def body(self, guiFrame):
guiFrame.grid_columnconfigure(1, weight=1)
guiFrame.grid_rowconfigure(1, weight=1)
self.usernameEntry = LabeledEntry(guiFrame, 'username')
self.usernameEntry.grid(row=0)
self.passwordEntry = LabeledEntry(guiFrame, 'password', show="*")
self.passwordEntry.grid(row=1)
texts = ['Upload']
commands = [self.serverUpload]
buttonList = createDismissHelpButtonList(guiFrame, texts=texts, commands=commands, expands=True)
buttonList.grid(row=2)
def __init__(self,
parent,
file_types=None,
directory=None,
single_callback=None,
double_callback=None,
select_dir_callback=None,
change_dir_callback=None,
should_change_dir_callback=None,
prompt=None,
show_file=True,
file='',
multiSelect=False,
default_dir=None,
getRowColor=None,
getExtraCell=None,
extraHeadings=None,
extraJustifies=None,
displayExtra=True,
manualFileFilter=False,
extraTipTexts=None,
*args,
**kw):
if file_types is None:
file_types = [FileType("All", ["*"])]
if manualFileFilter:
self.manualFilter = FileType("Manual")
file_types.append(self.manualFilter)
else:
self.manualFilter = None
if directory is None:
directory = normalisePath(os.getcwd())
if extraHeadings is None:
extraHeadings = ()
else:
extraHeadings = tuple(extraHeadings)
if extraJustifies is None:
extraJustifies = ()
else:
extraJustifies = tuple(extraJustifies)
if extraHeadings or extraJustifies:
assert len(extraHeadings) == len(extraJustifies)
assert getExtraCell
self.extraHeadings = extraHeadings
self.extraJustifies = extraJustifies
self.extraTipTexts = extraTipTexts or []
self.displayExtra = displayExtra
Frame.__init__(self, parent, *args, **kw)
self.file_types = file_types
self.fileType = file_types[0]
self.single_callback = single_callback
self.double_callback = double_callback
self.select_dir_callback = select_dir_callback
self.change_dir_callback = change_dir_callback
self.should_change_dir_callback = should_change_dir_callback
self.show_file = show_file
self.directory = None
self.historyBack = []
self.historyFwd = []
self.determineDir(directory)
self.default_dir = default_dir
self.getRowColor = getRowColor
self.getExtraCell = getExtraCell
self.grid_columnconfigure(0, weight=1)
row = 0
if prompt:
label = Label(self, text=prompt, grid=(row, 0))
row += 1
self.grid_rowconfigure(row, weight=1)
if show_file:
headings = ('Name', 'Size', 'Date')
justifies = ('left', 'right', 'right')
tipTexts = [
'Name of file, directory or link', 'Size of file in bytes',
'Date of last modification'
]
else:
headings = ('Directory', )
justifies = ('left', )
tipTexts = ['Name of directory']
self.normalHeadings = headings
self.normalJustifies = justifies
self.normalTipTexts = tipTexts
headings = headings + extraHeadings
justifies = justifies + extraJustifies
tipTexts += [None] * len(extraHeadings)
self.fileList = ScrolledMatrix(self,
headingList=headings,
justifyList=justifies,
initialRows=10,
callback=self.singleCallback,
doubleCallback=self.doubleCallback,
tipTexts=tipTexts,
multiSelect=multiSelect,
grid=(row, 0))
row += 1
tipTexts = [
'Go to previous location in history',
'Go forward in location history', 'Go up one directory level',
'Go to root directory', 'Go to home directory',
'Make a new directory', 'Refresh directory listing'
]
texts = ['Back', 'Forward', 'Up', 'Top', 'Home', 'New', 'Refresh']
commands = [
self.backDir, self.fwdDir, self.upDir, self.topDir, self.homeDir,
self.createDir, self.updateFileList
]
if self.default_dir:
texts.append('Default')
commands.append(self.setDefaultDir)
tipTexts.append('Set the current directory as the default')
self.icons = []
for name in ICON_NAMES:
icon = Tkinter.PhotoImage(
file=os.path.join(GFX_DIR, name + '.gif'))
self.icons.append(icon)
self.buttons = ButtonList(self,
texts=texts,
commands=commands,
images=self.icons,
grid=(row, 0),
tipTexts=tipTexts)
if show_file:
row += 1
self.file_entry = LabeledEntry(self,
label='File name',
label_width=10,
entry_width=40,
returnCallback=self.setSelectedFile)
self.file_entry.grid(row=row, column=0, sticky=Tkinter.EW)
else:
self.file_entry = None
row += 1
self.directory_entry = LabeledEntry(self,
label='Directory',
entry=directory,
label_width=10,
entry_width=40,
returnCallback=self.entryDir)
self.directory_entry.grid(row=row, column=0, sticky=Tkinter.EW)
row += 1
subFrame = Frame(self, grid=(row, 0))
subFrame.expandGrid(None, 6)
if show_file:
label = Label(subFrame, text='File type:', grid=(0, 0))
type_labels = self.determineTypeLabels()
self.fileType_menu = PulldownList(
subFrame,
callback=self.typeCallback,
texts=type_labels,
objects=self.file_types,
grid=(0, 1),
tipText='Restrict listed files to selected suffix')
label = Label(subFrame, text=' Show hidden:', grid=(0, 2))
self.hidden_checkbutton = CheckButton(
subFrame,
text='',
selected=False,
callback=self.updateFileList,
grid=(0, 3),
tipText='Show hidden files beginning with "." etc.')
label = Label(subFrame, text='Dir path:', grid=(0, 4))
self.pathMenu = PulldownList(
subFrame,
callback=self.dirCallback,
objects=range(len(self.dirs)),
texts=self.dirs,
index=len(self.dirs) - 1,
indent=' ',
prefix=dirsep,
grid=(0, 5),
tipText='Directory navigation to current location')
if show_file and self.manualFilter is not None:
row += 1
self.manual_filter_entry = LabeledEntry(
self,
label='Manual Select',
entry=defaultFilter,
label_width=13,
entry_width=40,
returnCallback=self.entryFilter,
tipText=
'Path specification with wildcards to select multiple files')
self.manual_filter_entry.grid(row=row, column=0, sticky=Tkinter.EW)
self.updateFileList()
self.updateButtons()
if file:
self.setFile(file)
class FileSelect(Frame):
def __init__(self,
parent,
file_types=None,
directory=None,
single_callback=None,
double_callback=None,
select_dir_callback=None,
change_dir_callback=None,
should_change_dir_callback=None,
prompt=None,
show_file=True,
file='',
multiSelect=False,
default_dir=None,
getRowColor=None,
getExtraCell=None,
extraHeadings=None,
extraJustifies=None,
displayExtra=True,
manualFileFilter=False,
extraTipTexts=None,
*args,
**kw):
if file_types is None:
file_types = [FileType("All", ["*"])]
if manualFileFilter:
self.manualFilter = FileType("Manual")
file_types.append(self.manualFilter)
else:
self.manualFilter = None
if directory is None:
directory = normalisePath(os.getcwd())
if extraHeadings is None:
extraHeadings = ()
else:
extraHeadings = tuple(extraHeadings)
if extraJustifies is None:
extraJustifies = ()
else:
extraJustifies = tuple(extraJustifies)
if extraHeadings or extraJustifies:
assert len(extraHeadings) == len(extraJustifies)
assert getExtraCell
self.extraHeadings = extraHeadings
self.extraJustifies = extraJustifies
self.extraTipTexts = extraTipTexts or []
self.displayExtra = displayExtra
Frame.__init__(self, parent, *args, **kw)
self.file_types = file_types
self.fileType = file_types[0]
self.single_callback = single_callback
self.double_callback = double_callback
self.select_dir_callback = select_dir_callback
