qmenta-sdk-lib 2.2.dev3493__tar.gz → 2.2.dev3494__tar.gz

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.3
 Name: qmenta-sdk-lib
-Version: 2.2.dev3493
+Version: 2.2.dev3494
 Summary: QMENTA SDK for tool development.
 Author: QMENTA
 Maintainer: Marc Ramos

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/pyproject.toml

@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "qmenta-sdk-lib"
-version = "2.2.dev3493"
+version = "2.2.dev3494"
 description = "QMENTA SDK for tool development."
 authors = ["QMENTA"]
 packages = [

qmenta_sdk_lib-2.2.dev3494/python/qmenta/sdk/__init__.py

@@ -0,0 +1,2 @@
+# This is filled by CI at build time (also used for documentation)
+__version__ = "{version}"

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/bids/wrapper.py

@@ -83,7 +83,8 @@ def generate_file_path(original_name, sub_name, modality_name, cat_dir):
 
 def format_input_data(context, subject, session, path):
     """
-    Format input data followings the BIDS specification: http://bids.neuroimaging.io/bids_spec.pdf
+    Format input data followings the BIDS specification:
+    http://bids.neuroimaging.io/bids_spec.pdf
 
     :param context: AnalysisContext of the running analysis
     :param subject: Subject name (from analysis_data)
@@ -97,7 +98,8 @@ def format_input_data(context, subject, session, path):
 
     dataset_description = {"Name": "QMENTA_ANALYSIS", "BIDSVersion": "1.1.0"}
 
-    # The input container specification must include file filters following the bids_ff_names nomenclature
+    # The input container specification must include file filters following
+    # the bids_ff_names nomenclature
     bids_ff_names = {
         "anat": [
             "T1w",
@@ -155,9 +157,10 @@ def format_input_data(context, subject, session, path):
 
                     if os.path.isfile(target_path):
                         logger.warning(
-                            "Multiple files with same name ({}). Only the first will be used".format(
+                            "Multiple files with same name ({}).".format(
                                 target_path
-                            )
+                            ),
+                            " Only the first will be used"
                         )
                         break
 
@@ -211,7 +214,8 @@ def run(context):
     mkdirs(input_path)
     mkdirs(output_path)
 
-    # Download data from the platform and store following the BIDS specification
+    # Download data from the platform and store following
+    # the BIDS specification
     format_input_data(
         context,
         subject=analysis_data["patient_secret_name"],

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/client.py

@@ -28,7 +28,8 @@ class ExecClient(object):
         Parameters
         ----------
         user_script_path : str
-            Should look like 'path.to.module:object', where 'object' should be an importable analysis tool class
+            Should look like 'path.to.module:object', where 'object' should be
+            an importable analysis tool class
             or a function taking one 'context' argument.
         """
 
@@ -70,7 +71,8 @@ class ExecClient(object):
         Parameters
         ----------
         state : AnalysisState
-            One of AnalysisState.RUNNING, AnalysisState.COMPLETED, AnalysisState.EXCEPTION or AnalysisState.NO_FILES
+            One of AnalysisState.RUNNING, AnalysisState.COMPLETED,
+            AnalysisState.EXCEPTION or AnalysisState.NO_FILES
         kwargs : dict
         """
         assert isinstance(

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/communication.py

@@ -33,15 +33,17 @@ class CommunicationObject(object):
         token : str
             Unique token that authenticates the communication
         timeout : float or tuple, optional
-            How many seconds to wait for the server to send data before giving up, as a float, or a
-            (connect timeout, read timeout) tuple. Defaults to
+            How many seconds to wait for the server to send data before giving
+            up, as a float, or a (connect timeout, read timeout) tuple.
+            Defaults to
         chunk_size : int
             Size of chunks in bytes (1MB = 1024KB, 1KB = 1024B)
         verify : bool, optional
             Controls whether the server's TLS certificate is verified.
             Defaults to True.
         critical: bool, optional
-            Overrides total_retry seting in requests by making themm fail after the first error if set.
+            Overrides total_retry seting in requests by making themm fail
+            after the first error if set.
         """
         self.timeout = timeout
         self.chunk_size = chunk_size
@@ -60,7 +62,8 @@ class CommunicationObject(object):
     def __exit__(self, exc_type, exc_value, traceback):
         ret = self.send_request("logout")
         if not ret["success"]:
-            # Not being able to logout is a security issue and must be a fatal error
+            # Not being able to logout is a security issue and must be a
+            # fatal error
             raise RuntimeError("Unable to logout")
 
