Added scripts for creating docker image

Bayer-Group · Jun 3, 2024 · 75613b3 · 75613b3
1 parent 8128dab
commit 75613b3
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Showing 4 changed files with 60 additions and 2 deletions.
diff --git a/Dockerfile b/Dockerfile
@@ -0,0 +1,16 @@
+# syntax=docker/dockerfile:1
+
+# Use the .NET SDK as the base image for building the application
+FROM mcr.microsoft.com/dotnet/runtime:6.0 AS runtime
+
+# Set the working directory inside the container
+WORKDIR /app
+# the app/ folder contains the unzipped release files
+COPY app/ /app
+
+RUN echo '#!/bin/bash\ndotnet /app/Nirvana.dll "$@"' > /usr/bin/Nirvana && chmod +x /usr/bin/Nirvana
+RUN echo '#!/bin/bash\ndotnet /app/Annotator.dll "$@"' > /usr/bin/Annotator && chmod +x /usr/bin/Annotator
+RUN echo '#!/bin/bash\ndotnet /app/Downloader.dll "$@"' > /usr/bin/Downloader && chmod +x /usr/bin/Downloader
+RUN echo '#!/bin/bash\ndotnet /app/Jasix.dll "$@"' > /usr/bin/Jasix && chmod +x /usr/bin/Jasix
+RUN echo '#!/bin/bash\ndotnet /app/SAUtils.dll "$@"' > /usr/bin/SAUtils && chmod +x /usr/bin/SAUtils
+RUN echo '#!/bin/bash\ndotnet /app/Jist.dll "$@"' > /usr/bin/Jist && chmod +x /usr/bin/Jist
diff --git a/create_docker_image.sh b/create_docker_image.sh
@@ -0,0 +1,42 @@
+#!/bin/bash
+set -e
+
+########## Help function #############
+PrintHelp(){
+        echo "USAGE: ./create_docker_image.sh [path to zip file] [image tag]"
+        echo "       ./create_docker_image.sh ~/Download/IlluminaConnectedAnnotations-3.22.0-0-gc13dcb61-net6.0.zip 3.22.0"
+}
+#######################################
+Clean(){
+    echo "Cleaning code and build directories"
+    rm -rf app
+}
+#######################################
+BuildDocker(){
+    echo "Start building Illumina Connected Annotations docker...."
+    docker build -t $1:$2 .
+        echo "Building docker image for $1 finished!"
+}
+#######################################
+TestDocker(){
+    echo "Test $1 docker"
+    docker run --rm $1:$2 Annotator --version
+        echo "Test finished"
+}
+#######################################
+
+############ Checking arguments ########
+if [ "$#" -eq 0 ] || [ "$#" -gt 2 ] ; then
+        PrintHelp
+        exit
+fi
+
+FILE_PATH=$1
+TAG=$2
+IMAGE_NAME=illumina-connected-annotations
+
+Clean
+unzip $FILE_PATH -d app
+BuildDocker $IMAGE_NAME $TAG
+TestDocker $IMAGE_NAME $TAG
+Clean
diff --git a/icaparser/__init__.py b/icaparser/__init__.py
@@ -47,5 +47,5 @@
     split_multi_sample_json_file,  # noqa: F401
 )
 
-__version__ = "0.2.9"
+__version__ = "0.2.10"
 __author__ = "Henrik Seidel"
diff --git a/setup.py b/setup.py
@@ -2,7 +2,7 @@
 
 setuptools.setup(
     name="icaparser",
-    version="0.2.9",
+    version="0.2.10",
     url="https://github.com/Bayer-Group/ica-parser",
     author="Henrik Seidel",
     author_email="[email protected]",