self.change_dir_callback = change_dir_callback
self.should_change_dir_callback = should_change_dir_callback
self.show_file = show_file
self.directory = None
self.historyBack = []
self.historyFwd = []
self.determineDir(directory)
self.default_dir = default_dir
self.getRowColor = getRowColor
self.getExtraCell = getExtraCell
self.grid_columnconfigure(0, weight=1)
row = 0
if prompt:
label = Label(self, text=prompt, grid=(row, 0))
row += 1
self.grid_rowconfigure(row, weight=1)
if show_file:
headings = ('Name', 'Size', 'Date')
justifies = ('left', 'right', 'right')
tipTexts = [
'Name of file, directory or link', 'Size of file in bytes',
'Date of last modification'
]
else:
headings = ('Directory', )
justifies = ('left', )
tipTexts = ['Name of directory']
self.normalHeadings = headings
self.normalJustifies = justifies
self.normalTipTexts = tipTexts
headings = headings + extraHeadings
justifies = justifies + extraJustifies
tipTexts += [None] * len(extraHeadings)
self.fileList = ScrolledMatrix(self,
headingList=headings,
justifyList=justifies,
initialRows=10,
callback=self.singleCallback,
doubleCallback=self.doubleCallback,
tipTexts=tipTexts,
multiSelect=multiSelect,
grid=(row, 0))
row += 1
tipTexts = [
'Go to previous location in history',
'Go forward in location history', 'Go up one directory level',
'Go to root directory', 'Go to home directory',
'Make a new directory', 'Refresh directory listing'
]
texts = ['Back', 'Forward', 'Up', 'Top', 'Home', 'New', 'Refresh']
commands = [
self.backDir, self.fwdDir, self.upDir, self.topDir, self.homeDir,
self.createDir, self.updateFileList
]
if self.default_dir:
texts.append('Default')
commands.append(self.setDefaultDir)
tipTexts.append('Set the current directory as the default')
self.icons = []
for name in ICON_NAMES:
icon = Tkinter.PhotoImage(
file=os.path.join(GFX_DIR, name + '.gif'))
self.icons.append(icon)
self.buttons = ButtonList(self,
texts=texts,
commands=commands,
images=self.icons,
grid=(row, 0),
tipTexts=tipTexts)
if show_file:
row += 1
self.file_entry = LabeledEntry(self,
label='File name',
label_width=10,
entry_width=40,
returnCallback=self.setSelectedFile)
self.file_entry.grid(row=row, column=0, sticky=Tkinter.EW)
else:
self.file_entry = None
row += 1
self.directory_entry = LabeledEntry(self,
label='Directory',
entry=directory,
label_width=10,
entry_width=40,
returnCallback=self.entryDir)
self.directory_entry.grid(row=row, column=0, sticky=Tkinter.EW)
row += 1
subFrame = Frame(self, grid=(row, 0))
subFrame.expandGrid(None, 6)
if show_file:
label = Label(subFrame, text='File type:', grid=(0, 0))
type_labels = self.determineTypeLabels()
self.fileType_menu = PulldownList(
subFrame,
callback=self.typeCallback,
texts=type_labels,
objects=self.file_types,
grid=(0, 1),
tipText='Restrict listed files to selected suffix')
label = Label(subFrame, text=' Show hidden:', grid=(0, 2))
self.hidden_checkbutton = CheckButton(
subFrame,
text='',
selected=False,
callback=self.updateFileList,
grid=(0, 3),
tipText='Show hidden files beginning with "." etc.')
label = Label(subFrame, text='Dir path:', grid=(0, 4))
self.pathMenu = PulldownList(
subFrame,
callback=self.dirCallback,
objects=range(len(self.dirs)),
texts=self.dirs,
index=len(self.dirs) - 1,
indent=' ',
prefix=dirsep,
grid=(0, 5),
tipText='Directory navigation to current location')
if show_file and self.manualFilter is not None:
row += 1
self.manual_filter_entry = LabeledEntry(
self,
label='Manual Select',
entry=defaultFilter,
label_width=13,
entry_width=40,
returnCallback=self.entryFilter,
tipText=
'Path specification with wildcards to select multiple files')
self.manual_filter_entry.grid(row=row, column=0, sticky=Tkinter.EW)
self.updateFileList()
self.updateButtons()
if file:
self.setFile(file)
def updateDisplayExtra(self, displayExtra):
self.displayExtra = displayExtra
self.updateFileList()
def isRootDirectory(self, directory=''):
if not directory:
directory = self.directory
if directory:
return os.path.dirname(directory) == directory
return True # arbitrary
def updateButtons(self):
buttons = self.buttons.buttons
isRoot = self.isRootDirectory
if self.historyBack:
buttons[0].enable()
else:
buttons[0].disable()
if self.historyFwd:
buttons[1].enable()
else:
buttons[1].disable()
if self.directory and not isRoot(self.directory):
buttons[2].enable()
buttons[3].enable()
else:
buttons[2].disable()
buttons[3].disable()
homeDir = self.getHomeDir()
if homeDir and os.path.isdir(homeDir):
buttons[4].enable()
else:
buttons[4].disable()
def backDir(self):
if self.historyBack:
self.historyFwd.insert(0, self.directory)
dirName = self.historyBack.pop()
self.changeDir(dirName, addHistory=False)
def fwdDir(self):
if self.historyFwd:
self.historyBack.append(self.directory)
dirName = self.historyFwd.pop(0)
self.changeDir(dirName, addHistory=False)
def topDir(self):
if self.directory:
isRoot = self.isRootDirectory
dirName = self.directory
while not isRoot(dirName):
dirName = joinPath(dirName, os.pardir)
self.changeDir(dirName)
def homeDir(self):
homeDir = self.getHomeDir()
if homeDir:
self.changeDir(homeDir)
def getHomeDir(self):
return os.environ.get('HOME') or os.environ.get('HOMEPATH')
def upDir(self):
self.changeDir(joinPath(self.directory, os.pardir))
def setDefaultDir(self):
self.changeDir(self.default_dir)
def createDir(self):
from memops.gui.DataEntry import askString
msg = 'Enter new sub-directory name'
dirName = askString('New directory', msg, parent=self)
if dirName:
dirName = joinPath(self.directory, dirName)
if os.path.exists(dirName):
msg = 'Directory "%s" already exists' % dirName
showError('Directory exists', msg, parent=self)
else:
os.mkdir(dirName)
self.updateFileList()
def determineTypeLabels(self):
type_labels = []
for t in self.file_types:
s = t.message + ' (' + ', '.join(t.filters) + ')'
type_labels.append(s)
return type_labels
def setFileTypes(self, file_types):
self.file_types = file_types
if self.fileType not in file_types:
self.fileType = file_types[0]
if self.show_file:
ind = self.file_types.index(self.fileType)
type_labels = self.determineTypeLabels()
self.fileType_menu.setup(type_labels, self.file_types, ind)
self.updateFileList()
def determineDir(self, directory):
directory = normalisePath(directory)
assert os.path.isdir(directory), '"%s" is not a directory' % directory
self.prev_directory = self.directory
if not os.path.isabs(directory):
if self.directory is None: # first time around
directory = joinPath(normalisePath(os.getcwd()), directory)
else:
directory = joinPath(self.directory, directory)
self.directory = directory
self.dirs = self.directory.split(dirsep)
def setSelectedFile(self, *event):
file = self.file_entry.getEntry()
try:
self.fileList.selectObject(file)
except:
showError('Some err', 'some err')
def entryDir(self, *event):
dirName = self.directory_entry.getEntry()
try:
self.changeDir(dirName)
except:
showError('Not a directory',
'"' + dirName + '" is not a directory.')
