def _drop_target_consume_filenames(self, filenames):
# act on first file only
fname = filenames[0]
_log.debug('importing SQL from <%s>', fname)
# act on text files only
mime_type = gmMimeLib.guess_mimetype(fname)
_log.debug('mime type: %s', mime_type)
if not mime_type.startswith('text/'):
_log.debug('not a text file')
gmDispatcher.send(signal='statustext', msg = _('Cannot read SQL from [%s]. Not a text file.') % fname, beep = True)
return False
# # act on "small" files only
# stat_val = os.stat(fname)
# if stat_val.st_size > 5000:
# gmDispatcher.send(signal='statustext', msg = _('Cannot read SQL from [%s]. File too big (> 2000 bytes).') % fname, beep = True)
# return False
# all checks passed
for line in fileinput.input(fname):
self._TCTRL_query.AppendText(line)
def add_filenames(self, filenames):
# act on first file only
fname = filenames[0]
_log.debug('importing SQL from <%s>', fname)
# act on text files only
mime_type = gmMimeLib.guess_mimetype(fname)
_log.debug('mime type: %s', mime_type)
if not mime_type.startswith('text/'):
_log.debug('not a text file')
gmDispatcher.send(signal='statustext', msg = _('Cannot read SQL from [%s]. Not a text file.') % fname, beep = True)
return False
# # act on "small" files only
# stat_val = os.stat(fname)
# if stat_val.st_size > 5000:
# gmDispatcher.send(signal='statustext', msg = _('Cannot read SQL from [%s]. File too big (> 2000 bytes).') % fname, beep = True)
# return False
# all checks passed
for line in fileinput.input(fname):
self._TCTRL_query.AppendText(line)
def is_encrypted_pdf(filename: str = None, verbose: bool = False) -> bool:
"""Check encryption status of PDF.
Requires qpdf to be installed.
Returns:
True/False/None: None -- unknown or not PDF
"""
assert (filename is not None), '<filename> must not be None'
mimetype = gmMimeLib.guess_mimetype(filename=filename)
if mimetype != 'application/pdf':
_log.info('not a PDF')
return None
_log.debug('checking PDF encryption')
for cmd in ['qpdf', 'qpdf.exe']:
found, binary = gmShellAPI.detect_external_binary(binary=cmd)
if found:
break
if not found:
_log.warning('no qpdf binary found')
return None
args = [binary, '--verbose', '--is-encrypted', '--', filename]
success, exit_code, stdout = gmShellAPI.run_process(
cmd_line=args,
encoding='utf8',
verbose=verbose,
acceptable_return_codes=[0, 2])
if not success:
return None
if exit_code == 0:
return True
if exit_code == 2:
return False
return None
def check_mimetypes_in_archive():
mimetypes = {}
cmd = 'SELECT pk FROM blobs.doc_med'
doc_pks, idx = gmPG2.run_ro_queries(queries = [{'cmd': cmd}])
print('Detecting mimetypes in document archive ...')
doc_idx = 0
part_count = 0
for pk_row in doc_pks:
doc_idx += 1
print('\n#%s - document %s of %s: ' % (pk_row['pk'], doc_idx, len(doc_pks)), end = '')
doc = cDocument(aPK_obj = pk_row['pk'])
for part in doc.parts:
part_count += 1
print('#%s:%s bytes, ' % (part['pk_obj'], part['size']), end = '')
part_fname = part.save_to_file()
mimetype = gmMimeLib.guess_mimetype(part_fname)
try:
mimetypes[mimetype]['count'] += 1
except KeyError:
mimetypes[mimetype] = {
'count': 1,
'viewer': gmMimeLib.get_viewer_cmd(mimetype),
'editor': gmMimeLib.get_editor_cmd(mimetype),
'extension': gmMimeLib.guess_ext_by_mimetype(mimetype)
}
print('')
print('')
print('Number of documents :', len(doc_pks))
print('Number of parts :', part_count)
print('Number of mime types:', len(mimetypes))
for mimetype in mimetypes:
print('')
print('<%s>' % mimetype)
print(' Extension:', mimetypes[mimetype]['extension'])
print(' Use count:', mimetypes[mimetype]['count'])
print(' Viewer:', mimetypes[mimetype]['viewer'])
print(' Editor:', mimetypes[mimetype]['editor'])
return 0
def compose_email(sender=None,
receiver=None,
message=None,
subject=None,
files2attach=None):
