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From: metabase:user:00e8548a-0e72-11e3-8ee3-df0a9c418065
Subject: UNKNOWN Bio-BioStudio-2.00 v5.18.2 GNU/Linux
Date: 2014-04-05T13:15:05Z
This distribution has been tested as part of the CPAN Testers
project, supporting the Perl programming language. See
http://wiki.cpantesters.org/ for more information or email
questions to cpan-testers-discuss@perl.org
--
Dear Sarah Richardson,
This is a computer-generated report for Bio-BioStudio-2.00
on perl 5.18.2, created by CPAN-Reporter-1.2011.
Thank you for uploading your work to CPAN. However, attempting to
test your distribution gave an inconclusive result.
This could be because your distribution had an error during the make/build
stage, did not define tests, tests could not be found, because your tests were
interrupted before they finished, or because the results of the tests could not
be parsed. You may wish to consult the CPAN Testers Wiki:
http://wiki.cpantesters.org/wiki/CPANAuthorNotes
Sections of this report:
* Tester comments
* Program output
* Prerequisites
* Environment and other context
------------------------------
TESTER COMMENTS
------------------------------
Additional comments from tester:
this report is from an automated smoke testing program
and was not reviewed by a human for accuracy
------------------------------
PROGRAM OUTPUT
------------------------------
Output from '/root/perl5/perlbrew/perls/perl-5.18.2/bin/perl Build.PL':
Checking prerequisites...
requires:
! Bio::GeneDesign is not installed
! Bio::Root::Root is not installed
! Time::Format is not installed
Checking optional features...
blast......disabled
requires:
! Bio::Tools::Run::StandAloneBlastPlus is not installed
cairo......disabled
requires:
! Cairo is not installed
! Font::FreeType is not installed
gbrowse....disabled
requires:
! Bio::Graphics::Browser2 is not installed
mysql......disabled
requires:
! DBD::mysql is not installed
pg.........disabled
requires:
! DBD::Pg is not installed
ERRORS/WARNINGS FOUND IN PREREQUISITES. You may wish to install the versions
of the modules indicated above before proceeding with this installation
Where should configuration files be installed? [/etc/BioStudio ]/etc/BioStudio
Where should scripts be installed? [/usr/local/bin/ ]/usr/local/bin/
Where should BioStudio write tmp files? [/tmp ]/tmp
Can't copy('gbrowse/conf_repository/repository_README.txt', 'blib/BioStudio/gbrowse/conf_repository/repository_README.txt'): No such file or directory at /root/perl5/perlbrew/perls/perl-5.18.2/lib/site_perl/5.18.2/Module/Build/Base.pm line 5643.
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
configure_requires:
Module Need Have
------------- ---- ------
Module::Build 0.38 0.4205
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
LANG = en_US.UTF-8
PATH = /root/perl5/perlbrew/bin:/root/perl5/perlbrew/perls/perl-5.18.2/bin:/usr/kerberos/sbin:/usr/kerberos/bin:/usr/local/sbin:/usr/local/bin:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin
PERL = [undef]
PERL5LIB =
PERL5OPT = -I/tmp/CPAN-Reporter-lib-ChfO -MDevel::Autoflush
PERL5_CPANPLUS_IS_RUNNING = 21571
PERL5_CPAN_IS_EXECUTING = [undef]
PERL5_CPAN_IS_RUNNING = 21571
PERL5_CPAN_IS_RUNNING_IN_RECURSION = 12098,21571
PERLBREW_BASHRC_VERSION = 0.67
PERLBREW_HOME = /root/.perlbrew
PERLBREW_MANPATH = /root/perl5/perlbrew/perls/perl-5.18.2/man
PERLBREW_PATH = /root/perl5/perlbrew/bin:/root/perl5/perlbrew/perls/perl-5.18.2/bin
PERLBREW_PERL = perl-5.18.2
PERLBREW_ROOT = /root/perl5/perlbrew
PERLBREW_VERSION = 0.67
PERL_AUTOINSTALL = --defaultdeps
PERL_CR_SMOKER_CURRENT = Bio-BioStudio-2.00
