AVLs: made maximum number of nodes per AVL 5 millions, as this combined

with keeping all AVLs mapped seems the most efficient. Now 1 million
sequences more or less constantly takes 1 minute.

src/obiavl.h

@@ -32,13 +32,12 @@
 
 #define MAX_NB_OF_AVLS_IN_GROUP (1000)						/**< The maximum number of AVL trees in a group.	// TODO discuss
                               	  	 	 	 	 	 	 	 */
-#define MAX_NODE_COUNT_PER_AVL (10000000)					/**< The maximum number of nodes in an AVL tree.
+#define MAX_NODE_COUNT_PER_AVL (5000000)					/**< The maximum number of nodes in an AVL tree.
 															 *   Only used to decide when to create a new AVL in a group, and to initialize the bloom filter // TODO discuss. Try 30M?
                               	  	 	 	 	 	 	 	 */
 #define MAX_DATA_SIZE_PER_AVL (1073741824)		            /**< The maximum size of the data referred to by an AVL tree in a group.
- 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 *   Only used to decide when to create a new AVL in a group.
+ 	 	 	 	 	 	 	         	 	 	 	 	 	 *   Only used to decide when to create a new AVL in a group.
  	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 *   Should not be greater than int32_t max (2,147,483,647), as indexes will have to be stored on 32 bits.
- 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 *   Here 1073741824 B = 1 GB
  	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 */
 #define AVL_MAX_DEPTH (1024)								/**< The maximum depth of an AVL tree. Used to save paths through the tree.
                               	  	 	 	 	 	 	 	 */
@@ -378,6 +377,7 @@ OBIDMS_avl_group_p obi_clone_avl_group(OBIDMS_avl_group_p avl_group, const char*
  * @brief Closes an AVL tree.
  *
  * @param avl A pointer to the AVL tree structure to close and free.
+ * @param writable Whether the AVL is writable or not (and therefore if the files can and should be truncated to the used size).
  *
  * @retval 0 if the operation was successfully completed.
  * @retval -1 if an error occurred.
@@ -385,7 +385,7 @@ OBIDMS_avl_group_p obi_clone_avl_group(OBIDMS_avl_group_p avl_group, const char*
  * @since December 2015
  * @author Celine Mercier (celine.mercier@metabarcoding.org)
  */
-int obi_close_avl(OBIDMS_avl_p avl);
+int obi_close_avl(OBIDMS_avl_p avl, bool writable);
 
 
 /**