| Subject: | make test errors |
Dear Rutger,
I got version 0.08 from Mark Holder. Tried to install install it on my
Ubuntu linux 5.10 (Debian based) but received a number of error messages
(see attached file).
In short:
t/14-nexus........Inappropriate ioctl for device
t/17-parse........ok 4/6Inappropriate ioctl for device
t/19-svg..........ok 1/13Can't load image drawer: Can't locate
Bio/Phylo/Treedrawer/SVG.pm in @INC
(but SVG.pm is supposed to be in my @INC)
Any suggestions?
Cheers
Johan Nylander
CEB, FSU
| Subject: | Bio-Phylo-0.08-make-test-errors.txt |
# did perl Makefile.PL and make not as superuser, then;
$ make test
PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM" "-e" "test_harness(0, 'bli b/lib', 'blib/arch')" t/*.t
t/00-load.........ok 1/1# Testing Bio::Phylo 0.08_1.26, Perl 5.008007
t/00-load.........ok
t/01-phylo........ok
t/02-newick.......ok
t/03-node.........ok
t/04-generator....ok
t/05-trees........ok
t/06-tree.........ok
t/07-unparse......ok
t/08-datum........ok
t/09-matrix.......ok
t/10-matrices.....ok
t/11-taxon........ok
t/12-taxa.........ok
t/13-listable.....ok
t/14-nexus........Inappropriate ioctl for device# Looks like your test died before i t could output anything.
t/14-nexus........dubious
Test returned status 255 (wstat 65280, 0xff00)
DIED. FAILED tests 1-5
Failed 5/5 tests, 0.00% okay
t/15-table........ok
t/16-unparse......ok
t/17-parse........ok 4/6Inappropriate ioctl for device# Looks like you planned 6 tes ts but only ran 5.
# Looks like your test died just after 5.
t/17-parse........dubious
Test returned status 255 (wstat 65280, 0xff00)
DIED. FAILED test 6
Failed 1/6 tests, 83.33% okay
t/18-taxlist......ok
t/19-svg..........ok 1/13Can't load image drawer: Can't locate Bio/Phylo/Treedrawer/SVG.pm in @INC (@INC contains: lib/ /home/johan/lib/BioPhylo/Bio-Phylo-0.08/blib/lib /home/johan/lib/BioPhylo/Bio-Phylo-0.08/blib/arch /usr/local/lib/R/library/RSPerl/s hare/lib/perl/5.8.4 /etc/perl /usr/local/lib/perl/5.8.7 /usr/local/share/perl/5.8.7 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.8 /usr/share/perl/5.8 /usr/local/lib/site_perl /usr/local/lib/perl/5.8.4 /usr/local/share/perl/5.8.4 .) at (eval 24) line 3.
# Looks like you planned 13 tests but only ran 12.
# Looks like your test died just after 12.
t/19-svg..........dubious
Test returned status 255 (wstat 65280, 0xff00)
DIED. FAILED test 13
Failed 1/13 tests, 92.31% okay
t/20-seq..........ok
t/pod-coverage....skipped
all skipped: Test::Pod::Coverage 1.04 required for testing POD coverage
t/pod.............skipped
all skipped: Test::Pod 1.14 required for testing POD
Failed Test Stat Wstat Total Fail Failed List of Failed
-------------------------------------------------------------------------------
t/14-nexus.t 255 65280 5 10 200.00% 1-5
t/17-parse.t 255 65280 6 2 33.33% 6
t/19-svg.t 255 65280 13 2 15.38% 13
2 tests skipped.
Failed 3/23 test scripts, 86.96% okay. 7/299 subtests failed, 97.66% okay.