PERL_EXTUTILS_AUTOINSTALL = --defaultdeps
PERL_MM_USE_DEFAULT = 1
SHELL = /bin/bash
TERM = linux
Perl special variables (and OS-specific diagnostics, for MSWin32):
$^X = /root/perl5/perlbrew/perls/perl-5.18.2/bin/perl
$UID/$EUID = 0 / 0
$GID = 0 0 1 2 3 4 6 10
$EGID = 0 0 1 2 3 4 6 10
Perl module toolchain versions installed:
Module Have
------------------- --------
CPAN 2.05
CPAN::Meta 2.140640
Cwd 3.40
ExtUtils::CBuilder 0.280216
ExtUtils::Command 1.17
ExtUtils::Install 1.64
ExtUtils::MakeMaker 6.94
ExtUtils::Manifest 1.63
ExtUtils::ParseXS 3.24
File::Spec 3.40
JSON 2.90
JSON::PP 2.27203
Module::Build 0.4205
Module::Signature n/a
Parse::CPAN::Meta 1.4414
Test::Harness 3.30
Test::More 1.001003
YAML 0.90
YAML::Syck 1.27
version 0.9908
--
Summary of my perl5 (revision 5 version 18 subversion 2) configuration:
Platform:
osname=linux, osvers=2.6.18_14.20.2-custom, archname=x86_64-linux
uname='linux mh4500 2.6.18_14.20.2-custom #1 smp mon feb 17 11:07:21 gmt 2014 x86_64 x86_64 x86_64 gnulinux '
config_args='-de -Dprefix=/root/perl5/perlbrew/perls/perl-5.18.2 -Aeval:scriptdir=/root/perl5/perlbrew/perls/perl-5.18.2/bin'
hint=recommended, useposix=true, d_sigaction=define
useithreads=undef, usemultiplicity=undef
useperlio=define, d_sfio=undef, uselargefiles=define, usesocks=undef
use64bitint=define, use64bitall=define, uselongdouble=undef
usemymalloc=n, bincompat5005=undef
Compiler:
cc='cc', ccflags ='-fno-strict-aliasing -pipe -fstack-protector -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64',
optimize='-O2',
cppflags='-fno-strict-aliasing -pipe -fstack-protector -I/usr/local/include'
ccversion='', gccversion='4.1.2 20080704 (Red Hat 4.1.2-54)', gccosandvers=''
intsize=4, longsize=8, ptrsize=8, doublesize=8, byteorder=12345678
d_longlong=define, longlongsize=8, d_longdbl=define, longdblsize=16
ivtype='long', ivsize=8, nvtype='double', nvsize=8, Off_t='off_t', lseeksize=8
alignbytes=8, prototype=define
Linker and Libraries:
ld='cc', ldflags =' -fstack-protector -L/usr/local/lib'
libpth=/usr/local/lib /lib /usr/lib /lib64 /usr/lib64 /usr/local/lib64
libs=-lnsl -ldl -lm -lcrypt -lutil -lc
perllibs=-lnsl -ldl -lm -lcrypt -lutil -lc
libc=libc-2.5.so, so=so, useshrplib=false, libperl=libperl.a
gnulibc_version='2.5'
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-Wl,-E'
cccdlflags='-fPIC', lddlflags='-shared -O2 -L/usr/local/lib -fstack-protector'
Characteristics of this binary (from libperl):
Compile-time options: HAS_TIMES PERLIO_LAYERS PERL_DONT_CREATE_GVSV
PERL_HASH_FUNC_ONE_AT_A_TIME_HARD PERL_MALLOC_WRAP
PERL_PRESERVE_IVUV PERL_SAWAMPERSAND USE_64_BIT_ALL
USE_64_BIT_INT USE_LARGE_FILES USE_LOCALE
USE_LOCALE_COLLATE USE_LOCALE_CTYPE
USE_LOCALE_NUMERIC USE_PERLIO USE_PERL_ATOF
Built under linux
Compiled at Apr 3 2014 09:37:24
%ENV:
PERL=""
PERL5LIB=""
PERL5OPT=""
PERL5_CPANPLUS_IS_RUNNING="21571"
PERL5_CPAN_IS_EXECUTING=""
PERL5_CPAN_IS_RUNNING="21571"
PERL5_CPAN_IS_RUNNING_IN_RECURSION="12098,21571"
PERLBREW_BASHRC_VERSION="0.67"
PERLBREW_HOME="/root/.perlbrew"
PERLBREW_MANPATH="/root/perl5/perlbrew/perls/perl-5.18.2/man"
PERLBREW_PATH="/root/perl5/perlbrew/bin:/root/perl5/perlbrew/perls/perl-5.18.2/bin"
PERLBREW_PERL="perl-5.18.2"
PERLBREW_ROOT="/root/perl5/perlbrew"
PERLBREW_VERSION="0.67"
PERL_AUTOINSTALL="--defaultdeps"
PERL_CR_SMOKER_CURRENT="Bio-BioStudio-2.00"
PERL_EXTUTILS_AUTOINSTALL="--defaultdeps"
PERL_MM_USE_DEFAULT="1"
@INC:
/root/perl5/perlbrew/perls/perl-5.18.2/lib/site_perl/5.18.2/x86_64-linux
/root/perl5/perlbrew/perls/perl-5.18.2/lib/site_perl/5.18.2
/root/perl5/perlbrew/perls/perl-5.18.2/lib/5.18.2/x86_64-linux
/root/perl5/perlbrew/perls/perl-5.18.2/lib/5.18.2
.