---
title: Install pathogenie on openSUSE using the Snap Store | Snapcraft
description: Get the latest version of pathogenie for on openSUSE - microbial genome
  annotation and gene finding tool
url: https://snapcraft.io/install/pathogenie/opensuse
---

[Canonical Snapcraft](https://snapcraft.io/)

# Install pathogenie on **openSUSE**

# pathogenie

[Damien Farrell (dmnfarrell)](https://snapcraft.io/publisher/dmnfarrell "View all snaps from Damien Farrell (dmnfarrell)")

* [Damien Farrell (dmnfarrell)](https://snapcraft.io/publisher/dmnfarrell "View all snaps from Damien Farrell (dmnfarrell)")
* [Science](https://snapcraft.io/search?categories=science)

[Install](https://snapcraft.io/install/pathogenie/opensuse#install)

#### microbial genome annotation and gene finding tool

pathogenie is a desktop and command line program for annotating draft bacterial
and viral genomes. It may also be used for quickly detecting arbitrary sequences such
as antibiotic resistance genes (AMR) proteins in nucleotide sequences. It uses Blast
to find hits to known gene sequences from sequence databases. The inputs are fasta files.
Annotation is performed in a similar manner to Prokka and first requires an assembled
genome if you have sequenced reads.
From the GUI you may load fasta files into a table and then run genome annotation or gene finding with custom databases. This program utilizes the sequence databases for gene finding compiled by abricate.
This program is under development. Suggestions are welcome.

### Package name

* pathogenie

---

### License

* GPL-3.0+

---

### Last updated

* 31 January 2021 - latest/beta

This snap hasn't been updated in a while. It might be unmaintained and have stability or security issues.

---

### Websites

* [github.com/dmnfarrell/pathogenie](https://github.com/dmnfarrell/pathogenie "https://github.com/dmnfarrell/pathogenie")

---

### Contact

* [github.com/dmnfarrell](https://github.com/dmnfarrell "https://github.com/dmnfarrell")

---

##### Report a Snap Store violation

* [Report this Snap](https://snapcraft.io/install/pathogenie/opensuse#report-snap-modal)

---

## Enable snaps on openSUSE and install pathogenie

Snaps are applications packaged with all their dependencies to run on all popular Linux distributions from a single build. They update automatically and roll back gracefully.

Snaps are discoverable and installable from the [Snap Store](https://snapcraft.io/store), an app store with an audience of millions.

### Enable snapd

Snap can be installed from the command line on openSUSE Leap 15.x and Tumbleweed.

You need first add the *snappy* repository from the terminal. Choose the appropriate command depending on your installed openSUSE flavor.

Tumbleweed:

```
sudo zypper addrepo --refresh https://download.opensuse.org/repositories/system:/snappy/openSUSE_Tumbleweed snappy
```

Leap 15.x:

```
sudo zypper addrepo --refresh https://download.opensuse.org/repositories/system:/snappy/openSUSE_Leap_15.6 snappy
```

If needed, Swap out `openSUSE_Leap_15.` for, `openSUSE_Leap_16.0` if you’re using a different version of openSUSE.

With the repository added, import its GPG key:

```
sudo zypper --gpg-auto-import-keys refresh
```

Finally, upgrade the package cache to include the new *snappy* repository:

```
sudo zypper dup --from snappy
```

Snap can now be installed with the following:

```
sudo zypper install snapd
```

You then need to either reboot, logout/login or `source /etc/profile` to have /snap/bin added to PATH.
Additionally, enable and start both the *snapd* and the *snapd.apparmor* services with the following commands:

```
sudo systemctl enable --now snapd
sudo systemctl enable --now snapd.apparmor
```

### Install pathogenie

To install pathogenie, simply use the following command:

```
sudo snap install pathogenie --beta
```

### Other popular snaps…

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[See more in Featured](https://snapcraft.io/search?categories=featured)

### More things to do…

#### [Get the snap store](https://snapcraft.io/snap-store)

Browse and find snaps from the convenience of your desktop using the snap store snap.

#### [Learn more about snaps](https://snapcraft.io/docs)

Interested to find out more about snaps? Want to publish your own application? Visit [snapcraft.io](https://snapcraft.io/) now.

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