make: *** [test_dynamic] Error 255
johan@nylandernote:~/lib/BioPhylo/Bio-Phylo-0.08
$ locate SVG.pm
/usr/local/share/perl/5.8.4/SVG.pm
/home/johan/src/Bio-Phylo/Bio-Phylo-0.07/lib/Bio/Phylo/Treedrawer/SVG.pm
/home/johan/src/Bio-Phylo/Bio-Phylo-0.07/blib/lib/Bio/Phylo/Treedrawer/SVG.pm
/home/johan/.cpan/build/SVG-2.33/lib/SVG.pm
/home/johan/.cpan/build/SVG-2.33/blib/lib/SVG.pm
johan@nylandernote:~/lib/BioPhylo/Bio-Phylo-0.08
$ perl -V
Summary of my perl5 (revision 5 version 8 subversion 7) configuration:
Platform:
osname=linux, osvers=2.6.10, archname=i486-linux-gnu-thread-multi
uname='linux rothera 2.6.10 #1 smp fri may 13 09:24:22 utc 2005 i686 gnulinu x '
config_args='-Dusethreads -Duselargefiles -Dccflags=-DDEBIAN -Dcccdlflags=-f PIC -Darchname=i486-linux-gnu -Dprefix=/usr -Dprivlib=/usr/share/perl/5.8 -Darch lib=/usr/lib/perl/5.8 -Dvendorprefix=/usr -Dvendorlib=/usr/share/perl5 -Dvendora rch=/usr/lib/perl5 -Dsiteprefix=/usr/local -Dsitelib=/usr/local/share/perl/5.8.7 -Dsitearch=/usr/local/lib/perl/5.8.7 -Dman1dir=/usr/share/man/man1 -Dman3dir=/u sr/share/man/man3 -Dsiteman1dir=/usr/local/man/man1 -Dsiteman3dir=/usr/local/man /man3 -Dman1ext=1 -Dman3ext=3perl -Dpager=/usr/bin/sensible-pager -Uafs -Ud_csh -Uusesfio -Uusenm -Duseshrplib -Dlibperl=libperl.so.5.8.7 -Dd_dosuid -des'
hint=recommended, useposix=true, d_sigaction=define
usethreads=define use5005threads=undef useithreads=define usemultiplicity=de fine
useperlio=define d_sfio=undef uselargefiles=define usesocks=undef
use64bitint=undef use64bitall=undef uselongdouble=undef
usemymalloc=n, bincompat5005=undef
Compiler:
cc='cc', ccflags ='-D_REENTRANT -D_GNU_SOURCE -DTHREADS_HAVE_PIDS -DDEBIAN - fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSE T_BITS=64',
optimize='-O2',
cppflags='-D_REENTRANT -D_GNU_SOURCE -DTHREADS_HAVE_PIDS -DDEBIAN -fno-stric t-aliasing -pipe -I/usr/local/include'
ccversion='', gccversion='4.0.2 20050808 (prerelease) (Ubuntu 4.0.1-4ubuntu9 )', gccosandvers=''
intsize=4, longsize=4, ptrsize=4, doublesize=8, byteorder=1234
d_longlong=define, longlongsize=8, d_longdbl=define, longdblsize=12
ivtype='long', ivsize=4, nvtype='double', nvsize=8, Off_t='off_t', lseeksize =8
alignbytes=4, prototype=define
Linker and Libraries:
ld='cc', ldflags =' -L/usr/local/lib'
libpth=/usr/local/lib /lib /usr/lib
libs=-lgdbm -lgdbm_compat -ldb -ldl -lm -lpthread -lc -lcrypt
perllibs=-ldl -lm -lpthread -lc -lcrypt
libc=/lib/libc-2.3.5.so, so=so, useshrplib=true, libperl=libperl.so.5.8.7
gnulibc_version='2.3.5'
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-Wl,-E'
cccdlflags='-fPIC', lddlflags='-shared -L/usr/local/lib'
Characteristics of this binary (from libperl):
Compile-time options: MULTIPLICITY USE_ITHREADS USE_LARGE_FILES
PERL_IMPLICIT_CONTEXT
Locally applied patches:
SPRINTF0 - fixes for sprintf formatting issues - CVE-2005-3962
Built under linux
Compiled at Dec 12 2005 13:47:33
%ENV:
PERL5LIB="/usr/local/lib/R/library/RSPerl/share/lib/perl/5.8.4"
@INC:
/usr/local/lib/R/library/RSPerl/share/lib/perl/5.8.4
/etc/perl
/usr/local/lib/perl/5.8.7
/usr/local/share/perl/5.8.7
/usr/lib/perl5
/usr/share/perl5
/usr/lib/perl/5.8
/usr/share/perl/5.8
/usr/local/lib/site_perl
/usr/local/lib/perl/5.8.4
/usr/local/share/perl/5.8.4
.
johan@nylandernote:~
$ bye