relax SVN archive

Merged revisions 24047-24049,24051,24058 via svnmerge from
svn+ssh://bugman@.../svn/relax/trunk

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r24047 | bugman | 2014-06-17 17:57:06 +0200 (Tue, 17 Jun 2014) | 7 lines

Fixes for the Relax_disp.test_hansen_cpmg_data_missing_auto_analysis system test.

The pA parameter is no longer tested for one spin as it moves to random values on different
operating systems and 32 vs. 64-bit systems. This is because this spin experiences no exchange,
both dw and kex are zero.
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r24048 | bugman | 2014-06-17 18:05:23 +0200 (Tue, 17 Jun 2014) | 5 lines

Decreased the value checking precision in the Relax_disp.test_hansen_cpmg_data_to_lm63 system test.

This is to allow the test to pass on certain operating systems and 32-bit systems.
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r24049 | bugman | 2014-06-17 18:22:38 +0200 (Tue, 17 Jun 2014) | 7 lines

Modified the precision of the output from the relax_disp.sherekhan_input user function.

This is simply to allow the Relax_disp.test_sod1wt_t25_to_sherekhan_input system test to pass on
certain 32-bit systems, as the float output to 15 decimal places is not always the same. This
system test has been updated for the change.
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r24051 | bugman | 2014-06-17 18:27:39 +0200 (Tue, 17 Jun 2014) | 6 lines

Modified the Relax_disp.test_sprangers_data_to_mmq_cr72 system test to pass on certain systems.

This test fails on 32-bit Linux (and probably other systems as well). To fix the test, the kex
values are all divided by 100 before checking them to 4 decimal places of accuracy.
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r24058 | bugman | 2014-06-17 19:46:10 +0200 (Tue, 17 Jun 2014) | 6 lines

Fix for the Library.test_library_independence verification test on MS Windows.

The tearDown() method now uses the error handling test_suite.clean_up.deletion() function to remove
the copied version of the relax library.
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Modified profiling script for ns r1rho 3site linear to be functional.

Task #7807 (https://gna.org/task/index.php?7807): Speed-up of dispersion models for Clustered analysis.

Modified profiling script for NS R1rho 3site, to be functional.

Task #7807 (https://gna.org/task/index.php?7807): Speed-up of dispersion models for Clustered analysis.

Merged revisions 24263 via svnmerge from
svn+ssh://bugman@.../svn/relax/trunk

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r24263 | bugman | 2014-06-24 09:46:24 +0200 (Tue, 24 Jun 2014) | 6 lines

More hacks for permanently eliminating the ^[[?1034h escape code being produced on Linux systems.

This is a nasty feature of the GNU readline library. It is now also turned off in the dep_check
module, suppressing ^[[?1034h in Python scripts which import only parts of relax.
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More hacks for permanently eliminating the ^[[?1034h escape code being produced on Linux systems.

This is a nasty feature of the GNU readline library. It is now also turned off in the dep_check
module, suppressing ^[[?1034h in Python scripts which import only parts of relax.

Merged revisions 24251,24257 via svnmerge from
svn+ssh://bugman@.../svn/relax/trunk

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r24251 | bugman | 2014-06-23 16:36:47 +0200 (Mon, 23 Jun 2014) | 6 lines

Improved how the relax installation path is determined in the status object.

If the path cannot be found, the current working directory is then checked if it is where relax is
installed. This is needed when importing modules outside of relax.
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r24257 | bugman | 2014-06-23 20:12:02 +0200 (Mon, 23 Jun 2014) | 7 lines

Hack to permanently eliminate the ^[[?1034h escape code being produced on Linux systems.

This is produced by importing the readline module. The escape code will be sent to STDOUT every
time relax is executed, so it will be present in all log files. The problem is the TERM
environmental variable being set to 'xterm'. The hack simply sets TERM to an empty string.
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Added a relaxation dispersion model profiling log file for relax version 3.1.7 vs. 3.1.6.

This is the output from the dispersion model profiling master script. It shows that there are no
speed differences.

Added a relaxation dispersion model profiling log file for relax version 3.2.0 vs. 3.1.7.

This is the output from the dispersion model profiling master script. It shows that there are no
speed differences.

Added a relaxation dispersion model profiling log file for relax version 3.2.2 vs. 3.2.1.

This is the output from the dispersion model profiling master script. It shows that the relax 3.2.2
release did not in fact feature "a large speed up of all analytic relaxation dispersion models" as
described in the release notes at https://gna.org/forum/forum.php?forum_id=2465. For the CPMG
models there is a 1 to 2 times increase in speed. But for the R1rho models, there is a 1 to 2 times
decrease in speed.

Modifications to the dispersion model profiling master script.

The info.print_sys_info() function of the current relax version is being called at the start to show
all information about the current system. This is useful to know the speed of the machine, the OS,
the Python version and numpy version. The numpy version is important as future versions might
optimise certain functions that are currently very slow, hence that could be a cause of model speed
differences.

In addition, the path variables path1 and path2 have been renamed to path_new and path_old to make
it clearer which is which. And the individual profiling scripts are no longer copied to the base
directory of the relax versions being compared, and are run in place.