Bio-ToolBox v2.00 Perl 5 v5.18.4 x86_64-linux-thread-multi
- Status
- Pass
- From
- Andreas J. König (ANDK)
- Dist
-
Bio-ToolBox v2.00
- Platform
- Perl 5 v5.18.4 x86_64-linux-thread-multi
- Date
- 2024-08-05 08:04:17
- ID
- 4fda2a70-5301-11ef-a4fc-59f6caefbb53
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-2.00
on perl 5.18.4, 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':
t/00.utility.t ......... ok
t/01.Data.t ............ ok
t/02.parser.t .......... ok
t/03.GeneTools.t ....... ok
t/04.DB.t .............. ok
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 ............ ok
t/10.Wiggle.t .......... skipped: Optional module Bio::Graphics not available
All tests successful.
Files=15, Tests=1082, 5 wallclock secs ( 0.16 usr 0.03 sys + 1.80 cusr 0.48 csys = 2.47 CPU)
Result: PASS
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
requires:
Module Need Have
-------------------------- -------- --------
Bio::Root::Version 1.006924 1.7.8
Config::Simple 4.58 4.58
File::Which 1.17 1.27
Getopt::Long 2.24 2.54
IO::Prompt::Tiny 0.003 0.003
List::MoreUtils 0.4 0.430
List::Util 1.45 1.63
Module::Load 0.32 0.36
Scalar::Util 1.45 1.63
Statistics::Descriptive 3 3.0801
Statistics::Lite 3.2 3.62
build_requires:
Module Need Have
-------------------------- -------- --------
Test::More 1.302 1.302195
Test::Warn 0.36 0.37
configure_requires:
Module Need Have
-------------------------- -------- --------
Module::Build 0.42 0.4232
opt_requires:
Module Need Have
-------------------------- -------- --------
! Bio::DB::Big 1 n/a
! Bio::DB::HTS 3.01 n/a
Bio::DB::SeqFeature::Store 0 1.7.4
Bio::DB::USeq 0.25 0.26
Parallel::ForkManager 1.02 2.02
Set::IntervalTree 0.1 0.12
Set::IntSpan::Fast 1.15 1.15
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
LANG = en_US.UTF-8
LANGUAGE = en_US:en
PATH = /home/sand/bin:/usr/local/bin:/usr/bin:/bin:/usr/games:/usr/local/perl/bin:/usr/X11/bin:/sbin:/usr/sbin
PERL5LIB =
PERL5OPT =
PERL5_CPANPLUS_IS_RUNNING = 2863420
PERL5_CPAN_IS_RUNNING = 2863420
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 = /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.18.4/1e0c/bin/perl
$UID/$EUID = 1005 / 1005
$GID = 1005 1005
$EGID = 1005 1005
Perl module toolchain versions installed:
Module Have
------------------- --------
CPAN 2.34
CPAN::Meta 2.150010
Cwd 3.75
ExtUtils::CBuilder 0.280236
ExtUtils::Command 7.70
ExtUtils::Install 2.06
ExtUtils::MakeMaker 7.70
ExtUtils::Manifest 1.75
ExtUtils::ParseXS 3.51
File::Spec 3.75
JSON 4.10
JSON::PP 4.16
Module::Build 0.4232
Module::Signature 0.88
Parse::CPAN::Meta 2.150010
Test::Harness 3.48
Test::More 1.302195
YAML 1.30
YAML::Syck 1.34
version 0.9929
--
Summary of my perl5 (revision 5 version 18 subversion 4) configuration:
Derived from: 51202371ba68f3f52f13124a3ea1bc3c171e0ee2
Platform:
osname=linux, osvers=6.0.0-5-amd64, archname=x86_64-linux-thread-multi
uname='linux k93msid 6.0.0-5-amd64 #1 smp preempt_dynamic debian 6.0.10-2 (2022-12-01) x86_64 gnulinux '
config_args='-Dprefix=/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.18.4/1e0c -Dmyhostname=k93msid -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 -DEBUGGING=-g'
hint=recommended, useposix=true, d_sigaction=define
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 -fwrapv -fno-strict-aliasing -pipe -fstack-protector -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64',
optimize='-O2 -g',
cppflags='-D_REENTRANT -D_GNU_SOURCE -fwrapv -fno-strict-aliasing -pipe -fstack-protector -I/usr/local/include'
ccversion='', gccversion='12.2.0', 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/x86_64-linux-gnu /lib/../lib /usr/lib/x86_64-linux-gnu /usr/lib/../lib /lib /usr/lib /lib64 /usr/lib64
libs=-lpthread -lnsl -ldl -lm -lcrypt -lutil -lc
perllibs=-lpthread -lnsl -ldl -lm -lcrypt -lutil -lc
libc=/lib/x86_64-linux-gnu/libc.so.6, so=so, useshrplib=false, libperl=libperl.a
gnulibc_version='2.36'
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-Wl,-E'
cccdlflags='-fPIC', lddlflags='-shared -O2 -g -L/usr/local/lib -fstack-protector'
Characteristics of this binary (from libperl):
Compile-time options: HAS_TIMES MULTIPLICITY PERLIO_LAYERS
PERL_DONT_CREATE_GVSV
PERL_HASH_FUNC_ONE_AT_A_TIME_HARD
PERL_IMPLICIT_CONTEXT PERL_MALLOC_WRAP
PERL_PRESERVE_IVUV PERL_SAWAMPERSAND PERL_USE_DEVEL
USE_64_BIT_ALL USE_64_BIT_INT USE_ITHREADS
USE_LARGE_FILES USE_LOCALE USE_LOCALE_COLLATE
USE_LOCALE_CTYPE USE_LOCALE_NUMERIC USE_PERLIO
USE_PERL_ATOF USE_REENTRANT_API
Locally applied patches:
uncommitted-changes
Built under linux
Compiled at Feb 11 2023 06:02:01
%ENV:
PERL5LIB=""
PERL5OPT=""
PERL5_CPANPLUS_IS_RUNNING="2863420"
PERL5_CPAN_IS_RUNNING="2863420"
PERL_CANARY_STABILITY_NOPROMPT="1"
PERL_MM_USE_DEFAULT="1"
PERL_USE_UNSAFE_INC="1"
@INC:
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.18.4/1e0c/lib/site_perl/5.18.4/x86_64-linux-thread-multi
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.18.4/1e0c/lib/site_perl/5.18.4
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.18.4/1e0c/lib/5.18.4/x86_64-linux-thread-multi
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.18.4/1e0c/lib/5.18.4
.