Bio-DB-GFF v1.7.4 Perl 5 v5.24.4 x86_64-linux
- Status
- Pass
- From
- Andreas J. König (ANDK)
- Dist
-
Bio-DB-GFF v1.7.4
- Platform
- Perl 5 v5.24.4 x86_64-linux
- Date
- 2022-09-24 15:52:13
- ID
- db86e4ea-3c20-11ed-b314-cfbd0c286c75
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-DB-GFF-1.7.4
on perl 5.24.4, 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 '/usr/bin/make test':
PERL_DL_NONLAZY=1 "/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.24.4/bb7f/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(0, 'blib/lib', 'blib/arch')" t/*.t
t/00-compile.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
You are loading a Bio::DB::GFF database with GFF3 formatted data.
While this will likely work fine, the Bio::DB::GFF schema does not
always faithfully capture the complexity represented in GFF3 files.
Unless you have a specific reason for using Bio::DB::GFF, we suggest
that you use a Bio::DB::SeqFeature::Store database and its corresponding
loader, bp_seqfeature_load.pl.
t/BioDBGFF.t ........... ok
All tests successful.
Files=4, Tests=325, 16 wallclock secs ( 0.08 usr 0.09 sys + 6.30 cusr 3.38 csys = 9.85 CPU)
Result: PASS
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
requires:
Module Need Have
----------------------------- ----- --------
Apache::DBI 0 1.12
base 0 2.23_01
Bio::Annotation::Collection 0 1.7.8
Bio::Das::FeatureTypeI 0 1.7.8
Bio::Das::SegmentI 0 1.7.8
Bio::DasI 0 1.7.8
Bio::DB::BioFetch 0 1.7.3
Bio::DB::Fasta 0 1.7.8
Bio::DB::GFF::Util::Binning 0 1.7.8
Bio::DB::GFF::Util::Rearrange 0 1.7.8
Bio::Location::Simple 0 1.7.8
Bio::Location::Split 0 1.7.8
Bio::LocationI 0 1.7.8
Bio::PrimarySeq 0 1.7.8
Bio::RangeI 0 1.7.8
Bio::Root::Root 0 1.7.8
Bio::Root::RootI 0 1.7.8
Bio::Root::Version 0 1.7.8
Bio::SeqFeatureI 0 1.7.8
Bio::SeqI 0 1.7.8
Bio::SeqIO 0 1.7.8
Carp 0 1.50
CGI 0 4.54
constant 0 1.33
Data::Dumper 0 2.183
DB_File 0 1.858
DBI 0 1.643
Digest::MD5 0 2.54
Exporter 0 5.74
Fcntl 0 1.13
File::Basename 0 2.85
File::Glob 0 1.26
File::Path 0 2.12_01
File::Spec 0 3.75
File::Temp 0 0.2311
Getopt::Long 0 2.52
IO::File 0 1.48
lib 0 0.63
overload 0 1.26
perl 5.006 5.024004
strict 0 1.11
vars 0 1.03
warnings 0 1.36
build_requires:
Module Need Have
----------------------------- ----- --------
Bio::Root::Test 0 1.7.8
ExtUtils::MakeMaker 0 7.64
File::Spec 0 3.75
IO::Handle 0 1.48
IPC::Open3 0 1.20
Module::Build 0 0.4231
Test::More 0 1.302191
configure_requires:
Module Need Have
----------------------------- ----- --------
ExtUtils::MakeMaker 0 7.64
------------------------------
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 = 1960433
PERL5_CPAN_IS_RUNNING = 1960433
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/v5.24.4/bb7f/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 7.64
ExtUtils::Install 2.06
ExtUtils::MakeMaker 7.64
ExtUtils::Manifest 1.70
ExtUtils::ParseXS 3.44
File::Spec 3.75
JSON 4.08
JSON::PP 4.10
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 24 subversion 4) configuration:
Derived from: 901dd848e31de6d0cacfb77c029b4e92c41a13ce
Platform:
osname=linux, osvers=5.16.0-6-amd64, archname=x86_64-linux
uname='linux k93msid 5.16.0-6-amd64 #1 smp preempt debian 5.16.18-1 (2022-03-29) x86_64 gnulinux '
config_args='-Dprefix=/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.24.4/bb7f -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=both'
hint=recommended, useposix=true, d_sigaction=define
useithreads=undef, usemultiplicity=undef
use64bitint=define, use64bitall=define, uselongdouble=undef
usemymalloc=n, bincompat5005=undef
Compiler:
cc='cc', ccflags ='-fwrapv -DDEBUGGING -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 -g',
cppflags='-fwrapv -DDEBUGGING -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include'
ccversion='', gccversion='11.2.0', 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/include/x86_64-linux-gnu /usr/lib /lib/x86_64-linux-gnu /lib/../lib /usr/lib/x86_64-linux-gnu /usr/lib/../lib /lib
libs=-lpthread -lnsl -ldl -lm -lcrypt -lutil -lc
perllibs=-lpthread -lnsl -ldl -lm -lcrypt -lutil -lc
libc=libc-2.33.so, so=so, useshrplib=false, libperl=libperl.a
gnulibc_version='2.33'
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-strong'
Characteristics of this binary (from libperl):
Compile-time options: DEBUGGING HAS_TIMES PERLIO_LAYERS PERL_COPY_ON_WRITE
PERL_DONT_CREATE_GVSV
PERL_HASH_FUNC_ONE_AT_A_TIME_HARD PERL_MALLOC_WRAP
PERL_PRESERVE_IVUV PERL_USE_DEVEL 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:
uncommitted-changes
Built under linux
Compiled at Apr 28 2022 04:26:30
%ENV:
PERL5LIB=""
PERL5OPT=""
PERL5_CPANPLUS_IS_RUNNING="1960433"
PERL5_CPAN_IS_RUNNING="1960433"
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/v5.24.4/bb7f/lib/site_perl/5.24.4/x86_64-linux
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.24.4/bb7f/lib/site_perl/5.24.4
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.24.4/bb7f/lib/5.24.4/x86_64-linux
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.24.4/bb7f/lib/5.24.4
.