     def send_request(
@@ -82,15 +85,15 @@ class CommunicationObject(object):
         Parameters
         ----------
         access_point : str, optional
-            API endpoint. Will be joined with the request URL provided at construction time to create the
-            full ("absolute") url
+            API endpoint. Will be joined with the request URL provided at
+            construction time to create the full ("absolute") url
         req_data : dict or str, optional
             Request data
         req_headers : dict, optional
             Request headers
         return_json : bool, optional
-            Whether the response should be a JSON object or a requests.Response instance.
-            Defaults to True.
+            Whether the response should be a JSON object or a requests.
+            Response instance. Defaults to True.
         timeout : float, optional
             Timeout in seconds for this request.
             Defaults to the timeout set at construction time.
@@ -100,7 +103,8 @@ class CommunicationObject(object):
         stream : bool, optional
             If False, the response content will be immediately downloaded.
         url : str, optional
-            When no access_point is provided, a full url must be provided through this argument
+            When no access_point is provided, a full url must be provided
+            through this argument
         kwargs : dict
             Additional arguments to be passed to `requests.Session.post`
         method: str
@@ -109,8 +113,8 @@ class CommunicationObject(object):
         Returns
         -------
         requests.Response or dict
-            JSON response encoded in a dictionary if return_json is True (default),
-            otherwise requests.Response object.
+            JSON response encoded in a dictionary if return_json is True
+            (default), otherwise requests.Response object.
         """
         logger = logging.getLogger(__name__)
 
@@ -179,8 +183,8 @@ class CommunicationObject(object):
         Parameters
         ----------
         access_point : str
-            API endpoint. Will be joined with the request URL provided at construction time to create the
-            full ("absolute") url
+            API endpoint. Will be joined with the request URL provided at
+            construction time to create the full ("absolute") url
         files : dict
             Request files
         req_data : dict or str, optional
@@ -188,8 +192,8 @@ class CommunicationObject(object):
         req_headers : dict, optional
             Request headers
         return_json : bool, optional
-            Whether the response should be a JSON object or a requests.Response instance.
-            Defaults to True.
+            Whether the response should be a JSON object or a requests.
+            Response instance. Defaults to True.
         timeout : float, optional
             Timeout in seconds for this request.
             Defaults to the timeout set at construction time.
@@ -204,8 +208,8 @@ class CommunicationObject(object):
         Returns
         -------
         requests.Response or dict
-            JSON response encoded in a dictionary if return_json is True (default),
-            otherwise requests.Response object.
+            JSON response encoded in a dictionary if return_json is True
+            (default), otherwise requests.Response object.
         """
         logger = logging.getLogger(__name__)
 

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/context.py

@@ -973,7 +973,9 @@ class AnalysisContext:
                 "replace_flag": replace.value,
                 "tags": ",".join(tags),
                 "file_info": json.dumps(file_info),
-                "file_format": file_format or self.__detect_file_format(source_file_path),
+                "file_format": file_format or self.__detect_file_format(
+                    source_file_path
+                ),
                 "protocol": str(
                     protocol or file_name.split(".")[0]
                     if "." in file_name

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/directory_utils.py

@@ -4,7 +4,8 @@ import tempfile
 
 class TemporaryDirectory:
     """
-    Context manager which creates a temporary directory and removes it automatically.
+    Context manager which creates a temporary directory and removes it
+    automatically.
     """
 
     def __init__(self):

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/executor.py

@@ -63,7 +63,8 @@ def parse_args():
     argp.add_argument(
         "--tool-path",
         required=True,
-        help="Path to the Python tool (package.module:function) to be executed",
+        help="Path to the Python tool (package.module:function)"
+        "to be executed",
     )
 
