Source code for rpy2.rinterface_lib.callbacks

"""Callbacks available from R's C-API.

The callbacks make available in R's C-API can be specified as
Python functions, with the module providing the adapter code
that makes it possible."""

from contextlib import contextmanager
import logging
import typing
import os
from rpy2.rinterface_lib import openrlib
from rpy2.rinterface_lib import ffi_proxy
from rpy2.rinterface_lib import conversion

logger = logging.getLogger(__name__)


# TODO: rename to "replace_in_module"
def obj_in_module(module, name: str, obj: typing.Any):
    obj_orig = getattr(module, name)
    setattr(module, name, obj)
        setattr(module, name, obj_orig)

[docs] def consoleflush(): pass
_FLUSHCONSOLE_EXCEPTION_LOG = 'R[flush console]: %s' @ffi_proxy.callback(ffi_proxy._consoleflush_def, openrlib._rinterface_cffi) def _consoleflush() -> None: try: consoleflush() except Exception as e: logger.error(_FLUSHCONSOLE_EXCEPTION_LOG, str(e))
[docs] def consoleread(prompt: str) -> str: """Read input for the R console. :param prompt: The message prompted. :return: A string with the input returned by the user. """ return input(prompt)
_READCONSOLE_EXCEPTION_LOG = 'R[read into console]: %s' _READCONSOLE_INTERNAL_EXCEPTION_LOG = ('Internal rpy2 error with ' '_consoleread callback: %s') @ffi_proxy.callback(ffi_proxy._consoleread_def, openrlib._rinterface_cffi) def _consoleread(prompt, buf, n: int, addtohistory) -> int: success = None try: s = conversion._cchar_to_str(prompt, _CCHAR_ENCODING) reply = consoleread(s) except Exception as e: success = 0 logger.error(_READCONSOLE_EXCEPTION_LOG, str(e)) if success == 0: return success try: # TODO: Should the coding be dynamically extracted from # elsewhere ? reply_b = reply.encode('utf-8') reply_n = min(n, len(reply_b)) pybuf = bytearray(n) pybuf[:reply_n] = reply_b[:reply_n] pybuf[reply_n] = ord('\n') pybuf[reply_n+1] = 0 openrlib.ffi.memmove(buf, pybuf, n) if reply_n == 0: success = 0 else: success = 1 except Exception as e: success = 0 logger.error(_READCONSOLE_INTERNAL_EXCEPTION_LOG, str(e)) return success def consolereset() -> None: pass _RESETCONSOLE_EXCEPTION_LOG = 'R[reset console]: %s' @ffi_proxy.callback(ffi_proxy._consolereset_def, openrlib._rinterface_cffi) def _consolereset() -> None: try: consolereset() except Exception as e: logger.error(_RESETCONSOLE_EXCEPTION_LOG, str(e))
[docs] def consolewrite_print(s: str) -> None: """R writing to the console/terminal. :param s: the data to write to the console/terminal. """ # TODO: is the callback for flush working with Linux ? print(s, end='', flush=True)
[docs] def consolewrite_warnerror(s: str) -> None: # TODO: use an rpy2/R-specific warning instead of UserWarning. logger.warning(_WRITECONSOLE_EXCEPTION_LOG, s)
_WRITECONSOLE_EXCEPTION_LOG = 'R[write to console]: %s' @ffi_proxy.callback(ffi_proxy._consolewrite_ex_def, openrlib._rinterface_cffi) def _consolewrite_ex(buf, n: int, otype: int) -> None: s = conversion._cchar_to_str_with_maxlen(buf, n, _CCHAR_ENCODING) try: if otype == 0: consolewrite_print(s) else: consolewrite_warnerror(s) except Exception as e: logger.error(_WRITECONSOLE_EXCEPTION_LOG, str(e))
[docs] def showmessage(s: str) -> None: print('R wants to show a message') print(s)
_SHOWMESSAGE_EXCEPTION_LOG = 'R[show message]: %s' @ffi_proxy.callback(ffi_proxy._showmessage_def, openrlib._rinterface_cffi) def _showmessage(buf): s = conversion._cchar_to_str(buf, _CCHAR_ENCODING) try: showmessage(s) except Exception as e: logger.error(_SHOWMESSAGE_EXCEPTION_LOG, str(e)) def choosefile(new): return input('Enter file name:') _CHOOSEFILE_EXCEPTION_LOG = 'R[choose file]: %s' @ffi_proxy.callback(ffi_proxy._choosefile_def, openrlib._rinterface_cffi) def _choosefile(new, buf, n: int) -> int: try: res = choosefile(new) except Exception as e: logger.error(_CHOOSEFILE_EXCEPTION_LOG, str(e)) res = None if res is None: return 0 res_cdata = conversion._str_to_cchar(res) openrlib.ffi.memmove(buf, res_cdata, len(res_cdata)) return len(res_cdata)
