How To Install MRMPairFinder on Ubuntu 22.04

One-liner install command

For those in a hurry, here's a one-line installation command:

sudo apt-get update && sudo apt -y install topp

But if you are interested in the detailed steps with descriptions, the following information is for you.

What is MRMPairFinder and what are the ways to install it?

Before beginning this tutorial, you will need access to a server or computer running Ubuntu 22.04. This guide was written specifically with a server running Ubuntu 22.04 in mind, although it should also work on older, supported versions of the operating system.

Also, make sure you are running a regular, non-root user with sudo privileges configured on your server. When you have an account available, log in as your non-root user to begin.

There are several ways to install MRMPairFinder on Ubuntu 22.04. You can use (links are clickable):

In the following sections, we will describe each method in detail. You can choose one of them or refer to the recommended one.

Install MRMPairFinder using apt-get

First, update apt database with apt-get using the following command.

sudo apt-get update

After updating apt-get database, You can install MRMPairFinder using apt by running the following command:

sudo apt -y install topp

Install MRMPairFinder using apt

Because MRMPairFinder is available in Ubuntu 22.04’s default repositories, it is possible to install it from these repositories using the apt packaging system.

To begin, update apt database with apt using the following command.

sudo apt update

After updating apt database, You can install MRMPairFinder using apt by running the following command:

sudo apt -y install topp

Install MRMPairFinder using aptitude

If you want to follow this method, you might need to install aptitude first since aptitude is usually not installed by default on Ubuntu 22.04. Update apt database with aptitude using the following command.

sudo aptitude update

After updating aptitude database, You can install MRMPairFinder by running the following command:

sudo aptitude -y install topp

How to upgrade (update) a single package MRMPairFinder using apt-get?

First, you will need to update packages index. Run update command as usual:

sudo apt-get update

Next, to upgrade only the MRMPairFinder, e.g. single package, you should use the following format with the apt-get command/apt command:

sudo apt-get --only-upgrade install topp

Note that this command will not install any new packages! If you wish to install the package if it doesn't exist you may leave out --only-upgrade part.

sudo apt-get install topp

How To Uninstall MRMPairFinder from Ubuntu 22.04

To uninstall only the MRMPairFinder package you can execute the following command:

sudo apt-get remove topp

Uninstall MRMPairFinder and all its dependencies

To uninstall MRMPairFinder and its dependencies that are no longer needed by Ubuntu 22.04, you can use the command below:

sudo apt-get -y autoremove topp

Remove MRMPairFinder with all configurations and data

To remove MRMPairFinder configuration and data from your system you can run the following purge command:

sudo apt-get -y purge topp

Remove MRMPairFinder completely (configurations, data and all of its dependencies)

And lastly, you can run the next command to remove absolutely everything related to MRMPairFinder package, e.g.: configurations, data and all of its dependencies. Just use this command:

sudo apt-get -y autoremove --purge topp

Extra info and code examples

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.

Conclusion

You now have a full guide on how to install MRMPairFinder using apt, apt-get and aptitude tools. Also, we showed how to update as a single package and different ways to uninstall the MRMPairFinder from Ubuntu 22.04.

See also: