Commit a94528d0 authored by Son Hoang Nguyen's avatar Son Hoang Nguyen
Browse files

Add Docker instruction

parent f5cd4c9d

README.md

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@@ -24,6 +24,23 @@ https://github.com/genometools/genometools 
## Virtual machine

An Ubuntu virtual machine with the latest version of TE-greedy-nester installed is available at http://hedron.fi.muni.cz/TEgnester



## Docker container

[Docker container](https://hub.docker.com/repository/docker/tegreedy/nested) is available from docker hub.

Example how to run:

```

# help

docker run tegreedy/nested:2.0.0 nested-nester --help

```

```

# create woking and output directories

mkdir -p data/nester_out && cd data

# get test data

wget https://gitlab.fi.muni.cz/lexa/nested/-/raw/master/test_data/151kb_adh1_bothPrimes.fasta

# run nester

docker run -v ${PWD}:/data tegreedy/nested:2.0.0 nested-nester -d /data/nester_out -n 4 /data/151kb_adh1_bothPrimes.fasta



```



## Installation - a step-by-step guide

The following is an installation procedure that works on our recent Linux Ubuntu based machines.