# This is the answer to a question asked on stackoverflow: # https://stackoverflow.com/questions/35745541/how-to-get-printed-output-from-ctypes-c-functions-into-jupyter-ipython-notebook # # This is the code by Denilson Sá Maia import io import os import sys import tempfile from contextlib import contextmanager from pyMoleCuilder_capture import fflush_stderr, fflush_stdout, \ disable_stderr_buffering, disable_stdout_buffering @contextmanager def capture_std_out_err(encoding='utf8'): # Flushing, it's a good practice. sys.stdout.flush() sys.stderr.flush() fflush_stdout() fflush_stderr() # We need to use a actual file because we need the file descriptor number. with tempfile.TemporaryFile(buffering=0) as temp: # Saving a copy of the original stdout. prev_sys_stdout = sys.stdout prev_stdout_fd = os.dup(1) os.close(1) prev_sys_stderr = sys.stderr prev_stderr_fd = os.dup(2) os.close(2) # Duplicating the temporary file fd into the stdout fd. # In other words, replacing the stdout. os.dup2(temp.fileno(), 1) os.dup2(temp.fileno(), 2) log_to_fileno(temp.fileno()) # Replacing sys.stdout for Python code. # # IPython Notebook version of sys.stdout is actually an # in-memory OutStream, so it does not have a file descriptor. # We need to replace sys.stdout so that interleaved Python # and C output gets captured in the correct order. # # We enable line_buffering to force a flush after each line. # And write_through to force all data to be passed through the # wrapper directly into the binary temporary file. temp_wrapper = io.TextIOWrapper( temp, encoding=encoding, line_buffering=True, write_through=True) sys.stdout = temp_wrapper sys.stderr = temp_wrapper # Disabling buffering of C stdout. disable_stdout_buffering() disable_stderr_buffering() yield # Must flush to clear the C library buffer. fflush_stdout() fflush_stderr() # Restoring stdout. os.dup2(prev_stdout_fd, 1) os.close(prev_stdout_fd) sys.stdout = prev_sys_stdout os.dup2(prev_stderr_fd, 2) os.close(prev_stderr_fd) sys.stderr = prev_sys_stderr temp.fileno(1) # Printing the captured output. temp_wrapper.seek(0) print(temp_wrapper.read(), end='')