[svn-r29659] Added fixed array chunk indexing from revise_chunks.

Tested on: 64-bit Ubuntu 15.10 w/ gcc 5.2.1
           Autotools serial w/ Java, Fortran, & C++

1 files changed, 1638 insertions, 0 deletions

diff --git a/src/H5Dfarray.c b/src/H5Dfarray.c
new file mode 100644
index 0000000..af60bb1
--- /dev/null
+++ b/src/H5Dfarray.c
@@ -0,0 +1,1638 @@
+/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
+ * Copyright by The HDF Group.                                               *
+ * Copyright by the Board of Trustees of the University of Illinois.         *
+ * All rights reserved.                                                      *
+ *                                                                           *
+ * This file is part of HDF5.  The full HDF5 copyright notice, including     *
+ * terms governing use, modification, and redistribution, is contained in    *
+ * the files COPYING and Copyright.html.  COPYING can be found at the root   *
+ * of the source code distribution tree; Copyright.html can be found at the  *
+ * root level of an installed copy of the electronic HDF5 document set and   *
+ * is linked from the top-level documents page.  It can also be found at     *
+ * http://hdfgroup.org/HDF5/doc/Copyright.html.  If you do not have          *
+ * access to either file, you may request a copy from help@hdfgroup.org.     *
+ * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
+
+/* Programmer: 	Vailin Choi <vchoi@hdfgroup.org>
+ *	       	Thursday, April 30, 2009
+ *
+ * Purpose:	Fixed array indexed (chunked) I/O functions.  
+ *		The chunk coordinate is mapped as an index into an array of 
+ *		disk addresses for the chunks.
+ *
+ */
+
+/****************/
+/* Module Setup */
+/****************/
+
+#include "H5Dmodule.h"          /* This source code file is part of the H5D module */
+
+
+/***********/
+/* Headers */
+/***********/
+#include "H5private.h"		/* Generic Functions			*/
+#include "H5Dpkg.h"		/* Datasets				*/
+#include "H5Eprivate.h"		/* Error handling		  	*/
+#include "H5FAprivate.h"	/* Fixed arrays		  		*/
+#include "H5FLprivate.h"	/* Free Lists                           */
+#include "H5MFprivate.h"	/* File space management		*/
+#include "H5VMprivate.h"         /* Vector functions			*/
+
+
+/****************/
+/* Local Macros */
+/****************/
+
+/* Value to fill unset array elements with */
+#define H5D_FARRAY_FILL         HADDR_UNDEF
+#define H5D_FARRAY_FILT_FILL    {HADDR_UNDEF, 0, 0}
+
+
+/******************/
+/* Local Typedefs */
+/******************/
+
+/* Fixed array create/open user data */
+typedef struct H5D_farray_ctx_ud_t {
+    const H5F_t *f;             /* Pointer to file info */
+    uint32_t chunk_size;        /* Size of chunk (bytes) */
+} H5D_farray_ctx_ud_t;
+
+/* Fixed array callback context */
+typedef struct H5D_farray_ctx_t {
+    size_t file_addr_len;       /* Size of addresses in the file (bytes) */
+    size_t chunk_size_len;      /* Size of chunk sizes in the file (bytes) */
+} H5D_farray_ctx_t;
+
+/* User data for chunk deletion callback */
+typedef struct H5D_farray_del_ud_t {
+    H5F_t *f;                   /* File pointer for operation */
+    hid_t dxpl_id;              /* DXPL ID for operation */
+    hbool_t filtered;           /* Whether the chunks are filtered */
+    uint32_t unfilt_size;       /* Size of unfiltered chunk in bytes */
+} H5D_farray_del_ud_t;
+
+/* Fixed Array callback info for iteration over chunks */
+typedef struct H5D_farray_it_ud_t {
+    H5D_chunk_common_ud_t common;       /* Common info for Fixed Array user data (must be first) */
+    H5D_chunk_rec_t     chunk_rec;      /* Generic chunk record for callback */
+    hbool_t             filtered;       /* Whether the chunks are filtered */
+    H5D_chunk_cb_func_t cb;             /* Chunk callback routine */