     # verbosity
@@ -76,8 +77,10 @@ def parse_args():
         "--chunk-size",
         type=str,
         default=default_chunk_size,
-        help="Size of each chunk in download/upload operations, expressed in a human readable data size. "
-        "(e.g. 256 --> 256 bytes ; 512B --> 512 bytes ; 1MiB --> 1048576 bytes; 1MB --> 1000000",
+        help="Size of each chunk in download/upload operations,"
+        "expressed in a human readable data size. "
+        "(e.g. 256 --> 256 bytes ; 512B --> 512 bytes ;"
+        "1MiB --> 1048576 bytes; 1MB --> 1000000",
     )
 
     # only for testing purposes
@@ -95,7 +98,8 @@ def parse_args():
         nargs="?",
         const=True,
         default=False,
-        help="Ignore requests total_retry number and fail after each first errror",
+        help="Ignore requests total_retry number and fail after each first"
+        "error",
     )
 
     # metadata

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/init.py

@@ -52,9 +52,12 @@ def run(context):
     for file_handler in input_files:
         file_handler.download('/root/')  # Keeping the original names
 
-        # Call the MATLAB helper script with the path of the MATLAB runtime installation
-        # Make sure your script finalizes. Otherwise this call will be waiting forever
-        # Alternatively, you can always implement a timeout (e.g. with subprocess)
+        # Call the MATLAB helper script with the path of the MATLAB runtime
+        # installation.
+        # Make sure your script finalizes. Otherwise this call will be waiting
+        # forever.
+        # Alternatively, you can always implement a timeout
+        # (e.g. with subprocess)
 
         # os.system('/root/MATLAB_run_script.sh /opt/mcr/v92')
 
@@ -68,8 +71,8 @@ def run(context):
     analysis_data = context.fetch_analysis_data()
 
     # Get the complete list of input file handlers
-    input_files = context.get_files('input')  # You can add fitlers (modality, tags...)
-
+    # You can add fitlers (modality, tags...)
+    input_files = context.get_files('input')
     # Download them
     for file_handler in input_files:
         file_handler.download('/root/')
@@ -78,7 +81,8 @@ def run(context):
         # ...
 
         # And upload the results
-        # context.upload_file(path, path_in_output)  # You can add filters (modality, tags...)
+        # context.upload_file(path, path_in_output)
+        # # You can add filters (modality, tags...)
 """
 
 mrinfo_mrtrix_default_tool = """

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/local/client.py

@@ -16,7 +16,8 @@ class LocalExecClient(ExecClient):  # Override main execution client
         Parameters
         ----------
         state : AnalysisState
-            One of AnalysisState.RUNNING, AnalysisState.COMPLETED, AnalysisState.EXCEPTION or AnalysisState.NO_FILES
+            One of AnalysisState.RUNNING, AnalysisState.COMPLETED,
+            AnalysisState.EXCEPTION or AnalysisState.NO_FILES
         kwargs : dict
         """
         logging.getLogger(__name__).info(

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/local/context.py

@@ -30,7 +30,8 @@ class LocalAnalysisContext:
 
     def __init__(self, settings, src_folder, out_folder, res_folder):
         """
-        Context object that interfaces with the QMENTA platform. Should not be created directly.
+        Context object that interfaces with the QMENTA platform.
+        Should not be created directly.
         """
 
         self.__settings = settings
@@ -45,14 +46,17 @@ class LocalAnalysisContext:
         Returns
         -------
         dict
-            Dictionary that contains important information about the current analysis, such as:
+            Dictionary that contains important information about
+            the current analysis, such as:
                 * state (str) : State of the analysis
                 * name (str) : Name of the analysis
                 * script_name (str) : Name of the script
-                * user_id (str) : Username of the user that started the analysis
+                * user_id (str) : Username of the user that started
+                  the analysis
                 * patient_secret_name (str) : Name of the subject
                 * ssid (str) : Timepoint identifier
-                * settings (dict) : Settings dictionary. See documentation in method `get_settings`
+                * settings (dict) : Settings dictionary.
+                  See documentation in method `get_settings`
                 * tags (list) : List of tags
                 * version (str) : Tool version
         """
@@ -83,11 +87,13 @@ class LocalAnalysisContext:
         status : QCStatus
             QCStatus.PASS or QCStatus.FAIL
         comments : str, optional
-            Additional comments explaining why the QC status has been set to pass or fail.
+            Additional comments explaining why
+            the QC status has been set to pass or fail.
         entity : QCEntity, optional
             QCEntity.ANALYSIS or QCEntity.SESSION
         input_id : str, optional
-            The id of the session in the settings definition when entity is QCEntity.SESSION
+            The id of the session in the settings definition when
+            entity is QCEntity.SESSION
         """
         logger = logging.getLogger(__name__)
 
@@ -148,7 +154,8 @@ class LocalAnalysisContext:
         Parameters
         ----------
         value : int, optional
-            Number between 0 and 100 indicating the current status of the execution
+            Number between 0 and 100 indicating the current status of the
+            execution
         message : str, optional
             Progress message.
         """
@@ -164,12 +171,14 @@ class LocalAnalysisContext:
             value = int(value)  # Cast to int to avoid float/string problems
             if value > 100:
                 logger.warning(
-                    "The progress value should be between 0 and 100 (using 100 instead)"
+                    "The progress value should be between 0 and 100"
+                    "(using 100 instead)"
                 )
                 value = 100
             elif value < 0:
                 logger.warning(
-                    "The progress value should be between 0 and 100 (using 0 instead)"
+                    "The progress value should be between 0 and 100"
+                    "(using 0 instead)"
                 )
                 value = 0
 
@@ -196,8 +205,8 @@ class LocalAnalysisContext:
         subject_container_id=None,
     ):
         """
-         Returns the files in the input container specified by `input_id` that match the modality, tags
-         and regular expression, if any.
+         Returns the files in the input container specified by `input_id` that
+         match the modality, tags and regular expression, if any.
 
          Parameters
          ----------
@@ -207,12 +216,12 @@ class LocalAnalysisContext:
              Optional modality, will allow any modalities if None given.
              Default is None.
          tags : set, optional
-             Optional set of tags, will allow any tags if None given, and will match any set of tags (including
-             the empty set) otherwise.
+             Optional set of tags, will allow any tags if None given, and will
+             match any set of tags (including the empty set) otherwise.
              Default is None.
          reg_expression : str, optional
-             Regular expression to match with the file names in the specified container, will allow any file names
-             if None given.
+             Regular expression to match with the file names in the specified
+             container, will allow any file names if None given.
              Default is None.
          file_filter_condition_name : str, optional
              File filter specified in the settings of the tool.
@@ -235,8 +244,11 @@ class LocalAnalysisContext:
         # Create File
         for file_description in self.__settings[input_id]:
             if "path" not in file_description:
-                msg = 'Cannot find the key "path" for the input container {}'.format(
-                    input_id
+                msg = (
+                    'Cannot find the key "path" '
+                    'for the input container {}'.format(
+                        input_id
+                    )
                 )
                 logger.error(msg)
                 raise RuntimeError(msg)
@@ -343,7 +355,8 @@ class LocalAnalysisContext:
 
     def download_resource(self, resource_path, destination_path):
         """
-        Downloads a file from the user/group tool resources. The resource path can include subdirectories and must
+        Downloads a file from the user/group tool resources.
+        The resource path can include subdirectories and must
         be relative:
         Downloads a resource file to the container.
 
@@ -389,7 +402,8 @@ class LocalAnalysisContext:
 
     def _get_manual_analysis_data(self):
         """
-        Returns a dictionary with the manual analysis data generated during the manual step (user interaction)
+        Returns a dictionary with the manual analysis data generated during
+        the manual step (user interaction)
 
         Returns
         -------
@@ -399,7 +413,8 @@ class LocalAnalysisContext:
         logger = logging.getLogger(__name__)
         logger.info("Getting manual analysis data")
         logger.warning(
-            "Getting manual analysis data is not supported locally. Skipping..."
+            "Getting manual analysis data is not supported locally. "
+            "Skipping..."
         )
         return {}
 
@@ -424,7 +439,8 @@ class LocalAnalysisContext:
         title : str, optional
             How the metadata field should be presented
         readonly : bool, optional
-            Whether the user should be able to edit the value on the platform or not (only by analyses)
+            Whether the user should be able to edit the value on the platform
+            or not (only by analyses)
         """
         logger = logging.getLogger(__name__)
 
@@ -476,12 +492,14 @@ class LocalAnalysisContext:
 
     def _assure_metadata_parameters(self, params):
         """
-        Check whether a metadata parameter exists, creating it if not. Not supported for local testing.
+        Check whether a metadata parameter exists, creating it if not.
+        Not supported for local testing.
 
