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QCImporter

Generic Workflow Nodes for KNIME: OpenMS version 2.6.0.202009301213 by Freie Universitaet Berlin, Universitaet Tuebingen, and the OpenMS Team

Imports tables with quality control parameters into qcml files.

Web Documentation for QCImporter

Options

version
Version of the tool that generated this parameters file.
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)

Input Ports

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Input qcml file [qcML,opt.]
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The table containing the additional qp values in the columns. First row is considered containing the header. The target run or set names/ids are indicated by column "raw data file", so each row after the header will contain the values of qps for that run. (csv without "!) [csv]
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The mapping of the table header to the according qp cvs, also in csv format. The first row is considered containing the headers as in the table. The second row is considered the according qp cv accessions. (csv without "!) [csv]

Output Ports

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Output extended qcML file [qcML]

Views

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

Best Friends (Incoming)

Best Friends (Outgoing)

Installation

To use this node in KNIME, install OpenMS from the following update site:

KNIME 4.3

A zipped version of the software site can be downloaded here.

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Developers

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