import sys import time import os import subprocess import shlex from optparse import Option from queue import Queue from threading import Thread import numpy as np class bcolors: """ ASCII Colors (Blender code). https://svn.blender.org/svnroot/bf-blender/trunk/blender/build_files/scons/tools/bcolors.py http://stackoverflow.com/questions/287871/print-in-terminal-with-colors-using-python """ HEADER = '\033[95m' OKBLUE = '\033[94m' OKGREEN = '\033[92m' WARNING = '\033[93m' FAIL = '\033[91m' ENDC = '\033[0m' BOLD = '\033[1m' DIM = '\033[2m' UNDERLINE = '\033[4m' CROSSOUT = '\033[9m' def disable(self): self.HEADER = '' self.OKBLUE = '' self.OKGREEN = '' self.WARNING = '' self.FAIL = '' self.ENDC = '' self.BOLD = '' self.UNDERLINE = '' self.CROSSOUT = '' # ----------------------------- def srepr(arg,glue = '\n'): """Joins arguments as individual lines.""" if (not hasattr(arg, "strip") and (hasattr(arg, "__getitem__") or hasattr(arg, "__iter__"))): return glue.join(str(x) for x in arg) return arg if isinstance(arg,str) else repr(arg) # ----------------------------- def croak(what, newline = True): """Writes formated to stderr.""" if what is not None: sys.stderr.write(srepr(what,glue = '\n') + ('\n' if newline else '')) sys.stderr.flush() # ----------------------------- def report(who = None, what = None): """Reports script and file name.""" croak( (emph(who)+': ' if who is not None else '') + (what if what is not None else '') + '\n' ) # ----------------------------- def report_geom(info, what = ['grid','size','origin','homogenization','microstructures']): """Reports (selected) geometry information.""" output = { 'grid' : 'grid a b c: {}'.format(' x '.join(list(map(str,info['grid' ])))), 'size' : 'size x y z: {}'.format(' x '.join(list(map(str,info['size' ])))), 'origin' : 'origin x y z: {}'.format(' : '.join(list(map(str,info['origin'])))), 'homogenization' : 'homogenization: {}'.format(info['homogenization']), 'microstructures' : 'microstructures: {}'.format(info['microstructures']), } for item in what: croak(output[item.lower()]) # ----------------------------- def emph(what): """Formats string with emphasis.""" return bcolors.BOLD+srepr(what)+bcolors.ENDC # ----------------------------- def deemph(what): """Formats string with deemphasis.""" return bcolors.DIM+srepr(what)+bcolors.ENDC # ----------------------------- def delete(what): """Formats string as deleted.""" return bcolors.DIM+srepr(what)+bcolors.ENDC # ----------------------------- def strikeout(what): """Formats string as strikeout.""" return bcolors.CROSSOUT+srepr(what)+bcolors.ENDC # ----------------------------- def execute(cmd, streamIn = None, wd = './', env = None): """Executes a command in given directory and returns stdout and stderr for optional stdin.""" initialPath = os.getcwd() os.chdir(wd) myEnv = os.environ if env is None else env process = subprocess.Popen(shlex.split(cmd), stdout = subprocess.PIPE, stderr = subprocess.PIPE, stdin = subprocess.PIPE, env = myEnv) out,error = [i for i in (process.communicate() if streamIn is None else process.communicate(streamIn.read().encode('utf-8')))] out = out.decode('utf-8').replace('\x08','') error = error.decode('utf-8').replace('\x08','') os.chdir(initialPath) if process.returncode != 0: raise RuntimeError('{} failed with returncode {}'.format(cmd,process.returncode)) return out,error def coordGridAndSize(coordinates): """Determines grid count and overall physical size along each dimension of an ordered array of coordinates.""" dim = coordinates.shape[1] coords = [np.unique(coordinates[:,i]) for i in range(dim)] mincorner = np.array(list(map(min,coords))) maxcorner = np.array(list(map(max,coords))) grid = np.array(list(map(len,coords)),'i') size = grid/np.maximum(np.ones(dim,'d'), grid-1.0) * (maxcorner-mincorner) # size from edge to edge = dim * n/(n-1) size = np.where(grid > 1, size, min(size[grid > 1]/grid[grid > 1])) # spacing for grid==1 equal to smallest among other ones delta = size/grid N = grid.prod() if N != len(coordinates): raise ValueError('Data count {} does not match grid {}.'.format(len(coordinates),' x '.join(map(repr,grid)))) if np.any(np.abs(np.log10((coords[0][1:]-coords[0][:-1])/delta[0])) > 0.01) \ or np.any(np.abs(np.log10((coords[1][1:]-coords[1][:-1])/delta[1])) > 0.01): raise ValueError('regular grid spacing {} violated.'.format(' x '.join(map(repr,delta)))) if dim==3 and np.any(np.abs(np.log10((coords[2][1:]-coords[2][:-1])/delta[2])) > 0.01): raise ValueError('regular grid spacing {} violated.'.format(' x '.join(map(repr,delta)))) return grid,size # ----------------------------- class extendableOption(Option): """ Used for definition of new option parser action 'extend', which enables to take multiple option arguments. Adopted from online tutorial http://docs.python.org/library/optparse.html """ ACTIONS = Option.ACTIONS + ("extend",) STORE_ACTIONS = Option.STORE_ACTIONS + ("extend",) TYPED_ACTIONS = Option.TYPED_ACTIONS + ("extend",) ALWAYS_TYPED_ACTIONS = Option.ALWAYS_TYPED_ACTIONS + ("extend",) def take_action(self, action, dest, opt, value, values, parser): if action == "extend": lvalue = value.split(",") values.ensure_value(dest, []).extend(lvalue) else: Option.take_action(self, action, dest, opt, value, values, parser) # Print iterations progress # from https://gist.github.com/aubricus/f91fb55dc6ba5557fbab06119420dd6a def progressBar(iteration, total, prefix='', bar_length=50): """ Call in a loop to create terminal progress bar. @params: iteration - Required : current iteration (Int) total - Required : total iterations (Int) prefix - Optional : prefix string (Str) bar_length - Optional : character length of bar (Int) """ fraction = iteration / float(total) if not hasattr(progressBar, "last_fraction"): # first call to function progressBar.start_time = time.time() progressBar.last_fraction = -1.0 remaining_time = ' n/a' else: if fraction <= progressBar.last_fraction or iteration == 0: # reset: called within a new loop progressBar.start_time = time.time() progressBar.last_fraction = -1.0 remaining_time = ' n/a' else: progressBar.last_fraction = fraction remainder = (total - iteration) * (time.time()-progressBar.start_time)/iteration remaining_time = '{: 3d}:'.format(int( remainder//3600)) + \ '{:02d}:'.format(int((remainder//60)%60)) + \ '{:02d}' .format(int( remainder %60)) filled_length = int(round(bar_length * fraction)) bar = '█' * filled_length + '░' * (bar_length - filled_length) sys.stderr.write('\r{} {} {}'.format(prefix, bar, remaining_time)), if iteration == total: sys.stderr.write('\n') sys.stderr.flush() class return_message(): """Object with formatted return message.""" def __init__(self,message): """ Sets return message. Parameters ---------- message : str or list of str message for output to screen """ self.message = message def __repr__(self): """Return message suitable for interactive shells.""" return srepr(self.message) class ThreadPool: """Pool of threads consuming tasks from a queue.""" class Worker(Thread): """Thread executing tasks from a given tasks queue.""" def __init__(self, tasks): """Worker for tasks.""" Thread.__init__(self) self.tasks = tasks self.daemon = True self.start() def run(self): while True: func, args, kargs = self.tasks.get() try: func(*args, **kargs) except Exception as e: # An exception happened in this thread print(e) finally: # Mark this task as done, whether an exception happened or not self.tasks.task_done() def __init__(self, num_threads): """ Thread pool. Parameters ---------- num_threads : int number of threads """ self.tasks = Queue(num_threads) for _ in range(num_threads): self.Worker(self.tasks) def add_task(self, func, *args, **kargs): """Add a task to the queue.""" self.tasks.put((func, args, kargs)) def map(self, func, args_list): """Add a list of tasks to the queue.""" for args in args_list: self.add_task(func, args) def wait_completion(self): """Wait for completion of all the tasks in the queue.""" self.tasks.join()