def entryFilter(self, *event):
filterString = self.manual_filter_entry.getEntry()
filters = [str.strip(x) for x in filterString.split(',')]
self.manualFilter.filters = filters
self.fileType = self.manualFilter
self.setFileTypes(
self.file_types) # to trigger update after filter change
self.updateFileList()
self.manual_filter_entry.setEntry(filterString)
def changeDir(self, dirName, addHistory=True):
if not os.path.isdir(dirName):
return
if self.should_change_dir_callback:
if not self.should_change_dir_callback(dirName):
return
oldDir = self.directory
self.determineDir(dirName)
self.updateFileList()
self.directory_entry.setEntry(self.directory)
if self.change_dir_callback:
self.change_dir_callback(self.directory)
nDirs = len(self.dirs)
self.pathMenu.setup(self.dirs, range(nDirs), index=nDirs - 1)
if addHistory:
if oldDir and (self.directory != oldDir):
self.historyBack.append(oldDir)
self.historyFwd = []
self.updateButtons()
def getEntryInfo(self, entry):
file = joinPath(self.directory, entry)
if os.path.islink(file):
# plain arrow: u' \u2192 '
entry = entry + u' \u21D2 ' + unicode(os.readlink(file), 'utf-8')
size = None
color = '#E0D0C0'
elif os.path.isdir(file):
if not self.isRootDirectory(entry):
entry = entry + dirsep
size = None
color = '#C0D0C0'
else:
color = '#C0C0D0'
if self.show_file:
try:
size = str(os.path.getsize(file))
except:
size = None
else:
size = None
try:
fileTime = self.fileTime(file)
except:
fileTime = ''
return (entry, size, fileTime, color)
def getDrives(self):
if isWindowsOS():
#import win32api
#drives = win32api.GetLogicalDriveStrings()
#drives = drives.split('\x00')
#drives = [normalisePath(drive) for drive in drives if drive]
#drives.sort()
# 19 Mar 2012: do not use win32api because not standard
from ctypes import windll
import string
drives = []
bitmask = windll.kernel32.GetLogicalDrives()
for letter in string.ascii_uppercase:
if bitmask & 1:
drives.append(letter)
bitmask >>= 1
drives = [drive + ':\\' for drive in drives]
drives = [normalisePath(drive) for drive in drives]
else:
drives = []
return drives
def updateFileList(self, *extra):
try:
if self.directory:
directory = self.directory
else:
directory = dirsep
entries = self.getFilterFiles(directory)
except OSError, e:
showError('OS Error', str(e))
if self.prev_directory:
self.directory = None
self.changeDir(self.prev_directory)
return
if self.directory:
if self.isRootDirectory():
entries[:0] = [
drive for drive in self.getDrives()
if drive not in self.directory
]
else:
entries[:0] = [os.pardir
] # add parent directory at front of list
# DJOD: Not elegant, but robust !?!
showHidden = self.hidden_checkbutton.getSelected()
show_ent = []
for entry in entries:
if not showHidden:
if not entry.startswith('.'):
show_ent.append(entry)
else:
show_ent.append(entry)
# if not show_ent.__contains__('.'):
# show_ent.append('.')
if not show_ent.__contains__('..'):
show_ent.insert(0, '..')
entries = show_ent
textMatrix = []
colorMatrix = []
for entryActual in entries:
(entry, size, fileTime, color) = self.getEntryInfo(entryActual)
fullEntry = joinPath(directory, entryActual)
if self.getRowColor:
color = self.getRowColor(fullEntry)
if self.displayExtra and self.getExtraCell:
data = self.getExtraCell(fullEntry)
headingList = self.normalHeadings + self.extraHeadings
justifyList = self.normalJustifies + self.extraJustifies
tipTexts = self.normalTipTexts + self.extraTipTexts
else:
data = ()
headingList = self.normalHeadings
justifyList = self.normalJustifies
tipTexts = self.normalTipTexts
# in case we had sorted on a now removed line :
self.fileList.lastSortLine = None
if self.show_file:
text = [entry, size, fileTime]
else:
text = [
entry,
]
text = text + list(data)
textMatrix.append(text)
numCols = len(headingList)
colorMatrix.append(numCols * [color])
self.fileList.update(objectList=entries,
textMatrix=textMatrix,
colorMatrix=colorMatrix,
headingList=headingList,
justifyList=justifyList,
tipTexts=tipTexts)
def __init__(self, parent, file_types = None, directory = None,
single_callback = None, double_callback = None,
prompt = None, show_file = True, file = '', multiSelect=False,
default_dir = None, getRowColor = None,
getExtraCell = None, extraHeadings = None, extraJustifies = None,
displayExtra = True, *args, **kw):
if file_types is None:
file_types = [ FileType("All", ["*"]) ]
if directory is None:
directory = normalisePath(os.getcwd())
if extraHeadings is None:
extraHeadings = ()
else:
extraHeadings = tuple(extraHeadings)
if extraJustifies is None:
extraJustifies = ()
else:
extraJustifies = tuple(extraJustifies)
if extraHeadings or extraJustifies:
assert len(extraHeadings) == len(extraJustifies)
assert getExtraCell
self.extraHeadings = extraHeadings
self.extraJustifies = extraJustifies
self.displayExtra = displayExtra
Frame.__init__(self, parent, *args, **kw)
self.file_types = file_types
self.fileType = file_types[0]
self.single_callback = single_callback
self.double_callback = double_callback
self.show_file = show_file
self.directory = None
self.historyBack = []
self.historyFwd = []
self.determineDir(directory)
self.default_dir = default_dir
self.getRowColor = getRowColor
self.getExtraCell = getExtraCell
self.grid_columnconfigure(0, weight=1)
row = 0
if prompt:
label = Label(self, text=prompt, grid=(row,0))
row += 1
self.grid_rowconfigure(row, weight=1)
if show_file:
headings = ('Name', 'Size', 'Date')
justifies = ('left','right','right')
else:
headings = ('Directory',)
justifies = ('left',)
self.normalHeadings = headings
self.normalJustifies = justifies
headings = headings + extraHeadings
justifies = justifies + extraJustifies
self.fileList = ScrolledMatrix(self, headingList=headings, justifyList=justifies,
initialRows=10, callback=self.singleCallback,
doubleCallback=self.doubleCallback,
multiSelect=multiSelect, grid=(row,0))
row += 1
texts = ['Back', 'Up', 'Forward', 'Top', 'Home', 'New', 'Refresh']
commands = [self.backDir, self.fwdDir, self.upDir, self.topDir,
self.homeDir, self.createDir, self.updateFileList ]
if self.default_dir:
texts.append('Default')
commands.append(self.setDefaultDir)
self.icons = []
for name in ICON_NAMES:
icon = Tkinter.PhotoImage(file=os.path.join(GFX_DIR,name+'.gif'))
self.icons.append(icon)
self.buttons = ButtonList(self, texts=texts, commands=commands,
images=self.icons, grid=(row,0))
if show_file:
row += 1
self.file_entry = LabeledEntry(self, label='File name',
label_width=10, entry_width=40,
returnCallback=self.setSelectedFile)
self.file_entry.grid(row=row, column=0, sticky=Tkinter.EW)
else:
self.file_entry = None
row += 1
self.directory_entry = LabeledEntry(self, label='Directory',
entry = directory,
label_width=10, entry_width=40,
returnCallback=self.entryDir)
self.directory_entry.grid(row=row, column=0, sticky=Tkinter.EW)
row += 1
subFrame = Frame(self, grid=(row,0))
subFrame.expandGrid(None,6)
if show_file:
label = Label(subFrame, text='File type:', grid=(0,0))
type_labels = self.determineTypeLabels()
self.fileType_menu = PulldownList(subFrame, callback=self.typeCallback,
texts=type_labels, objects=self.file_types,
grid=(0,1))
label = Label(subFrame, text=' Show hidden:', grid=(0,2))
self.hidden_checkbutton = CheckButton(subFrame, text='', selected=False,
