RECETOX / galaxytools

Set of Galaxy tool wrappers developed at RECETOX
MIT License
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Add RIAssigner read RI from comments tool #482

Closed hechth closed 7 months ago

hechth commented 8 months ago

Add a new tool based on RIAssigner that reads single file in format supported by RIAssigner (msp, mgf, json, csv, tsv, tabular, parquet) and has a select to identify which retention index to assign.

Supported types should be SemiStdNP, StdNP and StdPolar. This should be passed to the Data.init_ri_from_comment(arg) function and then the result written back.

This function will not use the commandline interface of the package but will use the library directly.

The tool should output a file of the same format where the RI is replaced by the selected one that is present in the comments column. The previous values present in the RI colum should be removed, so that all values that are there are actually the ones read from the comments field.

Requirements: