Update of /cvsroot/fink/dists/10.7/stable/main/finkinfo/sci
In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv26414
Added Files:
pymol-py-apbstools.patch
Log Message:
add patch for use with tcltk 8.6.0 on 10.9 and later
--- NEW FILE: pymol-py-apbstools.patch ---
--- modules/pmg_tk/startup/apbs_tools.py.orig 2013-08-16 20:29:27.000000000
-0400
+++ modules/pmg_tk/startup/apbs_tools.py 2013-08-16 20:31:35.000000000
-0400
@@ -560,7 +560,8 @@
# Set up the Main page
page = self.notebook.add('Main')
group = Pmw.Group(page,tag_text='Main options')
- group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ #group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ group.grid(padx = 10, pady = 5, sticky=(N, S, E, W))
self.selection = Pmw.EntryField(group.interior(),
labelpos='w',
label_text='Selection to use: ',
@@ -606,7 +607,8 @@
page = self.notebook.add('Configuration')
group = Pmw.Group(page,tag_text='Dielectric Constants')
- group.pack(fill = 'both', expand = 1, padx = 4, pady = 5)
+ #group.pack(fill = 'both', expand = 1, padx = 4, pady = 5)
+ group.grid(padx = 4, pady = 5, sticky=(N, S, E, W))
group.grid(column=0, row=0)
self.interior_dielectric =
Pmw.EntryField(group.interior(),labelpos='w',
label_text = 'Protein Dielectric:',
@@ -625,7 +627,8 @@
#entry.pack(side='left',fill='both',expand=1,padx=4) # side-by-side
entry.pack(fill='x',expand=1,padx=4,pady=1) # vertical
group = Pmw.Group(page,tag_text='Other')
- group.pack(fill='both',expand=1, padx=4, pady=5)
+ #group.pack(fill='both',expand=1, padx=4, pady=5)
+ group.grid(padx=4, pady=5, sticky=(N, S, E, W))
group.grid(column=1, row=1,columnspan=4)
self.max_mem_allowed = Pmw.EntryField(group.interior(),labelpos='w',
label_text = 'Maximum Memory
Allowed (MB):',
@@ -683,7 +686,8 @@
group = Pmw.Group(page,tag_text='Ions')
- group.pack(fill='both',expand=1, padx=4, pady=5)
+ #group.pack(fill='both',expand=1, padx=4, pady=5)
+ group.grid(padx=4, pady=5, sticky=(N, S, E, W))
group.grid(column=0, row=1, )
self.ion_plus_one_conc = Pmw.EntryField(group.interior(),
labelpos='w',
@@ -742,7 +746,8 @@
entry.pack(fill='x',expand=1,padx=4)
group = Pmw.Group(page,tag_text = 'Coarse Mesh Length')
- group.pack(fill = 'both', expand = 1, padx = 4, pady = 5)
+ #group.pack(fill = 'both', expand = 1, padx = 4, pady = 5)
+ group.grid(padx = 4, pady = 5, sticky=(N, S, E, W))
group.grid(column = 1, row = 0)
for coord in 'x y z'.split():
setattr(self,'grid_coarse_%s'%coord,Pmw.EntryField(group.interior(),
@@ -757,7 +762,8 @@
group = Pmw.Group(page,tag_text = 'Fine Mesh Length')
- group.pack(fill = 'both', expand = 1, padx = 4, pady = 5)
+ #group.pack(fill = 'both', expand = 1, padx = 4, pady = 5)
+ group.grid(padx = 4, pady = 5, sticky=(N, S, E, W))
group.grid(column = 2, row = 0)
for coord in 'x y z'.split():
setattr(self,'grid_fine_%s'%coord,Pmw.EntryField(group.interior(),
@@ -772,7 +778,8 @@
group = Pmw.Group(page,tag_text = 'Grid Center')
- group.pack(fill = 'both', expand = 1, padx = 4, pady = 5)
+ #group.pack(fill = 'both', expand = 1, padx = 4, pady = 5)
+ group.grid(padx = 4, pady = 5, sticky=(N, S, E, W))
group.grid(column = 3, row = 0)
for coord in 'x y z'.split():
setattr(self,'grid_center_%s'%coord,Pmw.EntryField(group.interior(),
@@ -786,7 +793,8 @@
getattr(self,'grid_center_%s'%coord).pack(fill='x', expand=1,
padx=4, pady=1)
group = Pmw.Group(page,tag_text = 'Grid Points')
- group.pack(fill = 'both', expand = 1, padx = 4, pady = 5)
+ #group.pack(fill = 'both', expand = 1, padx = 4, pady = 5)
+ group.grid(padx = 4, pady = 5, sticky=(N, S, E, W))
group.grid(column = 4, row = 0)
for coord in 'x y z'.split():
setattr(self,'grid_points_%s'%coord,Pmw.EntryField(group.interior(),
@@ -804,7 +812,8 @@
page.grid_columnconfigure(5,weight=1)
page = self.notebook.add('Program Locations')
group = Pmw.Group(page,tag_text='Locations')
- group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ #group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ group.grid(padx = 10, pady = 5, sticky=(N, S, E, W))
def quickFileValidation(s):
