Bio-ToolBox v1.69 Perl 5 v5.32.1 OpenBSD.amd64-openbsd-thread-multi
- Status
- Fail
- From
- David Cantrell (DCANTRELL)
- Dist
-
Bio-ToolBox v1.69
- Platform
- Perl 5 v5.32.1 OpenBSD.amd64-openbsd-thread-multi
- Date
- 2022-09-25 02:51:33
- ID
- f6afb218-3c7c-11ed-9a94-677b812978f6
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-1.69
on perl 5.32.1, created by CPAN-Reporter-1.2018.
Thank you for uploading your work to CPAN. However, there was a problem
testing your distribution.
If you think this report is invalid, please consult the CPAN Testers Wiki
for suggestions on how to avoid getting FAIL reports for missing library
or binary dependencies, unsupported operating systems, and so on:
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 './Build test':
t/00.utility.t ......... ok
No Strand column to update! at t/01.Data.t line 313.
No Type column to update! at t/01.Data.t line 318.
t/01.Data.t ............ ok
Unable to update Start coordinate for parsed SeqFeature objects at t/02.parser.t line 683.
Unable to update Start coordinate for parsed SeqFeature objects at t/02.parser.t line 764.
Unable to update Start coordinate for parsed SeqFeature objects at t/02.parser.t line 827.
Unable to update Start coordinate for parsed SeqFeature objects at t/02.parser.t line 878.
# Looks like you planned 384 tests but ran 414.
t/02.parser.t ..........
Dubious, test returned 255 (wstat 65280, 0xff00)
All 384 subtests passed
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
Test Summary Report
-------------------
t/02.parser.t (Wstat: 65280 Tests: 414 Failed: 30)
Failed tests: 385-414
Non-zero exit status: 255
Parse errors: Bad plan. You planned 384 tests but ran 414.
Files=15, Tests=738, 5 wallclock secs ( 0.28 usr 0.10 sys + 4.20 cusr 0.97 csys = 5.55 CPU)
Result: FAIL
Failed 1/15 test programs. 30/738 subtests failed.
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
requires:
Module Need Have
----------------------- ---- --------
Config::Simple 4.58 4.58
File::Which 0 1.27
Getopt::Long 2.24 2.51
List::MoreUtils 0 0.430
List::Util 0 1.63
Module::Load 0 0.34
Statistics::Descriptive 3 3.0800
Statistics::Lite 3.2 3.62
build_requires:
Module Need Have
----------------------- ---- --------
Test::More 0 1.302191
configure_requires:
Module Need Have
----------------------- ---- --------
Module::Build 0 0.4231
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
NONINTERACTIVE_TESTING = 1
PATH = /home/david/perl5/perlbrew/bin:/home/david/perl5/perlbrew/perls/perl-5.32.0/bin:/home/david/bin:/bin:/sbin:/usr/bin:/usr/sbin:/usr/X11R6/bin:/usr/local/bin:/usr/local/sbin:/usr/games:/home/david/.fzf/bin
PERL = 5.32.1
PERL5LIB =
PERL5OPT =
PERL5_CPANPLUS_IS_RUNNING = 76894
PERL5_CPAN_IS_RUNNING = 76894
PERLBREW_HOME = /home/david/.perlbrew
PERLBREW_MANPATH = /home/david/perl5/perlbrew/perls/perl-5.32.0/man
PERLBREW_PATH = /home/david/perl5/perlbrew/bin:/home/david/perl5/perlbrew/perls/perl-5.32.0/bin
PERLBREW_PERL = perl-5.32.0
PERLBREW_ROOT = /home/david/perl5/perlbrew
PERLBREW_SHELLRC_VERSION = 0.92
PERLBREW_VERSION = 0.92
PERLVER = 5.32.1
PERL_INLINE_DIRECTORY = /home/david/.Inline-5.32.1
PERL_MM_USE_DEFAULT = 1
PERL_USE_UNSAFE_INC = 0
SHELL = /usr/local/bin/bash
TERM = screen
Perl special variables (and OS-specific diagnostics, for MSWin32):
