diff --git a/.github/workflows/test-build.yml b/.github/workflows/test-build.yml index 5da89155c..7573ca523 100644 --- a/.github/workflows/test-build.yml +++ b/.github/workflows/test-build.yml @@ -66,7 +66,9 @@ jobs: run: poetry run flake8 . - name: Build plugins - run: poetry run python setup.py develop + run: | + python3 setup.py egg_info + poetry run pip install . - name: Run unit tests run: | diff --git a/Dockerfile b/Dockerfile index dd83b6f5c..ed90bdd05 100644 --- a/Dockerfile +++ b/Dockerfile @@ -58,7 +58,8 @@ COPY ./ /code/ ARG GIT_COMMIT= ENV GIT_COMMIT=${GIT_COMMIT} -RUN poetry run python setup.py develop +RUN python3 setup.py egg_info +RUN python3 -m pip install . EXPOSE 7778 diff --git a/mfr/__init__.py b/mfr/__init__.py deleted file mode 100755 index 5e2406e4c..000000000 --- a/mfr/__init__.py +++ /dev/null @@ -1,3 +0,0 @@ -# This is a namespace package, don't put any functional code in here besides the -# declare_namespace call, or it will disappear on install. See: -# https://setuptools.readthedocs.io/en/latest/setuptools.html#namespace-packages diff --git a/mfr/core/exceptions.py b/mfr/core/exceptions.py index a551a50d0..d977762ee 100644 --- a/mfr/core/exceptions.py +++ b/mfr/core/exceptions.py @@ -46,7 +46,7 @@ class ExtensionError(PluginError): __TYPE = 'extension' - def __init__(self, message, *args, extension: str='', **kwargs): + def __init__(self, message, *args, extension: str = '', **kwargs): super().__init__(message, *args, **kwargs) self.extension = extension self.attr_stack.append([self.__TYPE, {'extension': self.extension}]) @@ -59,7 +59,7 @@ class RendererError(ExtensionError): __TYPE = 'renderer' - def __init__(self, message, *args, renderer_class: str='', **kwargs): + def __init__(self, message, *args, renderer_class: str = '', **kwargs): super().__init__(message, *args, **kwargs) self.renderer_class = renderer_class self.attr_stack.append([self.__TYPE, {'class': self.renderer_class}]) @@ -72,7 +72,7 @@ class ExporterError(ExtensionError): __TYPE = 'exporter' - def __init__(self, message, *args, exporter_class: str='', **kwargs): + def __init__(self, message, *args, exporter_class: str = '', **kwargs): super().__init__(message, *args, **kwargs) self.exporter_class = exporter_class self.attr_stack.append([self.__TYPE, {'exporter_class': self.exporter_class}]) @@ -85,8 +85,8 @@ class SubprocessError(ExporterError): __TYPE = 'subprocess' - def __init__(self, message, *args, code: int=500, process: str='', cmd: str='', - returncode: int=None, path: str='', **kwargs): + def __init__(self, message, *args, code: int = 500, process: str = '', cmd: str = '', + returncode: int = None, path: str = '', **kwargs): super().__init__(message, *args, code=code, **kwargs) self.process = process self.cmd = cmd @@ -107,7 +107,7 @@ class ProviderError(PluginError): __TYPE = 'provider' - def __init__(self, message, *args, provider: str='', **kwargs): + def __init__(self, message, *args, provider: str = '', **kwargs): super().__init__(message, *args, **kwargs) self.provider = provider self.attr_stack.append([self.__TYPE, {'provider': self.provider}]) @@ -120,7 +120,7 @@ class DownloadError(ProviderError): __TYPE = 'download' - def __init__(self, message, *args, download_url: str='', response: str='', **kwargs): + def __init__(self, message, *args, download_url: str = '', response: str = '', **kwargs): super().__init__(message, *args, **kwargs) self.download_url = download_url self.response = response @@ -137,7 +137,7 @@ class MetadataError(ProviderError): __TYPE = 'metadata' - def __init__(self, message, *args, metadata_url: str='', response: str='', **kwargs): + def __init__(self, message, *args, metadata_url: str = '', response: str = '', **kwargs): super().__init__(message, *args, **kwargs) self.metadata_url = metadata_url self.response = response @@ -153,8 +153,8 @@ class TooBigToRenderError(ProviderError): __TYPE = 'too_big_to_render' - def __init__(self, message, *args, requested_size: int=None, maximum_size: int=None, - code: int=400, **kwargs): + def __init__(self, message, *args, requested_size: int = None, maximum_size: int = None, + code: int = 400, **kwargs): super().__init__(message, *args, code=code, **kwargs) self.requested_size = requested_size self.maximum_size = maximum_size @@ -168,8 +168,8 @@ class DriverManagerError(PluginError): __TYPE = 'drivermanager' - def __init__(self, message, *args, namespace: str='', name: str='', invoke_on_load: bool=None, - invoke_args: dict=None, **kwargs): + def __init__(self, message, *args, namespace: str = '', name: str = '', invoke_on_load: bool = None, + invoke_args: dict = None, **kwargs): super().__init__(message, *args, **kwargs) self.namespace = namespace @@ -189,7 +189,7 @@ class MakeProviderError(DriverManagerError): """Thrown when MFR can't find an applicable provider class. This indicates programmer error, so ``code`` defaults to ``500``.""" - def __init__(self, message, *args, code: int=500, **kwargs): + def __init__(self, message, *args, code: int = 500, **kwargs): super().__init__(message, *args, code=code, **kwargs) @@ -201,7 +201,7 @@ class UnsupportedExtensionError(DriverManagerError): __TYPE = 'unsupported_extension' - def __init__(self, *args, code: int=400, handler_type: str='', **kwargs): + def __init__(self, *args, code: int = 400, handler_type: str = '', **kwargs): super().__init__(*args, code=code, **kwargs) self.handler_type = handler_type diff --git a/mfr/core/remote_logging.py b/mfr/core/remote_logging.py index 42c105e27..d7460c584 100644 --- a/mfr/core/remote_logging.py +++ b/mfr/core/remote_logging.py @@ -84,10 +84,7 @@ async def log_analytics(request, metrics, is_error=False): domain='private') if ( - keen_payload['handler']['type'] != 'render' or - file_metadata is None or - is_error or - not settings.KEEN_PUBLIC_LOG_VIEWS + keen_payload['handler']['type'] != 'render' or file_metadata is None or is_error or not settings.KEEN_PUBLIC_LOG_VIEWS ): return diff --git a/mfr/core/utils.py b/mfr/core/utils.py index 71bcf18fb..4038ce0be 100644 --- a/mfr/core/utils.py +++ b/mfr/core/utils.py @@ -114,14 +114,15 @@ def get_renderer_name(name: str) -> str: # `ep_iterator` is an iterable object. Must convert it to a `list` for access. # `list()` can only be called once because the iterator moves to the end after conversion. ep = entry_points().select(group='mfr.renderers', name=name.lower()) + ep_list = list(ep) # Empty list indicates unsupported file type. Return '' and let `make_renderer()` handle it. - if len(ep) == 0: + if len(ep_list) == 0: return '' # If the file type is supported, there must be only one element in the list. - assert len(ep) == 1 - return ep[0].value.split(":")[1].split('.')[0] + assert len(ep_list) == 1 + return ep_list[0].value.split(":")[-1] def get_exporter_name(name: str) -> str: @@ -135,14 +136,15 @@ def get_exporter_name(name: str) -> str: # `ep_iterator` is an iterable object. Must convert it to a `list` for access. # `list()` can only be called once because the iterator moves to the end after conversion. ep = entry_points().select(group='mfr.exporters', name=name.lower()) + ep_list = list(ep) # Empty list indicates unsupported export type. Return '' and let `make_exporter()` handle it. - if len(ep) == 0: + if len(ep_list) == 0: return '' # If the export type is supported, there must be only one element in the list. - assert len(ep) == 1 - return ep[0].value.split(":")[1].split('.')