+    void                *udata;         /* User data for chunk callback routine */
+} H5D_farray_it_ud_t;
+
+/* Native fixed array element for chunks w/filters */
+typedef struct H5D_farray_filt_elmt_t {
+    haddr_t addr;               /* Address of chunk */
+    uint32_t nbytes;            /* Size of chunk (in file) */
+    uint32_t filter_mask;       /* Excluded filters for chunk */
+} H5D_farray_filt_elmt_t;
+
+
+/********************/
+/* Local Prototypes */
+/********************/
+
+/* Fixed Array iterator callbacks */
+static int H5D__farray_idx_iterate_cb(hsize_t idx, const void *_elmt, void *_udata);
+static int H5D__farray_idx_delete_cb(hsize_t idx, const void *_elmt, void *_udata);
+
+/* Fixed array class callbacks for chunks w/o filters */
+static void *H5D__farray_crt_context(void *udata);
+static herr_t H5D__farray_dst_context(void *ctx);
+static herr_t H5D__farray_fill(void *nat_blk, size_t nelmts);
+static herr_t H5D__farray_encode(void *raw, const void *elmt, size_t nelmts,
+    void *ctx);
+static herr_t H5D__farray_decode(const void *raw, void *elmt, size_t nelmts,
+    void *ctx);
+static herr_t H5D__farray_debug(FILE *stream, int indent, int fwidth,
+    hsize_t idx, const void *elmt);
+static void *H5D__farray_crt_dbg_context(H5F_t *f, hid_t dxpl_id,
+    haddr_t obj_addr);
+static herr_t H5D__farray_dst_dbg_context(void *dbg_ctx);
+
+/* Fixed array class callbacks for chunks w/filters */
+/* (some shared with callbacks for chunks w/o filters) */
+static herr_t H5D__farray_filt_fill(void *nat_blk, size_t nelmts);
+static herr_t H5D__farray_filt_encode(void *raw, const void *elmt, size_t nelmts,
+    void *ctx);
+static herr_t H5D__farray_filt_decode(const void *raw, void *elmt, size_t nelmts,
+    void *ctx);
+static herr_t H5D__farray_filt_debug(FILE *stream, int indent, int fwidth,
+    hsize_t idx, const void *elmt);
+
+/* Chunked layout indexing callbacks */
+static herr_t H5D__farray_idx_init(const H5D_chk_idx_info_t *idx_info,
+    const H5S_t *space, haddr_t dset_ohdr_addr);
+static herr_t H5D__farray_idx_create(const H5D_chk_idx_info_t *idx_info);
+static hbool_t H5D__farray_idx_is_space_alloc(const H5O_storage_chunk_t *storage);
+static herr_t H5D__farray_idx_insert(const H5D_chk_idx_info_t *idx_info,
+    H5D_chunk_ud_t *udata, const H5D_t *dset);
+static herr_t H5D__farray_idx_get_addr(const H5D_chk_idx_info_t *idx_info,
+    H5D_chunk_ud_t *udata);
+static int H5D__farray_idx_iterate(const H5D_chk_idx_info_t *idx_info,
+    H5D_chunk_cb_func_t chunk_cb, void *chunk_udata);
+static herr_t H5D__farray_idx_remove(const H5D_chk_idx_info_t *idx_info,
+    H5D_chunk_common_ud_t *udata);
+static herr_t H5D__farray_idx_delete(const H5D_chk_idx_info_t *idx_info);
+static herr_t H5D__farray_idx_copy_setup(const H5D_chk_idx_info_t *idx_info_src,
+    const H5D_chk_idx_info_t *idx_info_dst);
+static herr_t H5D__farray_idx_copy_shutdown(H5O_storage_chunk_t *storage_src,
+    H5O_storage_chunk_t *storage_dst, hid_t dxpl_id);
+static herr_t H5D__farray_idx_size(const H5D_chk_idx_info_t *idx_info,
+    hsize_t *size);
+static herr_t H5D__farray_idx_reset(H5O_storage_chunk_t *storage, hbool_t reset_addr);
+static herr_t H5D__farray_idx_dump(const H5O_storage_chunk_t *storage, FILE *stream);
+static herr_t H5D__farray_idx_dest(const H5D_chk_idx_info_t *idx_info);
+
+/* Generic extensible array routines */
+static herr_t H5D__farray_idx_open(const H5D_chk_idx_info_t *idx_info);
+
+/*********************/
+/* Package Variables */
+/*********************/
+
+/* Fixed array indexed chunk I/O ops */
+const H5D_chunk_ops_t H5D_COPS_FARRAY[1] = {{
+    H5D__farray_idx_init,               /* init */
+    H5D__farray_idx_create,             /* create */
+    H5D__farray_idx_is_space_alloc,     /* is_space_alloc */
