SpectraMerger command not found

In this troubleshooting guide we learn how to fix SpectraMerger command not found error message

Introduction

When you run more command in linux terminal / console, you get the following error message

SpectraMerger: command not found

or when using sudo you get the following error message

sudo: SpectraMerger: command not found

Solutions to SpectraMerger: command not found

How To Fix SpectraMerger: command not found in Ubuntu / Debian / Kali Linux / Raspbian

In Ubuntu SpectraMerger is provided by topp package.

topp is:

TOPP (the OpenMS proteomic pipeline) is a pipeline for the analysis of HPLC/MS data. It consists of a set of numerous small applications that can be chained together to create analysis pipelines tailored for a specific problem. The applications make use of the libopenms library. Some examples of these applications are :

  • TOPPView: A viewer for mass spectrometry data.
  • TOPPAS: An assistant for GUI-driven TOPP workflow design.
  • DTAExtractor: Extracts spectra of an MS run file to several files in DTA format.
  • FileConverter: Converts between different MS file formats.
  • FileFilter: Extracts or manipulates portions of data from peak, feature or consensus feature files.
  • SpectraMerger: Merges spectra from an LC/MS map, either by precursor or by RT blocks.
  • BaselineFilter: Removes the baseline from profile spectra using a top-hat filter.
  • InternalCalibration: Applies an internal calibration.
  • PTModel: Trains a model for the prediction of proteotypic peptides from a training set.
  • RTPredict: Predicts retention times for peptides using a model trained by RTModel.
  • ExecutePipeline: Executes workflows created by TOPPAS.

To fix this problem, we can install more using the command below.

sudo apt-get -y install topp

This command might take some time to finish depending on your machine internet connection.

You can also use apt command to install topp.

sudo apt -y install topp

Or if you have aptitude installed you can use the following command.

sudo aptitude install topp

Summary

In this tutorial we learn how to fix SpectraMerger command not found error in Ubuntu / Debian / Kali Linux or Raspbian distribution.