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How to create count matrix Rapclust with config.yaml?

Open mathavanpu opened this issue 2 years ago • 0 comments

Hello, I have created quant files, while executing the Rapclust --config config.yaml, I got the error mentioned below

home/nucleome/.local/bin/RapClust:26: YAMLLoadWarning: calling yaml.load() without Loader=... is deprecated, as the default Loader is unsafe. Please read https://msg.pyyaml.org/load for full details. cfg = yaml.load(yamCfg) Traceback (most recent call last): File "/home/nucleome/.local/bin/RapClust", line 106, in processQuant() File "/usr/lib/python3/dist-packages/click/core.py", line 764, in call return self.main(*args, **kwargs) File "/usr/lib/python3/dist-packages/click/core.py", line 717, in main rv = self.invoke(ctx) File "/usr/lib/python3/dist-packages/click/core.py", line 956, in invoke return ctx.invoke(self.callback, **ctx.params) File "/usr/lib/python3/dist-packages/click/core.py", line 555, in invoke return callback(*args, **kwargs) File "/home/nucleome/.local/bin/RapClust", line 26, in processQuant cfg = yaml.load(yamCfg) File "/usr/lib/python3/dist-packages/yaml/init.py", line 114, in load return loader.get_single_data() File "/usr/lib/python3/dist-packages/yaml/constructor.py", line 49, in get_single_data node = self.get_single_node() File "/usr/lib/python3/dist-packages/yaml/composer.py", line 36, in get_single_node document = self.compose_document() File "/usr/lib/python3/dist-packages/yaml/composer.py", line 55, in compose_document node = self.compose_node(None, None) File "/usr/lib/python3/dist-packages/yaml/composer.py", line 84, in compose_node node = self.compose_mapping_node(anchor) File "/usr/lib/python3/dist-packages/yaml/composer.py", line 127, in compose_mapping_node while not self.check_event(MappingEndEvent): File "/usr/lib/python3/dist-packages/yaml/parser.py", line 98, in check_event self.current_event = self.state() File "/usr/lib/python3/dist-packages/yaml/parser.py", line 438, in parse_block_mapping_key raise ParserError("while parsing a block mapping", self.marks[-1], yaml.parser.ParserError: while parsing a block mapping in "config.yaml", line 1, column 1 expected , but found '' in "config.yaml", line 9, column 2

mathavanpu avatar Dec 08 '21 06:12 mathavanpu