fix: Dockerfile.dev that actually works

nextflow/Dockerfile.dev

@@ -1,12 +1,63 @@
-FROM eclipse-temurin:17-jre
+FROM eclipse-temurin:17-jdk AS build
 
 WORKDIR /opt/nextflow
 
 COPY . /opt/nextflow
 
-RUN chmod +x /opt/nextflow/launch.sh /opt/nextflow/nextflow || true
+RUN  chmod +x ./gradlew ./launch.sh ./nextflow || true
+    RUN ./gradlew clean assemble exportClasspath
+
+    RUN mkdir -p /opt/nextflow-runtime/lib \
+     && i=0; \
+        tr ':' '\n' < /opt/nextflow/.launch.classpath | while read -r path; do \
+          if [ -f "$path" ]; then \
+            name="$(basename "$path")"; \
+            target="/opt/nextflow-runtime/lib/$name"; \
+            runtime_path="/opt/nextflow/lib/$name"; \
+            if [ -e "$target" ]; then \
+              i=$((i+1)); \
+              target="/opt/nextflow-runtime/lib/${i}-$name"; \
+              runtime_path="/opt/nextflow/lib/${i}-$name"; \
+            fi; \
+            cp "$path" "$target"; \
+            echo "$runtime_path" >> /opt/nextflow-runtime/.launch.classpath.lines; \
+          fi; \
+        done \
+     && paste -sd ':' /opt/nextflow-runtime/.launch.classpath.lines > /opt/nextflow-runtime/.launch.classpath
+
+    RUN mkdir -p /opt/nextflow-runtime/plugins \
+     && cp /opt/nextflow/launch.sh /opt/nextflow-runtime/launch.sh \
+     && cp /opt/nextflow/nextflow /opt/nextflow-runtime/nextflow \
+     && cp -a /opt/nextflow/plugins/nf-k8s /opt/nextflow-runtime/plugins/nf-k8s
+
+
+FROM eclipse-temurin:17-jre
+
+WORKDIR /opt/nextflow
+
+COPY --from=build /opt/nextflow-runtime /opt/nextflow
+
+RUN chmod +x /opt/nextflow/launch.sh \
+ && cp /opt/nextflow/launch.sh /opt/nextflow/nextflow \
+ && chmod +x /opt/nextflow/nextflow \
+ && echo "nextflow-dvfs-dev-image 0.1" > /opt/nextflow/DEV_IMAGE_MARKER
+
+
+RUN mkdir -p /opt/nextflow/conf \
+ && cat > /opt/nextflow/conf/scm <<'EOF'
+providers {
+    mygitea {
+        platform = 'gitea'
+        server = 'https://gitea.kleine.eulenhexe.de'
+        endpoint = 'https://gitea.kleine.eulenhexe.de/api/v1'
+    }
+}
+EOF
 
 ENV PATH="/opt/nextflow:${PATH}"
-ENV NXF_HOME="/opt/nextflow/.nextflow"
+ENV NXF_HOME="/tmp/.nextflow"
+ENV NXF_PLUGINS_MODE="dev"
+ENV NXF_PLUGINS_DIR="/opt/nextflow/plugins"
+ENV NXF_SCM_FILE="/opt/nextflow/conf/scm"
 
 ENTRYPOINT ["/opt/nextflow/launch.sh"]