FileMerger

Options

version

Version of the tool that generated this parameters file.

in_type

Input file type (default: determined from file extension or content)

annotate_file_origin

Store the original filename in each feature using meta value "file_origin" (for featureXML and consensusXML only).

append_method

(ConsensusXML-only) Append quantitative information about features row-wise or column-wise. - 'append_rows' is usually used when the inputs come from the same MS run (e.g. caused by manual splitting or multiple algorithms on the same file) - 'append_cols' when you want to combine consensusXMLs from e.g. different fractions to be summarized in ProteinQuantifier or jointly exported with MzTabExporter.

log

Name of log file (created only when specified)

debug

Sets the debug level

threads

Sets the number of threads allowed to be used by the TOPP tool

no_progress

Disables progress logging to command line

force

Overrides tool-specific checks

test

Enables the test mode (needed for internal use only)

gap

The amount of gap (in seconds) to insert between the RT ranges of different input files. RT concatenation is enabled if a value > 0 is set.

rt_auto

Assign retention times automatically (integers starting at 1)

rt_custom

List of custom retention times that are assigned to the files. The number of given retention times must be equal to the number of input files.

rt_filename

Try to guess the retention time of a file based on the filename. This option is useful for merging DTA files, where filenames should contain the string 'rt' directly followed by a floating point number, e.g. 'my_spectrum_rt2795.15.dta'

ms_level

If 1 or higher, this number is assigned to spectra as the MS level. This option is useful for DTA files which do not contain MS level information.

Views

FileMerger Std Output

The text sent to standard out during the execution of FileMerger.

FileMerger Error Output

The text sent to standard error during the execution of FileMerger. (If it appears in gray, it's the output of a previously failing run which is preserved for your trouble shooting.)

Workflows

• Identification_quantification_with_inference_isobaric_epifany_MSstatsTMTOpenMS
• Identification_quantification_with_inference_isobaric_epifany_MSstatsTMTKNIME Hub

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Developers