Closed lucananni93 closed 6 years ago
When a dataset that has the region field index the following error occurs:
--------------------------------------------------------------------------- AttributeError Traceback (most recent call last) <ipython-input-15-c63d645cfc40> in <module>() 1 all_h3k27ac_peaks_gmql = gl.from_pandas(all_h3k27ac_peaks, chr_name="chr", 2 start_name="start", stop_name="end", ----> 3 strand_name="strand").to_GMQLDataset() ~/software/PyGMQL/gmql/dataset/GDataframe.py in to_GMQLDataset(self, local_path, remote_path) 75 76 if local is not None: ---> 77 return Loader.load_from_path(local_path=local) 78 elif remote is not None: 79 raise NotImplementedError("The remote loading is not implemented yet!") ~/software/PyGMQL/gmql/dataset/loaders/Loader.py in load_from_path(local_path, parser, all_load) 89 location="local", path_or_name=local_path, 90 local_sources=local_sources, ---> 91 meta_profile=meta_profile) 92 93 ~/software/PyGMQL/gmql/dataset/GMQLDataset.py in __init__(self, parser, index, location, path_or_name, local_sources, remote_sources, meta_profile) 56 # setting the schema as properties of the dataset 57 for field in self.schema: ---> 58 self.__setattr__(field, self.RegField(field)) 59 # add also left and right 60 self.left = self.RegField("left") ~/software/PyGMQL/gmql/dataset/GMQLDataset.py in RegField(self, name) 127 :return: a RegField instance 128 """ --> 129 return RegField(name=name, index=self.index) 130 131 def select(self, meta_predicate=None, region_predicate=None, ~/software/PyGMQL/gmql/dataset/DataStructures/RegField.py in __init__(self, name, index, region_condition, reNode) 12 self.region_condition = region_condition 13 pymg = get_python_manager() ---> 14 self.exp_build = pymg.getNewExpressionBuilder(self.index) 15 # check that the name is not already complex 16 if not (name.startswith("(") and name.endswith(")")) and reNode is None: ~/anaconda3/envs/bio/lib/python3.6/site-packages/py4j/java_gateway.py in __call__(self, *args) 1149 1150 def __call__(self, *args): -> 1151 args_command, temp_args = self._build_args(*args) 1152 1153 command = proto.CALL_COMMAND_NAME +\ ~/anaconda3/envs/bio/lib/python3.6/site-packages/py4j/java_gateway.py in _build_args(self, *args) 1119 1120 args_command = "".join( -> 1121 [get_command_part(arg, self.pool) for arg in new_args]) 1122 1123 return args_command, temp_args ~/anaconda3/envs/bio/lib/python3.6/site-packages/py4j/java_gateway.py in <listcomp>(.0) 1119 1120 args_command = "".join( -> 1121 [get_command_part(arg, self.pool) for arg in new_args]) 1122 1123 return args_command, temp_args ~/anaconda3/envs/bio/lib/python3.6/site-packages/py4j/protocol.py in get_command_part(parameter, python_proxy_pool) 288 command_part += ";" + interface 289 else: --> 290 command_part = REFERENCE_TYPE + parameter._get_object_id() 291 292 command_part += "\n" AttributeError: 'RegField' object has no attribute '_get_object_id'
When a dataset that has the region field index the following error occurs: