Bio-ToolBox v1.65 Perl 5 v5.8.2 x86_64-linux-thread-multi
- Status
- Pass
- From
- Andreas J. König (ANDK)
- Dist
-
Bio-ToolBox v1.65
- Platform
- Perl 5 v5.8.2 x86_64-linux-thread-multi
- Date
- 2019-06-04 01:15:28
- ID
- 3d7653e4-8666-11e9-a274-1d67e63d29e3
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 Timothy Parnell,
This is a computer-generated report for Bio-ToolBox-1.65
on perl 5.8.2, created by CPAN-Reporter-1.2018.
Thank you for uploading your work to CPAN. Congratulations!
All tests were successful.
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 './Build test':
Use of implicit split to @_ is deprecated at /tmp/loop_over_bdir-2450-qxy37m/Bio-ToolBox-1.65-0/blib/lib/Bio/ToolBox/Data/file.pm line 346.
Use of implicit split to @_ is deprecated at /tmp/loop_over_bdir-2450-qxy37m/Bio-ToolBox-1.65-0/blib/lib/Bio/ToolBox/Data/file.pm line 352.
Use of implicit split to @_ is deprecated at /tmp/loop_over_bdir-2450-qxy37m/Bio-ToolBox-1.65-0/blib/lib/Bio/ToolBox/Data/file.pm line 358.
t/01.Data.t ............ ok
Use of implicit split to @_ is deprecated at /tmp/loop_over_bdir-2450-qxy37m/Bio-ToolBox-1.65-0/blib/lib/Bio/ToolBox/Data/file.pm line 346.
Use of implicit split to @_ is deprecated at /tmp/loop_over_bdir-2450-qxy37m/Bio-ToolBox-1.65-0/blib/lib/Bio/ToolBox/Data/file.pm line 352.
Use of implicit split to @_ is deprecated at /tmp/loop_over_bdir-2450-qxy37m/Bio-ToolBox-1.65-0/blib/lib/Bio/ToolBox/Data/file.pm line 358.
t/02.parser.t .......... ok
Use of implicit split to @_ is deprecated at /tmp/loop_over_bdir-2450-qxy37m/Bio-ToolBox-1.65-0/blib/lib/Bio/ToolBox/Data/file.pm line 346.
Use of implicit split to @_ is deprecated at /tmp/loop_over_bdir-2450-qxy37m/Bio-ToolBox-1.65-0/blib/lib/Bio/ToolBox/Data/file.pm line 352.
Use of implicit split to @_ is deprecated at /tmp/loop_over_bdir-2450-qxy37m/Bio-ToolBox-1.65-0/blib/lib/Bio/ToolBox/Data/file.pm line 358.
t/03.GeneTools.t ....... ok
t/04.DB.t .............. skipped: Bio::DB::SeqFeature::Store not available
t/05.Bam-HTS.t ......... skipped: Optional module Bio::DB::HTS not available
t/05.Bam-Samtools.t .... skipped: Optional module Bio::DB::Sam not available
t/06.BigBed-UCSC.t ..... skipped: Optional module Bio::DB::BigBed not available
t/06.BigBed-big.t ...... skipped: Optional module Bio::DB::Big not available
t/07.BigWig-UCSC.t ..... skipped: Optional module Bio::DB::BigWig not available
t/07.BigWig-big.t ...... skipped: Optional module Bio::DB::Big not available
t/08.BigWigSet-UCSC.t .. skipped: Optional module Bio::DB::BigWigSet not available
t/08.BigWigSet-big.t ... skipped: Optional module Bio::DB::Big not available
t/09.USeq.t ............ skipped: Optional module Bio::DB::USeq not available
t/10.Wiggle.t .......... skipped: Optional module Bio::Graphics not available
All tests successful.
