How To Install primer3 on Fedora 34

primer3 is PCR primer design tool

Introduction

In this tutorial we learn how to install primer3 on Fedora 34.

What is `primer3`

Primer3 is a widely used program for designing PCR primers (PCR = “Polymerase Chain Reaction”). PCR is an essential and ubiquitous tool in genetics and molecular biology. Primer3 can also design hybridization probes and sequencing primers. PCR is used for many different goals. Consequently, primer3 has many different input parameters that you control and that tell primer3 exactly what characteristics make good primers for your goals.

We can use yum or dnf to install primer3 on Fedora 34. In this tutorial we discuss both methods but you only need to choose one of method to install primer3.

Install primer3 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 primer3 using dnf by running the following command:

sudo dnf -y install primer3

Install primer3 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 primer3 using yum by running the following command:

sudo yum -y install primer3

How To Uninstall primer3 on Fedora 34

To uninstall only the primer3 package we can use the following command:

sudo dnf remove primer3

primer3 Package Contents on Fedora 34

/etc/primer3_config
/etc/primer3_config/dangle.dh
/etc/primer3_config/dangle.ds
/etc/primer3_config/interpretations
/etc/primer3_config/interpretations/dangle_i.dh
/etc/primer3_config/interpretations/dangle_i.ds
/etc/primer3_config/interpretations/loops_i.dh
/etc/primer3_config/interpretations/loops_i.ds
/etc/primer3_config/interpretations/stack_i.dh
/etc/primer3_config/interpretations/stack_i.ds
/etc/primer3_config/interpretations/stackmm_i_mm.dh
/etc/primer3_config/interpretations/stackmm_i_mm.ds
/etc/primer3_config/interpretations/tetraloop_i.dh
/etc/primer3_config/interpretations/tetraloop_i.ds
/etc/primer3_config/interpretations/triloop_i.dh
/etc/primer3_config/interpretations/triloop_i.ds
/etc/primer3_config/interpretations/tstack2_i.dh
/etc/primer3_config/interpretations/tstack2_i.ds
/etc/primer3_config/interpretations/tstack_i.dh
/etc/primer3_config/interpretations/tstack_i.ds
/etc/primer3_config/interpretations/tstack_tm_inf_i.dh
/etc/primer3_config/interpretations/tstack_tm_inf_i.ds
/etc/primer3_config/loops.dh
/etc/primer3_config/loops.ds
/etc/primer3_config/stack.dh
/etc/primer3_config/stack.ds
/etc/primer3_config/stackmm.dh
/etc/primer3_config/stackmm.ds
/etc/primer3_config/tetraloop.dh
/etc/primer3_config/tetraloop.ds
/etc/primer3_config/triloop.dh
/etc/primer3_config/triloop.ds
/etc/primer3_config/tstack.dh
/etc/primer3_config/tstack2.dh
/etc/primer3_config/tstack2.ds
/etc/primer3_config/tstack_tm_inf.ds
/usr/bin/ntdpal
/usr/bin/oligotm
/usr/bin/primer3_core
/usr/lib/.build-id
/usr/lib/.build-id/37
/usr/lib/.build-id/37/7a898fe6fe56fbec8353edd756cf954e719fc4
/usr/lib/.build-id/3f
/usr/lib/.build-id/3f/8ded88a6ba390bef5f1eca2267b8feb9ddc825
/usr/lib/.build-id/b3
/usr/lib/.build-id/b3/c7d1f682e699339d339c8a1f45e34866110749
/usr/share/doc/primer3
/usr/share/doc/primer3/README.md
/usr/share/doc/primer3/example
/usr/share/doc/primer3/p3_th_settings.txt
/usr/share/doc/primer3/primer3_v1_1_4_default_settings.txt
/usr/share/doc/primer3/primer3web_v0_4_0_default_settings.txt
/usr/share/doc/primer3/primer3web_v3_0_0_default_settings.txt
/usr/share/doc/primer3/primer3web_v4_0_0_default_settings.txt
/usr/share/licenses/primer3
/usr/share/licenses/primer3/LICENSE

References

primer3 website

Summary

In this tutorial we learn how to install primer3 on Fedora 34 using yum and dnf.