relax SVN archive

Ported r8435 from the old relax_disp branch into the new branch.

The command used was:
svn merge -r8434:8435 svn+ssh://bugman@.../svn/relax/branches/relax_disp/specific_fns/@r18123 specific_analyses

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r8435 | semor | 2009-01-13 18:18:45 +0100 (Tue, 13 Jan 2009) | 7 lines
Changed paths:
M /branches/relax_disp/specific_fns/relax_disp.py

Added a missing quote which prevented the user manual to be sconstructed.

This was spotted in r8433 and discussed in a thread starting at:
https://mail.gna.org/public/relax-devel/2009-01/msg00082.html
(Message-id: <7f080ed10901130831m7f1d3a7dg4f683f390fe9203c@...>)
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Manually ported the changes of r8433 from the prompt package to the user_functions package.

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r8433 | semor | 2009-01-13 17:09:35 +0100 (Tue, 13 Jan 2009) | 32 lines
Changed paths:
M /branches/relax_disp/prompt/grace.py

Imported relaxation dispersion in grace user functions.

However, there is now a problem when constructing the manual (scons user_manual_pdf), in the latex
part of the code, where the following error message is thrown:

==========
Underfull \vbox (badness 10000) has occurred while \output is active [172]
Overfull \hbox (12.85161pt too wide) in paragraph at lines 1277--1306
[]

Underfull \vbox (badness 5578) has occurred while \output is active [173]
[174] [175] [176] [177] [178] [179] [180]
Underfull \hbox (badness 10000) in paragraph at lines 1597--1598
[]\OT1/cmtt/m/n/9 relax> grace.write(x[]data[]type=`Rex', y[]data[]type=`te', s
pin[]id=`:123', plot[]data=`sims',

Underfull \hbox (badness 10000) in paragraph at lines 1602--1603
[]\OT1/cmtt/m/n/9 relax> grace.write(x[]data[]type=`relax[]times', y[]data[]typ
e=`ave[]int',
[181]
! Argument of \check@...@ has an extra }.
<inserted text>
\par
l.1688 ...ncy (series) & \quotecmd{cpmg\_frqs} & }
\^{}[Cc]pmg[ -\_][Ff]rqs\$...

?
==========

Any ideas ?
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Ported r8430 from the old relax_disp branch into the new branch.

The command used was:
svn merge -r8429:8430 svn+ssh://bugman@.../svn/relax/branches/relax_disp/specific_fns/@r18123 specific_analyses

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r8430 | semor | 2009-01-13 14:51:31 +0100 (Tue, 13 Jan 2009) | 7 lines
Changed paths:
M /branches/relax_disp/specific_fns/relax_disp.py

Completed the scaling matrix code.

This follows a thread at:
https://mail.gna.org/public/relax-devel/2009-01/msg00073.html
(Message-id: <496C09F1.1000307@...>)
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Ported r8429 from the old relax_disp branch into the new branch.

The command used was:
svn merge -r8428:8429 svn+ssh://bugman@.../svn/relax/branches/relax_disp/specific_fns/@r18123 specific_analyses

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r8429 | semor | 2009-01-13 04:24:37 +0100 (Tue, 13 Jan 2009) | 6 lines
Changed paths:
M /branches/relax_disp/specific_fns/relax_disp.py

Started to implement the scaling matrix for scaling the 'R2eff' values.

This might change in the future as other possible curve fitting parameters ('R2', 'Rex', 'kex',
'R2A', 'kA', 'dw') might need some scaling.
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Ported r8428 from the old relax_disp branch into the new branch.

The command used was:
svn merge -r8427:8428 svn+ssh://bugman@.../svn/relax/branches/relax_disp/specific_fns/@r18123 specific_analyses

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r8428 | semor | 2009-01-13 04:13:54 +0100 (Tue, 13 Jan 2009) | 3 lines
Changed paths:
M /branches/relax_disp/specific_fns/relax_disp.py

Converted the function linear_constraints() for relaxation dispersion needs.
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Ported r8426 from the old relax_disp branch into the new branch.

The command used was:
svn merge -r8425:8426 svn+ssh://bugman@.../svn/relax/branches/relax_disp/specific_fns/@r18123 specific_analyses

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r8426 | semor | 2009-01-12 19:32:24 +0100 (Mon, 12 Jan 2009) | 10 lines
Changed paths:
M /branches/relax_disp/specific_fns/relax_disp.py

Started to implement a function for calculating the effective transversal relaxation rate (R2eff).

Now, the good file has been modified, contrary to what happened in r8418 (which was corrected in
r8420).

This follows a thread at:
https://mail.gna.org/public/relax-devel/2009-01/msg00067.html
(Message-id: <496B479D.3070304@...>)
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Ported r8417 from the old relax_disp branch into the new branch.

The command used was:
svn merge -r8416:8417 svn+ssh://bugman@.../svn/relax/branches/relax_disp/specific_fns/@r18123 specific_analyses

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r8417 | semor | 2009-01-12 14:42:33 +0100 (Mon, 12 Jan 2009) | 5 lines
Changed paths:
M /branches/relax_disp/specific_fns/relax_disp.py

Made a few corrections proposed by Ed in a post at:
https://mail.gna.org/public/relax-devel/2009-01/msg00066.html
(Message-id: <7f080ed10901120532h736892bbmd03483b4decadf39@...>)
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Ported r8415 from the old relax_disp branch into the new branch.

The command used was:
svn merge -r8414:8415 svn+ssh://bugman@.../svn/relax/branches/relax_disp/specific_fns/@r18123 specific_analyses

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r8415 | semor | 2009-01-12 14:27:11 +0100 (Mon, 12 Jan 2009) | 7 lines
Changed paths:
M /branches/relax_disp/specific_fns/relax_disp.py

Added tests, print statements and other code to the relaxation dispersion specific functions.

Tests were proosed by Ed in a post at:
https://mail.gna.org/public/relax-devel/2009-01/msg00065.html
(Message-id: <7f080ed10901120107t4f1cd53ew51f498a45a38eade@...>)
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Ported r8399 from the old relax_disp branch into the new branch.

The command used was:
svn merge -r8398:8399 svn+ssh://bugman@.../svn/relax/branches/relax_disp/specific_fns/@r18123 specific_analyses

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r8399 | semor | 2009-01-12 01:54:56 +0100 (Mon, 12 Jan 2009) | 5 lines
Changed paths:
M /branches/relax_disp/specific_fns/relax_disp.py

Introduced a relaxError when chosing 'r1rho' as experiment type as this won't be implemented now.

Efforts will be concentrated on the CPMG code first, then on the R1rho code.
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Ported r8398 from the old relax_disp branch into the new branch.

The command used was:
svn merge -r8397:8398 svn+ssh://bugman@.../svn/relax/branches/relax_disp@r18123 .

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r8398 | semor | 2009-01-12 01:53:01 +0100 (Mon, 12 Jan 2009) | 5 lines
Changed paths:
M /branches/relax_disp/test_suite/system_tests/scripts/relax_disp_cpmg_fast.py
M /branches/relax_disp/test_suite/system_tests/scripts/relax_disp_cpmg_slow.py

Rearranged commands in the scripts.

The experiment type and exchange regime will have to be input before the cpmg pulse train delay T.
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