[0] + assert len(ep_list) == 1 + return ep_list[0].value.split(":")[-1] def sizeof_fmt(num, suffix='B'): diff --git a/mfr/extensions/codepygments/exceptions.py b/mfr/extensions/codepygments/exceptions.py index 9dbd53082..8b7581faf 100644 --- a/mfr/extensions/codepygments/exceptions.py +++ b/mfr/extensions/codepygments/exceptions.py @@ -13,7 +13,7 @@ class FileTooLargeError(CodePygmentsRendererError): __TYPE = 'codepygments_file_too_large' - def __init__(self, message, *args, code: int=400, file_size: int=None, max_size: int=None, + def __init__(self, message, *args, code: int = 400, file_size: int = None, max_size: int = None, **kwargs): super().__init__(message, *args, code=code, **kwargs) @@ -33,8 +33,8 @@ class FileDecodingError(CodePygmentsRendererError): __TYPE = 'codepygments_file_decoding' - def __init__(self, message, *args, code: int=400, original_exception: Exception=None, - category: str='', **kwargs): + def __init__(self, message, *args, code: int = 400, original_exception: Exception = None, + category: str = '', **kwargs): super().__init__(message, *args, code=code, **kwargs) self.category = category diff --git a/mfr/extensions/image/exceptions.py b/mfr/extensions/image/exceptions.py index 5780efb69..642d217bc 100644 --- a/mfr/extensions/image/exceptions.py +++ b/mfr/extensions/image/exceptions.py @@ -8,8 +8,8 @@ class PillowImageError(ExporterError): __TYPE = 'image_pillow' - def __init__(self, message, *args, export_format: str='', detected_format: str='', - original_exception: Exception=None, **kwargs): + def __init__(self, message, *args, export_format: str = '', detected_format: str = '', + original_exception: Exception = None, **kwargs): super().__init__(message, *args, exporter_class='image', **kwargs) self.export_format = export_format diff --git a/mfr/extensions/image/export.py b/mfr/extensions/image/export.py index a86ca43dd..23a22409a 100644 --- a/mfr/extensions/image/export.py +++ b/mfr/extensions/image/export.py @@ -71,7 +71,7 @@ def export(self): 'Unable to export the file as a {}, please check that the ' 'file is a valid image.'.format(image_type), export_format=image_type, - detected_format= self.detect_image_format(), + detected_format=self.detect_image_format(), original_exception=err, code=400, ) diff --git a/mfr/extensions/ipynb/exceptions.py b/mfr/extensions/ipynb/exceptions.py index c7e41456a..1f3759032 100644 --- a/mfr/extensions/ipynb/exceptions.py +++ b/mfr/extensions/ipynb/exceptions.py @@ -5,8 +5,8 @@ class InvalidFormatError(RendererError): __TYPE = 'ipynb_invalid_format' - def __init__(self, message, *args, code: int=400, download_url: str='', - original_exception: Exception=None, **kwargs): + def __init__(self, message, *args, code: int = 400, download_url: str = '', + original_exception: Exception = None, **kwargs): super().__init__(message, *args, code=code, renderer_class='ipynb', **kwargs) self.download_url = download_url, diff --git a/mfr/extensions/ipynb/render.py b/mfr/extensions/ipynb/render.py index e53f9494d..3e046c269 100644 --- a/mfr/extensions/ipynb/render.py +++ b/mfr/extensions/ipynb/render.py @@ -35,6 +35,9 @@ def render(self): ) exporter = HTMLExporter(config=Config({ + 'HTMLExporter': { + 'template_name': 'basic', + }, 'CSSHtmlHeaderTransformer': { 'enabled': False, }, diff --git a/mfr/extensions/jamovi/exceptions.py b/mfr/extensions/jamovi/exceptions.py index e1744d3c3..9a4ce4d4e 100644 --- a/mfr/extensions/jamovi/exceptions.py +++ b/mfr/extensions/jamovi/exceptions.py @@ -14,8 +14,8 @@ class JamoviVersionError(JamoviRendererError): __TYPE = 'jamovi_version' - def __init__(self, message, *args, code: int=400, created_by: str='', - actual_version: str='', required_version: str='', **kwargs): + def __init__(self, message, *args, code: int = 400, created_by: str = '', + actual_version: str = '', required_version: str = '', **kwargs): super().__init__(message, *args, code=code, **kwargs) self.created_by = created_by self.actual_version = actual_version @@ -34,8 +34,8 @@ class JamoviFileCorruptError(JamoviRendererError): __TYPE = 'jamovi_file_corrupt' - def __init__(self, message, *args, code: int=400, corruption_type: str='', - reason: str='', **kwargs): + def __init__(self, message, *args, code: int = 400, corruption_type: str = '', + reason: str = '', **kwargs): super().__init__(message, *args, code=code, **kwargs) self.corruption_type = corruption_type self.reason = reason diff --git a/mfr/extensions/jasp/exceptions.py b/mfr/extensions/jasp/exceptions.py index 438b7ec0b..8573f176d 100644 --- a/mfr/extensions/jasp/exceptions.py +++ b/mfr/extensions/jasp/exceptions.py @@ -14,8 +14,8 @@ class JaspVersionError(JaspRendererError): __TYPE = 'jasp_version' - def __init__(self, message, *args, code: int=400, created_by: str='', - actual_version: str='', required_version: str='', **kwargs): + def __init__(self, message, *args, code: int = 400, created_by: str = '', + actual_version: str = '', required_version: str = '', **kwargs): super().__init__(message, *args, code=code, **kwargs) self.created_by = created_by self.actual_version = actual_version @@ -34,8 +34,8 @@ class JaspFileCorruptError(JaspRendererError): __TYPE = 'jasp_file_corrupt' - def __init__(self, message, *args, code: int=400, corruption_type: str='', - reason: str='', **kwargs): + def __init__(self, message, *args, code: int = 400, corruption_type: str = '', + reason: str = '', **kwargs): super().__init__(message, *args, code=code, **kwargs) self.corruption_type = corruption_type self.reason = reason diff --git a/mfr/extensions/jsc3d/freecad_converter.py b/mfr/extensions/jsc3d/freecad_converter.py index c1798fccb..095651fda 100644 --- a/mfr/extensions/jsc3d/freecad_converter.py +++ b/mfr/extensions/jsc3d/freecad_converter.py @@ -11,7 +11,7 @@ try: Part.open(in_fn) -except: +except Exception: # Todo: maybe it is needed to use logger and specific message for exception logging sys.exit(1) diff --git a/mfr/extensions/md/render.py b/mfr/extensions/md/render.py index e6b1388e8..d409ec889 100644 --- a/mfr/extensions/md/render.py +++ b/mfr/extensions/md/render.py @@ -9,10 +9,9 @@ class EscapeHtml(Extension): - def extendMarkdown(self, md, md_globals): - # Todo: do not see extendMarkdown explicit call and what is passed as the method args, maybe it is ok - del md.preprocessors['html_block'] - del md.inlinePatterns['html'] + def extendMarkdown(self, md): + md.preprocessors.deregister('html_block') + md.inlinePatterns.deregister('html') class MdRenderer(extension.BaseRenderer): diff --git a/mfr/extensions/pdf/exceptions.py b/mfr/extensions/pdf/exceptions.py index cb227aaed..73bf34185 100644 --- a/mfr/extensions/pdf/exceptions.py +++ b/mfr/extensions/pdf/exceptions.py @@ -8,8 +8,8 @@ class PillowImageError(ExporterError): __TYPE = 'pdf_pillow' - def __init__(self, message, *args, export_format: str='', detected_format: str='', - original_exception: Exception=None, **kwargs): + def __init__(self, message, *args, export_format: str = '', detected_format: str = '', + original_exception: Exception = None, **kwargs): super().__init__(message, *args, exporter_class='image', **kwargs) self.export_format = export_format diff --git a/mfr/extensions/pdf/export.py b/mfr/extensions/pdf/export.py index b91935684..ca6be994d 100644 --- a/mfr/extensions/pdf/export.py +++ b/mfr/extensions/pdf/export.py @@ -1,4 +1,3 @@ -import os import logging from http import HTTPStatus @@ -93,7 +92,7 @@ def export(self): 'Unable to export the file as a {}, please check that the ' 'file is a valid tiff image.'.format(export_type), export_format=export_type, - detected_format= self.detect_image_format(), + detected_format=self.detect_image_format(), original_exception=err, code=HTTPStatus.BAD_REQUEST, ) @@ -102,5 +101,5 @@ def detect_image_format(self): try: with Image.open(self.source_file_path) as img: return img.format.lower() - except Exception as e: + except Exception: return None diff --git a/mfr/extensions/tabular/exceptions.py b/mfr/extensions/tabular/exceptions.py index 59f461eb6..75b3103c8 100644 --- a/mfr/extensions/tabular/exceptions.py +++ b/mfr/extensions/tabular/exceptions.py @@ -10,7 +10,7 @@ class MissingRequirementsError(TabularRendererError): __TYPE = 'tabular_missing_requirements' - def __init__(self, message, *args, code: int=500, function_preference: str='', **kwargs): + def __init__(self, message, *args, code: int = 500, function_preference: str = '', **kwargs): super().__init__(message, *args, code=code, **kwargs) self.function_preference = function_preference self.attr_stack.append([self.__TYPE, {'function_preference': self.function_preference}]) @@ -20,7 +20,7 @@ class EmptyTableError(TabularRendererError): __TYPE = 'tabular_empty_table' - def __init__(self, message, *args, code: int=400, **kwargs): + def __init__(self, message, *args, code: int = 400, **kwargs): super().__init__(message, *args, code=code, **kwargs) self.attr_stack.append([self.__TYPE, {}]) @@ -29,7 +29,7 @@ class TableTooBigError(TabularRendererError): __TYPE = 'tabular_table_too_big' - def __init__(self, message, *args, code: int=400, nbr_cols: int=0, nbr_rows: int=0, **kwargs): + def __init__(self, message, *args, code: int = 400, nbr_cols: int = 0, nbr_rows: int = 0, **kwargs): super().__init__(message, *args, code=code, **kwargs) self.nbr_cols = nbr_cols self.nbr_rows = nbr_rows @@ -43,7 +43,7 @@ class UnexpectedFormattingError(TabularRendererError): __TYPE = 'tabular_unexpected_formatting' - def __init__(self, message, *args, code: int=500, formatting_function: str='', **kwargs): + def __init__(self, message, *args, code: int = 500, formatting_function: str = '', **kwargs): super().__init__(message, *args, code=code, **kwargs) self.formatting_function = formatting_function self.attr_stack.append([self.__TYPE, {'formatting_function': self.formatting_function}]) @@ -53,7 +53,7 @@ class FileTooLargeError(TabularRendererError): __TYPE = 'tabular_file_too_large' - def __init__(self, message, *args, code: int=400, file_size: int=None, max_size: int=None, + def __init__(self, message, *args, code: int = 400, file_size: int = None, max_size: int = None, **kwargs): super().__init__(message, *args, code=code, **kwargs) diff --git a/mfr/extensions/tabular/libs/panda_tools.py b/mfr/extensions/tabular/libs/panda_tools.py index 0f4891855..fbdfd4f2c 100644 --- a/mfr/extensions/tabular/libs/panda_tools.py +++ b/mfr/extensions/tabular/libs/panda_tools.py @@ -64,7 +64,7 @@ def data_from_dataframe(dataframe): data_row = {} for name, value in frame_row.items(): try: - data_row[name] = numpy.asscalar(value) + data_row[name] = value.item() except AttributeError: data_row[name] = value data.append(data_row) diff --git a/mfr/extensions/tabular/libs/stdlib_tools.py b/mfr/extensions/tabular/libs/stdlib_tools.py index ed30f837c..541154cb6 100644 --- a/mfr/extensions/tabular/libs/stdlib_tools.py +++ b/mfr/extensions/tabular/libs/stdlib_tools.py @@ -83,12 +83,12 @@ def _set_dialect_quote_attrs(dialect, data): '{"a", "b", "c" for quotechar == " """ if dialect.quotechar == '"': - if re.search('\'[[({]".