FASTX-Reader v1.10.0-TRIAL Perl 5 v5.12.2 i86pc-solaris-64
- Status
- Fail
- From
- Chris Williams (BINGOS)
- Dist
-
FASTX-Reader v1.10.0-TRIAL
- Platform
- Perl 5 v5.12.2 i86pc-solaris-64
- Date
- 2023-01-22 15:25:56
- ID
- 10d2e0a8-9a69-11ed-aba6-9a79f339625c
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 PROCH,
This is a computer-generated error report created automatically by
CPANPLUS, version 0.9914. Testers personal comments may appear
at the end of this report.
Thank you for uploading your work to CPAN. However, it appears that
there were some problems testing your distribution.
TEST RESULTS:
Below is the error stack from stage 'make test':
PERL_DL_NONLAZY=1 "/home/cpan/pit/bare/perl-5.12.2/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(0, 'blib/lib', 'blib/arch')" t/*.t
t/01_basic_test.t ................. ok
"my" variable $c masks earlier declaration in same scope at t/02_parse_crlf.t line 33.
t/02_parse_crlf.t ................. ok
t/02_parse_fasta.t ................ ok
t/02_preload.t .................... ok
Array found where operator expected at t/02_preload_obj.t line 24, at end of line
(Missing operator before ?)
Array found where operator expected at t/02_preload_obj.t line 24, at end of line
(Missing operator before ?)
Array found where operator expected at t/02_preload_obj.t line 26, at end of line
(Missing operator before ?)
syntax error at t/02_preload_obj.t line 24, near "->@* "
syntax error at t/02_preload_obj.t line 26, near "->@*"
Global symbol "$record" requires explicit package name at t/02_preload_obj.t line 27.
Global symbol "$record" requires explicit package name at t/02_preload_obj.t line 27.
Global symbol "$record" requires explicit package name at t/02_preload_obj.t line 28.
Global symbol "$record" requires explicit package name at t/02_preload_obj.t line 29.
Global symbol "$record" requires explicit package name at t/02_preload_obj.t line 29.
Global symbol "$record" requires explicit package name at t/02_preload_obj.t line 30.
Global symbol "$record" requires explicit package name at t/02_preload_obj.t line 30.
syntax error at t/02_preload_obj.t line 31, near "}"
t/02_preload_obj.t has too many errors.
t/02_preload_obj.t ................
Dubious, test returned 255 (wstat 65280, 0xff00)
No subtests run
t/03_parse_fastq.t ................ ok
Use of uninitialized value in substr at /home/cpan/pit/bare/conf/perl-5.12.2/.cpanplus/5.12.2/build/jfuyV4diDO/FASTX-Reader-1.10.0/blib/lib/FASTX/Reader.pm line 27.
t/04_stdin_1.t .................... ok
Use of uninitialized value in substr at /home/cpan/pit/bare/conf/perl-5.12.2/.cpanplus/5.12.2/build/jfuyV4diDO/FASTX-Reader-1.10.0/blib/lib/FASTX/Reader.pm line 27.
t/04_stdin_2.t .................... ok
t/05_fasta_comments.t ............. ok
t/06_fastq_comments.t ............. ok
t/07_fastq_parser_1.t ............. ok
t/07_fastq_parser_2.t ............. ok
t/08_gzipped_fastq.t .............. ok
t/08_gzipped_fastq_alternative.t .. ok
t/09_error_nofile.t ............... ok
t/10_error_fastq.t ................ ok
t/11_get_format.t ................. ok
t/12_gzipped_fasta.t .............. ok
t/13_illumina_read.t .............. ok
t/14_illumina_nonillumina.t ....... ok
t/15_parse_pe.t ................... ok
t/16_parse_interleaved.t .......... ok
t/17_parse_pe_autopair.t .......... ok
t/18_parse_pe_bad_names.t ......... ok
t/19_parse_pe_rev.t ............... ok
t/20_parse_pe_bad_interleaved.t ... ok
t/30_helper.t ..................... ok
t/31_helper_fun.t ................. ok
t/40_two_fastas.t ................. ok
t/40_two_files.t .................. ok
t/51_seq_basic_1.t ................ ok
t/51_seq_basic_new.t .............. ok
t/52_methods_seq.t ................ ok
t/53_Seq_asfastx.t ................ ok
t/53_with_fastxseq.t .............. ok
Use of uninitialized value in substr at /home/cpan/pit/bare/conf/perl-5.12.2/.cpanplus/5.12.2/build/jfuyV4diDO/FASTX-Reader-1.10.0/blib/lib/FASTX/Seq.pm line 25.
