relax SVN archive

Renamed spectrum.read() to spectrum.read_intensities().

Docstring updates for spectrum.read().

Renamed 'spectrum_type' to the more generic 'spectrum_id'.

Deleted the old NOE user function class from the interpreter namespace.

Renamed the class in the old prompt.noe module.

Renamed the noe module to spectrum.

The noe module only contains user functions will are to be merged into the spectrum user function
class, hence will be deleted anyway.

Deleted the prompt.spectrum module.

The prompt.noe module will be renamed to this as its only functions are the same as the spectrum
user function class.

Created the empty user function class 'spectrum'.

Merged revisions 7795-7807,7866-7873,7876-7878 via svnmerge from
svn+ssh://bugman@.../svn/relax/1.3

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r7795 | bugman | 2008-10-17 00:18:03 +0200 (Fri, 17 Oct 2008) | 3 lines

Added a class docstring for the main relax class.
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r7796 | semor | 2008-10-17 00:29:26 +0200 (Fri, 17 Oct 2008) | 7 lines

Corrected some naming and syntax within docstrings and prints.

This follows a post by Edward at:
https://mail.gna.org/public/relax-devel/2008-10/msg00068.html
(message ID: 7f080ed10810161412j1910a956gd37dbd35eb0584c1@...)
........
r7797 | semor | 2008-10-17 19:53:53 +0200 (Fri, 17 Oct 2008) | 7 lines

Started the implementation of a generic peak intensities file.

This follows a thread at:
https://mail.gna.org/public/relax-devel/2008-10/msg00026.html
(Message ID: 48EE7028.6060409@...)
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r7798 | semor | 2008-10-17 20:01:24 +0200 (Fri, 17 Oct 2008) | 3 lines

Started to write a system test for the support of the generic peak intensities file.
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r7799 | semor | 2008-10-17 20:22:59 +0200 (Fri, 17 Oct 2008) | 11 lines

Added prototypes for the generic peak intensities file.

Only two files will be needed, instead of one file per delay. The first file (generic_delay.txt)
will contain the different delays. The second file (generic_intensity.txt) will contain the peak
intensities.

There may also be a way of including all this information in one single file... maybe by putting
the delays in the header ? This would be even simpler for the user who would only need to input 1
single file.
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r7800 | semor | 2008-10-17 20:27:23 +0200 (Fri, 17 Oct 2008) | 6 lines

Added a generic peak intensities file including the delay times.

This is in response to r7799
(http://svn.gna.org/viewcvs/relax?rev=7799&view=rev)
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r7801 | semor | 2008-10-17 21:23:57 +0200 (Fri, 17 Oct 2008) | 3 lines

Added more to the system test for the generic peak intensities file.
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r7802 | semor | 2008-10-17 21:34:13 +0200 (Fri, 17 Oct 2008) | 3 lines

Ordered functions alphabetically.
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r7803 | bugman | 2008-10-17 23:33:39 +0200 (Fri, 17 Oct 2008) | 5 lines

Fixed the contents of the class docstring.

This was incorrectly mentioning relaxation curve-fitting and was identified by Seb.
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r7804 | semor | 2008-10-18 17:15:17 +0200 (Sat, 18 Oct 2008) | 11 lines

Created a class named Peak_lists including the classes Generic, NMRView, Sparky and Xeasy.

This solves a name clash pointed out in a post at:
https://mail.gna.org/public/relax-devel/2008-10/msg00069.html
(Message ID: 48F8E785.8090106@...)

and was proposed by Edward in a post at:
https://mail.gna.org/public/relax-devel/2008-10/msg00070.html
(Message ID: 7f080ed10810171437s2103ba32pdf9f10d1ffe0230e@...)
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r7805 | semor | 2008-10-18 17:29:11 +0200 (Sat, 18 Oct 2008) | 3 lines

Continued to add the support for the generic peak intensity file and ordered things alphabetically.
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r7806 | semor | 2008-10-18 17:32:18 +0200 (Sat, 18 Oct 2008) | 3 lines

Added a missing argument.
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r7807 | semor | 2008-10-18 17:40:46 +0200 (Sat, 18 Oct 2008) | 3 lines

Added missing arguments.
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r7866 | bugman | 2008-10-20 22:11:40 +0200 (Mon, 20 Oct 2008) | 7 lines

Bug fix for the LaTeX table generating script.

This was identified by Tyler Reddy "TREDDY at dal dot ca" in the message at
https://mail.gna.org/public/relax-users/2008-10/msg00062.html (Message-id:
<20081020162741.yimh96r4oq2ow4w0@...>).
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r7867 | bugman | 2008-10-20 22:28:02 +0200 (Mon, 20 Oct 2008) | 3 lines

Duplicated the latex_mf_table.py sample script for the creation of a system test.
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r7868 | bugman | 2008-10-20 22:45:41 +0200 (Mon, 20 Oct 2008) | 3 lines

Comment fix in the latex_mf_table.py sample script.
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r7869 | bugman | 2008-10-20 22:46:37 +0200 (Mon, 20 Oct 2008) | 3 lines

Modified the latex_mf_table.py script for the test suite.
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r7870 | bugman | 2008-10-20 22:51:27 +0200 (Mon, 20 Oct 2008) | 3 lines

Activated the model-free results to LaTeX table sample script.
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r7871 | bugman | 2008-10-20 22:51:57 +0200 (Mon, 20 Oct 2008) | 3 lines

Missing import.
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r7872 | bugman | 2008-10-20 22:59:45 +0200 (Mon, 20 Oct 2008) | 3 lines

Fix for the test_latex_table() system test.
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r7873 | bugman | 2008-10-20 23:00:14 +0200 (Mon, 20 Oct 2008) | 3 lines

Fix for the latex_mf_table.py sample script. This matches the system test fix in r7872.
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r7876 | bugman | 2008-10-21 11:50:12 +0200 (Tue, 21 Oct 2008) | 11 lines

Fixes for the model-free LaTeX table generation sample script.

These fixes do not affect the system test result yet - as LaTeX compilation will not be part of the
test suite - but fix the LaTeX compilation. These will be ported back to the sample script.

The docstring has been modified as the booktabs package is needed for this table. The '&'
characters in the spin_id string have been escaped to avoid this being interpreted as a column
separator. The 'Residue' column has been renamed to 'Spin'. And finally missing model-free
parameter errors can be handled.
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r7877 | bugman | 2008-10-21 11:53:58 +0200 (Tue, 21 Oct 2008) | 24 lines

Ported the changes of r7876 from the test suite to the sample script.

The command used was:
svn merge -r7875:7876 test_suite/system_tests/scripts/latex_mf_table.py sample_scripts/latex_mf_table.py

The LaTeX document starting and ending commands have been removed from this revision!

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r7876 | bugman | 2008-10-21 11:50:12 +0200 (Tue, 21 Oct 2008) | 11 lines
Changed paths:
M /1.3/test_suite/system_tests/scripts/latex_mf_table.py

Fixes for the model-free LaTeX table generation sample script.

These fixes do not affect the system test result yet - as LaTeX compilation will not be part of the
test suite - but fix the LaTeX compilation. These will be ported back to the sample script.

The docstring has been modified as the booktabs package is needed for this table. The '&'
characters in the spin_id string have been escaped to avoid this being interpreted as a column
separator. The 'Residue' column has been renamed to 'Spin'. And finally missing model-free
parameter errors can be handled.
.....
........
r7878 | bugman | 2008-10-21 15:17:17 +0200 (Tue, 21 Oct 2008) | 3 lines

Fixes for all the standard deviation and variance variable names.
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Merged revisions 7876-7877 via svnmerge from
svn+ssh://bugman@.../svn/relax/1.3

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r7876 | bugman | 2008-10-21 11:50:12 +0200 (Tue, 21 Oct 2008) | 11 lines

Fixes for the model-free LaTeX table generation sample script.

These fixes do not affect the system test result yet - as LaTeX compilation will not be part of the
test suite - but fix the LaTeX compilation. These will be ported back to the sample script.

The docstring has been modified as the booktabs package is needed for this table. The '&'
characters in the spin_id string have been escaped to avoid this being interpreted as a column
separator. The 'Residue' column has been renamed to 'Spin'. And finally missing model-free
parameter errors can be handled.
........
r7877 | bugman | 2008-10-21 11:53:58 +0200 (Tue, 21 Oct 2008) | 24 lines

Ported the changes of r7876 from the test suite to the sample script.

The command used was:
svn merge -r7875:7876 test_suite/system_tests/scripts/latex_mf_table.py sample_scripts/latex_mf_table.py

The LaTeX document starting and ending commands have been removed from this revision!

.....
r7876 | bugman | 2008-10-21 11:50:12 +0200 (Tue, 21 Oct 2008) | 11 lines
Changed paths:
M /1.3/test_suite/system_tests/scripts/latex_mf_table.py

Fixes for the model-free LaTeX table generation sample script.

These fixes do not affect the system test result yet - as LaTeX compilation will not be part of the
test suite - but fix the LaTeX compilation. These will be ported back to the sample script.

The docstring has been modified as the booktabs package is needed for this table. The '&'
characters in the spin_id string have been escaped to avoid this being interpreted as a column
separator. The 'Residue' column has been renamed to 'Spin'. And finally missing model-free
parameter errors can be handled.
.....
........