0.000310)
Bio::TestUniProtKB_UniProtRel5_4: 
  test_multiple_cofactors:				.: (0.000352)
Bio::TestUniProtKB_UniProtRel6_0: 
  test_OG_line:						.: (0.000628)
Bio::TestUniProtKB_UniProtRel6_1: 
  test_FT_metal:					.: (0.000401)
Bio::TestUniProtKB_UniProtRel6_5: 
  test_HI_line:						.: (0.000399)
Bio::TestUniProtKB_UniProtRel7_0: 
  test_CC_copyright_statement:				.: (0.000367)
  test_DT_line:						.: (0.000229)
Bio::TestUniProtKB_UniProtRel7_6: 
  test_10000aa:						.: (0.003419)
Bio::TestUniProtKB_UniProtRel8_0: 
  test_CC_alternative_products:				.: (0.000801)
  test_CC_web_resource:					.: (0.000179)
  test_FT_VER_SEQ:					.: (0.000303)
  test_OH_line_exception:				.: (0.000324)
  test_OH_lines:					.: (0.000532)
Bio::TestUtils: 
  test_centreOfGravity:					.: (0.000489)
  test_dihedral_angle:					.: (0.000362)
  test_distance:					.: (0.000381)
  test_geometricCentre:					.: (0.000516)
  test_rad2deg:						.: (0.000229)
Bio::TestWeightedGraph: 
  test_bellman_ford_on_negative_weighted_graph:		.: (0.000351)
  test_dijkstra_on_weighted_graph:			.: (0.000180)

Finished in 14.1936414 seconds.
-------------------------------------------------------------------------------
3941 tests, 21601 assertions, 0 failures, 0 errors, 0 pendings, 2 omissions, 0 notifications
100% passed
-------------------------------------------------------------------------------
277.66 tests/s, 1521.88 assertions/s

┌──────────────────────────────────────────────────────────────────────────────┐
│ dh_ruby --install finished                                                   │
└──────────────────────────────────────────────────────────────────────────────┘

for FILE in `ls debian/ruby-bio/usr/bin/*rb`; do \
	BINNAME=$(echo $FILE | sed 's/\.rb$//'); \
	mv $FILE $BINNAME; \
done
ls: cannot access 'debian/ruby-bio/usr/bin/*rb': No such file or directory
make[1]: Leaving directory '/build/reproducible-path/ruby-bio-2.0.5'
   dh_installdocs -O--buildsystem=ruby
   dh_ruby_fixdocs -O--buildsystem=ruby
   dh_installchangelogs -O--buildsystem=ruby
   dh_installexamples -O--buildsystem=ruby
   dh_installsystemduser -O--buildsystem=ruby
   dh_perl -O--buildsystem=ruby
   dh_link -O--buildsystem=ruby
   dh_strip_nondeterminism -O--buildsystem=ruby
   dh_compress -X.rb -O--buildsystem=ruby
   dh_fixperms -O--buildsystem=ruby
   dh_missing -O--buildsystem=ruby
   dh_ruby_fixdepends -O--buildsystem=ruby
   dh_installdeb -O--buildsystem=ruby
   dh_gencontrol -O--buildsystem=ruby
dpkg-gencontrol: warning: Depends field of package ruby-bio: substitution variable ${shlibs:Depends} used, but is not defined
dpkg-gencontrol: warning: package ruby-bio: substitution variable ${ruby:Versions} used, but is not defined
   dh_md5sums -O--buildsystem=ruby
   dh_builddeb -O--buildsystem=ruby
dpkg-deb: building package 'ruby-bio' in '../ruby-bio_2.0.5-1_all.deb'.
 dpkg-genbuildinfo --build=binary -O../ruby-bio_2.0.5-1_arm64.buildinfo
 dpkg-genchanges --build=binary -O../ruby-bio_2.0.5-1_arm64.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: including full 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/4185442 and its subdirectories
I: Current time: Wed Mar 11 15:20:27 -12 2026
I: pbuilder-time-stamp: 1773285627