How To Install bionetgen on Fedora 34
Introduction
In this tutorial we learn how to install bionetgen on Fedora 34.
What is bionetgen
BioNetGen is software for the specification and simulation of rule-based models of biochemical systems, including signal transduction, metabolic, and genetic regulatory networks. The BioNetGen language has recently been extended to include explicit representation of compartments. A review of methods for rule-based modeling is available in Science Signaling (Sci. STKE, 18 July 2006, Issue 344, p. re6). BioNetGen is presently a mixture of Perl and C++. Network generation is currently implemented in Perl, the network simulator is C++, and a new language parser is being developed with ANTLR.
We can use yum or dnf to install bionetgen on Fedora 34. In this tutorial we discuss both methods but you only need to choose one of method to install bionetgen.
Install bionetgen on Fedora 34 Using dnf
Update yum database with dnf using the following command.
sudo dnf makecache --refresh
The output should look something like this:
Fedora 34 - x86_64 20 kB/s | 6.6 kB 00:00
Fedora 34 openh264 (From Cisco) - x86_64 1.4 kB/s | 989 B 00:00
Fedora Modular 34 - x86_64 68 kB/s | 6.5 kB 00:00
Fedora 34 - x86_64 - Updates 3.5 kB/s | 6.2 kB 00:01
Fedora Modular 34 - x86_64 - Updates 17 kB/s | 5.9 kB 00:00
Metadata cache created.
After updating yum database, We can install bionetgen using dnf by running the following command:
sudo dnf -y install bionetgen
Install bionetgen on Fedora 34 Using yum
Update yum database with yum using the following command.
sudo yum makecache --refresh
The output should look something like this:
Fedora 34 - x86_64 20 kB/s | 6.6 kB 00:00
Fedora 34 openh264 (From Cisco) - x86_64 1.4 kB/s | 989 B 00:00
Fedora Modular 34 - x86_64 68 kB/s | 6.5 kB 00:00
Fedora 34 - x86_64 - Updates 3.5 kB/s | 6.2 kB 00:01
Fedora Modular 34 - x86_64 - Updates 17 kB/s | 5.9 kB 00:00
Metadata cache created.
After updating yum database, We can install bionetgen using yum by running the following command:
sudo yum -y install bionetgen
How To Uninstall bionetgen on Fedora 34
To uninstall only the bionetgen package we can use the following command:
sudo dnf remove bionetgen
bionetgen Package Contents on Fedora 34
/usr/bin/run_network
/usr/lib/.build-id
/usr/lib/.build-id/d2
/usr/lib/.build-id/d2/ffa5ae51f784e5e5ae0df2a8e9d8c0a71d57e3
/usr/share/doc/bionetgen
/usr/share/doc/bionetgen/CHANGES.txt
/usr/share/doc/bionetgen/CREDITS.txt
/usr/share/doc/bionetgen/README.md
/usr/share/doc/bionetgen/VERSION
/usr/share/licenses/bionetgen
/usr/share/licenses/bionetgen/LICENSE
References
Summary
In this tutorial we learn how to install bionetgen on Fedora 34 using yum and dnf.