+    H5D__farray_idx_insert,             /* insert */
+    H5D__farray_idx_get_addr,           /* get_addr */
+    NULL,                               /* resize */
+    H5D__farray_idx_iterate,            /* iterate */
+    H5D__farray_idx_remove,             /* remove */
+    H5D__farray_idx_delete,             /* delete */
+    H5D__farray_idx_copy_setup,         /* copy_setup */
+    H5D__farray_idx_copy_shutdown,      /* copy_shutdown */
+    H5D__farray_idx_size,               /* size */
+    H5D__farray_idx_reset,              /* reset */
+    H5D__farray_idx_dump,               /* dump */
+    H5D__farray_idx_dest                /* destroy */
+}};
+
+
+/*****************************/
+/* Library Private Variables */
+/*****************************/
+
+
+/*******************/
+/* Local Variables */
+/*******************/
+
+/* Fixed array class callbacks for dataset chunks w/o filters */
+const H5FA_class_t H5FA_CLS_CHUNK[1]={{
+    H5FA_CLS_CHUNK_ID,          /* Type of fixed array */
+    "Chunk w/o filters",        /* Name of fixed array class */
+    sizeof(haddr_t),            /* Size of native element */
+    H5D__farray_crt_context,    /* Create context */
+    H5D__farray_dst_context,    /* Destroy context */
+    H5D__farray_fill,           /* Fill block of missing elements callback */
+    H5D__farray_encode,         /* Element encoding callback */
+    H5D__farray_decode,         /* Element decoding callback */
+    H5D__farray_debug,          /* Element debugging callback */
+    H5D__farray_crt_dbg_context, /* Create debugging context */
+    H5D__farray_dst_dbg_context /* Destroy debugging context */
+}};
+
+/* Fixed array class callbacks for dataset chunks w/filters */
+const H5FA_class_t H5FA_CLS_FILT_CHUNK[1]={{
+    H5FA_CLS_FILT_CHUNK_ID,     /* Type of fixed array */
+    "Chunk w/filters",          /* Name of fixed array class */
+    sizeof(H5D_farray_filt_elmt_t), /* Size of native element */
+    H5D__farray_crt_context,    /* Create context */
+    H5D__farray_dst_context,    /* Destroy context */
+    H5D__farray_filt_fill,      /* Fill block of missing elements callback */
+    H5D__farray_filt_encode,    /* Element encoding callback */
+    H5D__farray_filt_decode,    /* Element decoding callback */
+    H5D__farray_filt_debug,     /* Element debugging callback */
+    H5D__farray_crt_dbg_context, /* Create debugging context */
+    H5D__farray_dst_dbg_context /* Destroy debugging context */
+}};
+
+/* Declare a free list to manage the H5D_farray_ctx_t struct */
+H5FL_DEFINE_STATIC(H5D_farray_ctx_t);
+
+/* Declare a free list to manage the H5D_farray_ctx_ud_t struct */
+H5FL_DEFINE_STATIC(H5D_farray_ctx_ud_t);
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_crt_context
+ *
+ * Purpose:	Create context for callbacks
+ *
+ * Return:	Success:	non-NULL
+ *		Failure:	NULL
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static void *
+H5D__farray_crt_context(void *_udata)
+{
+    H5D_farray_ctx_t *ctx;      /* Fixed array callback context */
+    H5D_farray_ctx_ud_t *udata = (H5D_farray_ctx_ud_t *)_udata; /* User data for fixed array context */
+    void *ret_value = NULL;     /* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Sanity checks */
+    HDassert(udata);
+    HDassert(udata->f);
+    HDassert(udata->chunk_size > 0);
+
+    /* Allocate new context structure */
+    if(NULL == (ctx = H5FL_MALLOC(H5D_farray_ctx_t)))
+        HGOTO_ERROR(H5E_DATASET, H5E_CANTALLOC, NULL, "can't allocate fixed array client callback context")
+
+     /* Initialize the context */
+    ctx->file_addr_len = H5F_SIZEOF_ADDR(udata->f);
+
+    /* Compute the size required for encoding the size of a chunk, allowing
+     *      for an extra byte, in case the filter makes the chunk larger.
