Upgrade TileDB-VCF to 2.16.0, update version for Java/Spark (#551)

* Upgrade TileDB-VCF to 2.16.0

* fix exception matching

* Update java/spark for version 0.25.0

Author: awenocur

apis/java/build.gradle

@@ -7,7 +7,7 @@ plugins {
 }
 
 group 'io.tiledb'
-version '0.24.0'
+version '0.25.0'
 
 sourceCompatibility = 1.8
 targetCompatibility = 1.8

apis/python/tests/test_tiledbvcf.py

@@ -40,7 +40,7 @@ def check_if_compatible(uri):
         with tiledb.open(uri):
             return True
     except tiledb.cc.TileDBError as e:
-        if "Incompatible format version" in str(e):
+        if "incompatible format version" in str(e).lower():
             raise pytest.skip.Exception(
                 "Test skipped due to incompatible format version"
             )

apis/spark/build.gradle

@@ -7,7 +7,7 @@ plugins {
 }
 
 group 'io.tiledb'
-version '0.24.0'
+version '0.25.0'
 
 sourceCompatibility = 1.8
 targetCompatibility = 1.8

apis/spark3/build.gradle

@@ -7,7 +7,7 @@ plugins {
 }
 
 group 'io.tiledb'
-version '0.24.0'
+version '0.25.0'
 
 sourceCompatibility = 1.8
 targetCompatibility = 1.8

libtiledbvcf/cmake/Modules/FindTileDB_EP.cmake

@@ -52,20 +52,20 @@ else()
     # 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/2.15.4/tiledb-windows-x86_64-2.15.4-57c9edf.zip")
-          SET(DOWNLOAD_SHA1 "6cabf3049fcd11a96a93704870b15774343b563f")
+          SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.16.0/tiledb-windows-x86_64-2.16.0-d682dd0.zip")
+          SET(DOWNLOAD_SHA1 "82a79fda3daecc46ae24c86a328e52184460dabe")
         elseif(APPLE) # OSX
 
           if (CMAKE_OSX_ARCHITECTURES STREQUAL x86_64 OR CMAKE_SYSTEM_PROCESSOR MATCHES "(x86_64)|(AMD64|amd64)|(^i.86$)")
-            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.15.4/tiledb-macos-x86_64-2.15.4-57c9edf.tar.gz")
-            SET(DOWNLOAD_SHA1 "ca7ef10b01715e277387532591fd4bff8efb1689")
+            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.16.0/tiledb-macos-x86_64-2.16.0-d682dd0.tar.gz")
+            SET(DOWNLOAD_SHA1 "d7b22fa3cb9cbe131734d9f18beb3362908aeccf")
           elseif (CMAKE_OSX_ARCHITECTURES STREQUAL arm64 OR CMAKE_SYSTEM_PROCESSOR MATCHES "^aarch64" OR CMAKE_SYSTEM_PROCESSOR MATCHES "^arm")
-            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.15.4/tiledb-macos-arm64-2.15.4-57c9edf.tar.gz")
-            SET(DOWNLOAD_SHA1 "5f7162a34f62d4d448387b9590823d3dcfe1b816")
+            SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.16.0/tiledb-macos-arm64-2.16.0-d682dd0.tar.gz")
+            SET(DOWNLOAD_SHA1 "09c62e3211e5277263c1545d74d698d450ebcb77")
           endif()
         else() # Linux
-          SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.15.4/tiledb-linux-x86_64-2.15.4-57c9edf.tar.gz")
-          SET(DOWNLOAD_SHA1 "19397dbfef46d796d11f4d8bb80f7bd01230e0a6")
+          SET(DOWNLOAD_URL "https://github.com/TileDB-Inc/TileDB/releases/download/2.16.0/tiledb-linux-x86_64-2.16.0-d682dd0.tar.gz")
+          SET(DOWNLOAD_SHA1 "be0bfd5512c159b960988a4bd41366e9f020115f")
         endif()
 
         ExternalProject_Add(ep_tiledb
@@ -87,8 +87,8 @@ else()
     else() # Build from source
         ExternalProject_Add(ep_tiledb
           PREFIX "externals"
-          URL "https://github.com/TileDB-Inc/TileDB/archive/2.15.4.zip"
-          URL_HASH SHA1=ba020e20a0b6ef9876e3138474e1fdb1d6c4b32b
+          URL "https://github.com/TileDB-Inc/TileDB/archive/2.16.0.zip"
+          URL_HASH SHA1=c2779f931c84d931e5fca6dc3a858e66fc542276
           DOWNLOAD_NAME "tiledb.zip"
           CMAKE_ARGS
             -DCMAKE_INSTALL_PREFIX=${EP_INSTALL_PREFIX}