Hi,
sorry for sending here.
Thanks
Fabio D'Alfonso
'Enabling Business Through IT'
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On 4/23/2013 2:20 PM, Joel Berger wrote:
Fabio, Math::GSL isn't a PDL Porters project. Duke Leto is responsive
though, I've emailed/tweeted him before. I've copied him on this, but
perhaps you want to start a dialog off this list.
Cheers,
Joel
On Tue, Apr 23, 2013 at 3:07 AM, Fabio D'Alfonso
<[email protected]
<mailto:[email protected]>> wrote:
Hi,
there are the tests failed in Math::GSL
Thanks
Running Build test
Process XS files version 1.15
t/00-load.t ........ 1/53 # Testing Math::GSL 0.27 on
i686-linux-gnu-thread-multi-64int, Perl (/usr/bin/perl) 5.014002
t/00-load.t ........ ok
t/01-pod.t ......... skipped: Test::Pod 1.00 required for testing POD
t/BLAS.t ........... ok
t/BSpline.t ........ ok
t/CBLAS.t .......... ok
t/CDF.t ............ ok
t/Chebyshev.t ...... 1/10
# Failed test 'GSL_CHEB_CALC_DERIV died (Bizarre copy of UNKNOWN
in subroutine entry at t/Chebyshev.t line 59.)'
# at t/Chebyshev.t line 72.
# (in Math::GSL::Chebyshev::Test->GSL_CHEB_CALC_DERIV)
# Failed test 'GSL_CHEB_CALC_INTEGRAL died (Bizarre copy of
UNKNOWN in subroutine entry at t/Chebyshev.t line 68.)'
# at t/Chebyshev.t line 72.
# (in Math::GSL::Chebyshev::Test->GSL_CHEB_CALC_INTEGRAL)
# Failed test 'GSL_CHEB_EVAL died (Bizarre copy of UNKNOWN in
subroutine entry at t/Chebyshev.t line 40.)'
# at t/Chebyshev.t line 72.
# (in Math::GSL::Chebyshev::Test->GSL_CHEB_EVAL)
# Failed test 'GSL_CHEB_EVAL_ERR died (Bizarre copy of UNKNOWN
in subroutine entry at t/Chebyshev.t line 48.)'
# at t/Chebyshev.t line 72.
# (in Math::GSL::Chebyshev::Test->GSL_CHEB_EVAL_ERR)
# Failed test 'GSL_CHEB_INIT died (Bizarre copy of UNKNOWN in
subroutine entry at t/Chebyshev.t line 33.)'
# at t/Chebyshev.t line 72.
# (in Math::GSL::Chebyshev::Test->GSL_CHEB_INIT)
# Looks like you planned 10 tests but ran 6.
# Looks like you failed 5 tests of 6 run.
t/Chebyshev.t ...... Dubious, test returned 5 (wstat 1280, 0x500)
Failed 9/10 subtests
t/Combination.t .... ok
t/Complex.t ........ ok
t/Const.t .......... ok
t/DHT.t ............ ok
t/Deriv.t .......... 1/13
# Failed test 'TEST_DERIV_BACKWARD died (Bizarre copy of UNKNOWN
in subroutine entry at t/Deriv.t line 70.)'
# at t/Deriv.t line 84.
# (in Math::GSL::Deriv::Test->TEST_DERIV_BACKWARD)
# Failed test 'TEST_DERIV_CENTRAL died (Bizarre copy of UNKNOWN
in subroutine entry at t/Deriv.t line 51.)'
# at t/Deriv.t line 84.
# (in Math::GSL::Deriv::Test->TEST_DERIV_CENTRAL)
# Failed test 'gsl_deriv_central can call anon sub'
# at t/Deriv.t line 82.
# (in Math::GSL::Deriv::Test->TEST_DERIV_CENTRAL_CALLS_THE_SUB)
# expecting: Regexp ((?^:CALL ME BACK))
# found: Bizarre copy of UNKNOWN in subroutine entry at t/Deriv.t
line 81.
# Failed test 'gsl_deriv_central borks when first arg is not a
existing routine'
# at t/Deriv.t line 32.
# (in Math::GSL::Deriv::Test->TEST_DERIV_CENTRAL_DIES)
# expecting: Regexp ((?^:Undefined subroutine))
# found: Bizarre copy of UNKNOWN in subroutine entry at t/Deriv.t
line 31.
# Failed test 'gsl_deriv_central borks when first arg is not a
existing routine'
# at t/Deriv.t line 44.
# (in Math::GSL::Deriv::Test->TEST_DERIV_CENTRAL_DIES)
# expecting: Regexp ((?^:Undefined subroutine))
# found: Bizarre copy of UNKNOWN in subroutine entry at t/Deriv.t
line 43.
