On Nov 3, 2010, at 8:22 AM, Elisabeth Ortega wrote:

Dear all,

I'm trying to do a script that shows in a table an array of numerical values. One little script that shows what I'm trying to do is:

from chimera import runCommand as run

run("sel") b=[] for a in chimera.selection.currentAtoms(): b=a.serialNumber

from CGLtk.Table import SortableTable

t=SortableTable(b) t.addColumn("serial", "Serial", format=None) t.setData(b) t.launch()

With this little script I'm trying to show in a column of the table the serial number of the atoms of my system.

Hi Elisabeth, You've done a lot of things right here, but a few important things wrong. One is that a Table can't be created in isolation; it has to be part of a window. The simplest way to create a window is to use the ModelessDialog class from chimera.baseDialog, like this:

from chimera.baseDialog import ModelessDialog class MyDialog(ModelessDialog): def fillInUI(self, parent): # code to create table in here...

MyDialog()

[FYI, it's a "modeless" dialog because the user can interact with other parts of Chimera while the dialog is shown (as opposed to a "modal" dialog where the user must respond to it before doing anything else in Chimera)]

The second problem in your code is that the first argument to SortableTable should be the window or frame that it is to be placed in. The "parent" argument to the fillInUI method above is the frame in the dialog window that widgets (like your SortableTable) should be placed in. So the code to create the table is:

t = SortableTable(parent)

The third problem with the code is that the argument to the setData method should be a list of some sort but your code does a "b=a.serialNumber" which makes b an integer, not a list. Another problem is that the arguments to addColumn are the column title and how to get the data value from an item, the latter of which should either be an attribute name or a function that takes an item as its argument. Since you are supplying a list of integers, the addColumn call would be:

t.addColumn("Serial", int, format="%d")

or:

t.addColumn("Serial", str)

Both 'int' and 'str' are Python built-in functions for conversion to integer or string.

The final problem with the code is that you need to call the grid() method on the table so that it gets shown (there are row/column arguments to grid() for positioning widgets relative to each other in a single frame, but since you only have one widget [the table] you can call grid() with no arguments).

The last thing, which isn't an error per se, is that I think it would be better if the data given to the table were a list of atoms, rather than a list of atom serial numbers. That way the table could display additional columns of information (such as atom name) rather than being restricted to just showing serial numbers.

Here's what I think your code should look like:

import chimera from chimera.baseDialog import ModelessDialog class TableDialog(ModelessDialog): def fillInUI(self, parent): from CGLtk.Table import SortableTable t = SortableTable(parent) # str(atom) will return something like "ALA 59 A", so use str() func... t.addColumn("Name", str) t.addColumn("Serial", "serialNumber", format="%d") from chimera import runCommand as run run("sel") t.setData(chimera.selection.currentAtoms()) t.launch() # the 'sticky' arg controls resize behavior, # with "nsew" the table will enlarge (or shrink) # as the dialog is resized t.grid(sticky="nsew")

TableDialog()

Finally, there is more detail about how ModelessDialogs work in the "Extension-Specific User Interface" programmer's example at Example FrameSet

--Eric

Eric Pettersen UCSF Computer Graphics Lab http://www.cgl.ucsf.edu

But when I execute that, I got a message in the Python Shell that says:

Traceback (most recent call last): File "/home/eortega/intento-tabla.py", line 11, in <module> t=SortableTable(b) File "CHIMERA/share/CGLtk/Table.py", line 489, in __init__ File "CHIMERA/lib/python2.5/lib-tk/Tkinter.py", line 2442, in __init__ Widget.__init__(self, master, 'frame', cnf, {}, extra) File "CHIMERA/lib/python2.5/lib-tk/Tkinter.py", line 1923, in __init__ BaseWidget._setup(self, master, cnf) File "CHIMERA/lib/python2.5/lib-tk/Tkinter.py", line 1901, in _setup self.tk = master.tk AttributeError: 'int' object has no attribute 'tk'

And I don't understand it. How can I build successfully my table?