+",', data): + if re.search('\'[([{]".+",', data): dialect.quotechar = "'" - if re.search("'''[[({]\".+\",", data): + if re.search("'''[([{]\".+\",", data): dialect.doublequote = True elif dialect.quotechar == "'": - if re.search("\"[[({]'.+',", data): + if re.search("\"[([{]'.+',", data): dialect.quotechar = '"' - if re.search('"""[[({]\'.+\',', data): + if re.search('"""[([{]\'.+\',', data): dialect.doublequote = True diff --git a/mfr/extensions/tabular/libs/xlrd_tools.py b/mfr/extensions/tabular/libs/xlrd_tools.py index 184c3be43..f31d5a06a 100644 --- a/mfr/extensions/tabular/libs/xlrd_tools.py +++ b/mfr/extensions/tabular/libs/xlrd_tools.py @@ -1,6 +1,7 @@ import xlrd +import zipfile from collections import OrderedDict -from ..exceptions import TableTooBigError +from ..exceptions import TableTooBigError, MissingRequirementsError from ..utilities import header_population from mfr.extensions.tabular.compat import range, basestring @@ -11,42 +12,84 @@ def xlsx_xlrd(fp): :param fp: File pointer object :return: tuple of table headers and data """ - max_size = 10000 + MAX_SIZE = 10000 - wb = xlrd.open_workbook(fp.name) + try: + wb = xlrd.open_workbook(fp.name) + using_xlrd = True + except xlrd.biffh.XLRDError: + using_xlrd = False + try: + from openpyxl import load_workbook + except ImportError: + raise MissingRequirementsError( + 'openpyxl is required to read .xlsx files', + function_preference='openpyxl' + ) + try: + wb = load_workbook(fp.name, data_only=True) + except zipfile.BadZipFile: + raise xlrd.biffh.XLRDError("Excel xlsx file; not supported") sheets = OrderedDict() - for sheet in wb.sheets(): - if sheet.ncols > max_size or sheet.nrows > max_size: - raise TableTooBigError('Table is too large to render.', '.xlsx', - nbr_cols=sheet.ncols, nbr_rows=sheet.nrows) - - if sheet.ncols < 1 or sheet.nrows < 1: - sheets[sheet.name] = ([], []) - continue - - fields = sheet.row_values(0) if sheet.nrows else [] - - fields = [ - str(value) - if not isinstance(value, basestring) and value is not None - else value or f'Unnamed: {index + 1}' - for index, value in enumerate(fields) - ] - - data = [] - for i in range(1, sheet.nrows): - row = [] - for cell in sheet.row(i): - if cell.ctype == xlrd.XL_CELL_DATE: - value = xlrd.xldate.xldate_as_datetime(cell.value, wb.datemode).isoformat() - else: - value = cell.value - row.append(value) - data.append(dict(zip(fields, row))) - - header = header_population(fields) - sheets[sheet.name] = (header, data) + if using_xlrd: + for sheet in wb.sheets(): + if sheet.ncols > MAX_SIZE or sheet.nrows > MAX_SIZE: + raise TableTooBigError('Table is too large to render.', '.xlsx', + nbr_cols=sheet.ncols, nbr_rows=sheet.nrows) + + if sheet.ncols < 1 or sheet.nrows < 1: + sheets[sheet.name] = ([], []) + continue + + fields = sheet.row_values(0) if sheet.nrows else [] + + fields = [ + str(value) + if not isinstance(value, basestring) and value is not None + else value or f'Unnamed: {index + 1}' + for index, value in enumerate(fields) + ] + + data = [] + for i in range(1, sheet.nrows): + row = [] + for cell in sheet.row(i): + if cell.ctype == xlrd.XL_CELL_DATE: + value = xlrd.xldate.xldate_as_datetime(cell.value, wb.datemode).isoformat() + else: + value = cell.value + row.append(value) + data.append(dict(zip(fields, row))) + + header = header_population(fields) + sheets[sheet.name] = (header, data) + + else: + for name in wb.sheetnames: + ws = wb[name] + nrows = ws.max_row + ncols = ws.max_column + if ncols > MAX_SIZE or nrows > MAX_SIZE: + raise TableTooBigError('Table is too large to render.', '.xlsx', + nbr_cols=ncols, nbr_rows=nrows) + + if nrows < 1 or ncols < 1: + sheets[name] = ([], []) + continue + + header_row = next(ws.iter_rows(min_row=1, max_row=1, values_only=True)) + fields = [ + str(val) if val is not None else f'Unnamed: {i + 1}' + for i, val in enumerate(header_row) + ] + + data = [] + for row in ws.iter_rows(min_row=2, max_row=nrows, max_col=ncols, values_only=True): + data.append(dict(zip(fields, row))) + + header = header_population(fields) + sheets[name] = (header, data) return sheets diff --git a/mfr/extensions/utils.py b/mfr/extensions/utils.py index fa3b9ca67..1a8b7ee52 100644 --- a/mfr/extensions/utils.py +++ b/mfr/extensions/utils.py @@ -1,5 +1,4 @@ import logging -from typing import Tuple from urllib.parse import parse_qs, urlencode, urlparse from mfr.extensions import settings @@ -29,7 +28,7 @@ def munge_url_for_localdev(url: str) -> tuple: return url_obj -def escape_url_for_template(url: str, logs: bool=True) -> str: +def escape_url_for_template(url: str, logs: bool = True) -> str: """Escape (URL Encode) single and double quote(s) for the given URL. Download and export URLs may end up not properly encoded right before they are about to be sent diff --git a/mfr/providers/osf/provider.py b/mfr/providers/osf/provider.py index 226817188..fda541fe2 100644 --- a/mfr/providers/osf/provider.py +++ b/mfr/providers/osf/provider.py @@ -208,4 +208,3 @@ async def _make_request(self, method, url, *args, **kwargs): async with aiohttp.request(method, url, *args, **kwargs) as response: return response - diff --git a/mfr/server/handlers/core.py b/mfr/server/handlers/core.py index 416a2e4ff..2721b7012 100644 --- a/mfr/server/handlers/core.py +++ b/mfr/server/handlers/core.py @@ -95,7 +95,6 @@ def __init__(self, *args, **kwargs): self.extension_metrics = MetricsRecord('extension') self.url = '' - @abc.abstractmethod def NAME(self): # Todo: not see Name implementation in child classes @@ -166,7 +165,7 @@ def write_error(self, status_code, exc_info): # TODO: verify that `exc_info` arg is compatible with tornado 6.4.2 sig etype, exc, _ = exc_info scope = sentry_sdk.get_current_scope() - scope.set_tag('class', etype.__name_) + scope.set_tag('class', etype.__name__) scope.set_tag('status_code', status_code) sentry_sdk.capture_exception(exc) # Log all non 2XX codes to sentry @@ -176,10 +175,10 @@ def write_error(self, status_code, exc_info): for level in reversed(exc.attr_stack): if current: """ - TODO: dictionary 'current' is reassigned in condition, Qodana code inspector may be - complaining because some data previously saved in the dictionary may be lost - (but maybe it is ok in terms of business logic), - As I understand the current accumulate previous current versions so it may be ok + TODO: dictionary 'current' is reassigned in condition, Qodana code inspector may be + complaining because some data previously saved in the dictionary may be lost + (but maybe it is ok in terms of business logic), + As I understand the current accumulate previous current versions so it may be ok """ current = {f'{level[0]}_{child_type}': current} 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= "2.19.1" -pydocx = "0.9.10" olefile = "0.47" Pillow = "11.2.1" psd-tools = "1.10.7" @@ -42,6 +41,7 @@ scipy = "1.15.2" markdown = "3.8.0" certifi = "2025.1.31" unoconv = "0.9.0" +openpyxl = "^3.1" waterbutler = { git = "https://github.com/CenterForOpenScience/waterbutler.git", branch = "feature/buff-worms" } markupsafe = "2.0.1" diff --git a/setup.py b/setup.py index 9acbf9dd2..52cb4bddf 100644 --- a/setup.py +++ b/setup.py @@ -1,4 +1,4 @@ -from setuptools import setup, find_namespace_packages +from setuptools import setup, find_packages # Taken from option 3 of https://packaging.python.org/guides/single-sourcing-package-version/ @@ -13,17 +13,17 @@ author='Center for Open Science', author_email='contact@cos.io', url='https://github.com/CenterForOpenScience/modular-file-renderer', - packages=find_namespace_packages(include=['mfr.*']), + packages=find_packages(exclude=("tests*", )), package_dir={'mfr': 'mfr'}, include_package_data=True, zip_safe=False, + license='Apache-2.0', classifiers=[ 'Natural Language :: English', 'Intended Audience :: Developers', 'Programming Language :: Python :: 3', 'Programming Language :: Python :: 3.13', 'Development Status :: 5 - Production/Stable', - 'License :: OSI Approved :: Apache Software License', ], provides=[ 'mfr.extensions', diff --git a/tests/extensions/tabular/test_renderer.py b/tests/extensions/tabular/test_renderer.py index 3e1ae4f2d..48769db04 100644 --- a/tests/extensions/tabular/test_renderer.py +++ b/tests/extensions/tabular/test_renderer.py @@ -172,7 +172,7 @@ def test_render_tabular_mat73(self, test_mat73_file_path, assets_url, export_url body = renderer.render() assert BODY in body - def test_render_tabular_mat73_invalid(self, invalid_mat73_file_path, assets_url, export_url): + def test_render_tabular_mat73_invalid(self, invalid_mat73_file_path, url, assets_url, export_url): metadata = ProviderMetadata('test', '.mat', 'text/plain', '1234', 'http://wb.osf.io/file/test.mat?token=1234') renderer = TabularRenderer(metadata, invalid_mat73_file_path, url, assets_url, export_url) diff --git a/tests/extensions/zip/test_renderer.py b/tests/extensions/zip/test_renderer.py index 162e27349..d8a684a8d 100644 --- a/tests/extensions/zip/test_renderer.py +++ b/tests/extensions/zip/test_renderer.py @@ -65,24 +65,24 @@ class TestZipRenderer: def test_render(self, renderer): body = renderer.render() - parsed_html = BeautifulSoup(body) - rows = parsed_html.findChildren('table')[0].findChildren(['tr']) + parsed_html = BeautifulSoup(body, 'html.parser') + rows = parsed_html.find_all('table')[0].find_all(['tr']) - name = rows[2].findChildren('td')[0].get_text().strip() + name = rows[2].find_all('td')[0].get_text().strip() assert 'test/test 1' == name - date_modified = rows[2].findChildren('td')[1].get_text().strip() + date_modified = rows[2].find_all('td')[1].get_text().strip() assert '2017-03-02 16:22:14' == date_modified - size = rows[2].findChildren('td')[2].get_text().strip() + size = rows[2].find_all('td')[2].get_text().strip() assert '15B' == size # non-expanded zip file should have no children - name = rows[4].findChildren('td')[0].get_text().strip() + name = rows[4].find_all('td')[0].get_text().strip() assert 'test/zip file which is not expanded.zip' == name assert body.count('zip file which is not expanded.zip') == 1 - size = rows[4].findChildren('td')[2].get_text().strip() + size = rows[4].find_all('td')[2].get_text().strip() assert '1.8KB' == size # formatting of larger byte sizes # hidden files should be hidden diff --git a/tests/utils.py b/tests/utils.py index a0b6d32cb..c7ac3937e 100644 --- a/tests/utils.py +++ b/tests/utils.py @@ -45,6 +45,3 @@ def tearDown(self): def get_app(self): return make_app(debug=False) - - def get_new_ioloop(self): - return AsyncIOMainLoop()