callback=self.updateFileList, grid=(0,3))
label = Label(subFrame, text='Dir path:', grid=(0,4))
self.pathMenu = PulldownList(subFrame, callback=self.dirCallback,
objects=range(len(self.dirs)),
texts=self.dirs, index=len(self.dirs)-1,
indent=' ', prefix=dirsep, grid=(0,5))
self.updateFileList()
self.updateButtons()
if file:
self.setFile(file)
class FileSelect(Frame):
def __init__(self, parent, file_types = None, directory = None,
single_callback = None, double_callback = None,
prompt = None, show_file = True, file = '', multiSelect=False,
default_dir = None, getRowColor = None,
getExtraCell = None, extraHeadings = None, extraJustifies = None,
displayExtra = True, *args, **kw):
if file_types is None:
file_types = [ FileType("All", ["*"]) ]
if directory is None:
directory = normalisePath(os.getcwd())
if extraHeadings is None:
extraHeadings = ()
else:
extraHeadings = tuple(extraHeadings)
if extraJustifies is None:
extraJustifies = ()
else:
extraJustifies = tuple(extraJustifies)
if extraHeadings or extraJustifies:
assert len(extraHeadings) == len(extraJustifies)
assert getExtraCell
self.extraHeadings = extraHeadings
self.extraJustifies = extraJustifies
self.displayExtra = displayExtra
Frame.__init__(self, parent, *args, **kw)
self.file_types = file_types
self.fileType = file_types[0]
self.single_callback = single_callback
self.double_callback = double_callback
self.show_file = show_file
self.directory = None
self.historyBack = []
self.historyFwd = []
self.determineDir(directory)
self.default_dir = default_dir
self.getRowColor = getRowColor
self.getExtraCell = getExtraCell
self.grid_columnconfigure(0, weight=1)
row = 0
if prompt:
label = Label(self, text=prompt, grid=(row,0))
row += 1
self.grid_rowconfigure(row, weight=1)
if show_file:
headings = ('Name', 'Size', 'Date')
justifies = ('left','right','right')
else:
headings = ('Directory',)
justifies = ('left',)
self.normalHeadings = headings
self.normalJustifies = justifies
headings = headings + extraHeadings
justifies = justifies + extraJustifies
self.fileList = ScrolledMatrix(self, headingList=headings, justifyList=justifies,
initialRows=10, callback=self.singleCallback,
doubleCallback=self.doubleCallback,
multiSelect=multiSelect, grid=(row,0))
row += 1
texts = ['Back', 'Up', 'Forward', 'Top', 'Home', 'New', 'Refresh']
commands = [self.backDir, self.fwdDir, self.upDir, self.topDir,
self.homeDir, self.createDir, self.updateFileList ]
if self.default_dir:
texts.append('Default')
commands.append(self.setDefaultDir)
self.icons = []
for name in ICON_NAMES:
icon = Tkinter.PhotoImage(file=os.path.join(GFX_DIR,name+'.gif'))
self.icons.append(icon)
self.buttons = ButtonList(self, texts=texts, commands=commands,
images=self.icons, grid=(row,0))
if show_file:
row += 1
self.file_entry = LabeledEntry(self, label='File name',
label_width=10, entry_width=40,
returnCallback=self.setSelectedFile)
self.file_entry.grid(row=row, column=0, sticky=Tkinter.EW)
else:
self.file_entry = None
row += 1
self.directory_entry = LabeledEntry(self, label='Directory',
entry = directory,
label_width=10, entry_width=40,
returnCallback=self.entryDir)
self.directory_entry.grid(row=row, column=0, sticky=Tkinter.EW)
row += 1
subFrame = Frame(self, grid=(row,0))
subFrame.expandGrid(None,6)
if show_file:
label = Label(subFrame, text='File type:', grid=(0,0))
type_labels = self.determineTypeLabels()
self.fileType_menu = PulldownList(subFrame, callback=self.typeCallback,
texts=type_labels, objects=self.file_types,
grid=(0,1))
label = Label(subFrame, text=' Show hidden:', grid=(0,2))
self.hidden_checkbutton = CheckButton(subFrame, text='', selected=False,
callback=self.updateFileList, grid=(0,3))
label = Label(subFrame, text='Dir path:', grid=(0,4))
self.pathMenu = PulldownList(subFrame, callback=self.dirCallback,
objects=range(len(self.dirs)),
texts=self.dirs, index=len(self.dirs)-1,
indent=' ', prefix=dirsep, grid=(0,5))
self.updateFileList()
self.updateButtons()
if file:
self.setFile(file)
def updateDisplayExtra(self, displayExtra):
self.displayExtra = displayExtra
self.updateFileList()
def isRootDirectory(self, directory = ''):
if not directory:
directory = self.directory
if directory:
return os.path.dirname(directory) == directory
return True # arbitrary
def updateButtons(self):
buttons = self.buttons.buttons
isRoot = self.isRootDirectory
if self.historyBack:
buttons[0].enable()
else:
buttons[0].disable()
if self.historyFwd:
buttons[1].enable()
else:
buttons[1].disable()
if self.directory and not isRoot(self.directory):
buttons[2].enable()
buttons[3].enable()
else:
buttons[2].disable()
buttons[3].disable()
homeDir = self.getHomeDir()
if homeDir and os.path.isdir(homeDir):
buttons[4].enable()
else:
buttons[4].disable()
def backDir(self):
if self.historyBack:
self.historyFwd.insert(0, self.directory)
dirName = self.historyBack.pop()
self.changeDir(dirName, addHistory=False)
def fwdDir(self):
if self.historyFwd:
self.historyBack.append(self.directory)
dirName = self.historyFwd.pop(0)
self.changeDir(dirName, addHistory=False)
def topDir(self):
if self.directory:
isRoot = self.isRootDirectory
dirName = self.directory
while not isRoot(dirName):
dirName = joinPath(dirName, os.pardir)
self.changeDir(dirName)
def homeDir(self):
homeDir = self.getHomeDir()
if homeDir:
self.changeDir(homeDir)
def getHomeDir(self):
return os.environ.get('HOME') or os.environ.get('HOMEPATH')
def upDir(self):
self.changeDir(joinPath(self.directory, os.pardir))
def setDefaultDir(self):
self.changeDir(self.default_dir)
def createDir(self):
from memops.gui.DataEntry import askString
msg = 'Enter new sub-directory name'
dirName = askString('New directory', msg, parent=self)
if dirName:
dirName = joinPath(self.directory, dirName)
if os.path.exists(dirName):
msg = 'Directory "%s" already exists' % dirName
showError('Directory exists', msg, parent=self)
else:
os.mkdir(dirName)
self.updateFileList()
def determineTypeLabels(self):
type_labels = []
for t in self.file_types:
s = t.message + ' (' + ', '.join(t.filters) + ')'
type_labels.append(s)
return type_labels
def setFileTypes(self, file_types):
self.file_types = file_types
if self.fileType not in file_types:
self.fileType = file_types[0]
if self.show_file:
ind = self.file_types.index(self.fileType)
type_labels = self.determineTypeLabels()
self.fileType_menu.setup(type_labels, self.file_types, ind)
self.updateFileList()
def determineDir(self, directory):
directory = normalisePath(directory)
assert os.path.isdir(directory), '"%s" is not a directory' % directory
self.prev_directory = self.directory
if not os.path.isabs(directory):
if self.directory is None: # first time around
directory = joinPath(normalisePath(os.getcwd()), directory)
else:
directory = joinPath(self.directory, directory)
self.directory = directory
self.dirs = self.directory.split(dirsep)
def setSelectedFile(self, *event):
file = self.file_entry.getEntry()
try:
self.fileList.selectObject(file)
except:
showError('Some err', 'some err')
def entryDir(self, *event):
dirName = self.directory_entry.getEntry()
try:
self.changeDir(dirName)
except:
showError('Not a directory', '"' + dirName + '" is not a directory.')
