update to TileDB-2.18.3 (#334)

* update to TileDB-2.18.3

* add missing UTF-8 in NativeArray.allocateEmptyArray()

* add test

Author: DimitrisStaratzis

build.gradle

@@ -144,7 +144,6 @@ test {
 
     testLogging {
         showStandardStreams = true
-        exceptionFormat = 'full'
     }
 }
 

cmake/Modules/FindTileDB_EP.cmake

@@ -48,29 +48,29 @@ if (NOT TILEDB_FOUND)
     # Try to download prebuilt artifacts unless the user specifies to build from source
     if(DOWNLOAD_TILEDB_PREBUILT)
         if (WIN32) # Windows
-          SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.18.2/tiledb-windows-x86_64-2.18.2-9ae6e1a.zip")
-          SET(DOWNLOAD_SHA1 "c440403fde701e5014a7ffa046d38bb49b141e55")
+          SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.18.3/tiledb-windows-x86_64-2.18.3-8f8b766.zip")
+          SET(DOWNLOAD_SHA1 "313cc237c8cab22edaf2745014471d231f185926")
         elseif(APPLE) # macOS
 
           if (CMAKE_OSX_ARCHITECTURES STREQUAL x86_64 OR CMAKE_SYSTEM_PROCESSOR MATCHES "(x86_64)|(AMD64|amd64)|(^i.86$)")
             message(STATUS "Building for intel mac")
-            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.18.2/tiledb-macos-x86_64-2.18.2-9ae6e1a.tar.gz")
-            SET(DOWNLOAD_SHA1 "6ba986407b2d0e25fb5df19d08ed22fefeac1c2a")
+            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.18.3/tiledb-macos-x86_64-2.18.3-8f8b766.tar.gz")
+            SET(DOWNLOAD_SHA1 "fbd7515172de977c8ebd553427b7c136a73df299")
 
           elseif (CMAKE_OSX_ARCHITECTURES STREQUAL arm64 OR CMAKE_SYSTEM_PROCESSOR MATCHES "^aarch64" OR CMAKE_SYSTEM_PROCESSOR MATCHES "^arm")
             message(STATUS "Building for apple silicon mac")
-            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.18.2/tiledb-macos-arm64-2.18.2-9ae6e1a.tar.gz")
-            SET(DOWNLOAD_SHA1 "4395a283db57844a944f02dab5bd0f0001eb7e30")
+            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.18.3/tiledb-macos-arm64-2.18.3-8f8b766.tar.gz")
+            SET(DOWNLOAD_SHA1 "8109bbac66824ee5806cbea93386d66f5b874bc2")
           endif()
         else() # Linux
           if (USE_AVX2)
             message(STATUS "Using Linux binaries with AVX2")
-            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.18.2/tiledb-linux-x86_64-2.18.2-9ae6e1a.tar.gz")
-            SET(DOWNLOAD_SHA1 "6386504a58d52330f41fa688a2b259b67824e2c8")
+            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.18.3/tiledb-linux-x86_64-2.18.3-8f8b766.tar.gz")
+            SET(DOWNLOAD_SHA1 "22ccf17c67532ca80fe2c6f06350a267bc839e81")
           else()
             message(STATUS "Using Linux binaries without AVX2")
-            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.18.2/tiledb-linux-x86_64-noavx2-2.18.2-9ae6e1a.tar.gz")
-            SET(DOWNLOAD_SHA1 "96d558aae525c4a665a0b1e9cdcce75a97e3d966")
+            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.18.3/tiledb-linux-x86_64-noavx2-2.18.3-8f8b766.tar.gz")
+            SET(DOWNLOAD_SHA1 "8ea35a77f01ec33304b42275e71c6ccb1f340965")
           endif()
         endif()
 

gradle.properties

@@ -1,5 +1,5 @@
 TILEDB_GIT_REPOSITORY=https://github.com/TileDB-Inc/TileDB
-TILEDB_GIT_TAG=2.18.2
+TILEDB_GIT_TAG=2.18.3
 TILEDB_VERBOSE=ON
 TILEDB_S3=ON
 TILEDB_AZURE=OFF