# Failed test 'TEST_DERIV_FORWARD died (Bizarre copy of UNKNOWN
in subroutine entry at t/Deriv.t line 61.)'
# at t/Deriv.t line 84.
# (in Math::GSL::Deriv::Test->TEST_DERIV_FORWARD)
# Looks like you failed 6 tests of 13.
t/Deriv.t .......... Dubious, test returned 6 (wstat 1536, 0x600)
Failed 6/13 subtests
(less 3 skipped subtests: 4 okay)
t/Eigen.t .......... ok
t/Errno.t .......... ok
t/FFT.t ............ ok
t/Fit.t ............ Failed 23/23 subtests
t/GSL.t ............ 1/19 #
# Elements start differing at index 2, delta = 0.00099999999999989
# $x->[2] = 3
# $y->[2] = 3.001
#
# Elements start differing at index 2, delta =
9.99999998363421e-08
# $x->[2] = 3.0010001
# $y->[2] = 3.0010002
t/GSL.t ............ ok
t/Heapsort.t ....... ok
t/Histogram.t ...... ok
t/Histogram2D.t .... ok
t/IEEEUtils.t ...... ok
t/Integration.t .... 1/29
# Failed test 'TEST_QAG died (Bizarre copy of UNKNOWN in
subroutine entry at t/Integration.t line 40.)'
# at t/Integration.t line 166.
# (in Math::GSL::Integration::Test->TEST_QAG)
# Failed test 'TEST_QAG2 died (Bizarre copy of UNKNOWN in
subroutine entry at t/Integration.t line 106.)'
# at t/Integration.t line 166.
# (in Math::GSL::Integration::Test->TEST_QAG2)
# Failed test 'TEST_QAGI died (Bizarre copy of UNKNOWN in
subroutine entry at t/Integration.t line 92.)'
# at t/Integration.t line 166.
# (in Math::GSL::Integration::Test->TEST_QAGI)
# Failed test 'TEST_QAGIU died (Bizarre copy of UNKNOWN in
subroutine entry at t/Integration.t line 64.)'
# at t/Integration.t line 166.
# (in Math::GSL::Integration::Test->TEST_QAGIU)
# Failed test 'TEST_QAGS3 died (Bizarre copy of UNKNOWN in
subroutine entry at t/Integration.t line 124.)'
# at t/Integration.t line 166.
# (in Math::GSL::Integration::Test->TEST_QAGS3)
# Failed test 'TEST_QNG died (Bizarre copy of UNKNOWN in
subroutine entry at t/Integration.t line 145.)'
# at t/Integration.t line 166.
# (in Math::GSL::Integration::Test->TEST_QNG)
# Looks like you planned 29 tests but ran 17.
# Looks like you failed 6 tests of 17 run.
t/Integration.t .... Dubious, test returned 6 (wstat 1536, 0x600)
Failed 18/29 subtests
t/Interp.t ......... ok
t/Linalg.t ......... ok
t/Machine.t ........ ok
t/Matrix.t ......... 1/238 #
# Elements start differing at index 1, delta = 1
# $x->[1] = 3
# $y->[1] = 2
t/Matrix.t ......... ok
t/MatrixComplex.t .. 1/38 #
# Elements start differing at index 1, delta = 1
# $x->[1] = 3
# $y->[1] = 4
#
# Elements start differing at index 1, delta = 1
# $x->[1] = 3
# $y->[1] = 2
t/MatrixComplex.t .. ok
t/Min.t ............ 1/22
# Failed test 'GSL_MIN_ITERATE died (Bizarre copy of UNKNOWN in
subroutine entry at t/Min.t line 89.)'
# at t/Min.t line 96.
# (in Math::GSL::Min::Test->GSL_MIN_ITERATE)
# Failed test 'GSL_MIN_SET died (Bizarre copy of UNKNOWN in
subroutine entry at t/Min.t line 47.)'
# at t/Min.t line 96.
# (in Math::GSL::Min::Test->GSL_MIN_SET)
# Looks like you planned 22 tests but ran 8.
# Looks like you failed 2 tests of 8 run.
t/Min.t ............ Dubious, test returned 2 (wstat 512, 0x200)
Failed 16/22 subtests
t/Monte.t .......... 1/15
# Failed test 'TEST_MONTE_PLAIN_INTEGRATE died (Bizarre copy of
UNKNOWN in subroutine entry at t/Monte.t line 52.)'
