Merge pull request #3 from VariantSync/fix-windows-line-endings

Fix windows line endings

Dockerfile

@@ -24,7 +24,7 @@ ENV DEBIAN_FRONTEND=noninteractive
 # Update the package list and upgrade the system without any prompts
 RUN apt-get update && apt-get upgrade -y
 
-RUN apt-get install bash git python3 unzip curl -y
+RUN apt-get install bash git python3 unzip curl dos2unix -y
 
 # Install Python and pip
 
@@ -48,6 +48,9 @@ RUN mkdir data
 COPY data ./data 
 COPY setup.sh ./setup.sh
 
+# Patch Windows line endings if the repository was cloned on Windows.
+RUN find . -exec dos2unix {} +
+
 # Copy all relevant files from the previous stage
 COPY --from=0 /home/user/target* ./
 

build-on-mac.sh

@@ -1,4 +1,5 @@
-#! /bin/bash
+#!/usr/bin/env bash
+
 USER_ID=$(id -u ${SUDO_USER:-$(whoami)})
 GROUP_ID=$(id -g ${SUDO_USER:-$(whoami)})
 PLATFORM=linux/arm64/v8

build.sh

@@ -1,4 +1,5 @@
-#! /bin/bash
+#!/usr/bin/env bash
+
 USER_ID=$(id -u ${SUDO_USER:-$(whoami)})
 GROUP_ID=$(id -g ${SUDO_USER:-$(whoami)})
 

clean.sh

@@ -1,4 +1,5 @@
-#! /bin/bash
+#!/usr/bin/env bash
+
 echo "Cleaning all related Docker data. This may take a moment..."
 echo "Trying to stop running containers..."
 docker stop "$(docker ps -a -q --filter "ancestor=boosting")"

execute.sh

@@ -1,4 +1,5 @@
-#! /bin/bash
+#!/usr/bin/env bash
+
 echo "Starting $1"
 docker run --rm -v "$(pwd)/results":"/home/user/results" boosting "$@"
 

setup.sh

@@ -1,4 +1,4 @@
-#!/bin/bash
+#!/usr/bin/env bash
 
 # Download the ground-truth.zip file
 curl -o data/ground-truth.zip https://zenodo.org/records/11472597/files/ground-truth.zip?download=1

stop-execution.sh

@@ -1,4 +1,5 @@
-#! /bin/bash
+#!/usr/bin/env bash
+
 echo "Stopping Docker container. This will take a moment..."
 docker stop "$(docker ps -a -q --filter "ancestor=boosting")"
 echo "...done."