$^X = /home/david/cpantesting/perl-5.32.1/bin/perl
$UID/$EUID = 1000 / 1000
$GID = 1000 1000 0
$EGID = 1000 1000 0
Perl module toolchain versions installed:
Module Have
------------------- --------
CPAN 2.27
CPAN::Meta 2.150010
Cwd 3.78
ExtUtils::CBuilder 0.280234
ExtUtils::Command 7.44
ExtUtils::Install 2.14
ExtUtils::MakeMaker 7.44
ExtUtils::Manifest 1.72
ExtUtils::ParseXS 3.40
File::Spec 3.78
JSON 4.09
JSON::PP 4.04
Module::Build 0.4231
Module::Signature n/a
Parse::CPAN::Meta 2.150010
Test::Harness 3.42
Test::More 1.302191
YAML 1.30
YAML::Syck n/a
version 0.9924
--
Summary of my perl5 (revision 5 version 32 subversion 1) configuration:
Platform:
osname=openbsd
osvers=7.0
archname=OpenBSD.amd64-openbsd-thread-multi
uname='openbsd cpantesting-openbsd-utm.home 7.0 generic.mp#232 amd64 '
config_args='-de -Dprefix=/home/david/cpantesting/perl-5.32.1 -Dusethreads'
hint=recommended
useposix=true
d_sigaction=define
useithreads=define
usemultiplicity=define
use64bitint=define
use64bitall=define
uselongdouble=undef
usemymalloc=n
default_inc_excludes_dot=define
bincompat5005=undef
Compiler:
cc='cc'
ccflags ='-pthread -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include'
optimize='-O2'
cppflags='-pthread -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include'
ccversion=''
gccversion='OpenBSD Clang 11.1.0'
gccosandvers=''
intsize=4
longsize=8
ptrsize=8
doublesize=8
byteorder=12345678
doublekind=3
d_longlong=define
longlongsize=8
d_longdbl=define
longdblsize=16
longdblkind=3
ivtype='long'
ivsize=8
nvtype='double'
nvsize=8
Off_t='off_t'
lseeksize=8
alignbytes=8
prototype=define
Linker and Libraries:
ld='cc'
ldflags ='-pthread -Wl,-E -fstack-protector-strong -L/usr/local/lib'
libpth=/usr/lib /usr/local/lib
libs=-lpthread -lm -lutil -lc
perllibs=-lpthread -lm -lutil -lc
libc=/usr/lib/libc.so.96.1
so=so
useshrplib=false
libperl=libperl.a
gnulibc_version=''
Dynamic Linking:
dlsrc=dl_dlopen.xs
dlext=so
d_dlsymun=undef
ccdlflags=' '
cccdlflags='-DPIC -fPIC '
lddlflags='-shared -fPIC -L/usr/local/lib -fstack-protector-strong'
Characteristics of this binary (from libperl):
Compile-time options:
HAS_TIMES
MULTIPLICITY
PERLIO_LAYERS
PERL_COPY_ON_WRITE
PERL_DONT_CREATE_GVSV
PERL_IMPLICIT_CONTEXT
PERL_MALLOC_WRAP
PERL_OP_PARENT
PERL_PRESERVE_IVUV
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_LOCALE_TIME
USE_PERLIO
USE_PERL_ATOF
USE_REENTRANT_API
Built under openbsd
Compiled at Feb 12 2022 00:11:28
%ENV:
PERL="5.32.1"
PERL5LIB=""
PERL5OPT=""
PERL5_CPANPLUS_IS_RUNNING="76894"
PERL5_CPAN_IS_RUNNING="76894"
PERLBREW_HOME="/home/david/.perlbrew"
PERLBREW_MANPATH="/home/david/perl5/perlbrew/perls/perl-5.32.0/man"
PERLBREW_PATH="/home/david/perl5/perlbrew/bin:/home/david/perl5/perlbrew/perls/perl-5.32.0/bin"
PERLBREW_PERL="perl-5.32.0"
PERLBREW_ROOT="/home/david/perl5/perlbrew"
PERLBREW_SHELLRC_VERSION="0.92"
PERLBREW_VERSION="0.92"
PERLVER="5.32.1"
PERL_INLINE_DIRECTORY="/home/david/.Inline-5.32.1"
PERL_MM_USE_DEFAULT="1"
PERL_USE_UNSAFE_INC="0"
@INC:
/home/david/cpantesting/perl-5.32.1/lib/site_perl/5.32.1/OpenBSD.amd64-openbsd-thread-multi
/home/david/cpantesting/perl-5.32.1/lib/site_perl/5.32.1
/home/david/cpantesting/perl-5.32.1/lib/5.32.1/OpenBSD.amd64-openbsd-thread-multi
/home/david/cpantesting/perl-5.32.1/lib/5.32.1