[docs] def showfiles(filenames: typing.Tuple[str, ...], headers: typing.Tuple[str, ...], wtitle: typing.Optional[str], pager: typing.Optional[str]) -> None: """R showing files. :param filenames: A tuple of file names. :param headers: A tuple of strings (TODO: check what it is) :wtitle: Title of the "window" showing the files. :pager: Pager to use to show the list of files. """ for fn in filenames: print('File: %s' % fn) with open(fn) as fh: for row in fh: print(row) print('---')
_SHOWFILE_EXCEPTION_LOG = 'R[show file]: %s' _SHOWFILE_INTERNAL_EXCEPTION_LOG = ('Internal rpy2 error while ' 'showing files for R: %s') @ffi_proxy.callback(ffi_proxy._showfiles_def, openrlib._rinterface_cffi) def _showfiles(nfiles: int, files, headers, wtitle, delete, pager) -> int: filenames = [] headers_str = [] wtitle_str = None pager_str = None try: wtitle_str = conversion._cchar_to_str(wtitle, _CCHAR_ENCODING) pager_str = conversion._cchar_to_str(pager, _CCHAR_ENCODING) for i in range(nfiles): filenames.append( conversion._cchar_to_str(files[i], _CCHAR_ENCODING) ) headers_str.append( conversion._cchar_to_str(headers[i], _CCHAR_ENCODING) ) except Exception as e: logger.error(_SHOWFILE_INTERNAL_EXCEPTION_LOG, str(e)) if len(filenames): res = 0 else: res = 1 try: showfiles(tuple(filenames), tuple(headers_str), wtitle_str, pager_str) except Exception as e: res = 1 logger.error(_SHOWFILE_EXCEPTION_LOG, str(e)) return res def cleanup(saveact, status, runlast): pass _CLEANUP_EXCEPTION_LOG = 'R[cleanup]: %s' @ffi_proxy.callback(ffi_proxy._cleanup_def, openrlib._rinterface_cffi) def _cleanup(saveact, status, runlast): try: cleanup(saveact, status, runlast) except Exception as e: logger.error(_CLEANUP_EXCEPTION_LOG, str(e))
[docs] def processevents() -> None: """Process R events. This function can be periodically called by R to handle events such as window resizing in an interactive graphical device.""" pass
_PROCESSEVENTS_EXCEPTION_LOG = 'R[processevents]: %s' @ffi_proxy.callback(ffi_proxy._processevents_def, openrlib._rinterface_cffi) def _processevents() -> None: try: processevents() except KeyboardInterrupt: # This function is a Python callback. A keyboard interruption is # captured in Python, but R must be notified that an interruption # occured so it can handle it. rlib = openrlib.rlib if == 'nt': # On Windows, the global C-level R variable `UserBreak` is set # to one to notifying R that a `SIGBREAK` has been sent # (see the R source - `src/gnuwin32/embeddedR.c:my_onintr()`). rlib.UserBreak = 1 else: # On UNIX-like, R can be notified that a SIGINT has been sent # through the C-level R variable `R_interrupts_pending` # (see the R source - `src/main/main.c:handleInterrupt()`) rlib.R_interrupts_pending = 1 except Exception as e: logger.error(_PROCESSEVENTS_EXCEPTION_LOG, str(e))
[docs] def busy(x: int) -> None: """R is busy. :param x: TODO this is an integer but I do not know what it does. """ pass
_BUSY_EXCEPTION_LOG = 'R[busy]: %s' @ffi_proxy.callback(ffi_proxy._busy_def, openrlib._rinterface_cffi) def _busy(which: int) -> None: try: busy(which) except Exception as e: logger.error(_BUSY_EXCEPTION_LOG, str(e)) def callback() -> None: pass _CALLBACK_EXCEPTION_LOG = 'R[callback]: %s' @ffi_proxy.callback(ffi_proxy._callback_def, openrlib._rinterface_cffi) def _callback() -> None: try: callback() except Exception as e: logger.error(_CALLBACK_EXCEPTION_LOG, str(e))
[docs] def yesnocancel(question: str) -> int: """Asking a user to answer yes, no, or cancel. :param question: The question asked to the user :return: An integer with the answer. """ return int(input(question))
_YESNOCANCEL_EXCEPTION_LOG = 'R[yesnocancel]: %s' @ffi_proxy.callback(ffi_proxy._yesnocancel_def, openrlib._rinterface_cffi) def _yesnocancel(question): try: q = conversion._cchar_to_str(question, _CCHAR_ENCODING) res = yesnocancel(q) except Exception as e: logger.error(_YESNOCANCEL_EXCEPTION_LOG, str(e)) return res