Files=14, Tests=630, 2 wallclock secs ( 0.13 usr 0.11 sys + 1.73 cusr 0.21 csys = 2.18 CPU)
Result: PASS
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
requires:
Module Need Have
-------------------------- ---- --------
Config::Simple 4.58 4.58
File::Which 0 1.23
Getopt::Long 2.24 2.5
! List::MoreUtils 0 n/a
List::Util 0 1.50
Module::Load 0 0.34
! Statistics::Descriptive 3 n/a
Statistics::Lite 3.2 3.62
build_requires:
Module Need Have
-------------------------- ---- --------
Test::More 0 1.302164
configure_requires:
Module Need Have
-------------------------- ---- --------
Module::Build 0 0.4229
opt_requires:
Module Need Have
-------------------------- ---- --------
! Bio::DB::Big 1 n/a
! Bio::DB::HTS 2.1 n/a
! Bio::DB::SeqFeature::Store 0 n/a
! BioPerl 0 n/a
! DBD::SQLite 0 n/a
Net::FTP 0 3.11
! Parallel::ForkManager 1.02 n/a
Set::IntervalTree 0.1 0.12
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
LANG = C
PATH = /home/sand/bin:/usr/local/bin:/usr/bin:/bin:/usr/games:/usr/local/perl/bin:/usr/X11/bin:/sbin:/usr/sbin
PERL = /tmp/basesmoker-reloperl-AHzC/bin/perl
PERL5LIB = /tmp/loop_over_bdir-2450-qxy37m/Test-Weaken-3.022000-0/blib/arch:/tmp/loop_over_bdir-2450-qxy37m/Test-Weaken-3.022000-0/blib/lib:/tmp/loop_over_bdir-2450-qxy37m/Test-Usage-0.08-0/blib/arch:/tmp/loop_over_bdir-2450-qxy37m/Test-Usage-0.08-0/blib/lib:/tmp/loop_over_bdir-2450-qxy37m/Test-NeedsDisplay-1.07-0/blib/arch:/tmp/loop_over_bdir-2450-qxy37m/Test-NeedsDisplay-1.07-0/blib/lib:/tmp/loop_over_bdir-2450-qxy37m/Encode-IBM-0.11-0/blib/arch:/tmp/loop_over_bdir-2450-qxy37m/Encode-IBM-0.11-0/blib/lib:/tmp/loop_over_bdir-2450-qxy37m/Tie-Simple-1.04-0/blib/arch:/tmp/loop_over_bdir-2450-qxy37m/Tie-Simple-1.04-0/blib/lib
PERL5OPT =
PERL5_CPANPLUS_IS_RUNNING = 8082
PERL5_CPAN_IS_RUNNING = 8082
PERL_CANARY_STABILITY_NOPROMPT = 1
PERL_MM_USE_DEFAULT = 1
PERL_USE_UNSAFE_INC = 1
SHELL = /usr/bin/zsh
TERM = screen
Perl special variables (and OS-specific diagnostics, for MSWin32):
$^X = /tmp/basesmoker-reloperl-AHzC/bin/perl
$UID/$EUID = 1005 / 1005
$GID = 1005 1005
$EGID = 1005 1005
Perl module toolchain versions installed:
Module Have
------------------- --------
CPAN 2.26
CPAN::Meta 2.150010
Cwd 3.75
ExtUtils::CBuilder 0.280231
ExtUtils::Command 7.36
ExtUtils::Install 2.14
ExtUtils::MakeMaker 7.36
ExtUtils::Manifest 1.72
ExtUtils::ParseXS 3.35
File::Spec 3.75
JSON 4.02
JSON::PP 4.02
Module::Build 0.4229
Module::Signature 0.83
Parse::CPAN::Meta 2.150010
Test::Harness 3.42
Test::More 1.302164
YAML 1.29
YAML::Syck 1.31
version 0.9924
--
Summary of my perl5 (revision 5.0 version 8 subversion 2) configuration:
Platform:
osname=linux, osvers=4.9.0-8-amd64, archname=x86_64-linux-thread-multi
uname='linux k93stretch 4.9.0-8-amd64 #1 smp debian 4.9.144-3 (2019-02-02) x86_64 gnulinux '
config_args='-Dprefix=/home/sand/src/perl/repoperls/installed-perls/host/k93stretch/perl-5.8.2/492a -Dmyhostname=k93stretch -Dinstallusrbinperl=n -Uversiononly -Dusedevel -des -Ui_db -Dlibswanted=cl pthread socket inet nsl gdbm dbm malloc dl ld sun m crypt sec util c cposix posix ucb BSD gdbm_compat -Duseithreads -Uuselongdouble -Doptimize=-g'
hint=recommended, useposix=true, d_sigaction=define