+     */
+    ctx->chunk_size_len = 1 + ((H5VM_log2_gen((uint64_t)udata->chunk_size) + 8) / 8);
+    if(ctx->chunk_size_len > 8)
+        ctx->chunk_size_len = 8;
+
+    /* Set return value */
+    ret_value = ctx;
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* end H5D__farray_crt_context() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_dst_context
+ *
+ * Purpose:	Destroy context for callbacks
+ *
+ * Return:	Success:	non-NULL
+ *		Failure:	NULL
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_dst_context(void *_ctx)
+{
+    H5D_farray_ctx_t *ctx = (H5D_farray_ctx_t *)_ctx;   /* Fixed array callback context */
+
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Sanity checks */
+    HDassert(ctx);
+
+    /* Release context structure */
+    ctx = H5FL_FREE(H5D_farray_ctx_t, ctx);
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_dst_context() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_fill
+ *
+ * Purpose:	Fill "missing elements" in block of elements
+ *
+ * Return:	Success:	non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_fill(void *nat_blk, size_t nelmts)
+{
+    haddr_t fill_val = H5D_FARRAY_FILL;          /* Value to fill elements with */
+
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Sanity checks */
+    HDassert(nat_blk);
+    HDassert(nelmts);
+
+    H5VM_array_fill(nat_blk, &fill_val, H5FA_CLS_CHUNK->nat_elmt_size, nelmts);
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_fill() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_encode
+ *
+ * Purpose:	Encode an element from "native" to "raw" form
+ *
+ * Return:	Success:	non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_encode(void *raw, const void *_elmt, size_t nelmts, void *_ctx)
+{
+    H5D_farray_ctx_t *ctx = (H5D_farray_ctx_t *)_ctx;   /* Fixed array callback context */
+    const haddr_t *elmt = (const haddr_t *)_elmt;     /* Convenience pointer to native elements */
+
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Sanity checks */
+    HDassert(raw);
+    HDassert(elmt);
+    HDassert(nelmts);
+    HDassert(ctx);
+
+    /* Encode native elements into raw elements */
+    while(nelmts) {
+        /* Encode element */
+        /* (advances 'raw' pointer) */
+        H5F_addr_encode_len(ctx->file_addr_len, (uint8_t **)&raw, *elmt);
+
+        /* Advance native element pointer */
+        elmt++;
+
+        /* Decrement # of elements to encode */
+        nelmts--;
+    } /* end while */
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_encode() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_decode
+ *
+ * Purpose:	Decode an element from "raw" to "native" form
+ *
+ * Return:	Success:	non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_decode(const void *_raw, void *_elmt, size_t nelmts, void *_ctx)
+{
+    H5D_farray_ctx_t *ctx = (H5D_farray_ctx_t *)_ctx;   /* Fixed array callback context */
+    haddr_t *elmt = (haddr_t *)_elmt;           /* Convenience pointer to native elements */
+    const uint8_t *raw = (const uint8_t *)_raw; /* Convenience pointer to raw elements */
+
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Sanity checks */
+    HDassert(raw);
+    HDassert(elmt);
+    HDassert(nelmts);
+
+    /* Decode raw elements into native elements */
+    while(nelmts) {
+        /* Decode element */
+        /* (advances 'raw' pointer) */
+        H5F_addr_decode_len(ctx->file_addr_len, &raw, elmt);
+
+        /* Advance native element pointer */
+        elmt++;
+
+        /* Decrement # of elements to decode */
+        nelmts--;
+    } /* end while */
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_decode() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_debug
+ *
+ * Purpose:	Display an element for debugging
+ *
+ * Return:	Success:	non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_debug(FILE *stream, int indent, int fwidth, hsize_t idx,
+    const void *elmt)
+{
+    char temp_str[128];     /* Temporary string, for formatting */
+
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Sanity checks */
+    HDassert(stream);
+    HDassert(elmt);
+
+    /* Print element */
+    sprintf(temp_str, "Element #%llu:", (unsigned long long)idx);
+    HDfprintf(stream, "%*s%-*s %a\n", indent, "", fwidth, temp_str,
+        *(const haddr_t *)elmt);
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_debug() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_crt_dbg_context
+ *
+ * Purpose:	Create context for debugging callback
+ *		(get the layout message in the specified object header)
