Fix issues identified when executing the workflow (#894)

- DataConversions should always call the wrapped methods
- Only one log provider should be included in the project
- Use MonotonicPairedDataMap for coordinates and references

baremaps-core/src/main/java/org/apache/baremaps/workflow/WorkflowContext.java

@@ -64,22 +64,22 @@ public DataSource getDataSource(Object database) {
   }
 
   public Map<Long, Coordinate> getCoordinateMap() throws IOException {
-    return DataConversions.asMap(getMemoryAlignedDataMap("coordinates", new LonLatDataType()));
+    return DataConversions.asMap(getMonotonicPairedDataMap("coordinates", new LonLatDataType()));
   }
 
   public Map<Long, List<Long>> getReferenceMap() throws IOException {
     return DataConversions.asMap(getMonotonicDataMap("references", new LongListDataType()));
   }
 
-  public <T> DataMap<Long, T> getMemoryAlignedDataMap(String name, FixedSizeDataType<T> dataType)
+  private <T> DataMap<Long, T> getMemoryAlignedDataMap(String name, FixedSizeDataType<T> dataType)
       throws IOException {
     var coordinateDir = Files.createDirectories(cacheDir.resolve(name));
     return new MemoryAlignedDataMap<>(
         dataType,
         new MemoryMappedDirectory(coordinateDir));
   }
 
-  public <T> DataMap<Long, T> getMonotonicDataMap(String name, DataType<T> dataType)
+  private <T> DataMap<Long, T> getMonotonicDataMap(String name, DataType<T> dataType)
       throws IOException {
     var mapDir = Files.createDirectories(cacheDir.resolve(name));
     var keysDir = Files.createDirectories(mapDir.resolve("keys"));
@@ -93,6 +93,16 @@ public <T> DataMap<Long, T> getMonotonicDataMap(String name, DataType<T> dataTyp
             new MemoryMappedDirectory(valuesDir)));
   }
 
+  private DataMap<Long, Coordinate> getMonotonicPairedDataMap(String name,
+      DataType<Coordinate> dataType)
+      throws IOException {
+    var mapDir = Files.createDirectories(cacheDir.resolve(name));
+    return new MonotonicPairedDataMap<>(
+        new MemoryAlignedDataList<>(
+            new PairDataType<>(new LongDataType(), new LonLatDataType()),
+            new MemoryMappedDirectory(Files.createDirectories(mapDir))));
+  }
+
   public void cleanCache() throws IOException {
     FileUtils.deleteRecursively(cacheDir);
   }

baremaps-data/src/main/java/org/apache/baremaps/data/collection/DataConversions.java

@@ -270,13 +270,7 @@ public V put(K key, V value) {
 
     @Override
     public V get(Object key) {
-      if (map instanceof MemoryAlignedDataMap) {
-        return map.get(key);
-      } else if (map instanceof IndexedDataMap) {
-        return map.get(key);
-      } else {
-        return super.get(key);
-      }
+      return map.get(key);
     }
 
     @Override

baremaps-data/src/main/java/org/apache/baremaps/data/collection/MonotonicDataMap.java

@@ -149,7 +149,6 @@ public Iterator<Entry<Long, E>> entryIterator() {
         .iterator();
   }
 
-
   /** {@inheritDoc} */
   @Override
   public long size() {

pom.xml

@@ -237,6 +237,12 @@ limitations under the License.
         <groupId>mil.nga.geopackage</groupId>
         <artifactId>geopackage</artifactId>
         <version>${version.lib.geopackage}</version>
+        <exclusions>
+          <exclusion>
+            <groupId>org.slf4j</groupId>
+            <artifactId>slf4j-nop</artifactId>
+          </exclusion>
+        </exclusions>
       </dependency>
       <dependency>
         <groupId>net.ripe.ipresource</groupId>