# filenames unicode
# file content binary or utf8
# files2attach = [(filename, mimetype-or-None), ...]
if message is None:
raise ValueError('<message> is None, cannot compose email')
message = message.lstrip().lstrip('\r\n').lstrip()
if sender is None:
sender = default_mail_sender
if receiver is None:
receiver = [default_mail_receiver]
if subject is None:
subject = 'compose_email() test'
if files2attach is None:
email = MIMEText(message, 'plain', 'utf8')
else:
email = MIMEMultipart()
email.attach(MIMEText(message, 'plain', 'utf8'))
email['From'] = sender
email['To'] = ', '.join(receiver)
email['Subject'] = subject
if files2attach is None:
return email
for file2attach in files2attach:
filename = file2attach[0]
try:
mimetype = file2attach[1]
except IndexError:
mimetype = gmMimeLib.guess_mimetype(filename=filename)
# text/*
if mimetype.startswith('text/'):
txt = io.open(filename, mode='rt', encoding='utf8')
attachment = MIMEText(txt.read(), 'plain', 'utf8')
txt.close()
# image/*
elif mimetype.startswith('image/'):
img = io.open(filename, mode='rb')
attachment = MIMEImage(img.read())
img.close()
# audio/*
elif mimetype.startswith('audio/'):
song = io.open(filename, mode='rb')
attachment = MIMEAudio(song.read())
song.close()
# catch-all application/*
else:
_log.debug('attaching [%s] with type [%s]', filename, mimetype)
mime_subtype = mimetype.split('/', 1)[1]
data = io.open(filename, mode='rb')
attachment = MIMEApplication(data.read(), mime_subtype)
data.close()
try:
attachment.replace_header(
'Content-Disposition', 'attachment; filename="%s"' %
gmTools.fname_from_path(filename))
except KeyError:
attachment.add_header(
'Content-Disposition', 'attachment; filename="%s"' %
gmTools.fname_from_path(filename))
email.attach(attachment)
return email
def edit_visual_progress_note(filename=None,
episode=None,
discard_unmodified=False,
doc_part=None,
health_issue=None):
"""This assumes <filename> contains an image which can be handled by the configured image editor."""
if doc_part is not None:
filename = doc_part.save_to_file()
if filename is None:
gmDispatcher.send(
signal='statustext',
msg=_('Cannot export visual progress note to file.'))
return None
editor = gmCfgDB.get4user(
option='external.tools.visual_soap_editor_cmd',
workplace=gmPraxis.gmCurrentPraxisBranch().active_workplace)
if editor is None:
_log.error(
'no editor for visual progress notes configured, trying mimetype editor'
)
gmDispatcher.send(
signal='statustext',
msg=_('Editor for visual progress note not configured.'),
beep=False)
mimetype = gmMimeLib.guess_mimetype(filename=filename)
editor = gmMimeLib.get_editor_cmd(mimetype=mimetype, filename=filename)
if editor is None:
_log.error(
'no editor for mimetype <%s> configured, trying mimetype viewer',
mimetype)
success, msg = gmMimeLib.call_viewer_on_file(aFile=filename,
block=True)
if not success:
_log.debug('problem running mimetype <%s> viewer', mimetype)
gmGuiHelpers.gm_show_error(
_('There is no editor for visual progress notes defined.\n'
'Also, there is no editor command defined for the file type\n'
'\n'
' [%s].\n'
'\n'
'Therefor GNUmed attempted to at least *show* this\n'
'visual progress note. That failed as well, however:\n'
'\n'
'%s') % (mimetype, msg),
_('Editing visual progress note'))
editor = configure_visual_progress_note_editor()
if editor is None:
gmDispatcher.send(
signal='statustext',
msg=_(
'Editor for visual progress note not configured.'),
beep=True)
return None
if '%(img)s' in editor:
editor = editor % {'img': filename}
else:
editor = '%s %s' % (editor, filename)
if discard_unmodified:
original_stat = os.stat(filename)
original_md5 = gmTools.file2md5(filename)
success = gmShellAPI.run_command_in_shell(editor, blocking=True)
if not success:
success, msg = gmMimeLib.call_viewer_on_file(aFile=filename,
block=True)
if not success:
_log.debug('problem running mimetype <%s> viewer', mimetype)
gmGuiHelpers.gm_show_error(
_('There was a problem running the editor\n'
'\n'
' [%s] (%s)\n'
'\n'
'on the visual progress note.\n'
'\n'
'Therefor GNUmed attempted to at least *show* it.\n'
'That failed as well, however:\n'
'\n'
'%s') % (editor, mimetype, msg),
_('Editing visual progress note'))
editor = configure_visual_progress_note_editor()
if editor is None:
gmDispatcher.send(
signal='statustext',
msg=_('Editor for visual progress note not configured.'),
beep=True)
return None
try:
open(filename, 'r').close()
except Exception:
_log.exception('problem accessing visual progress note file [%s]',
filename)
gmGuiHelpers.gm_show_error(
_('There was a problem reading the visual\n'
'progress note from the file:\n'
'\n'
' [%s]\n'
'\n') % filename, _('Saving visual progress note'))
return None
if discard_unmodified:
modified_stat = os.stat(filename)
