Bio-ToolBox v1.69 Perl 5 v5.32.1 x86_64-linux
- Status
- Fail
- From
- Slaven Rezić
- Dist
-
Bio-ToolBox v1.69
- Platform
- Perl 5 v5.32.1 x86_64-linux
- Date
- 2022-09-24 07:54:02
- ID
- 0e709394-3bde-11ed-bc45-754b6e8775ea
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:
none provided
------------------------------
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 (exited 255) 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, 1 wallclock secs ( 0.09 usr 0.03 sys + 0.81 cusr 0.09 csys = 1.02 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 2.52
List::MoreUtils 0 0.430
List::Util 0 1.63
Module::Load 0 0.36
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:
LANG = C
PATH = /usr/local/bin:/usr/bin:/bin:/usr/local/sbin:/usr/sbin:/sbin:/home/cpansand/bin/linux-gnu:/home/cpansand/bin/sh:/home/cpansand/bin:/usr/games:/home/cpansand/devel:/home/eserte/src/srezic-misc/scripts
PERL5LIB =
PERL5OPT =
PERL5_CPANPLUS_IS_RUNNING = 19497
PERL5_CPAN_IS_RUNNING = 19497
PERL5_CPAN_IS_RUNNING_IN_RECURSION = 18519,19497
PERLDOC = -MPod::Perldoc::ToTextOverstrike
PERL_BATCH = yes
PERL_CANARY_STABILITY_NOPROMPT = 1
PERL_CPAN_REPORTER_CONFIG = /var/tmp/cpansmoker-1023/2022092402/cpanreporter_000_config.ini
PERL_EXTUTILS_AUTOINSTALL = --defaultdeps
PERL_USE_UNSAFE_INC = 1
SHELL = /usr/bin/zsh
TERM = screen
TMPDIR = /var/tmp/cpansmoker-1023/2022092402
Perl special variables (and OS-specific diagnostics, for MSWin32):
$^X = /opt/perl-5.32.1/bin/perl
$UID/$EUID = 1023 / 1023
$GID = 1023 1023
$EGID = 1023 1023
Perl module toolchain versions installed:
Module Have
------------------- --------
CPAN 2.29
CPAN::Meta 2.150010
Cwd 3.78
ExtUtils::CBuilder 0.280236
ExtUtils::Command 7.64
ExtUtils::Install 2.20
ExtUtils::MakeMaker 7.64
ExtUtils::Manifest 1.72
ExtUtils::ParseXS 3.44
File::Spec 3.78
JSON 4.09
JSON::PP 4.11
Module::Build 0.4231
Module::Signature 0.88
Parse::CPAN::Meta 2.150010
Test::Harness 3.44
Test::More 1.302191
YAML 1.30
YAML::Syck 1.34
version 0.9929
--
Summary of my perl5 (revision 5 version 32 subversion 1) configuration:
Platform:
osname=linux
osvers=4.19.0-17-amd64
archname=x86_64-linux
uname='linux cloud12.bbbike.org 4.19.0-17-amd64 #1 smp debian 4.19.194-3 (2021-07-18) x86_64 gnulinux '
config_args='-ds -e -Dprefix=/opt/perl-5.32.1 -Dcf_email=srezic@cpan.org'
hint=recommended
useposix=true
d_sigaction=define
useithreads=undef
usemultiplicity=undef
use64bitint=define
use64bitall=define
uselongdouble=undef
usemymalloc=n
default_inc_excludes_dot=define
bincompat5005=undef
Compiler:
cc='cc'
ccflags ='-fwrapv -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_FORTIFY_SOURCE=2'
optimize='-O2'
cppflags='-fwrapv -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include'
ccversion=''
gccversion='8.3.0'
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 =' -fstack-protector-strong -L/usr/local/lib'
libpth=/usr/local/lib /usr/lib/gcc/x86_64-linux-gnu/8/include-fixed /usr/include/x86_64-linux-gnu /usr/lib /lib/x86_64-linux-gnu /lib/../lib /usr/lib/x86_64-linux-gnu /usr/lib/../lib /lib /lib64 /usr/lib64
libs=-lpthread -lnsl -ldb -ldl -lm -lcrypt -lutil -lc
perllibs=-lpthread -lnsl -ldl -lm -lcrypt -lutil -lc
libc=libc-2.28.so
so=so
useshrplib=false
libperl=libperl.a
gnulibc_version='2.28'
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-strong'
Characteristics of this binary (from libperl):
Compile-time options:
HAS_TIMES
PERLIO_LAYERS
PERL_COPY_ON_WRITE
PERL_DONT_CREATE_GVSV
PERL_MALLOC_WRAP
PERL_OP_PARENT
PERL_PRESERVE_IVUV
USE_64_BIT_ALL
USE_64_BIT_INT
USE_LARGE_FILES
USE_LOCALE
USE_LOCALE_COLLATE
USE_LOCALE_CTYPE
USE_LOCALE_NUMERIC
USE_LOCALE_TIME
USE_PERLIO
USE_PERL_ATOF
Locally applied patches:
Devel::PatchPerl 2.08
Built under linux
Compiled at Sep 5 2021 12:55:52
%ENV:
PERL5LIB=""
PERL5OPT=""
PERL5_CPANPLUS_IS_RUNNING="19497"
PERL5_CPAN_IS_RUNNING="19497"
PERL5_CPAN_IS_RUNNING_IN_RECURSION="18519,19497"
PERLDOC="-MPod::Perldoc::ToTextOverstrike"
PERL_BATCH="yes"
PERL_CANARY_STABILITY_NOPROMPT="1"
PERL_CPAN_REPORTER_CONFIG="/var/tmp/cpansmoker-1023/2022092402/cpanreporter_000_config.ini"
PERL_EXTUTILS_AUTOINSTALL="--defaultdeps"
PERL_USE_UNSAFE_INC="1"
@INC:
/opt/perl-5.32.1/lib/site_perl/5.32.1/x86_64-linux
/opt/perl-5.32.1/lib/site_perl/5.32.1
/opt/perl-5.32.1/lib/5.32.1/x86_64-linux
/opt/perl-5.32.1/lib/5.32.1
.