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How to create count matrix Rapclust with config.yaml? #20

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mathavanpu opened this issue Dec 8, 2021 · 0 comments
Open

How to create count matrix Rapclust with config.yaml? #20

mathavanpu opened this issue Dec 8, 2021 · 0 comments

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@mathavanpu
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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

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