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Bug 472124 - sci-chemistry/gromacs-4.6.2 please stabilize
Summary: sci-chemistry/gromacs-4.6.2 please stabilize
Status: RESOLVED FIXED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: [OLD] Keywording and Stabilization (show other bugs)
Hardware: All Linux
: Normal normal (vote)
Assignee: Gentoo Chemistry-Related Packages
URL: http://redmine.gromacs.org/issues/1370
Whiteboard:
Keywords: STABLEREQ
Depends on: 471578 472186 472188 472190 476224 476226
Blocks:
  Show dependency tree
 
Reported: 2013-06-02 18:01 UTC by Christoph Junghans (RETIRED)
Modified: 2013-11-13 21:38 UTC (History)
0 users

See Also:
Package list:
Runtime testing required: ---


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Description Christoph Junghans (RETIRED) gentoo-dev 2013-06-02 18:01:51 UTC
gromacs-4.6.2 is good stabilization candidate.

Targets: alpha amd64 arm ppc64 sparc x86

As dependency we first need to stabilize:
 sci-libs/mkl (x86/amd64 only)
 sci-libs/openmm (x86/amd64 only)
 dev-util/ninja
Comment 1 Agostino Sarubbo gentoo-dev 2013-07-02 10:56:49 UTC
amd64 stable
Comment 2 Agostino Sarubbo gentoo-dev 2013-07-04 13:33:54 UTC
ppc64 stable
Comment 3 Agostino Sarubbo gentoo-dev 2013-07-06 17:06:40 UTC
alpha stable
Comment 4 Agostino Sarubbo gentoo-dev 2013-07-07 12:41:50 UTC
Repoman complains on arm, please give the full list.
Comment 5 Christoph Junghans (RETIRED) gentoo-dev 2013-07-08 20:36:41 UTC
(In reply to Agostino Sarubbo from comment #4)
> Repoman complains on arm, please give the full list
I see, we need blas and lapack stable on arm!

Please consider bug #476224 and bug #476226 first and then we can mark virtual/{blas,lapack} stable.
Comment 6 Markus Meier gentoo-dev 2013-08-09 18:31:21 UTC
(In reply to Christoph Junghans from comment #5)
> (In reply to Agostino Sarubbo from comment #4)
> > Repoman complains on arm, please give the full list
> I see, we need blas and lapack stable on arm!
> 
> Please consider bug #476224 and bug #476226 first and then we can mark
> virtual/{blas,lapack} stable.

fails tests on arm:

>>> Source compiled.
>>> Working in BUILD_DIR: "/var/tmp/portage/sci-chemistry/gromacs-4.6.2/work/gromacs-4.6.2_float"
[1/1] cd /var/tmp/portage/sci-chemistry/gromacs-4.6.2/work/gromacs-4.6.2_float && /usr/bin/ctest --output-on-failure
FAILED: cd /var/tmp/portage/sci-chemistry/gromacs-4.6.2/work/gromacs-4.6.2_float && /usr/bin/ctest --output-on-failure
Test project /var/tmp/portage/sci-chemistry/gromacs-4.6.2/work/gromacs-4.6.2_float
    Start 1: regressiontests/simple
1/5 Test #1: regressiontests/simple ...........   Passed   63.01 sec
    Start 2: regressiontests/complex
2/5 Test #2: regressiontests/complex ..........   Passed  285.95 sec
    Start 3: regressiontests/kernel
3/5 Test #3: regressiontests/kernel ...........   Passed  524.17 sec
    Start 4: regressiontests/freeenergy
4/5 Test #4: regressiontests/freeenergy .......***Timeout 1500.08 sec

    Start 5: regressiontests/pdb2gmx
5/5 Test #5: regressiontests/pdb2gmx ..........   Passed  334.04 sec

