OpenSwathOSWWriter

class pyopenms.OpenSwathOSWWriter

Bases: object

Cython implementation of _OpenSwathOSWWriter

Original C++ documentation is available here

__init__()

Overload:

__init__(self, output_filename: Union[bytes, str, String], run_id: int, input_filename: Union[bytes, str, String], ms1_scores: bool, sonar: bool, uis_scores: bool) → None

Overload:

Methods

`__init__`	Overload:
`isActive`(self)
`prepareLine`(self, compound, tr, output, id_)	Prepare a single line (feature) for output
`writeHeader`(self)	Initializes file by generating SQLite tables
`writeLines`(self, to_osw_output)	Write data to disk

prepareLine(self, compound: LightCompound, tr: LightTransition, output: FeatureMap, id_: Union[bytes, str, String]) → Union[bytes, str, String]

Prepare a single line (feature) for output

The result can be flushed to disk using writeLines (either line by line or after collecting several lines)

Parameters

pep – The compound (peptide/metabolite) used for extraction
transition – The transition used for extraction
output – The feature map containing all features (each feature will generate one entry in the output)
id – The transition group identifier (peptide/metabolite id)

Returns

A String to be written using writeLines

writeLines(self, to_osw_output: List[bytes]) → None

Write data to disk

Takes a set of pre-prepared data statements from prepareLine and flushes them to disk