Bio-NeXMLIO v1.7.3 Perl 5 v5.8.9 x86_64-linux
- Status
- Pass
- From
- Andreas J. König (ANDK)
- Dist
-
Bio-NeXMLIO v1.7.3
- Platform
- Perl 5 v5.8.9 x86_64-linux
- Date
- 2018-09-11 19:20:20
- ID
- b966f066-b5f7-11e8-969b-92b7eb8bfe1a
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 Christopher Fields,
This is a computer-generated report for Bio-NeXMLIO-1.7.3
on perl 5.8.9, 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 '/usr/bin/make test':
PERL_DL_NONLAZY=1 "/home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(0, 'blib/lib', 'blib/arch')" t/*.t
POSIX syntax [: :] belongs inside character classes in regex; marked by <-- HERE in m/([^::] <-- HERE +$)/ at /home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/site_perl/5.8.9/Bio/Phylo/Matrices/MatrixRole.pm line 1370.
POSIX syntax [: :] belongs inside character classes in regex; marked by <-- HERE in m/([^::] <-- HERE +$)/ at /home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/site_perl/5.8.9/Bio/Phylo/Matrices/MatrixRole.pm line 1370.
POSIX syntax [: :] belongs inside character classes in regex; marked by <-- HERE in m/([^::] <-- HERE +$)/ at /home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/site_perl/5.8.9/Bio/Phylo/Matrices/MatrixRole.pm line 1370.
POSIX syntax [: :] belongs inside character classes in regex; marked by <-- HERE in m/([^::] <-- HERE +$)/ at /home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/site_perl/5.8.9/Bio/Phylo/Matrices/MatrixRole.pm line 1370.
POSIX syntax [: :] belongs inside character classes in regex; marked by <-- HERE in m/([^::] <-- HERE +$)/ at /home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/site_perl/5.8.9/Bio/Phylo/Matrices/MatrixRole.pm line 1370.
t/00-compile.t ......... ok
POSIX syntax [: :] belongs inside character classes in regex; marked by <-- HERE in m/([^::] <-- HERE +$)/ at /home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/site_perl/5.8.9/Bio/Phylo/Matrices/MatrixRole.pm line 1370.
# WARNING: NeXML parsing for NeXML v0.9 is currently very experimental support
t/AlignIO.t ............ ok
t/author-mojibake.t .... skipped: these tests are for testing by the author
t/author-pod-syntax.t .. skipped: these tests are for testing by the author
POSIX syntax [: :] belongs inside character classes in regex; marked by <-- HERE in m/([^::] <-- HERE +$)/ at /home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/site_perl/5.8.9/Bio/Phylo/Matrices/MatrixRole.pm line 1370.
# WARNING: NeXML parsing for NeXML v0.9 is currently very experimental support
t/nexml.t .............. ok
POSIX syntax [: :] belongs inside character classes in regex; marked by <-- HERE in m/([^::] <-- HERE +$)/ at /home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/site_perl/5.8.9/Bio/Phylo/Matrices/MatrixRole.pm line 1370.
# WARNING: NeXML parsing for NeXML v0.9 is currently very experimental support
t/SeqIO.t .............. ok
t/TreeIO.t ............. skipped: The optional module 5.012 generated the following error:
All tests successful.
Files=7, Tests=381, 7 wallclock secs ( 0.04 usr 0.05 sys + 1.57 cusr 0.47 csys = 2.13 CPU)
Result: PASS
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
requires:
Module Need Have
---------------------------- ----- --------
base 0 2.23
Bio::AlignIO 0 0
Bio::Event::EventGeneratorI 0 0
Bio::Phylo::Factory 0 0
Bio::Phylo::Forest::Tree 0 0
Bio::Phylo::IO 0 0
Bio::Phylo::Matrices 0 0
Bio::Phylo::Matrices::Datum 0 1.007002
Bio::Phylo::Matrices::Matrix 0 1.007002
Bio::Root::IO 0 0
Bio::Root::Root 0 1.007002
Bio::Seq 0 1.007002
Bio::Seq::SeqFactory 0 0
Bio::SeqFeature::Generic 0 0
Bio::SeqIO 0 0
Bio::TreeIO 0 0
IO::String 0 1.08
lib 0 0.61
perl 5.006 5.008009
strict 0 1.03
build_requires:
Module Need Have
---------------------------- ----- --------
Bio::Root::Test 0 0
Bio::Tree::Tree 0 1.007002
ExtUtils::MakeMaker 0 7.35_06
File::Spec 0 3.74
IO::Handle 0 1.39
IPC::Open3 0 1.03
Test::More 0 1.302139
warnings 0 1.05_01
configure_requires:
Module Need Have
---------------------------- ----- --------
ExtUtils::MakeMaker 0 7.35_06
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
LANG = en_US.UTF-8
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 = 18935
PERL5_CPAN_IS_RUNNING = 18935
PERL_CANARY_STABILITY_NOPROMPT = 1
PERL_MM_USE_DEFAULT = 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/perl-5.8.9/da1c/bin/perl
$UID/$EUID = 1005 / 1005
$GID = 1005 1005
$EGID = 1005 1005
Perl module toolchain versions installed:
Module Have
------------------- --------
CPAN 2.16
CPAN::Meta 2.150010
Cwd 3.74
ExtUtils::CBuilder 0.280230
ExtUtils::Command 7.35_06
ExtUtils::Install 2.14
ExtUtils::MakeMaker 7.35_06
ExtUtils::Manifest 1.70
ExtUtils::ParseXS 3.35
File::Spec 3.74
JSON 2.97001
JSON::PP 2.97001
Module::Build 0.42_28
Module::Signature 0.83
Parse::CPAN::Meta 2.150010
Test::Harness 3.43_01
Test::More 1.302139
YAML 1.26
YAML::Syck 1.30
version 0.9922
--
Summary of my perl5 (revision 5 version 8 subversion 9) configuration:
Platform:
osname=linux, osvers=4.14.0-3-amd64, archname=x86_64-linux
uname='linux k93msid 4.14.0-3-amd64 #1 smp debian 4.14.12-2 (2018-01-06) x86_64 gnulinux '
config_args='-Dprefix=/home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c -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 -Uuseithreads -Uuselongdouble -DEBUGGING=-g'
hint=recommended, useposix=true, d_sigaction=define
usethreads=undef use5005threads=undef 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 -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64',
optimize='-O2 -g',
cppflags='-fno-strict-aliasing -pipe -I/usr/local/include'
ccversion='', gccversion='7.2.0', 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 =' -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-2.26.so, so=so, useshrplib=false, libperl=libperl.a
gnulibc_version='2.26'
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-Wl,-E'
cccdlflags='-fPIC', lddlflags='-shared -O2 -g -L/usr/local/lib'
Characteristics of this binary (from libperl):
Compile-time options: PERL_MALLOC_WRAP USE_64_BIT_ALL USE_64_BIT_INT
USE_FAST_STDIO USE_LARGE_FILES USE_PERLIO
Built under linux
Compiled at Jan 10 2018 20:25:03
%ENV:
PERL5LIB=""
PERL5OPT=""
PERL5_CPANPLUS_IS_RUNNING="18935"
PERL5_CPAN_IS_RUNNING="18935"
PERL_CANARY_STABILITY_NOPROMPT="1"
PERL_MM_USE_DEFAULT="1"
@INC:
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/5.8.9/x86_64-linux
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/5.8.9
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/site_perl/5.8.9/x86_64-linux
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/perl-5.8.9/da1c/lib/site_perl/5.8.9
.