t/54_invalid_seq.t ................ ok
[WARNING] FASTX::Seq->as_fastq(): Provide a _char_ as quality, not a value (WRONG): defaulting to I
[WARNING] FASTX::Seq->as_fastq(): Provide a _char_ as quality, not a value (WRONG): defaulting to I
[WARNING] FASTX::Seq->as_fastq(): Provide a _char_ as quality, not a value (WRONG): defaulting to I
[WARNING] FASTX::Seq->as_fastq(): Provide a _char_ as quality, not a value (WRONG): defaulting to I
[WARNING] FASTX::Seq->as_fastq(): Provide a _char_ as quality, not a value (WRONG): defaulting to I
t/54_Seq_asfastx_bad.t ............ ok
t/54_Seq_isfastx.t ................ ok
t/55_next.t ....................... ok
t/55_nextobj.t .................... ok
t/55_Seq_slice.t .................. ok
t/61_seq_qual.t ................... ok
t/62_seq_qualities.t .............. ok
t/release-00-pod.t ................ skipped: these tests are for release candidate testing
t/release-01-pod-coverage.t ....... skipped: these tests are for release candidate testing
t/release-03-minimum-standards.t .. skipped: these tests are for release candidate testing
t/release-05-changes.t ............ skipped: these tests are for release candidate testing
t/release-check-version.t ......... skipped: these tests are for release candidate testing
Test Summary Report
-------------------
t/02_preload_obj.t (Wstat: 65280 (exited 255) Tests: 0 Failed: 0)
Non-zero exit status: 255
Parse errors: No plan found in TAP output
Files=48, Tests=393, 10 wallclock secs ( 0.29 usr 0.20 sys + 7.09 cusr 2.63 csys = 10.22 CPU)
Result: FAIL
Failed 1/48 test programs. 0/393 subtests failed.
*** Error code 255
make: Fatal error: Command failed for target `test_dynamic'
PREREQUISITES:
Here is a list of prerequisites you specified and versions we
managed to load:
Module Name Have Want
Capture::Tiny 0.48 0.40
Carp 1.50 1.2
Data::Dumper 2.125 2.1
ExtUtils::MakeMaker 7.64 0
File::Fetch 1.04 0
FindBin 1.50 1.3
JSON::PP 4.05 0
PerlIO::encoding 0.12 0
Time::HiRes 1.9719 0
Perl module toolchain versions installed:
Module Name Have
CPANPLUS 0.9914
CPANPLUS::Dist::Build 0.90
Cwd 3.75
ExtUtils::CBuilder 0.280236
ExtUtils::Command 7.64
ExtUtils::Install 2.20
ExtUtils::MakeMaker 7.64
ExtUtils::Manifest 1.73
ExtUtils::ParseXS 3.44
File::Spec 3.75
Module::Build 0.4231
Pod::Parser 1.37
Pod::Simple 3.14
Test2 1.302191
Test::Harness 3.44
Test::More 1.302191
version 0.9929
******************************** NOTE ********************************
The comments above are created mechanically, possibly without manual
checking by the sender. As there are many people performing automatic
tests on each upload to CPAN, it is likely that you will receive
identical messages about the same problem.
If you believe that the message is mistaken, please reply to the first
one with correction and/or additional informations, and do not take
it personally. We appreciate your patience. :)
**********************************************************************
Additional comments:
This report was machine-generated by CPANPLUS::Dist::YACSmoke 1.08.
Powered by minismokebox version 0.68
CPANPLUS is prefering Build.PL
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
LANG = en_GB.UTF-8
NONINTERACTIVE_TESTING = 1
PATH = /home/cpan/pit/bare/conf/perl-5.12.2/.cpanplus/5.12.2/build/jfuyV4diDO/FASTX-Reader-1.10.0/blib/script:/usr/bin:/usr/sbin:/sbin:/opt/ooce/bin:/usr/gnu/bin
PERL5LIB = /home/cpan/pit/jail/xfwlxPxWkT/lib/perl5:/home/cpan/pit/bare/conf/perl-5.12.2/.cpanplus/5.12.2/build/jfuyV4diDO/FASTX-Reader-1.10.0/blib/lib:/home/cpan/pit/bare/conf/perl-5.12.2/.cpanplus/5.12.2/build/jfuyV4diDO/FASTX-Reader-1.10.0/blib/arch
