[Debian-med-packaging] Bug#960760: tree-puzzle FTBFS on !amd64: test failures

[Pranav Ballaney]

Hi Andreas,

Yes definitely, this is long overdue. I have a report due for submission
tonight, so I'll get to this tomorrow for sure.

Regards,
Pranav

On Tue, 9 Jun, 2020, 7:41 PM Andreas Tille, <andreas at an3as.eu> wrote:

> Hi Pranav,
>
> since you dealt with tests in this package could you please have
> a look?
>
> Kind regards
>
>      Andreas.
>
> On Sat, May 16, 2020 at 02:50:12PM +0300, Adrian Bunk wrote:
> > Source: tree-puzzle
> > Version: 5.3~rc16+dfsg-1
> > Severity: serious
> > Tags: ftbfs
> >
> > Based on the "Important remark" below, test failures shouldn't be fatal.
> > This would also make them not suitable for autopkgtest.
> >
> >
> > https://buildd.debian.org/status/package.php?p=tree-puzzle&suite=sid
> >
> > ...
> > FAIL: qp-hky-rhet-nucl
> > ======================
> >
> >
> > Testing: nucleotide data, HKY, rate heterogeneity, quartet puzzling
> (qp-hky-rhet-nucl)
> > 327c327
> > < Dasyurus      3  0.00001  0.00268      11  0.07879  0.07178
> > ---
> > > Dasyurus      3  0.00001  0.00141      11  0.07879  0.07178
> > FAIL qp-hky-rhet-nucl.test (exit status: 1)
> >
> > FAIL: qp-hky-rhet-clock-nucl
> > ============================
> >
> >
> > Testing: nucleotide data, HKY, clock, rate heterogeneity, quartet
> puzzling (qp-hky-rhet-clock-nucl)
> > 327c327
> > < Dasyurus      3  0.00001  0.00268      11  0.07879  0.07178
> > ---
> > > Dasyurus      3  0.00001  0.00141      11  0.07879  0.07178
> > FAIL qp-hky-rhet-clock-nucl.test (exit status: 1)
> >
> > FAIL: qp-jtt-rhet-prot
> > ======================
> >
> >
> > Testing: protein data, JTT, rate heterogeneity, quartet puzzling
> (qp-jtt-rhet-prot)
> > 295c295
> > < HBA_HUMAN     3  0.01975  0.02293      10  0.74671  0.14184
> > ---
> > > HBA_HUMAN     3  0.01975  0.02294      10  0.74671  0.14184
> > FAIL qp-jtt-rhet-prot.test (exit status: 1)
> >
> > FAIL: qp-jtt-rhet-clock-prot
> > ============================
> >
> >
> > Testing: protein data, JTT, clock, rate heterogeneity, quartet puzzling
> (qp-jtt-rhet-clock-prot)
> > 295c295
> > < HBA_HUMAN     3  0.01975  0.02293      10  0.74671  0.14184
> > ---
> > > HBA_HUMAN     3  0.01975  0.02294      10  0.74671  0.14184
> > FAIL qp-jtt-rhet-clock-prot.test (exit status: 1)
> >
> > FAIL: ut-pure-prot
> > ==================
> >
> >
> > Testing: protein data, default model, user tree evaluation (ut-pure-prot)
> > 178c178
> > < HBB_HORSE     2  0.12686  0.03876       9  0.00001  0.00105
> > ---
> > > HBB_HORSE     2  0.12686  0.03876       9  0.00001  0.00100
> > 218c218
> > < HBB_HUMAN     1  0.04915  0.03158       8  0.28347  0.08777
> > ---
> > > HBB_HUMAN     1  0.04915  0.03158       8  0.28347  0.08778
> > 258c258
> > < HBB_HORSE     2  0.12653  0.03874       9  0.12334  0.15663
> > ---
> > > HBB_HORSE     2  0.12653  0.03874       9  0.12334  0.15661
> > FAIL ut-pure-prot.test (exit status: 1)
> >
> > FAIL: cons-pure-prot
> > ====================
> >
> >
> > Testing: protein data, default model, consensus construction
> (cons-pure-prot)
> > 230c230
> > < HBB_HUMAN     1  0.04834  0.03148       8  0.28040  0.08745
> > ---
> > > HBB_HUMAN     1  0.04834  0.03148       8  0.28040  0.08746
> > FAIL cons-pure-prot.test (exit status: 1)
> >
> > SKIP: build-remark
> > ==================
> >
> >
> > ***
> > ***  !!! Important remark !!!
> > ***
> > ***  Please note that only the output file *.puzzle is checked
> > ***  for identity. The overall precision reached in the program
> > ***  is heavily dependent on the compiler as well as the optimization
> > ***  level (-O) used to compile the executable.
> > ***  Hence, even if tests are marked as failed this might just be
> > ***  due to differences in less significant digits caused by rounding
> > ***  errors from less acurate computations for the sake of faster
> > ***  running times. (If you want to be sure about this please refer
> > ***  to your compiler's manual!)
> > ***
> > ***  Please check the output file differences which are printed during
> the tests.
> > ***  The template files which the results are checked against have been
> > ***  generated with TREE-PUZZLE 5.2 compiled with GCC version
> 3.3-20030226
> > ***  and default compiler flags '-g -O2' and using the SPRNG random
> number
> > ***  generator.
> > ***
> >
> > SKIP build-remark (exit status: 77)
> >
> >
> ============================================================================
> > Testsuite summary for tree-puzzle 5.3.rc16
> >
> ============================================================================
> > # TOTAL: 19
> > # PASS:  11
> > # SKIP:  2
> > # XFAIL: 0
> > # FAIL:  6
> > # XPASS: 0
> > # ERROR: 0
> >
> ============================================================================
> > See tests/test-suite.log
> >
> ============================================================================
> > make[5]: *** [Makefile:563: test-suite.log] Error 1
> > make[5]: Leaving directory '/<<PKGBUILDDIR>>/tests'
> >
> > _______________________________________________
> > Debian-med-packaging mailing list
> > Debian-med-packaging at alioth-lists.debian.net
> >
> https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-packaging
>
> --
> http://fam-tille.de
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/debian-med-packaging/attachments/20200609/622589cb/attachment-0001.html>