def importer(root,pathClearMap,runButtonMain,textVar):
"""
The importer function copies the parameter, process and settings files to the work_dir directory.
It starts looking in the exports folder but if any files were copied it is also possible to point it to another
directory
:return: If a file is part of a tif stack where the sequence is labeled by a Z followed by a 4 digit number this is
found using regex and the code is adjusted to fit these images.
"""
try:
scriptsFolder = askopendirname(parent=root, title="Select scripts",
initialdir=pathClearMap + "ClearMap/Scripts/exports/")
nameFolder = scriptsFolder.replace(pathClearMap + "ClearMap/Scripts/exports/", "")
shutil.copy(scriptsFolder + "/parameter_file.py", pathClearMap + "ClearMap/Scripts/work_dir/")
shutil.copy(scriptsFolder + "/process_template.py", pathClearMap + "ClearMap/Scripts/work_dir/")
shutil.copy(scriptsFolder + "/savedSettings.txt", pathClearMap + "ClearMap/Scripts/work_dir/")
runButtonMain['state'] = 'normal'
textVar.set("Imported folder " + nameFolder)
with open(pathClearMap + "ClearMap/Scripts/work_dir/savedSettings.txt", "r") as outputFile:
data = json.load(outputFile)
data['fromImport'] = True
with open(pathClearMap + "ClearMap/Scripts/work_dir/savedSettings.txt", "w+") as outputFile:
json.dump(data, outputFile)
except FileNotFoundError:
pass
def cb_open_dir():
ret=askopendirname(parent=root,initialdir=Config["path"]+"/recipe.d",initialfile="")
dir=re.sub(r".*/recipe.d","",ret)
if dir != "":
msg=String()
msg.data=dir.replace("/","")
cb_load(msg)
def save_location():
path = tkfilebrowser.askopendirname(title='Select the file',
filetypes=[('*', '*'),
('PNG', '*.png'),
('JPG', '*.jpg')])
print(f"Path is {path}")
return path
def askdirectory(initialdir, title="Ouvrir", **options):
""" folder browser:
initialdir: directory where the filebrowser is opened
"""
if tkfb:
return tkfb.askopendirname(title=title,
initialdir=initialdir,
**options)
elif ZENITY:
try:
args = [
"zenity", "--file-selection", "--filename", initialdir,
"--directory", "--title", title
]
folder = check_output(args).decode("utf-8").strip()
return folder
except CalledProcessError:
return ""
except Exception:
return filedialog.askdirectory(title=title,
initialdir=initialdir,
**options)
else:
return filedialog.askdirectory(title=title,
initialdir=initialdir,
**options)
def opendir():
global dir_path
dir_path = askopendirname(title="Select path", initialdir="C:/")
print(dir_path)
if len(dir_path) > 0:
dir_path = str(dir_path + '\\')
path.insert(0, str(dir_path))
def askDir(title):
root = tkinter.Tk()
root.withdraw()
directory = tkfilebrowser.askopendirname(title=title, foldercreation=True)
if(directory == ""):
tkinter.messagebox.showerror("Error", "No directory selected for saving data. Exiting program.")
sys.exit(1)
return(directory)
def call_file(root, pathClearMap):
"""
This is the last function that is called, it runs the process_template file which starts clearmap.
It also checks if it should kill the program before it begins by looking at the kill parameter in the
saved settings file.