# same size ?
if original_stat.st_size == modified_stat.st_size:
modified_md5 = gmTools.file2md5(filename)
# same hash ?
if original_md5 == modified_md5:
_log.debug('visual progress note (template) not modified')
# ask user to decide
msg = _(
'You either created a visual progress note from a template\n'
'in the database (rather than from a file on disk) or you\n'
'edited an existing visual progress note.\n'
'\n'
'The template/original was not modified at all, however.\n'
'\n'
'Do you still want to save the unmodified image as a\n'
'visual progress note into the EMR of the patient ?\n')
save_unmodified = gmGuiHelpers.gm_show_question(
msg, _('Saving visual progress note'))
if not save_unmodified:
_log.debug('user discarded unmodified note')
return
if doc_part is not None:
_log.debug('updating visual progress note')
doc_part.update_data_from_file(fname=filename)
doc_part.set_reviewed(technically_abnormal=False,
clinically_relevant=True)
return None
if not isinstance(episode, gmEMRStructItems.cEpisode):
if episode is None:
episode = _('visual progress notes')
pat = gmPerson.gmCurrentPatient()
emr = pat.emr
episode = emr.add_episode(episode_name=episode.strip(),
pk_health_issue=health_issue,
is_open=False)
doc = gmDocumentWidgets.save_file_as_new_document(
filename=filename,
document_type=gmDocuments.DOCUMENT_TYPE_VISUAL_PROGRESS_NOTE,
episode=episode,
unlock_patient=False,
pk_org_unit=gmPraxis.gmCurrentPraxisBranch()['pk_org_unit'],
date_generated=gmDateTime.pydt_now_here())
doc.set_reviewed(technically_abnormal=False, clinically_relevant=True)
return doc
def compose_email(sender=None, receiver=None, message=None, subject=None, files2attach=None):
# filenames unicode
# file content binary or utf8
# files2attach = [(filename, mimetype-or-None), ...]
if message is None:
raise ValueError('<message> is None, cannot compose email')
message = message.lstrip().lstrip('\r\n').lstrip()
if sender is None:
sender = default_mail_sender
if receiver is None:
receiver = [default_mail_receiver]
if subject is None:
subject = 'compose_email() test'
if files2attach is None:
email = MIMEText(message, 'plain', 'utf8')
else:
email = MIMEMultipart()
email.attach(MIMEText(message, 'plain', 'utf8'))
email['From'] = sender
email['To'] = ', '.join(receiver)
email['Subject'] = subject
if files2attach is None:
return email
for file2attach in files2attach:
filename = file2attach[0]
try:
mimetype = file2attach[1]
except IndexError:
mimetype = gmMimeLib.guess_mimetype(filename = filename)
# text/*
if mimetype.startswith('text/'):
txt = io.open(filename, mode = 'rt', encoding = 'utf8')
attachment = MIMEText(txt.read(), 'plain', 'utf8')
txt.close()
# image/*
elif mimetype.startswith('image/'):
img = io.open(filename, mode = 'rb')
attachment = MIMEImage(img.read())
img.close()
# audio/*
elif mimetype.startswith('audio/'):
song = io.open(filename, mode = 'rb')
attachment = MIMEAudio(song.read())
song.close()
# catch-all application/*
else:
_log.debug('attaching [%s] with type [%s]', filename, mimetype)
mime_subtype = mimetype.split('/', 1)[1]
data = io.open(filename, mode = 'rb')
attachment = MIMEApplication(data.read(), mime_subtype)
data.close()
try:
attachment.replace_header('Content-Disposition', 'attachment; filename="%s"' % gmTools.fname_from_path(filename))
except KeyError:
attachment.add_header('Content-Disposition', 'attachment; filename="%s"' % gmTools.fname_from_path(filename))
email.attach(attachment)
return email