# at t/Monte.t line 84.
# (in Math::GSL::Monte::Test->TEST_MONTE_PLAIN_INTEGRATE)
# Failed test 'TEST_MONTE_VEGAS_INTEGRATE died (Bizarre copy of
UNKNOWN in subroutine entry at t/Monte.t line 63.)'
# at t/Monte.t line 84.
# (in Math::GSL::Monte::Test->TEST_MONTE_VEGAS_INTEGRATE)
# Looks like you failed 2 tests of 15.
t/Monte.t .......... Dubious, test returned 2 (wstat 512, 0x200)
Failed 2/15 subtests
(less 2 skipped subtests: 11 okay)
t/Multifit.t ....... ok
t/Multimin.t ....... ok
t/Multiroots.t ..... ok
t/NTuple.t ......... 1/11 This is the end at t/NTuple.t line 14.
t/NTuple.t ......... ok
t/ODEIV.t .......... ok
t/Permutation.t .... ok
t/Poly.t ........... ok
t/PowInt.t ......... ok
t/QRNG.t ........... ok
t/RNG.t ............ ok
t/Randist.t ........ ok
t/Roots.t .......... 1/13
# Failed test 'GSL_ROOTS_SET died (Bizarre copy of UNKNOWN in
subroutine entry at t/Roots.t line 38.)'
# at t/Roots.t line 82.
# (in Math::GSL::Roots::Test->GSL_ROOTS_SET)
# Failed test 'GSL_ROOT_ITERATE died (Bizarre copy of UNKNOWN in
subroutine entry at t/Roots.t line 48.)'
# at t/Roots.t line 82.
# (in Math::GSL::Roots::Test->GSL_ROOT_ITERATE)
# Looks like you planned 13 tests but ran 10.
# Looks like you failed 2 tests of 10 run.
t/Roots.t .......... Dubious, test returned 2 (wstat 512, 0x200)
Failed 5/13 subtests
t/SF.t ............. ok
t/Siman.t .......... ok
t/Sort.t ........... ok
t/Spline.t ......... ok
t/Statistics.t ..... ok
t/Sum.t ............ ok
t/Sys.t ............ ok
t/Vector.t ......... 1/143 #
# Elements start differing at index 0, delta = 9
# $x->[0] = 1
# $y->[0] = 10
#
# Elements start differing at index 0, delta = 9
# $x->[0] = 1
# $y->[0] = 10
t/Vector.t ......... ok
t/VectorComplex.t .. ok
t/Wavelet.t ........ ok
t/Wavelet2D.t ...... ok
Test Summary Report
-------------------
t/Chebyshev.t (Wstat: 1280 Tests: 6 Failed: 5)
Failed tests: 2-6
Non-zero exit status: 5
Parse errors: Bad plan. You planned 10 tests but ran 6.
t/Deriv.t (Wstat: 1536 Tests: 13 Failed: 6)
Failed tests: 1, 3, 5-6, 10-11
Non-zero exit status: 6
t/Fit.t (Wstat: 139 Tests: 0 Failed: 0)
Non-zero wait status: 139
Parse errors: Bad plan. You planned 23 tests but ran 0.
t/Integration.t (Wstat: 1536 Tests: 17 Failed: 6)
Failed tests: 11-16
Non-zero exit status: 6
Parse errors: Bad plan. You planned 29 tests but ran 17.
t/Matrix.t (Wstat: 0 Tests: 238 Failed: 0)
TODO passed: 211
t/Min.t (Wstat: 512 Tests: 8 Failed: 2)
Failed tests: 1, 4
Non-zero exit status: 2
Parse errors: Bad plan. You planned 22 tests but ran 8.
t/Monte.t (Wstat: 512 Tests: 15 Failed: 2)
Failed tests: 10-11
Non-zero exit status: 2
t/Roots.t (Wstat: 512 Tests: 10 Failed: 2)
Failed tests: 3-4
Non-zero exit status: 2
Parse errors: Bad plan. You planned 13 tests but ran 10.
Files=52, Tests=3980, 14 wallclock secs ( 0.84 usr 0.71 sys +
6.78 cusr 2.28 csys = 10.61 CPU)
Result: FAIL
Failed 7/52 test programs. 23/3980 subtests failed.