         Parameters
         ----------
         params : dict
-            The definition of the parameter. It may contain "title", "type", "visible", "readonly" or "order".
+            The definition of the parameter. It may contain "title", "type",
+            "visible", "readonly" or "order".
         """
         logger = logging.getLogger(__name__)
         logger.info("Setting metadata param (ckeck): {}".format(params))
@@ -509,7 +527,8 @@ class LocalAnalysisContext:
 class LocalFile:
     def __init__(self, name, input_container_path, modality, tags, file_info):
         """
-        Object that represents a file and all its metadata in the platform. Should not be created directly.
+        Object that represents a file and all its metadata in the platform.
+        Should not be created directly.
         """
         self.name = name
         self.__input_container_path = input_container_path
@@ -543,13 +562,16 @@ class LocalFile:
 
     def get_file_info(self):
         """
-        Get the file information. The type of information depends on the type of file
-        (e.g. nifti files include information such as 'Data strides', 'Data type', 'Dimensions' or 'Voxel size').
+        Get the file information.
+        The type of information depends on the type of file
+        (e.g. nifti files include information such as 'Data strides',
+        'Data type', 'Dimensions' or 'Voxel size').
 
         Returns
         -------
         dict
-            Dictionary of key-value pairs that depend on the format of the file.
+            Dictionary of key-value pairs that depend on the format of
+            the file.
         """
         return self.__file_info
 
@@ -579,8 +601,11 @@ class LocalFile:
             If `get_file_path` is called before the file has been downloaded
         """
         if self.__download_path is None:
-            err_msg = "File {!r} has no path because it has not been downloaded".format(
-                self.name
+            err_msg = (
+                    "File {!r} has no path because it has".format(
+                        self.name
+                    ),
+                    "not been downloaded"
             )
             logging.getLogger(__name__).error(err_msg)
             raise RuntimeError(err_msg)
@@ -607,14 +632,16 @@ class LocalFile:
 
     def download(self, dest_path, unpack=True):
         """
-        Downloads a file or the contents of a packed file to to the specified `path`.
+        Downloads a file or the contents of a packed file to to the specified
+        `path`.
 
         Parameters
         ----------
         dest_path:
             Path where the file should be downloaded to.
         unpack:
-            Tells the function whether the file should be unpacked to the given folder.
+            Tells the function whether the file should be unpacked to the
+            given folder.
 
         Returns
         -------
@@ -630,7 +657,8 @@ class LocalFile:
         logger.debug("Using path {!r}".format(dest_path))
 
         if source_file.endswith(".zip") and unpack:
-            # Download the zip to a temporary directory and unpack its contents to the user dir path
+            # Download the zip to a temporary directory and unpack its
+            # contents to the user dir path
             with TemporaryDirectory() as temp_dir:
                 temp_path = os.path.join(temp_dir, source_file)
                 self.__download_file(temp_path)

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/local/executor.py

@@ -12,13 +12,15 @@ from qmenta.sdk.local.parse_settings import parse_tool_settings
 