80% tests passed, 1 tests failed out of 5

Total Test time (real) = 2707.34 sec

The following tests FAILED:
          4 - regressiontests/freeenergy (Timeout)
Errors while running CTest
ninja: build stopped: subcommand failed.
 * ERROR: sci-chemistry/gromacs-4.6.2 failed (test phase):
 *   (no error message)
 *
 * Call stack:
 *     ebuild.sh, line   93:  Called src_test
 *   environment, line 3233:  Called cmake-utils_src_make 'check'
 *   environment, line  685:  Called ninja_src_make 'check'
 *   environment, line 2744:  Called die
 * The specific snippet of code:
 *           ninja ${MAKEOPTS} -v "$@" || die;

should I open a separate bug?
Comment 7 Christoph Junghans (RETIRED) gentoo-dev 2013-08-09 20:13:26 UTC
(In reply to Markus Meier from comment #6)
> (In reply to Christoph Junghans from comment #5)
> > (In reply to Agostino Sarubbo from comment #4)
> > > Repoman complains on arm, please give the full list
> > I see, we need blas and lapack stable on arm!
> > 
> > Please consider bug #476224 and bug #476226 first and then we can mark
> > virtual/{blas,lapack} stable.
> 
> fails tests on arm:
> 
> >>> Source compiled.
> >>> Working in BUILD_DIR: "/var/tmp/portage/sci-chemistry/gromacs-4.6.2/work/gromacs-4.6.2_float"
> [1/1] cd
> /var/tmp/portage/sci-chemistry/gromacs-4.6.2/work/gromacs-4.6.2_float &&
> /usr/bin/ctest --output-on-failure
> FAILED: cd
> /var/tmp/portage/sci-chemistry/gromacs-4.6.2/work/gromacs-4.6.2_float &&
> /usr/bin/ctest --output-on-failure
> Test project
> /var/tmp/portage/sci-chemistry/gromacs-4.6.2/work/gromacs-4.6.2_float
>     Start 1: regressiontests/simple
> 1/5 Test #1: regressiontests/simple ...........   Passed   63.01 sec
>     Start 2: regressiontests/complex
> 2/5 Test #2: regressiontests/complex ..........   Passed  285.95 sec
>     Start 3: regressiontests/kernel
> 3/5 Test #3: regressiontests/kernel ...........   Passed  524.17 sec
>     Start 4: regressiontests/freeenergy
> 4/5 Test #4: regressiontests/freeenergy .......***Timeout 1500.08 sec
> 
>     Start 5: regressiontests/pdb2gmx
> 5/5 Test #5: regressiontests/pdb2gmx ..........   Passed  334.04 sec
> 
> 80% tests passed, 1 tests failed out of 5
> 
> Total Test time (real) = 2707.34 sec
> 
> The following tests FAILED:
>           4 - regressiontests/freeenergy (Timeout)
Timeout?

> Errors while running CTest
> ninja: build stopped: subcommand failed.
>  * ERROR: sci-chemistry/gromacs-4.6.2 failed (test phase):
>  *   (no error message)
>  *
>  * Call stack:
>  *     ebuild.sh, line   93:  Called src_test
>  *   environment, line 3233:  Called cmake-utils_src_make 'check'
>  *   environment, line  685:  Called ninja_src_make 'check'
>  *   environment, line 2744:  Called die
>  * The specific snippet of code:
>  *           ninja ${MAKEOPTS} -v "$@" || die;
> 
> should I open a separate bug?
Yes, please and open an upstream bug at redmine.gromacs.org, too.
Comment 8 Agostino Sarubbo gentoo-dev 2013-08-31 14:51:25 UTC
arm stable
Comment 9 Agostino Sarubbo gentoo-dev 2013-09-02 08:13:10 UTC
x86 stable
Comment 10 Christoph Junghans (RETIRED) gentoo-dev 2013-09-15 22:42:00 UTC
ping @ sparc!
Comment 11 Christoph Junghans (RETIRED) gentoo-dev 2013-10-28 00:10:41 UTC
(In reply to Christoph Junghans from comment #10)
> ping @ sparc!
ping ping @ sparc.
Comment 12 Christoph Junghans (RETIRED) gentoo-dev 2013-11-13 21:38:26 UTC
Removing sparc from stable archs.