LETO/Math-GSL-0.27.tar.gz
./Build test -- NOT OK
//hint// to see the cpan-testers results for installing this
module, try:
reports LETO/Math-GSL-0.27.tar.gz
Running Build install
make test had returned bad status, won't install without force
root@HDUBVM01:~#
Fabio D'Alfonso
'Enabling Business Through IT'
cell. +39.348.059.40.22 <tel:%2B39.348.059.40.22> ***
web: www.fabiodalfonso.com <http://www.fabiodalfonso.com>
<http://www.fabiodalfonso.com/>
email: [email protected]
<mailto:[email protected]>
<mailto:[email protected]
<mailto:[email protected]>>linkedin:
www.linkedin.com/in/fabiodalfonso
<http://www.linkedin.com/in/fabiodalfonso>
<http://it.linkedin.com/in/fabiodalfonso>
twitter: www.twitter.com/#!/fabio_dalfonso
<http://www.twitter.com/#%21/fabio_dalfonso>
<http://www.twitter.com/#%21/fabio_dalfonso>
fax: +39.06.874.599.581 <tel:%2B39.06.874.599.581>
BlackBerry® Wireless Enabled Address.
** Hidden numbers are automatically rejected by the phone*
On 4/22/2013 10:02 AM, Fabio D'Alfonso wrote:
Hi,
it is quite worth to understand the way apt works and being
able to use it more than just fetching packages. So thanks for
this email.
The only issue is the variance among systems using different
package management. But this can be solved using as much as
possible the same dist, apart of specific uses (e.g. Oracle
Linux for Oracle software ) that will not require any big
effort in this type of task.
I still prefer the system stopping at the boundary of perl,
and at the boundary in general. It worked up to 11.04 so the
decision to depart of using apt to put things where they could
be in other ways is both respectful and questionable. One
should be free once the system is ready to build, using the
apt to provide the environment, to:
-> set the end packages from apt
-> set the software from source
This is the real point of this story.
Meanwhile I have dismissed the VM for now and will be back
sometime later this year (or the next) . About the errors I
got, that was about the same described.
Fabio D'Alfonso
'Enabling Business Through IT'
cell. +39.348.059.40.22 <tel:%2B39.348.059.40.22> ***
web: www.fabiodalfonso.com <http://www.fabiodalfonso.com>
<http://www.fabiodalfonso.com/>
email: [email protected]
<mailto:[email protected]>
<mailto:[email protected]
<mailto:[email protected]>>linkedin:
www.linkedin.com/in/fabiodalfonso
<http://www.linkedin.com/in/fabiodalfonso>
<http://it.linkedin.com/in/fabiodalfonso>
twitter: www.twitter.com/#!/fabio_dalfonso
<http://www.twitter.com/#%21/fabio_dalfonso>
<http://www.twitter.com/#%21/fabio_dalfonso>
fax: +39.06.874.599.581 <tel:%2B39.06.874.599.581>
BlackBerry® Wireless Enabled Address.
** Hidden numbers are automatically rejected by the
phone*
On 4/22/2013 9:35 AM, Dima Kogan wrote:
Clifford Sobchuk <[email protected]
<mailto:[email protected]>> writes:
Hi Dima, That is the way I have always upgraded. When
I try to
initially install via cpan it always fails. I install
via apt, then I
use CPAN to upgrade. I now see what you mean about the
two different
directories for the two versions - apt puts it in
/usr/lib/perl5 where
as cpan puts it into /usr/local/lib/perl/5.14.2/PDL I
don't develop
PDL, I only use PDL in my scripts. I haven't run into
any problems
previously - apparently I have been lucky.
Ok. That's interesting. I suspect what's happening is that
when you ask
APT to install PDL, it installs not just PDL, but its
dependencies also
(as it should). And it is these dependencies that make the
CPAN
installation work. Installing PDL via cpan SHOULD fail if
there are
missing dependencies. And in a nutshell, this is why you
should always
use APT instead of other tools: it knows about
dependencies, while tools
such as cpan do not.
Since all you are trying to do is to install a newer PDL,
by far the
best thing you can do is to simply build a new package,
and install it.
The PDL sources already have the debianization in them, so
this is easy
and painless (just tried it).
Steps:
1. You need to bump the version of the debian package.
This entails
creating a new entry in debian/changelog. You can do this
yourself, or
you can apply the attached patch (do not commit it; it's
just for your
personal package).
2. Make sure your checkout is fresh and clean. 'git reset
--hard' and
'git clean -ffdx' is what I generally do. Note that this
will delete
existing files.
3. Build the package! From the PDL directory do
dpkg-buildpackage -us -uc -b
This asks the machine to build the package without signing
anything and
without building the sources. This will build a fresh .deb
in ..
4. Install it. 'dpkg -i ../pdl_2.6.0~1-1_amd64.deb'
I just tried it on my Debian/sid system; worked fine. Note
that if you
have stuff installed via the cpan utility (existing stuff in
/usr/local/lib/perl/...) then these files may confuse the
build and/or
tests and it may not work. Having multiple simultaneous
installations
such as this is just asking for things to break IMHO.
Let me know if something here doesn't work.
dima
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