:return:
"""
with open(pathClearMap +
"ClearMap/Scripts/work_dir/savedSettings.txt") as json_file:
dataLoaded = json.load(json_file)
if not dataLoaded['kill']:
if dataLoaded['cellDetectionBox']:
if "Import" in dataLoaded['cellDetection']:
import_cell(root, pathClearMap)
if dataLoaded['alignmentBox']:
if "Manual" in dataLoaded['alignmentOperation']:
manual(root, pathClearMap)
with open(pathClearMap +
"ClearMap/Scripts/work_dir/savedSettings.txt") as json_file:
dataLoaded = json.load(json_file)
if not dataLoaded['kill']:
exec(
open(pathClearMap +
"ClearMap/Scripts/work_dir/process_template.py").read())
if dataLoaded[
'baseDir'] == pathClearMap + "ClearMap/clearmap_preset_folder/output":
try:
if messagebox.askyesno(
"Finished",
"Succesfully ran clearmap with the selected settings,"
"would you like to save the output?"):
saveLocation = askopendirname(
parent=root,
title="Select a folder to save the output")
if saveLocation == "":
raise FileNotFoundError
else:
saveLocation = str(saveLocation) + "/results"
print(saveLocation)
copy_tree(
pathClearMap +
"ClearMap/clearmap_preset_folder/output",
saveLocation)
messagebox.showinfo(
"Finished",
"Everything has been saved succesfully")
except FileNotFoundError:
pass
else:
messagebox.askyesno(
"Finished",
"Succesfully ran clearmap with the selected settings")
def select_dir(self, entry):
initialdir, initialfile = os.path.split(entry.get())
file = askopendirname(self,
'Select directory',
initialdir=initialdir,
initialfile=initialfile)
if file:
entry.delete(0, 'end')
entry.insert(0, file)
def searchIlastik():
"""
This function opens a dir chooser which asks the user to select the folder where Ilastik is installed
:return:
"""
ilastikPath = askopendirname(parent=rootFirstSetup,
title="Select the ilastik folder")
settingsFileRead = open(maindir + "ClearMap/Settings.py").read()
settingsFileRead = re.sub('("mark")\nIlastik.*',
'"mark"\nIlastikPath = "' + ilastikPath + '";',
settingsFileRead)
settingsFileWrite = open(maindir + "ClearMap/Settings.py", "w")
settingsFileWrite.write(settingsFileRead)
def cb_open_dir():
global msgBox, msgBoxWait
if msgBoxWait is not None: return
msgBox = tk.Tk()
msgBox.title("Load Recipe")
msgBoxWait = msgBox.after(Config["autoclose"] * 1000, cb_autoclose)
ret = askopendirname(parent=msgBox, initialdir=dirpath, initialfile="")
if msgBoxWait is None: return #returned by autoclose
msgBox.after_cancel(msgBoxWait)
msgBoxWait = None
msgBox.destroy()
dir = re.sub(r".*" + Config["recipe"]["dir"], "", ret)
if dir != "":
msg = String()
msg.data = dir.replace("/", "")
cb_load(msg)
def searchElastix():
"""
This function opens a dir chooser which asks the user to select the folder where elastix is installed
:return:
"""
elastixPath = askopendirname(parent=rootFirstSetup,
title="Select the elastix folder")
settingsFileRead = open(maindir + "ClearMap/Settings.py").read()
if os.path.isdir(
re.search(r'(?<=saveSettings = ")([^"]+)',
settingsFileRead).group(0)) and elastixPath != "":
quitButton['state'] = 'normal'
settingsFileRead = re.sub('("mark")\nElastix.*',
'"mark"\nElastixPath = "' + elastixPath + '";',
settingsFileRead)
settingsFileWrite = open(maindir + "ClearMap/Settings.py", "w")
settingsFileWrite.write(settingsFileRead)
def cb_open_dir():
global msgBox, msgBoxWait
if wRecipe is None: return
if msgBoxWait is not None: return
msgBox = tk.Toplevel()
msgBox.title("Load Recipe")
msgBox.withdraw()
msgBoxWait = msgBox.after(1000, cb_wait_nop)
ret = askopendirname(parent=root, initialdir=dirpath, initialfile="")
msgBox.after_cancel(msgBoxWait)
msgBoxWait = None
msgBox.destroy()
dir = re.sub(r".*" + Config["recipe"]["dir"], "", ret)
if dir != "":
msg = String()
msg.data = dir.replace("/", "")
cb_load(msg)
def saveLocation():
"""
This function asks for a location where all the local files will be saved.
