Merge pull request #1 from joaorafaelalmeida/main

Dockerize application
cobilab · Sep 30, 2021 · d3bbec6 · d3bbec6
2 parents c0e3d6b + 8d1a81b
commit d3bbec6
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diff --git a/Dockerfile b/Dockerfile
@@ -0,0 +1,20 @@
+FROM ubuntu:20.04
+
+ENV PATH="/root/miniconda3/bin:${PATH}"
+ARG PATH="/root/miniconda3/bin:${PATH}"
+
+RUN apt update && apt install -y python3-pip wget
+
+RUN wget \
+    https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh \
+    && mkdir /root/.conda \
+    && bash Miniconda3-latest-Linux-x86_64.sh -b \
+    && rm -f Miniconda3-latest-Linux-x86_64.sh 
+
+ADD . /RFSC
+
+WORKDIR /RFSC
+
+RUN ./RFSC.sh --install
+
+CMD tail -f >> /dev/null
diff --git a/Miniconda3-latest-Linux-x86_64.sh b/Miniconda3-latest-Linux-x86_64.sh
diff --git a/Miniconda3-latest-Linux-x86_64.sh.1 b/Miniconda3-latest-Linux-x86_64.sh.1
diff --git a/ORFs/ORFfinder b/ORFs/ORFfinder
diff --git a/ORFs/orfm/orfm b/ORFs/orfm/orfm
diff --git a/ORFs/orfm/orfm-0.7.1_Linux_x86_64 b/ORFs/orfm/orfm-0.7.1_Linux_x86_64
diff --git a/README.md b/README.md
@@ -6,6 +6,7 @@
 
 RFSC is a Reference-Free Sequence Classification Tool that using machine learning classifiers relies on an ensemble of experts in order to provide efficient classification in metagenomic contexts.
 
+
 ## Instalation
 
 ```sh
@@ -14,6 +15,15 @@ cd RFSC
 ./RFSC.sh --install
 ```
 
+## Using Docker
+
+```sh
+git clone https://github.com/cobilab/RFSC
+cd RFSC
+docker-compose build
+docker-compose up -d && docker exec -it rfsc bash && docker-compose down
+```
+
 ## Build NCBI Reference Databases
 
 ```sh

diff --git a/docker-compose.yaml b/docker-compose.yaml
@@ -0,0 +1,10 @@
+version: "3"
+
+services:
+  src:
+    container_name: rfsc
+    build:
+      context: .
+      dockerfile: Dockerfile
+    volumes:
+      - ./:/RFSC/