usethreads=define use5005threads=undef useithreads=define usemultiplicity=define
useperlio=define d_sfio=undef uselargefiles=define usesocks=undef
use64bitint=define use64bitall=define uselongdouble=undef
usemymalloc=n, bincompat5005=undef
Compiler:
cc='cc', ccflags ='-D_REENTRANT -D_GNU_SOURCE -DDEBUGGING -fno-strict-aliasing -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64',
optimize='-g',
cppflags='-D_REENTRANT -D_GNU_SOURCE -DDEBUGGING -fno-strict-aliasing -I/usr/local/include'
ccversion='', gccversion='6.3.0 20170516', 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 =' -L/usr/local/lib'
libpth=/usr/local/lib /lib/x86_64-linux-gnu /lib/../lib /usr/lib/x86_64-linux-gnu /usr/lib/../lib /lib /usr/lib
libs=-lpthread -lnsl -ldl -lm -lcrypt -lutil -lc
perllibs=-lpthread -lnsl -ldl -lm -lcrypt -lutil -lc
libc=libc-2.24.so, so=so, useshrplib=false, libperl=libperl.a
gnulibc_version='2.24'
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-rdynamic'
cccdlflags='-fpic', lddlflags='-shared -L/usr/local/lib'
Characteristics of this binary (from libperl):
Compile-time options: DEBUGGING MULTIPLICITY USE_ITHREADS USE_64_BIT_INT USE_64_BIT_ALL USE_LARGE_FILES PERL_IMPLICIT_CONTEXT
Built under linux
Compiled at Jun 1 2019 08:45:51
%ENV:
PERL="/tmp/basesmoker-reloperl-AHzC/bin/perl"
PERL5LIB="/tmp/loop_over_bdir-2450-qxy37m/Test-Weaken-3.022000-0/blib/arch:/tmp/loop_over_bdir-2450-qxy37m/Test-Weaken-3.022000-0/blib/lib:/tmp/loop_over_bdir-2450-qxy37m/Test-Usage-0.08-0/blib/arch:/tmp/loop_over_bdir-2450-qxy37m/Test-Usage-0.08-0/blib/lib:/tmp/loop_over_bdir-2450-qxy37m/Test-NeedsDisplay-1.07-0/blib/arch:/tmp/loop_over_bdir-2450-qxy37m/Test-NeedsDisplay-1.07-0/blib/lib:/tmp/loop_over_bdir-2450-qxy37m/Encode-IBM-0.11-0/blib/arch:/tmp/loop_over_bdir-2450-qxy37m/Encode-IBM-0.11-0/blib/lib:/tmp/loop_over_bdir-2450-qxy37m/Tie-Simple-1.04-0/blib/arch:/tmp/loop_over_bdir-2450-qxy37m/Tie-Simple-1.04-0/blib/lib"
PERL5OPT=""
PERL5_CPANPLUS_IS_RUNNING="8082"
PERL5_CPAN_IS_RUNNING="8082"
PERL_CANARY_STABILITY_NOPROMPT="1"
PERL_MM_USE_DEFAULT="1"
PERL_USE_UNSAFE_INC="1"
@INC:
/tmp/loop_over_bdir-2450-qxy37m/Test-Weaken-3.022000-0/blib/arch
/tmp/loop_over_bdir-2450-qxy37m/Test-Weaken-3.022000-0/blib/lib
/tmp/loop_over_bdir-2450-qxy37m/Test-Usage-0.08-0/blib/arch
/tmp/loop_over_bdir-2450-qxy37m/Test-Usage-0.08-0/blib/lib
/tmp/loop_over_bdir-2450-qxy37m/Test-NeedsDisplay-1.07-0/blib/arch
/tmp/loop_over_bdir-2450-qxy37m/Test-NeedsDisplay-1.07-0/blib/lib
/tmp/loop_over_bdir-2450-qxy37m/Encode-IBM-0.11-0/blib/arch
/tmp/loop_over_bdir-2450-qxy37m/Encode-IBM-0.11-0/blib/lib
/tmp/loop_over_bdir-2450-qxy37m/Tie-Simple-1.04-0/blib/arch
/tmp/loop_over_bdir-2450-qxy37m/Tie-Simple-1.04-0/blib/lib
/home/sand/src/perl/repoperls/installed-perls/host/k93stretch/perl-5.8.2/492a/lib/5.8.2/x86_64-linux-thread-multi
/home/sand/src/perl/repoperls/installed-perls/host/k93stretch/perl-5.8.2/492a/lib/5.8.2
/home/sand/src/perl/repoperls/installed-perls/host/k93stretch/perl-5.8.2/492a/lib/site_perl/5.8.2/x86_64-linux-thread-multi
/home/sand/src/perl/repoperls/installed-perls/host/k93stretch/perl-5.8.2/492a/lib/site_perl/5.8.2
/home/sand/src/perl/repoperls/installed-perls/host/k93stretch/perl-5.8.2/492a/lib/site_perl
.