if s == '': return Pmw.PARTIAL
elif os.path.isfile(s): return Pmw.OK
@@ -867,7 +876,8 @@
page = self.notebook.add('Temp File Locations')
group = Pmw.Group(page,tag_text='Locations')
- group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ #group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ group.grid(padx = 10, pady = 5, sticky=(N, S, E, W))
self.pymol_generated_pqr_filename = Pmw.EntryField(group.interior(),
labelpos = 'w',
label_pyclass =
FileDialogButtonClassFactory.get(self.setPymolGeneratedPqrFilename),
@@ -915,17 +925,20 @@
page = self.notebook.add('Visualization (1)')
group =
VisualizationGroup(page,tag_text='Visualization',visgroup_num=1)
self.visualization_group_1 = group
- group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ #group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ group.grid(padx = 10, pady = 5, sticky=(N, S, E, W))
page = self.notebook.add('Visualization (2)')
group =
VisualizationGroup(page,tag_text='Visualization',visgroup_num=2)
self.visualization_group_2 = group
- group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ #group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ group.grid(padx = 10, pady = 5, sticky=(N, S, E, W))
# Create a couple of other empty pages
page = self.notebook.add('About')
group = Pmw.Group(page, tag_text='About PyMOL APBS Tools')
- group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ #group.pack(fill = 'both', expand = 1, padx = 10, pady = 5)
+ group.grid(padx = 10, pady = 5, sticky=(N, S, E, W))
text = """This plugin integrates PyMOL (http://PyMOL.org/) with APBS
(http://www.poissonboltzmann.org/apbs/).
Documentation may be found at
@@ -2158,7 +2171,8 @@
self.update_buttonbox = Pmw.ButtonBox(self.mm_group.interior(),
padx=0)
self.update_buttonbox.pack(side=LEFT)
self.update_buttonbox.add('Update',command=self.refresh)
- self.mm_group.pack(fill = 'both', expand = 1, padx = 4, pady = 5,
side=TOP)
+ #self.mm_group.pack(fill = 'both', expand = 1, padx = 4, pady = 5,
side=TOP)
+ self.mm_group.grid(padx = 4, pady = 5, sticky=(N, S, E, W))
self.ms_group = Pmw.Group(self.interior(),tag_text='Molecular
Surface')
self.ms_buttonbox = Pmw.ButtonBox(self.ms_group.interior(), padx=0)
@@ -2209,7 +2223,8 @@
bars = (self.mol_surf_low,self.mol_surf_middle,self.mol_surf_high)
Pmw.alignlabels(bars)
for bar in bars: bar.pack(side=LEFT)
- self.ms_group.pack(fill = 'both', expand = 1, padx = 4, pady = 5,
side=LEFT)
+ #self.ms_group.pack(fill = 'both', expand = 1, padx = 4, pady = 5,
side=LEFT)
+ self.ms_group.grid(padx = 4, pady = 5, sticky=(N, S, E, W))
self.fl_group = Pmw.Group(self.interior(),tag_text='Field Lines')
self.fl_buttonbox = Pmw.ButtonBox(self.fl_group.interior(), padx=0)
@@ -2224,7 +2239,8 @@
text = """Follows same coloring as
surface.""",
)
label.pack()
- self.fl_group.pack(fill = 'both', expand = 1, padx = 4, pady = 5,
side=TOP)
+ #self.fl_group.pack(fill = 'both', expand = 1, padx = 4, pady = 5,
side=TOP)
+ self.fl_group.grid(padx = 4, pady = 5, sticky=(N, S, E, W))
self.pi_group = Pmw.Group(self.interior(),tag_text='Positive
Isosurface')
self.pi_buttonbox = Pmw.ButtonBox(self.pi_group.interior(), padx=0)
@@ -2243,7 +2259,8 @@
entryfield_validate = {'validator'
: 'real', 'min':0}
)
self.pos_surf_val.pack(side=LEFT)
- self.pi_group.pack(fill = 'both', expand = 1, padx = 4, pady = 5,
side=LEFT)
+ #self.pi_group.pack(fill = 'both', expand = 1, padx = 4, pady = 5,
side=LEFT)
+ self.pi_group.grid(padx = 4, pady = 5, sticky=(N, S, E, W))
self.ni_group = Pmw.Group(self.interior(),tag_text='Negative
Isosurface')
self.ni_buttonbox = Pmw.ButtonBox(self.ni_group.interior(), padx=0)
@@ -2262,7 +2279,8 @@
entryfield_validate = {'validator'
: 'real', 'max':0}
)
self.neg_surf_val.pack(side=LEFT)
- self.ni_group.pack(fill = 'both', expand = 1, padx = 4, pady = 5,
side=LEFT)
+ #self.ni_group.pack(fill = 'both', expand = 1, padx = 4, pady = 5,
side=LEFT)
+ self.ni_group.grid(padx = 4, pady = 5, sticky=(N, S, E, W))
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