:return:
"""
savePath = askopendirname(parent=rootFirstSetup,
title="Select the save location folder")
settingsFileRead = open(maindir + "ClearMap/Settings.py").read()
if os.path.isdir(
re.search(r'(?<=ElastixPath = ")([^"]+)',
settingsFileRead).group(0)) and savePath != "":
quitButton['state'] = 'normal'
settingsFileRead = re.sub('saveSettings.*',
'saveSettings = "' + savePath + '";',
settingsFileRead)
settingsFileWrite = open(maindir + "ClearMap/Settings.py", "w")
settingsFileWrite.write(settingsFileRead)
def text_swipe():
directory = askopendirname(title='Choose a directory')
for text_par in document.paragraphs:
text_par.text = text_par.text.replace("NUMB", numb.get())
text_par.text = text_par.text.replace("day", day.get())
text_par.text = text_par.text.replace("month", month.get())
text_par.text = text_par.text.replace("year", year.get())
text_par.text = text_par.text.replace("Prods", prods.get())
text_par.text = text_par.text.replace("DIR", direct.get())
text_par.text = text_par.text.replace("FIOF", fio_f.get())
text_par.text = text_par.text.replace("default", default.get())
for table in document.tables:
for row in table.rows:
for cell in row.cells:
for table_par in cell.paragraphs:
table_par.text = table_par.text.replace(
"DIR", direct.get())
table_par.text = table_par.text.replace(
"Prods", prods.get())
table_par.text = table_par.text.replace(
"citycomp", city_comp.get())
table_par.text = table_par.text.replace(
"UNP", UNP.get())
table_par.text = table_par.text.replace(
"unn", n_unp.get())
table_par.text = table_par.text.replace("RS", rs.get())
table_par.text = table_par.text.replace(
"bankname", bank_name.get())
table_par.text = table_par.text.replace(
"citybank", city_bank.get())
table_par.text = table_par.text.replace(
"BIC", BIC.get())
table_par.text = table_par.text.replace(
"tel", tel.get())
table_par.text = table_par.text.replace(
"email", email.get())
table_par.text = table_par.text.replace(
"IOF", iof.get())
document.save(directory + "\\" + str(file_name.get()) + ".docx")
os.startfile(directory + "\\" + str(file_name.get()) + ".docx")
window.event_add(exit())
def cb_open_dir(n):
global massage
func_ret = False
name = buttons[n]["name"]
ret = askopendirname(parent=root,
title=name,
initialdir=dirpath,
initialfile='',
okbuttontext=name)
if ret:
abs_path = os.path.abspath(Config["dump_prefix"])
if ret.startswith(abs_path):
dir = re.sub(r'.*' + Config["dump_prefix"], '', ret)
recipe = dir.split('/')
if (len(recipe) == 2) and (not recipe[0]):
func_ret = set_recipe(recipe[1], n)
if name == 'CopySelect':
cb_copy_from()
else:
massage = name + ' Wrong selection folder'
else:
massage = name + ' Wrong selection folder'
return func_ret
def browse_folder_output(self):
if found_tkinter:
tk.Tk().withdraw()
self.output_directory = tkfilebrowser.askopendirname(title="Select output folder")
def fgetDir(self):
dirname = askopendirname(parent=self.master,
initialdir='/',
initialfile='tmp',
font_size=font_size)
self.dir_ent_var.set(dirname)
def c_open_dir():
rep = askopendirname(parent=root, initialdir='/', initialfile='tmp')
print(rep)
def selectOutputDirectory(self, event=None):
"""Select output directory"""
dirInit = self.tape.dirOut
self.tape.dirOut = askopendirname(initialdir=dirInit)
if self.tape.dirOut != '':