src/main/java/io/tiledb/java/api/NativeArray.java

@@ -386,6 +386,7 @@ private void allocateEmptyArray() throws TileDBError {
         }
       case TILEDB_STRING_ASCII:
       case TILEDB_CHAR:
+      case TILEDB_STRING_UTF8:
         {
           int8_tArray = new int8_tArray(size);
           break;

src/test/java/io/tiledb/java/api/QueryTest.java

@@ -58,6 +58,7 @@ public void arrayCreate() throws Exception {
       Attribute a1 = new Attribute(ctx, "a1", String.class);
       Attribute a2 = new Attribute(ctx, "a2", Float.class);
       Attribute a3 = new Attribute(ctx, "a3", Boolean.class);
+      Attribute a4 = new Attribute(ctx, "a4", Datatype.TILEDB_STRING_UTF8);
       a1.setFilterList(
           new FilterList(ctx)
               .addFilter(new CheckSumMD5Filter(ctx))
@@ -76,6 +77,7 @@ public void arrayCreate() throws Exception {
       schema.addAttribute(a1);
       schema.addAttribute(a2);
       schema.addAttribute(a3);
+      schema.addAttribute(a4);
 
       Array.create(arrayURI, schema);
     }
@@ -101,13 +103,15 @@ public void arrayWrite() throws Exception {
               },
               Datatype.TILEDB_BOOL);
 
+      NativeArray a4 = new NativeArray(ctx, "aBCDefghijklmnop", Datatype.TILEDB_STRING_UTF8);
       // Create query
       try (Array array = new Array(ctx, arrayURI, TILEDB_WRITE);
           Query query = new Query(array)) {
         query.setLayout(TILEDB_ROW_MAJOR);
         query.setDataBuffer("a1", a1);
         query.setDataBuffer("a2", a2);
         query.setDataBuffer("a3", a3);
+        query.setDataBuffer("a4", a4);
         // Submit query
         query.submit();
 
@@ -184,12 +188,14 @@ public void arrayReadTest() throws Exception {
         NativeArray a1Array = new NativeArray(ctx, 12, String.class);
         NativeArray a2Array = new NativeArray(ctx, 6, Float.class);
         NativeArray a3Array = new NativeArray(ctx, 6, Boolean.class);
+        NativeArray a4Array = new NativeArray(ctx, 6, Datatype.TILEDB_STRING_UTF8);
 
         query.setDataBuffer("rows", dim1Array);
         query.setDataBuffer("cols", dim2Array);
         query.setDataBuffer("a1", a1Array);
         query.setDataBuffer("a2", a2Array);
         query.setDataBuffer("a3", a3Array);
+        query.setDataBuffer("a4", a4Array);
 
         // Submit query
         query.submit();
@@ -210,12 +216,14 @@ public void arrayReadTest() throws Exception {
         byte[] a1 = (byte[]) query.getBuffer("a1");
         float[] a2 = (float[]) query.getBuffer("a2");
         short[] a3 = (short[]) query.getBuffer("a3");
+        byte[] a4 = (byte[]) query.getBuffer("a4");
 
         Assert.assertArrayEquals(new int[] {1, 1, 1}, dim1);
         Assert.assertArrayEquals(new int[] {2, 3, 4}, dim2);
         Assert.assertArrayEquals(new byte[] {'b', 'c', 'd'}, a1);
         Assert.assertArrayEquals(new float[] {1.1f, 1.2f, 2.1f, 2.2f, 3.1f, 3.2f}, a2, 0.01f);
         Assert.assertArrayEquals(new short[] {0, 1, 0}, a3);
+        Assert.assertArrayEquals(new byte[] {'B', 'C', 'D'}, a4);
       }
     }
 

src/test/java/io/tiledb/java/api/VersionTest.java

@@ -35,6 +35,6 @@ public void testVersion() {
     System.out.println(version);
     Assert.assertTrue(version.getMajor() == 2);
     Assert.assertTrue(version.getMinor() == 18);
-    Assert.assertTrue(version.getRevision() == 2);
+    Assert.assertTrue(version.getRevision() == 3);
   }
 }