def changeDir(self, dirName, addHistory=True):
if not os.path.isdir(dirName):
return
oldDir = self.directory
self.determineDir(dirName)
self.updateFileList()
self.directory_entry.setEntry(self.directory)
nDirs = len(self.dirs)
self.pathMenu.setup(self.dirs, range(nDirs), index=nDirs-1)
if addHistory:
if oldDir and (self.directory != oldDir):
self.historyBack.append(oldDir)
self.historyFwd = []
self.updateButtons()
def getEntryInfo(self, entry):
file = joinPath(self.directory, entry)
if os.path.islink(file):
# plain arrow: u' \u2192 '
entry = entry + u' \u21D2 ' + os.readlink(file)
size = None
color = '#E0D0C0'
elif os.path.isdir(file):
if not self.isRootDirectory(entry):
entry = entry + dirsep
size = None
color = '#C0D0C0'
else:
color = '#C0C0D0'
if self.show_file:
try:
size = str(os.path.getsize(file))
except:
size = None
else:
size = None
try:
fileTime = self.fileTime(file)
except:
fileTime = ''
return (entry, size, fileTime, color)
def getDrives(self):
if isWindowsOS():
import win32api
drives = win32api.GetLogicalDriveStrings()
drives = drives.split('\x00')
drives = [normalisePath(drive) for drive in drives if drive]
drives.sort()
else:
drives = []
return drives
def updateFileList(self, *extra):
try:
if self.directory:
dir = self.directory
else:
dir = dirsep
entries = self.getFilterFiles(dir)
except OSError, e:
showError('OS Error', str(e))
if self.prev_directory:
self.directory = None
self.changeDir(self.prev_directory)
return
entries.sort()
if self.directory:
if self.isRootDirectory():
entries[:0] = [drive for drive in self.getDrives() if drive not in self.directory]
else:
entries[:0] = [os.pardir] # add parent directory at front of list
# DJOD: Not elegant, but robust !?!
show_ent = []
for entry in entries:
if not self.hidden_checkbutton.getSelected():
if not entry.startswith('.'):
show_ent.append( entry )
else:
show_ent.append( entry )
# if not show_ent.__contains__('.'):
# show_ent.append('.')
if not show_ent.__contains__('..'):
show_ent.append('..')
entries = show_ent
entries.sort()
textMatrix = []
colorMatrix = []
for entry in entries:
(entry, size, fileTime, color) = self.getEntryInfo(entry)
fullEntry = joinPath(dir, entry)
if self.getRowColor:
color = self.getRowColor(fullEntry)
if self.displayExtra and self.getExtraCell:
data = self.getExtraCell(fullEntry)
headingList = self.normalHeadings + self.extraHeadings
justifyList = self.normalJustifies + self.extraJustifies
else:
data = ()
headingList = self.normalHeadings
justifyList = self.normalJustifies
if self.show_file:
text = [entry, size, fileTime]
else:
text = [entry,]
text = text + list(data)
textMatrix.append(text)
numCols = len(headingList)
colorMatrix.append(numCols*[color])
self.fileList.update(objectList=entries, textMatrix=textMatrix, colorMatrix=colorMatrix,
headingList=headingList, justifyList=justifyList, resetScrollbars=True)
class EditPeakDrawParamsPopup(BasePopup):
"""
**Control How Peak Symbols and Annotations Are Drawn**
This popup window controls the display of picked peak positions within
spectrum windows and also how their annotations are displayed in
many of the tables throughout the rest of Analysis.
**Peak Annotations**
The "Annotation Style" tab, as the name suggests, controls which bits of
information go to form the assignment annotation that is used to label peaks
in spectra and when listing their identities in tables. The user can toggle
various options on or off to dictate what should be included. With no options
selected at all peaks will show only resonance number information like
"[123],[45]", irrespective of any atomic assignments. Switching the atom
assignments on will substitute the atom and residue name for the resonance
names. The spin system toggle is used to control the display of spin system
numbers like the curly bracketed numbers of "{89}[123],[45]" or a residue name
if the spin system is assigned, although the atom assignment option will also
give any residue name. The chain and molecular system toggles are used when
there are several sequences in the assignment that need to be distinguished, so
that you can identify "A25LsyH,N" separately to "B25LysH,N" or even
"MS2:A25LysH,N". The details toggle allows the user to contribute to peak
annotations; such details are set in the relevant column of the peak tables
(e.g. `Selected Peaks`_)or the "Peak::Set details" option of the right-click
window menu. The last "Minimal Annotations" option is special because it gives
a quick replacement for spectrum annotations that overrides all other settings,
for example "25LysH,N" becomes "25K", which is useful to reduce clutter when
printing out an HSQC.
It should be noted that, with the exception of the "Minimal Annotations"
option, any changes to the annotation options for existing peak assignments
will not be visible until [Update Full Annotations] is pressed, which can take
a while to update if the number of peaks in the project is large. Any new
assignments will observe the current settings.
**Draw Size**
The second tab controls how the peak cross symbols, which indicate the pick
position, are drawn in the spectrum display. Here, the user has four choices:
the default is to use a fixed number of screen pixels, so that all symbols are
the same size, irrespective of zoom level; uniform size in ppm (with the
appropriate values for each isotope set in the lower table that appears)
allows the peak symbol maintain a constant size relative to the contours, and
thus differ in on-screen size according to the contour zoom level; and two
choices for a "scaled" size where the peak symbol is larger or smaller
depending on the intensity of the peak, either relative to its peak list or an
absolute globally applied value.
**Figure of Merit**
The last "Merit Symbols" tab allows the user to add textual markers to a peak
depending on the figure-of-merit value, which is an indication of reliability
(although the precise context is at the discretion of the user). The merit
value for a peak is set via the peak tables or the "Peak::Set merit" option of
the right-click window menu. Aside from display purposes the merit value is
used at a few points throughout Analysis to optionally exclude peaks. Typically
a peak with a merit value of 0.0 may be ignored during certain analyses, e.g.
for making NOE derived distance restraints.
**Caveats & Tips**
When assigning peaks via the `Assignment Panel`_ the resonance annotation will
always display spin system information, given that this grouping is critical
to assignment, but the chain and atom assignment will reflect the peak
display, and thus these details may be missing if unset in this Draw
Parameters popup.
.. _`Assignment Panel`: EditAssignmentPopup.html
.. _`Selected Peaks`: SelectedPeaksPopup.html
"""
def __init__(self, parent, *args, **kw):
BasePopup.__init__(self, parent=parent, title='Peak : Draw Parameters', **kw)
def body(self, guiParent):
self.geometry('380x250')
analysisProject = self.analysisProject
self.smallFont = '-schumacher-clean-medium-r-normal--14-140-75-75-c-70-iso646.1991-irv'
guiParent.grid_columnconfigure(0, weight=1)
guiParent.grid_rowconfigure(0, weight=1)
row = 0
tipTexts = ['Options specifying how peak annotations are drawn in spectrum windows and in tables etc.',
'Options to specify how large the peak crosses/symbols are drawn in spectrum windows',
'Enables the user to specify special symbols to annotate peaks according to quality']
options=['Annotation Style','Draw Size','Merit Symbols']
tabbedFrame = TabbedFrame(guiParent, options=options,
grid=(row,0), tipTexts=tipTexts)
frame1, frame2, frame3 = tabbedFrame.frames
frame1.expandGrid(7,1)
frame2.expandGrid(2,0)
frame3.expandGrid(3,1)
self.drawFrame = frame2
# Annotations
tipText = 'Whether to show unassigned spin system numbers like "{123}" in peak annotations; does not affect the display of full residue assignments'
self.spinSystAnnoSelect = CheckButton(frame1, callback=self.setSpinSystAnno, grid=(0,0),
selected=analysisProject.doSpinSystemAnnotations,
tipText=tipText)
spinSystAnnoLabel = Label(frame1, text='Spin System Info', grid=(0,1))
tipText = 'Whether to show assigned atom names in peak annotations rather than resonance numbers, e.g. "21LeuH,N" or "21Leu[55],[56]"'
self.resonanceAnnoSelect = CheckButton(frame1, callback=self.setResonanceAnno, grid=(1,0),
selected=analysisProject.doAssignmentAnnotations,
tipText=tipText)
resonanceAnnoLabel = Label(frame1, text='Atom Assignment', grid=(1,1))
tipText = 'Whether to show the molecular chain code letter in peak annotations, e.g. "21LeuH,N" or "A21LeuH,N"'
self.chainAnnoSelect = CheckButton(frame1, callback=self.setChainAnno, grid=(2,0),
selected=analysisProject.doChainAnnotations,
tipText=tipText)
chainAnnoLabel = Label(frame1, text='Chain Assignment', grid=(2,1))
tipText = 'Whether to show the molecular system code name in peak annotations, e.g. "MS1:21LeuH,N" or "21LeuH,N"'
self.molSysAnnoSelect = CheckButton(frame1, callback=self.setMolSysAnno, grid=(3,0),
selected=analysisProject.doMolSysAnnotations,
tipText=tipText)
molSysAnnoLabel = Label(frame1, text='Molecular System', grid=(3,1))
tipText = 'Whether to show a symbol indicating the quality of a peak; these symbols must be set in the "Merit Symbols" tab'
self.meritAnnoSelect = CheckButton(frame1, callback=self.setMeritAnno, grid=(4,0),
selected=analysisProject.doMeritAnnotations,
tipText=tipText)
meritAnnoLabel = Label(frame1, text='Merit Symbol', grid=(4,1))
tipText = 'Whether to show the details text for a peak in spectrum windows (set in the peak tables)'
self.detailAnnoSelect = CheckButton(frame1, callback=self.setDetailAnno, grid=(5,0),
selected=analysisProject.doDetailAnnotations,
tipText=tipText)
detailAnnoLabel = Label(frame1, text='Details', grid=(5,1))
tipText = 'Whether to ignore above settings, and use a short peak annotation using only residue numbers and one-letter codes, e.g. "21L"'
self.simpleAnnoSelect = CheckButton(frame1, callback=self.setSimpleAnnotations,
grid=(6,0), tipText=tipText,
selected=analysisProject.doMinimalAnnotations)
simpleAnnoLabel = Label(frame1, text='Minimal Annotations (overriding option)', grid=(6,1))
tipText = 'Manually cause an update of all peak annotations; may take some time but recommended to see the immediate effect of changes'
self.updateFullAnnoButton = Button(frame1, text='Update Full Annotations',
command=self.updateAnnotations, grid=(7,0),
gridSpan=(1,2), sticky='nsew', tipText=tipText)
# Size
tipText = 'The width of the displayed peak cross/symbol in screen pixels; the number of pixels from the centre point'
self.pixel_entry = LabeledEntry(frame2, label='Number of pixels',
entry=analysisProject.peakPixelSize,
returnCallback=self.updatePixelSize,
entry_width=8, tipText=tipText)
tipText = 'Specifies which peak height corresponds to the specific per-isotope ppm size; actual peak symbol sizes are scaled, according to relative height (and volume)'
self.intensity_entry = LabeledEntry(frame2, label='Height scale',
entry=analysisProject.peakIntensityScale,
returnCallback=self.updateIntensityScale,
entry_width=8, tipText=tipText)
tipText = 'Specifies which peak volume corresponds to the specific per-isotope ppm size; actual peak symbol sizes are scaled, according to relative volume (and height)'
self.volume_entry = LabeledEntry(frame2, label='Volume scale',
entry=analysisProject.peakVolumeScale,
returnCallback=self.updateVolumeScale,
entry_width=8, tipText=tipText)
tipTexts = ['The kind of nuclear isotope, as found on the axis if a spectrum window',
'The ppm width of the peak cross/symbol along the specific kind of isotope axis']
headings = ['Isotope', 'Peak Size (ppm)']
self.peakSizeEntry = FloatEntry(self, returnCallback=self.setPeakSize, width=10)
editWidgets = [None, self.peakSizeEntry]
editGetCallbacks = [None, self.getPeakSize]
editSetCallbacks = [None, self.setPeakSize]
self.peak_size_table = ScrolledMatrix(frame2, headingList=headings,
initialRows=5, editWidgets=editWidgets,
editGetCallbacks=editGetCallbacks,
editSetCallbacks=editSetCallbacks,
tipTexts=tipTexts)
self.selected_method = None
self.method_widgets = {}
self.method_widgets[peak_draw_methods[0]] = [self.pixel_entry]
self.method_widgets[peak_draw_methods[1]] = [self.peak_size_table]
self.method_widgets[peak_draw_methods[2]] = [self.intensity_entry, self.volume_entry, self.peak_size_table]
self.method_widgets[peak_draw_methods[3]] = [self.peak_size_table]
self.method_widgets[peak_draw_methods[4]] = []
self.method_widgets[peak_draw_methods[5]] = []
selected_index = peak_draw_methods.index(analysisProject.peakDrawMethod)
tipText = 'Selects which mode to use for determining peak cross/symbol sizes; a fixed pixel/ppm value or scaled by intensity for all peaks or just one peak list'
self.method_menu = PulldownList(frame2, texts=peak_draw_methods, gridSpan=(1,2),
grid=(0,0), tipText=tipText,
callback=self.setMethod, index=selected_index)
# Merit symbol
label = Label(frame3, text='Good merit (>0.66)', grid=(0,0))
tipText = 'Although typically blank, sets a symbol to display for good quality peaks (merit value > 0.66), if the relevant option is selected in the "Annotation Style" tab'
self.meritGoodEntry = Entry(frame3, text=analysisProject.meritAnnotationGood,
width=8, grid=(0,1), sticky='ew', tipText=tipText,
returnCallback=self.setMeritAnnotation)
label = Label(frame3, text='Medium merit', grid=(1,0))
tipText = 'Sets a symbol to display for mediocre quality peaks (merit value between 0.34 & 0.66), if the relevant option is selected in the "Annotation Style" tab'
self.meritUglyEntry = Entry(frame3, text=analysisProject.meritAnnotationMediocre,
width=8, grid=(1,1), sticky='ew', tipText=tipText,
returnCallback=self.setMeritAnnotation)
label = Label(frame3, text='Poor merit (<0.34)', grid=(2,0))
tipText = 'Sets a symbol to display for poor quality peaks (merit value < 0.34), if the relevant option is selected in the "Annotation Style" tab'
self.meritBadEntry = Entry(frame3, text=analysisProject.meritAnnotationBad,
width=8, grid=(2,1), sticky='ew', tipText=tipText,
returnCallback=self.setMeritAnnotation)