PERL5_CPANPLUS_IS_RUNNING = 12967
PERL5_CPANPLUS_IS_VERSION = 0.9914
PERL5_MINISMOKEBOX = 0.68
PERL5_YACSMOKE_BASE = /home/cpan/pit/bare/conf/perl-5.12.2
PERL_EXTUTILS_AUTOINSTALL = --defaultdeps
PERL_LOCAL_LIB_ROOT = /home/cpan/pit/jail/xfwlxPxWkT
PERL_MB_OPT = --install_base "/home/cpan/pit/jail/xfwlxPxWkT"
PERL_MM_OPT = INSTALL_BASE=/home/cpan/pit/jail/xfwlxPxWkT
PERL_MM_USE_DEFAULT = 1
SHELL = /bin/bash
TERM = screen.xterm-256color
Perl special variables (and OS-specific diagnostics, for MSWin32):
Perl: $^X = /home/cpan/pit/bare/perl-5.12.2/bin/perl
UID: $< = 101
EUID: $> = 101
GID: $( = 101 101
EGID: $) = 101 101
-------------------------------
--
Summary of my perl5 (revision 5 version 12 subversion 2) configuration:
Platform:
osname=solaris, osvers=2.11, archname=i86pc-solaris-64
uname='sunos ouzel 5.11 omnios-r151034-0d278a0cc5 i86pc i386 i86pc '
config_args='-des -Dprefix=/home/cpan/pit/bare/perl-5.12.2 -Duse64bitall -Dcc=gcc'
hint=recommended, useposix=true, d_sigaction=define
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='gcc', ccflags ='-m64 -fwrapv -fno-strict-aliasing -pipe -fstack-protector -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DPERL_USE_SAFE_PUTENV',
optimize='-O',
cppflags='-m64 -fwrapv -fno-strict-aliasing -pipe -fstack-protector'
ccversion='', gccversion='9.3.0', 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='gcc', ldflags =' -m64 -fstack-protector -L/usr/gnu/lib '
libpth=/usr/gnu/lib /usr/lib /usr/ccs/lib
libs=-lsocket -lnsl -ldl -lm -lc
perllibs=-lsocket -lnsl -ldl -lm -lc
libc=/lib/libc.so, so=so, useshrplib=true, libperl=libperl.so
gnulibc_version=''
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags=' -R /home/cpan/pit/bare/perl-5.12.2/lib/5.12.2/i86pc-solaris-64/CORE'
cccdlflags='-fPIC', lddlflags=' -shared -m64 -L/usr/gnu/lib -fstack-protector'
Characteristics of this binary (from libperl):
Compile-time options: PERL_DONT_CREATE_GVSV PERL_MALLOC_WRAP
PERL_USE_SAFE_PUTENV USE_64_BIT_ALL USE_64_BIT_INT
USE_LARGE_FILES USE_PERLIO USE_PERL_ATOF
Locally applied patches:
Devel::PatchPerl 2.00
Built under solaris
Compiled at Aug 19 2020 02:57:01
%ENV:
PERL5LIB="/home/cpan/pit/jail/xfwlxPxWkT/lib/perl5:/home/cpan/pit/bare/conf/perl-5.12.2/.cpanplus/5.12.2/build/jfuyV4diDO/FASTX-Reader-1.10.0/blib/lib:/home/cpan/pit/bare/conf/perl-5.12.2/.cpanplus/5.12.2/build/jfuyV4diDO/FASTX-Reader-1.10.0/blib/arch"
PERL5_CPANPLUS_IS_RUNNING="12967"
PERL5_CPANPLUS_IS_VERSION="0.9914"
PERL5_MINISMOKEBOX="0.68"
PERL5_YACSMOKE_BASE="/home/cpan/pit/bare/conf/perl-5.12.2"
PERL_EXTUTILS_AUTOINSTALL="--defaultdeps"
PERL_LOCAL_LIB_ROOT="/home/cpan/pit/jail/xfwlxPxWkT"
PERL_MB_OPT="--install_base "/home/cpan/pit/jail/xfwlxPxWkT""
PERL_MM_OPT="INSTALL_BASE=/home/cpan/pit/jail/xfwlxPxWkT"
PERL_MM_USE_DEFAULT="1"
@INC:
/home/cpan/pit/jail/xfwlxPxWkT/lib/perl5/5.12.2/i86pc-solaris-64
/home/cpan/pit/jail/xfwlxPxWkT/lib/perl5/5.12.2
/home/cpan/pit/jail/xfwlxPxWkT/lib/perl5/i86pc-solaris-64
/home/cpan/pit/jail/xfwlxPxWkT/lib/perl5
/home/cpan/pit/bare/conf/perl-5.12.2/.cpanplus/5.12.2/build/jfuyV4diDO/FASTX-Reader-1.10.0/blib/lib
/home/cpan/pit/bare/conf/perl-5.12.2/.cpanplus/5.12.2/build/jfuyV4diDO/FASTX-Reader-1.10.0/blib/arch
/home/cpan/pit/bare/perl-5.12.2/lib/site_perl/5.12.2/i86pc-solaris-64
/home/cpan/pit/bare/perl-5.12.2/lib/site_perl/5.12.2
/home/cpan/pit/bare/perl-5.12.2/lib/5.12.2/i86pc-solaris-64
/home/cpan/pit/bare/perl-5.12.2/lib/5.12.2
.