/usr/lib/python2.7/dist-packages/pmg_tk/startup/remote_pdb_load.py is in pymol 1.8.4.0+dfsg-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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PDB Loader Service
(c) 2013 Schrodinger Inc.
'''
try:
import Tkinter
from Tkinter import LEFT, RIGHT
import tkMessageBox
except ImportError:
import tkinter as Tkinter
from tkinter import LEFT, RIGHT
from tkinter import messagebox as tkMessageBox
from pymol import cmd, plugins, CmdException
def __init_plugin__(self=None):
plugins.addmenuitem('PDB Loader Service', fetchdialog)
def get_trunc(var):
return var.get().split(None, 1)[0]
def fetchdialog():
app = plugins.get_pmgapp()
root = plugins.get_tk_root()
self = Tkinter.Toplevel(root)
self.title('PDB Loader Service')
self.minsize(250, 0)
self.resizable(0,0)
outer = self
pad = 4
type_options = [
"cif (mmCIF)",
"pdb (Asymmetric Unit)",
"pdb1 (Biological Unit)",
"2fofc (Density)",
"fofc (Difference Density)",
"cid (PubChem Compound)",
"sid (PubChem Substance)",
"emd (EMDB Density)",
"cc (Chemical Component)",
]
var_code = Tkinter.StringVar(self)
var_chain = Tkinter.StringVar(self)
var_assembly = Tkinter.StringVar(self, cmd.get('assembly'))
var_name = Tkinter.StringVar(self)
var_type = Tkinter.StringVar(self, type_options[0])
var_keep = Tkinter.BooleanVar(self,
not cmd.get_setting_boolean('autoclose_dialogs'))
def callback(*args):
code = var_code.get()
type = get_trunc(var_type)
if type in ('pdb', 'cif'):
code += var_chain.get()
if type == 'cif':
cmd.set('assembly', var_assembly.get())
try:
result = cmd.fetch(code, var_name.get(), type=type)
if result == -1:
raise CmdException('You entered an invalid pdb code: ' + code)
except CmdException as e:
tkMessageBox.showerror('Error', str(e), parent=self)
return
cmd.log('fetch %s, type=%s, async=0\n' % (code, type))
if not var_keep.get():
self.destroy()
def callback_type(*args):
v = get_trunc(var_type)
if v.startswith('pdb') or v.endswith('fofc') or v.startswith('cif'):
but_code.configure(width=4)
else:
but_code.configure(width=20)
if v in ('pdb', 'cif'):
frame_pdb.pack(side=LEFT)
else:
frame_pdb.pack_forget()
if v == 'cif':
frame_assembly.pack(side=LEFT)
else:
frame_assembly.pack_forget()
def makerow(label=None, parent=None, **kwargs):
master = Tkinter.Frame(parent or outer)
master.pack(fill=Tkinter.X, **kwargs)
if label:
Tkinter.Label(master, text=label).pack(side=LEFT)
return master
padkw = {'padx': pad, 'pady': (pad, 0)}
master = makerow("Type:", **padkw)
but_type = Tkinter.OptionMenu(master, var_type, *type_options,
command=callback_type).pack(side=LEFT)
master = makerow("Code:", **padkw)
but_code = Tkinter.Entry(master, textvariable=var_code, width=4)
but_code.bind("<Return>", callback)
but_code.pack(side=LEFT)
frame_pdb = makerow("Chain:", master, side=LEFT, padx=8)
but_chain = Tkinter.Entry(frame_pdb, textvariable=var_chain, width=4)
but_chain.bind("<Return>", callback)
but_chain.pack(side=LEFT)
frame_assembly = makerow("Assembly:", master, side=LEFT, padx=8)
but_assembly = Tkinter.Entry(frame_assembly, textvariable=var_assembly, width=4)
but_assembly.bind("<Return>", callback)
but_assembly.pack(side=LEFT)
frame_name = makerow("Name of new object:", **padkw)
but_name = Tkinter.Entry(frame_name, textvariable=var_name, width=8)
but_name.bind("<Return>", callback)
but_name.pack(side=LEFT)
master = makerow(padx=pad, pady=(2*pad,0))
but_ok = Tkinter.Button(master, width=10, text="OK",
command=callback)
but_cancel = Tkinter.Button(master, width=10, text="Cancel",
command=self.destroy)
but_cancel.pack(side=RIGHT, fill=Tkinter.X)
but_ok.pack(side=RIGHT, fill=Tkinter.X)
master = makerow(padx=pad, pady=(2,pad))
but_keep = Tkinter.Checkbutton(master, text="Keep dialog open", variable=var_keep)
but_keep.pack(side=RIGHT)
but_code.focus_set()
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