GIGI2 is a computer program to impute missing genotypes on pedigrees. The
approach handles large pedigrees by using a Markov Chain Monte Carlo-based
program to infer inheritance vectors. Our approach has 2 steps: 1. use the
program gl_auto from the MORGAN package to infer inference vectors using
genotypes from informative framework markers 2. use GIGI to impute missing
genotypes.
Note 1: gl_auto and MORGAN are NOT included in this snap, gl_auto
should be obtained through its own channels. GIGI2 inputs are outputs from gl_auto.
Note 2: The strict confinement of this app limits where it can write to. To allow it to write in your home directory, you need to attach the home interface to the snap. Likewise if you need to write to external devices mounted in /mnt or /media.
e.g. 'snap connect gigi2:home :home' to be able to write in your /home/user
and 'snap connect gigi2:removable-media :removable-media' to write in
/mnt/vol_name and /media/vol_name
If you need to write to other locations, then you will need to install the
snap in devmode, e.g. 'snap install --devmode gigi2' If it was already
installed and you need to install in devmode, then I recommend first
removing the currently installed version, 'snap remove gigi2'
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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, an app store with an audience of millions.
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
To install gigi2, simply use the following command:
sudo snap install gigi2
Browse and find snaps from the convenience of your desktop using the snap store snap.
Interested to find out more about snaps? Want to publish your own application? Visit snapcraft.io now.