tipText = 'Commit the changes to the merit symbols; this will not automatically update the display - see the "Annotation Style" tab'
setButton = Button(frame3, text='Set symbols', command=self.setMeritAnnotation,
grid=(3,0), gridSpan=(1,2), tipText=tipText, sticky='nsew')
buttons = UtilityButtonList(tabbedFrame.sideFrame, grid=(0,0),
helpUrl=self.help_url, sticky='e')
self.updatePeakSizeTable()
self.updateMethod()
for func in ('__init__', 'delete', ''):
self.registerNotify(self.updatePeakSizeTable, 'ccpnmr.Analysis.AxisType', func)
self.registerNotify(self.changedDoSpinSystemAnnotations, 'ccpnmr.Analysis.AnalysisProject', 'setDoSpinSystemAnnotations')
self.registerNotify(self.changedDoAssignmentAnnotations, 'ccpnmr.Analysis.AnalysisProject', 'setDoAssignmentAnnotations')
self.registerNotify(self.changedDoChainAnnotations, 'ccpnmr.Analysis.AnalysisProject', 'setDoChainAnnotations')
self.registerNotify(self.changedPeakDrawMethod, 'ccpnmr.Analysis.AnalysisProject', 'setPeakDrawMethod')
self.registerNotify(self.changedPeakPixelSize, 'ccpnmr.Analysis.AnalysisProject', 'setPeakPixelSize')
def open(self):
self.updatePeakSizeTable()
self.updateMethod()
BasePopup.open(self)
def close(self):
self.setMeritAnnotation()
BasePopup.close(self)
def destroy(self):
for func in ('__init__', 'delete', ''):
self.unregisterNotify(self.updatePeakSizeTable, 'ccpnmr.Analysis.AxisType', func)
self.unregisterNotify(self.changedDoSpinSystemAnnotations, 'ccpnmr.Analysis.AnalysisProject', 'setDoSpinSystemAnnotations')
self.unregisterNotify(self.changedDoAssignmentAnnotations, 'ccpnmr.Analysis.AnalysisProject', 'setDoAssignmentAnnotations')
self.unregisterNotify(self.changedDoChainAnnotations, 'ccpnmr.Analysis.AnalysisProject', 'setDoChainAnnotations')
self.unregisterNotify(self.changedPeakDrawMethod, 'ccpnmr.Analysis.AnalysisProject', 'setPeakDrawMethod')
self.unregisterNotify(self.changedPeakPixelSize, 'ccpnmr.Analysis.AnalysisProject', 'setPeakPixelSize')
BasePopup.destroy(self)
def setMeritAnnotation(self, *opt):
analysisProject = self.analysisProject
analysisProject.meritAnnotationGood = self.meritGoodEntry.get() or None
analysisProject.meritAnnotationMediocre = self.meritUglyEntry.get() or None
analysisProject.meritAnnotationBad = self.meritBadEntry.get() or None
def updateAnnotations(self):
self.setMeritAnnotation()
refreshPeakAnnotations(self.project)
def setSimpleAnnotations(self, trueOrFalse):
self.analysisProject.doMinimalAnnotations = trueOrFalse
def setSpinSystAnno(self, trueOrFalse):
self.analysisProject.doSpinSystemAnnotations = trueOrFalse
def setResonanceAnno(self, trueOrFalse):
self.analysisProject.doAssignmentAnnotations = trueOrFalse
def setMolSysAnno(self, trueOrFalse):
self.analysisProject.doMolSysAnnotations = trueOrFalse
def setChainAnno(self, trueOrFalse):
self.analysisProject.doChainAnnotations = trueOrFalse
def setMeritAnno(self, trueOrFalse):
self.analysisProject.doMeritAnnotations = trueOrFalse
def setDetailAnno(self, trueOrFalse):
self.analysisProject.doDetailAnnotations = trueOrFalse
def changedDoSpinSystemAnnotations(self, analysisProject):
self.spinSystAnnoSelect.set(analysisProject.doSpinSystemAnnotations)
def changedDoAssignmentAnnotations(self, analysisProject):
self.resonanceAnnoSelect.set(analysisProject.doAssignmentAnnotations)
def changedDoChainAnnotations(self, analysisProject):
self.chainAnnoSelect.set(analysisProject.doChainAnnotations)
def changedPeakDrawMethod(self, analysisProject):
self.updateMethod()
def changedPeakPixelSize(self, analysisProject):
self.pixel_entry.setEntry(analysisProject.peakPixelSize)
def setMethod(self, text):
self.analysisProject.peakDrawMethod = text
def updateMethod(self):
selected = self.analysisProject.peakDrawMethod
if selected == self.selected_method:
return
self.unsetMethod()
widgets = self.method_widgets[selected]
row = 1
for widget in widgets:
if isinstance(widget, ScrolledMatrix):
widget.grid(row=row, column=0, sticky='nsew')
self.drawFrame.grid_rowconfigure(row, weight=1)
else:
widget.grid(row=row, column=0, sticky='new')
self.drawFrame.grid_rowconfigure(row, weight=0)
row += 1
self.selected_method = selected
def unsetMethod(self):
selected = self.selected_method
if selected is None:
return
widgets = self.method_widgets[selected]
for widget in widgets:
widget.grid_forget()
self.selected_method = None
def updatePeakSizeTable(self, *extra):
axisTypes = self.parent.getAxisTypes()
textMatrix = []
n = 0
for axisType in axisTypes:
if (len(axisType.isotopeCodes) == 1):
n = n + 1
text = []
text.append(', '.join(axisType.isotopeCodes))
text.append(axisType.peakSize)
textMatrix.append(text)
self.peak_size_table.update(objectList=axisTypes, textMatrix=textMatrix)
def getPeakSize(self, axisType):
self.peakSizeEntry.set(axisType.peakSize)
def setPeakSize(self, *extra):
axisType = self.getAxisType()
try:
axisType.peakSize = self.peakSizeEntry.get()
except Implementation.ApiError, e:
showError('Setting peak size', e.error_msg, parent=self)
def body(self, guiParent):
self.geometry('380x250')
analysisProject = self.analysisProject
self.smallFont = '-schumacher-clean-medium-r-normal--14-140-75-75-c-70-iso646.1991-irv'
guiParent.grid_columnconfigure(0, weight=1)
guiParent.grid_rowconfigure(0, weight=1)
row = 0
tipTexts = ['Options specifying how peak annotations are drawn in spectrum windows and in tables etc.',
'Options to specify how large the peak crosses/symbols are drawn in spectrum windows',
'Enables the user to specify special symbols to annotate peaks according to quality']
options=['Annotation Style','Draw Size','Merit Symbols']
tabbedFrame = TabbedFrame(guiParent, options=options,
grid=(row,0), tipTexts=tipTexts)
frame1, frame2, frame3 = tabbedFrame.frames
frame1.expandGrid(7,1)
frame2.expandGrid(2,0)
frame3.expandGrid(3,1)
self.drawFrame = frame2
# Annotations
tipText = 'Whether to show unassigned spin system numbers like "{123}" in peak annotations; does not affect the display of full residue assignments'
self.spinSystAnnoSelect = CheckButton(frame1, callback=self.setSpinSystAnno, grid=(0,0),
selected=analysisProject.doSpinSystemAnnotations,
tipText=tipText)
spinSystAnnoLabel = Label(frame1, text='Spin System Info', grid=(0,1))
tipText = 'Whether to show assigned atom names in peak annotations rather than resonance numbers, e.g. "21LeuH,N" or "21Leu[55],[56]"'
self.resonanceAnnoSelect = CheckButton(frame1, callback=self.setResonanceAnno, grid=(1,0),
selected=analysisProject.doAssignmentAnnotations,
tipText=tipText)
resonanceAnnoLabel = Label(frame1, text='Atom Assignment', grid=(1,1))
tipText = 'Whether to show the molecular chain code letter in peak annotations, e.g. "21LeuH,N" or "A21LeuH,N"'
self.chainAnnoSelect = CheckButton(frame1, callback=self.setChainAnno, grid=(2,0),
selected=analysisProject.doChainAnnotations,
tipText=tipText)
chainAnnoLabel = Label(frame1, text='Chain Assignment', grid=(2,1))
tipText = 'Whether to show the molecular system code name in peak annotations, e.g. "MS1:21LeuH,N" or "21LeuH,N"'
self.molSysAnnoSelect = CheckButton(frame1, callback=self.setMolSysAnno, grid=(3,0),
selected=analysisProject.doMolSysAnnotations,
tipText=tipText)
molSysAnnoLabel = Label(frame1, text='Molecular System', grid=(3,1))
tipText = 'Whether to show a symbol indicating the quality of a peak; these symbols must be set in the "Merit Symbols" tab'
self.meritAnnoSelect = CheckButton(frame1, callback=self.setMeritAnno, grid=(4,0),
selected=analysisProject.doMeritAnnotations,
tipText=tipText)
meritAnnoLabel = Label(frame1, text='Merit Symbol', grid=(4,1))
