Author: bugman
Date: Thu Dec 8 15:42:59 2011
New Revision: 15069
URL: http://svn.gna.org/viewcvs/relax?rev=15069&view=rev
Log:
A few fixes for the subdirectory.
Added:
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/animate.py
- copied, changed from r15025,
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/animate.py
Modified:
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/frame_order.bz2
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/frame_order.py
Copied:
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/animate.py
(from r15025,
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/animate.py)
URL:
http://svn.gna.org/viewcvs/relax/branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/animate.py?p2=branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/animate.py&p1=branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/animate.py&r1=15025&r2=15069&rev=15069&view=diff
==============================================================================
---
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/animate.py
(original)
+++
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/animate.py
Thu Dec 8 15:42:59 2011
@@ -8,13 +8,13 @@
pymol.view()
# The cone representation.
-pymol.cone_pdb('cone.pdb.gz')
+pymol.cone_pdb('cone.pdb')
# View all.
pymol.command('zoom')
# Load the distribution of structures.
-pymol.command('load distribution.pdb.gz')
+pymol.command('load ../distribution.pdb.gz')
# Structure display.
pymol.command('hide everything, 1J7O_1st_NH')
@@ -30,12 +30,12 @@
pymol.command('cmd.mplay()')
# Load the original domain position.
-pymol.command('load ../1J7P_1st_NH.pdb')
+pymol.command('load ../../1J7P_1st_NH.pdb')
pymol.command('hide everything, 1J7P_1st_NH')
pymol.command('show spheres, 1J7P_1st_NH')
# Load the pivot-CoM axes.
-pymol.command('load ../system.pdb')
+pymol.command('load ../../system.pdb')
pymol.command('show sticks, system')
pymol.command('label system, resn')
pymol.command('select sele, system and resi 1')
@@ -46,7 +46,7 @@
pymol.command('color yellow, sele')
# The original rotation axis.
-pymol.command('load axis.pdb')
+pymol.command('load ../axis.pdb')
pymol.command('show sticks, axis')
pymol.command('color orange, axis')
pymol.command('select sele, axis and name N')
Modified:
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/frame_order.bz2
URL:
http://svn.gna.org/viewcvs/relax/branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/frame_order.bz2?rev=15069&r1=15068&r2=15069&view=diff
==============================================================================
Binary files - no diff available.
Modified:
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/frame_order.py
URL:
http://svn.gna.org/viewcvs/relax/branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/frame_order.py?rev=15069&r1=15068&r2=15069&view=diff
==============================================================================
---
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/frame_order.py
(original)
+++
branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/frame_order.py
Thu Dec 8 15:42:59 2011
@@ -35,8 +35,8 @@
pipe.create(pipe_name='frame order', pipe_type='frame order')
# Read the structures.
- structure.read_pdb('1J7O_1st_NH.pdb', dir='..', set_mol_name='N-dom')
- structure.read_pdb('1J7P_1st_NH_rot.pdb', dir='..',
set_mol_name='C-dom')
+ structure.read_pdb('1J7O_1st_NH.pdb', dir='../..',
set_mol_name='N-dom')
+ structure.read_pdb('1J7P_1st_NH_rot.pdb', dir='../..',
set_mol_name='C-dom')
# Load the spins.
structure.load_spins('@N')
@@ -54,17 +54,17 @@
ln = ['dy', 'tb', 'tm', 'er']
for i in range(len(ln)):
## Load the RDCs.
- #rdc.read(align_id=ln[i], file='rdc_%s.txt'%ln[i],
res_num_col=2, spin_name_col=5, data_col=6, error_col=7)
+ #rdc.read(align_id=ln[i], file='rdc_%s.txt'%ln[i], dir='..',
res_num_col=2, spin_name_col=5, data_col=6, error_col=7)
# The PCS.
- pcs.read(align_id=ln[i], file='pcs_%s.txt'%ln[i], res_num_col=2,
spin_name_col=5, data_col=6, error_col=7)
+ pcs.read(align_id=ln[i], file='pcs_%s.txt'%ln[i], dir='..',
res_num_col=2, spin_name_col=5, data_col=6, error_col=7)
# The temperature and field strength.
temperature(id=ln[i], temp=303)
frq.set(id=ln[i], frq=900e6)
# Load the N-domain tensors (the full tensors).
- script('../tensors.py')
+ script('../../tensors.py')
# Define the domains.
domain(id='N', spin_id=":1-78")
@@ -127,7 +127,7 @@
pipe.create(pipe_name='orig pos', pipe_type='frame order')
# Load the structure.
- structure.read_pdb('1J7P_1st_NH.pdb', dir='..')
+ structure.read_pdb('1J7P_1st_NH.pdb', dir='../..')
def pymol_display(self):
@@ -137,8 +137,8 @@
pipe.switch('frame order')
# Load the PDBs of the 2 domains.
- structure.read_pdb('1J7O_1st_NH.pdb', dir='..')
- structure.read_pdb('1J7P_1st_NH_rot.pdb', dir='..')
+ structure.read_pdb('1J7O_1st_NH.pdb', dir='../..')
+ structure.read_pdb('1J7P_1st_NH_rot.pdb', dir='../..')
# Create the cone PDB file.
frame_order.cone_pdb(file='cone.pdb', force=True)
@@ -171,7 +171,7 @@
pipe.create(pipe_name='ave pos', pipe_type='frame order')
# Load the structure.
- structure.read_pdb('1J7P_1st_NH_rot.pdb', dir='..')
+ structure.read_pdb('1J7P_1st_NH_rot.pdb', dir='../..')
# Rotate all atoms.
structure.rotate(R=R, origin=pivot)
r15069 - /branches/frame_order_testing/test_suite/shared_data/frame_order/rotor2/pcs_only/