 def parse_args():
     argp = argparse.ArgumentParser(
-        description="Local executor for debugging and testing purposes (SDK version {})".format(
+        description="Local executor for debugging and testing purposes (SDK "
+        "version {})".format(
             __version__
         )
     )
     argp.add_argument(
         "settings",
-        help="JSON file that defines the settings of the tool to be run. Uses same syntax as in platform. "
+        help="JSON file that defines the settings of the tool to be run."
+        "Uses same syntax as in platform. "
         "See qmenta_sdk/examples/",
     )
     argp.add_argument(
@@ -28,22 +30,26 @@ def parse_args():
     argp.add_argument(
         "src_folder",
         help="Source folder where the inputs of the analysis are stored."
-        'That is you "get_files" from this folder, that represents an input container.',
+        'That is you "get_files" from this folder, that represents an input'
+        'container.',
     )
     argp.add_argument(
         "dst_folder",
-        help="Destination folder where the outputs of the analysis will be stored."
+        help="Destination folder where the outputs of the analysis will be"
+        "stored."
         'That is, when you "upload_file", the file is stored in this folder.',
     )
     argp.add_argument(
         "--res-folder",
-        help="Folder where the different template files required by the analysis are stored.",
+        help="Folder where the different template files required by the"
+        "analysis are stored.",
         default=None,
     )
     argp.add_argument(
         "--tool-path",
         required=True,
-        help="Path to the Python tool (package.module:function) to be executed",
+        help="Path to the Python tool (package.module:function)"
+        "to be executed",
     )
     argp.add_argument("--log-path", help="Log file")
     argp.add_argument(

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/log_capture.py

@@ -4,7 +4,8 @@ from contextlib import contextmanager
 
 class LogCaptureHandler(logging.Handler):
     """
-    Log handler that captures all messages that it handles and exposes them as a list in `log_sequence` attribute.
+    Log handler that captures all messages that it handles and exposes them as
+    a list in `log_sequence` attribute.
     """
 
     def __init__(self):
@@ -34,30 +35,35 @@ class GlobFilter(logging.Filter):
 @contextmanager
 def capture_log(logger_name_glob, log_level=logging.INFO):
     """
-    Context manager that captures the logs of all loggers that satisfy `logger_name_glob`
-    with associated severity greater or equal than `log_level`.
+    Context manager that captures the logs of all loggers that satisfy
+    `logger_name_glob` with associated severity greater or equal than
+    `log_level`.
 
     Parameters
     ----------
     logger_name_glob : str
         Glob expression that specified the loggers should be captured.
     log_level : int, optional
-        Minimum severity level to be captured, included. Default is logging.INFO.
+        Minimum severity level to be captured, included.
+        Default is logging.INFO.
 
     Returns
     -------
     LogCaptureHandler
-        Handler that exposes the `log_sequence` attribute, which consists of a list of captured messages.
+        Handler that exposes the `log_sequence` attribute, which consists of a
+        list of captured messages.
 
     Examples
     --------
     >>> logger = logging.getLogger('package.module.method')
-    >>> with capture_log('package.module.*', log_level=logging.WARNING) as captured_logs:
+    >>> with capture_log('package.module.*', log_level=logging.WARNING)
+        as captured_logs:
     ...     logger.info("This info message won't be captured")
     ...     logger.warning("This warning message will be captured")
     ...     logger.critical("This critical message will be also captured")
     ...     print([record.msg for record in captured_logs.log_sequence])
-    ['This warning message will be captured', 'This critical message will be also captured']
+    ['This warning message will be captured', 'This critical message will be
+    also captured']
     """
     # Set up the handler, filter and log level
     root_logger = logging.getLogger()

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/make_entrypoint.py

@@ -8,7 +8,8 @@ export PYTHONPATH="${{PYTHONPATH:+$PYTHONPATH:}}{tool_path}"
 # ...
 
 # Source the export_paths.txt file if exist to load the system paths.
-# This file is created in the ci when performing a multi-level build of the docker images
+# This file is created in the ci when performing a multi-level build
+# of the docker images
 
 if [ -f "/root/export_paths.txt" ]; then
 source /root/export_paths.txt

{qmenta_sdk_lib-2.2.dev3493 → qmenta_sdk_lib-2.2.dev3494}/python/qmenta/sdk/tool_maker/inputs.py

@@ -209,7 +209,8 @@ class ContainerHandler(Input):
                     analysis_dir, "input_folder", self.id, folder_to_save_file
                 )
 
-                # This takes into account the path of the file in the input container in the platform
+                # This takes into account the path of the file in the input
+                # container in the platform
                 logger.info(f"Saving to path: {os.path.dirname(fpath)}.")
 
                 # in local testing, we need to create the directory