tipText = 'Whether to show the details text for a peak in spectrum windows (set in the peak tables)'
self.detailAnnoSelect = CheckButton(frame1, callback=self.setDetailAnno, grid=(5,0),
selected=analysisProject.doDetailAnnotations,
tipText=tipText)
detailAnnoLabel = Label(frame1, text='Details', grid=(5,1))
tipText = 'Whether to ignore above settings, and use a short peak annotation using only residue numbers and one-letter codes, e.g. "21L"'
self.simpleAnnoSelect = CheckButton(frame1, callback=self.setSimpleAnnotations,
grid=(6,0), tipText=tipText,
selected=analysisProject.doMinimalAnnotations)
simpleAnnoLabel = Label(frame1, text='Minimal Annotations (overriding option)', grid=(6,1))
tipText = 'Manually cause an update of all peak annotations; may take some time but recommended to see the immediate effect of changes'
self.updateFullAnnoButton = Button(frame1, text='Update Full Annotations',
command=self.updateAnnotations, grid=(7,0),
gridSpan=(1,2), sticky='nsew', tipText=tipText)
# Size
tipText = 'The width of the displayed peak cross/symbol in screen pixels; the number of pixels from the centre point'
self.pixel_entry = LabeledEntry(frame2, label='Number of pixels',
entry=analysisProject.peakPixelSize,
returnCallback=self.updatePixelSize,
entry_width=8, tipText=tipText)
tipText = 'Specifies which peak height corresponds to the specific per-isotope ppm size; actual peak symbol sizes are scaled, according to relative height (and volume)'
self.intensity_entry = LabeledEntry(frame2, label='Height scale',
entry=analysisProject.peakIntensityScale,
returnCallback=self.updateIntensityScale,
entry_width=8, tipText=tipText)
tipText = 'Specifies which peak volume corresponds to the specific per-isotope ppm size; actual peak symbol sizes are scaled, according to relative volume (and height)'
self.volume_entry = LabeledEntry(frame2, label='Volume scale',
entry=analysisProject.peakVolumeScale,
returnCallback=self.updateVolumeScale,
entry_width=8, tipText=tipText)
tipTexts = ['The kind of nuclear isotope, as found on the axis if a spectrum window',
'The ppm width of the peak cross/symbol along the specific kind of isotope axis']
headings = ['Isotope', 'Peak Size (ppm)']
self.peakSizeEntry = FloatEntry(self, returnCallback=self.setPeakSize, width=10)
editWidgets = [None, self.peakSizeEntry]
editGetCallbacks = [None, self.getPeakSize]
editSetCallbacks = [None, self.setPeakSize]
self.peak_size_table = ScrolledMatrix(frame2, headingList=headings,
initialRows=5, editWidgets=editWidgets,
editGetCallbacks=editGetCallbacks,
editSetCallbacks=editSetCallbacks,
tipTexts=tipTexts)
self.selected_method = None
self.method_widgets = {}
self.method_widgets[peak_draw_methods[0]] = [self.pixel_entry]
self.method_widgets[peak_draw_methods[1]] = [self.peak_size_table]
self.method_widgets[peak_draw_methods[2]] = [self.intensity_entry, self.volume_entry, self.peak_size_table]
self.method_widgets[peak_draw_methods[3]] = [self.peak_size_table]
self.method_widgets[peak_draw_methods[4]] = []
self.method_widgets[peak_draw_methods[5]] = []
selected_index = peak_draw_methods.index(analysisProject.peakDrawMethod)
tipText = 'Selects which mode to use for determining peak cross/symbol sizes; a fixed pixel/ppm value or scaled by intensity for all peaks or just one peak list'
self.method_menu = PulldownList(frame2, texts=peak_draw_methods, gridSpan=(1,2),
grid=(0,0), tipText=tipText,
callback=self.setMethod, index=selected_index)
# Merit symbol
label = Label(frame3, text='Good merit (>0.66)', grid=(0,0))
tipText = 'Although typically blank, sets a symbol to display for good quality peaks (merit value > 0.66), if the relevant option is selected in the "Annotation Style" tab'
self.meritGoodEntry = Entry(frame3, text=analysisProject.meritAnnotationGood,
width=8, grid=(0,1), sticky='ew', tipText=tipText,
returnCallback=self.setMeritAnnotation)
label = Label(frame3, text='Medium merit', grid=(1,0))
tipText = 'Sets a symbol to display for mediocre quality peaks (merit value between 0.34 & 0.66), if the relevant option is selected in the "Annotation Style" tab'
self.meritUglyEntry = Entry(frame3, text=analysisProject.meritAnnotationMediocre,
width=8, grid=(1,1), sticky='ew', tipText=tipText,
returnCallback=self.setMeritAnnotation)
label = Label(frame3, text='Poor merit (<0.34)', grid=(2,0))
tipText = 'Sets a symbol to display for poor quality peaks (merit value < 0.34), if the relevant option is selected in the "Annotation Style" tab'
self.meritBadEntry = Entry(frame3, text=analysisProject.meritAnnotationBad,
width=8, grid=(2,1), sticky='ew', tipText=tipText,
returnCallback=self.setMeritAnnotation)
tipText = 'Commit the changes to the merit symbols; this will not automatically update the display - see the "Annotation Style" tab'
setButton = Button(frame3, text='Set symbols', command=self.setMeritAnnotation,
grid=(3,0), gridSpan=(1,2), tipText=tipText, sticky='nsew')
buttons = UtilityButtonList(tabbedFrame.sideFrame, grid=(0,0),
helpUrl=self.help_url, sticky='e')
self.updatePeakSizeTable()
self.updateMethod()
for func in ('__init__', 'delete', ''):
self.registerNotify(self.updatePeakSizeTable, 'ccpnmr.Analysis.AxisType', func)
self.registerNotify(self.changedDoSpinSystemAnnotations, 'ccpnmr.Analysis.AnalysisProject', 'setDoSpinSystemAnnotations')
self.registerNotify(self.changedDoAssignmentAnnotations, 'ccpnmr.Analysis.AnalysisProject', 'setDoAssignmentAnnotations')
self.registerNotify(self.changedDoChainAnnotations, 'ccpnmr.Analysis.AnalysisProject', 'setDoChainAnnotations')
self.registerNotify(self.changedPeakDrawMethod, 'ccpnmr.Analysis.AnalysisProject', 'setPeakDrawMethod')
self.registerNotify(self.changedPeakPixelSize, 'ccpnmr.Analysis.AnalysisProject', 'setPeakPixelSize')
class HaddockServerUpload(BasePopup):
def __init__(self,parent,hProject=None,latestRun=None,ccpnProject=None):
self.parent = parent #GUI parent
self.hProject = hProject
self.latestRun = latestRun
self.ccpnProject = ccpnProject
self.username = None
self.password = None
BasePopup.__init__(self, parent=parent, title='HADDOCK server upload')
def body(self, guiFrame):
guiFrame.grid_columnconfigure(1, weight=1)
guiFrame.grid_rowconfigure(1, weight=1)
self.usernameEntry = LabeledEntry(guiFrame, 'username')
self.usernameEntry.grid(row=0)
self.passwordEntry = LabeledEntry(guiFrame, 'password', show="*")
self.passwordEntry.grid(row=1)
texts = ['Upload']
commands = [self.serverUpload]
buttonList = createDismissHelpButtonList(guiFrame, texts=texts, commands=commands, expands=True)
buttonList.grid(row=2)
def serverUpload(self):
"""Process username and password. If both valid then start uploading otherwise issue warning.
Export the project and run as a .web file to disk. Than upload this file
"""
warning = ''
if self.usernameEntry.getEntry(): self.username = self.usernameEntry.getEntry()
else: warning += ' No username defined '
if self.passwordEntry.getEntry(): self.password = self.passwordEntry.getEntry()
else: warning += ' No password defined '
if len(warning): showWarning('Warning', warning, parent=self)
else:
exportParams = exportParam(hProject=self.hProject,
latestRun=self.latestRun,
ccpnProject=self.ccpnProject)
if len(exportParams.filestring): upload = ServerUpload(exportParams.filestring,
self.hProject.name,
str(self.latestRun.serial),
self.username,
self.password)
else: print("ERROR: Export project as parameter file failed")
def open(self):
BasePopup.open(self)
def destroy(self):
BasePopup.destroy(self)