self.outDirLabel['text'] = self.tape.dirOut
def text_swipe_spec():
directory = askopendirname(title='Choose a directory')
for text_par_spec in document.paragraphs:
text_par_spec.text = text_par_spec.text.replace(
'num', num_spec_ent.get())
text_par_spec.text = text_par_spec.text.replace(
'days', days_spec_ent.get())
text_par_spec.text = text_par_spec.text.replace(
'months', months_spec_ent.get())
text_par_spec.text = text_par_spec.text.replace(
'years', years_spec_ent.get())
text_par_spec.text = text_par_spec.text.replace(
'dogn', dognum_spec_ent.get())
text_par_spec.text = text_par_spec.text.replace(
'dd', dd_spec_ent.get())
text_par_spec.text = text_par_spec.text.replace(
'dm', dm_spec_ent.get())
text_par_spec.text = text_par_spec.text.replace(
'dy', dy_spec_ent.get())
text_par_spec.text = text_par_spec.text.replace(
'gost', gost_spec_ent.get())
text_par_spec.text = text_par_spec.text.replace(
'dost', dost_spec_ent.get())
text_par_spec.text = text_par_spec.text.replace(
'posts', posts_spec_ent.get())
# text_par_spec.text = text_par_spec.text.replace('propissummnds', propissummnds.get())
# text_par_spec.text = text_par_spec.text.replace('cop', cop.get())
# text_par_spec.text = text_par_spec.text.replace('porpissnds', propisnds.get())
# text_par_spec.text = text_par_spec.text.replace('copnds', copnds.get())
for tables in document.tables:
for rows in tables.rows:
for cells in rows.cells:
for table_par_spec in cells.paragraphs:
price = float(price_spec_ent.get())
pcs = float(pcs_spec_ent.get())
summ = price * pcs
sunds = summ * ((float(pnds_spec_ent.get()) / 100) + 1)
snds = sunds - summ
table_par_spec.text = table_par_spec.text.replace(
'Cult', cult_spec_ent.get())
table_par_spec.text = table_par_spec.text.replace(
'Pcs', pcs_spec_ent.get())
table_par_spec.text = table_par_spec.text.replace(
'price', price_spec_ent.get())
table_par_spec.text = table_par_spec.text.replace(
'summ', str(truncate(summ, 2)))
table_par_spec.text = table_par_spec.text.replace(
'pnds', pnds_spec_ent.get())
table_par_spec.text = table_par_spec.text.replace(
'sunds', str(truncate(sunds, 2)))
table_par_spec.text = table_par_spec.text.replace(
'snds', str(truncate(snds, 2)))
table_par_spec.text = table_par_spec.text.replace(
'scomp', prods.get())
table_par_spec.text = table_par_spec.text.replace(
'sadres', city_comp.get())
table_par_spec.text = table_par_spec.text.replace(
'sunp', UNP.get())
table_par_spec.text = table_par_spec.text.replace(
'sn_unp', n_unp.get())
table_par_spec.text = table_par_spec.text.replace(
'srs', rs.get())
table_par_spec.text = table_par_spec.text.replace(
'sbankname', bank_name.get())
table_par_spec.text = table_par_spec.text.replace(
'sbic', BIC.get())
table_par_spec.text = table_par_spec.text.replace(
'stel', tel.get())
table_par_spec.text = table_par_spec.text.replace(
'se-mail', email.get())
table_par_spec.text = table_par_spec.text.replace(
'sDir', direct.get())
table_par_spec.text = table_par_spec.text.replace(
'sIOF', iof.get())
document.save(directory + "\\" + str(file_name_spec.get()) + ".docx")
os.startfile(directory + "\\" + str(file_name_spec.get()) + ".docx")
window_s.event_add(exit())
def askdirectory(fd=None, **argv):
if fd == None: fd = mode
if fd:
return _fd2.askopendirname(**argv)
else:
return _fd1.askdirectory(**argv)
