docker set-up chages 2

Author: ecrum19

src/compression.sh

@@ -12,6 +12,10 @@ LOGDIR=${LOGDIR:-run_metrics}
 
 # rdf2hdt binary
 HDT=${RDF2HDT:-/opt/hdt-java/hdt-java-cli/bin/rdf2hdt.sh}
+HDT_PROJECT_DIR=${HDT_PROJECT_DIR:-}
+if [[ -z "$HDT_PROJECT_DIR" ]]; then
+  HDT_PROJECT_DIR="$(cd "$(dirname "$HDT")/.." 2>/dev/null && pwd || true)"
+fi
 
 # Base URI for rdf2hdt (reserved for future use)
 BASE_URI=${BASE_URI:-http://example.org/base}
@@ -403,10 +407,15 @@ for OUT in "${OUTPUT_DIRS[@]}"; do
       HDT_PATH="$HDT_ROOT/$BASENAME.hdt"
       EXIT_CODE_HDT=0
 
+      HDT_CMD="bash \"$HDT\" \"$SOURCE_RDF\" \"$HDT_PATH\""
+      if [[ -n "$HDT_PROJECT_DIR" && -f "$HDT_PROJECT_DIR/pom.xml" ]]; then
+        HDT_CMD="cd \"$HDT_PROJECT_DIR\" && $HDT_CMD"
+      fi
+
       if have_gnu_time; then
-        /usr/bin/time -v -o "$TIME_LOG_HDT" -- bash "$HDT" "$SOURCE_RDF" "$HDT_PATH" || EXIT_CODE_HDT=$?
+        /usr/bin/time -v -o "$TIME_LOG_HDT" -- bash -lc "$HDT_CMD" || EXIT_CODE_HDT=$?
       else
-        { time -p bash "$HDT" "$SOURCE_RDF" "$HDT_PATH"; } >"$TIME_LOG_HDT" 2>&1 || EXIT_CODE_HDT=$?
+        { time -p bash -lc "$HDT_CMD"; } >"$TIME_LOG_HDT" 2>&1 || EXIT_CODE_HDT=$?
       fi
 
       HDT_SIZE=$(stat_size "$HDT_PATH")

vcf_rdfizer.py

@@ -565,8 +565,10 @@ def run_compress_mode(
             command = (
                 "set -euo pipefail; "
                 "HDT_BIN=/opt/hdt-java/hdt-java-cli/bin/rdf2hdt.sh; "
+                "HDT_PROJECT_DIR=/opt/hdt-java/hdt-java-cli; "
                 'if [[ ! -x "$HDT_BIN" ]]; then echo "Missing rdf2hdt.sh at $HDT_BIN" >&2; exit 127; fi; '
                 'if ! command -v java >/dev/null 2>&1; then echo "Java runtime not found on PATH" >&2; exit 127; fi; '
+                'if [[ -f "$HDT_PROJECT_DIR/pom.xml" ]]; then cd "$HDT_PROJECT_DIR"; fi; '
                 'bash "$HDT_BIN" '
                 f"{shlex.quote(input_container)} {shlex.quote(out_container)}"
             )
@@ -642,8 +644,10 @@ def run_decompress_mode(
         command = (
             "set -euo pipefail; "
             "HDT2RDF_BIN=/opt/hdt-java/hdt-java-cli/bin/hdt2rdf.sh; "
+            "HDT_PROJECT_DIR=/opt/hdt-java/hdt-java-cli; "
             'if [[ ! -x "$HDT2RDF_BIN" ]]; then echo "Missing hdt2rdf.sh at $HDT2RDF_BIN" >&2; exit 127; fi; '
             'if ! command -v java >/dev/null 2>&1; then echo "Java runtime not found on PATH" >&2; exit 127; fi; '
+            'if [[ -f "$HDT_PROJECT_DIR/pom.xml" ]]; then cd "$HDT_PROJECT_DIR"; fi; '
             'bash "$HDT2RDF_BIN" '
             f"{shlex.quote(source_container)} {shlex.quote(output_container)}"
         )