+ *
+ * Return:	Success:	non-NULL
+ *		Failure:	NULL
+ *
+ * Programmer:	Vailin Choi
+ *		5th August, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static void *
+H5D__farray_crt_dbg_context(H5F_t *f, hid_t dxpl_id, haddr_t obj_addr)
+{
+    H5D_farray_ctx_ud_t	*dbg_ctx = NULL;   /* Context for fixed array callback */
+    H5O_loc_t obj_loc;          /* Pointer to an object's location */
+    hbool_t obj_opened = FALSE; /* Flag to indicate that the object header was opened */
+    H5O_layout_t layout;        /* Layout message */
+    void *ret_value = NULL;     /* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Sanity checks */
+    HDassert(f);
+    HDassert(H5F_addr_defined(obj_addr));
+
+    /* Allocate context for debugging callback */
+    if(NULL == (dbg_ctx = H5FL_MALLOC(H5D_farray_ctx_ud_t)))
+        HGOTO_ERROR(H5E_DATASET, H5E_CANTALLOC, NULL, "can't allocate fixed array client callback context")
+
+    /* Set up the object header location info */
+    H5O_loc_reset(&obj_loc);
+    obj_loc.file = f;
+    obj_loc.addr = obj_addr;
+
+    /* Open the object header where the layout message resides */
+    if(H5O_open(&obj_loc) < 0)
+        HGOTO_ERROR(H5E_DATASET, H5E_CANTOPENOBJ, NULL, "can't open object header")
+    obj_opened = TRUE;
+
+    /* Read the layout message */
+    if(NULL == H5O_msg_read(&obj_loc, H5O_LAYOUT_ID, &layout, dxpl_id))
+        HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, NULL, "can't get layout info")
+
+    /* close the object header */
+    if(H5O_close(&obj_loc) < 0)
+        HGOTO_ERROR(H5E_DATASET, H5E_CANTCLOSEOBJ, NULL, "can't close object header")
+
+    /* Create user data */
+    dbg_ctx->f = f;
+    dbg_ctx->chunk_size = layout.u.chunk.size;
+
+    /* Set return value */
+    ret_value = dbg_ctx;
+
+done:
+    /* Cleanup on error */
+    if(ret_value == NULL) {
+        /* Release context structure */
+        if(dbg_ctx)
+            dbg_ctx = H5FL_FREE(H5D_farray_ctx_ud_t, dbg_ctx);
+
+        /* Close object header */
+        if(obj_opened) {
+            if(H5O_close(&obj_loc) < 0)
+                HDONE_ERROR(H5E_DATASET, H5E_CANTCLOSEOBJ, NULL, "can't close object header")
+        } /* end if */
+    } /* end if */
+
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* end H5D__farray_crt_dbg_context() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_dst_dbg_context
+ *
+ * Purpose:	Destroy context for debugging callback
+ *		(free the layout message from the specified object header)
+ *
+ * Return:	Success:	non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Quincey Koziol
+ *		24th September, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_dst_dbg_context(void *_dbg_ctx)
+{
+    H5D_farray_ctx_ud_t	*dbg_ctx = (H5D_farray_ctx_ud_t	*)_dbg_ctx; /* Context for fixed array callback */
+
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Sanity checks */
+    HDassert(dbg_ctx);
+
+    /* Release context structure */
+    dbg_ctx = H5FL_FREE(H5D_farray_ctx_ud_t, dbg_ctx);
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_dst_dbg_context() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_filt_fill
+ *
+ * Purpose:	Fill "missing elements" in block of elements
+ *
+ * Return:	Success:	non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_filt_fill(void *nat_blk, size_t nelmts)
+{
+    H5D_farray_filt_elmt_t fill_val = H5D_FARRAY_FILT_FILL;     /* Value to fill elements with */
+
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Sanity checks */
+    HDassert(nat_blk);
+    HDassert(nelmts);
+    HDassert(sizeof(fill_val) == H5FA_CLS_FILT_CHUNK->nat_elmt_size);
+
+    H5VM_array_fill(nat_blk, &fill_val, H5FA_CLS_FILT_CHUNK->nat_elmt_size, nelmts);
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_filt_fill() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_filt_encode
+ *
+ * Purpose:	Encode an element from "native" to "raw" form
+ *
+ * Return:	Success:	non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_filt_encode(void *_raw, const void *_elmt, size_t nelmts, void *_ctx)
+{
+    H5D_farray_ctx_t *ctx = (H5D_farray_ctx_t *)_ctx;   /* Fixed array callback context */
+    uint8_t *raw = (uint8_t *)_raw;             /* Convenience pointer to raw elements */
+    const H5D_farray_filt_elmt_t *elmt = (const H5D_farray_filt_elmt_t *)_elmt;     /* Convenience pointer to native elements */
+
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Sanity checks */
+    HDassert(raw);
+    HDassert(elmt);
+    HDassert(nelmts);
+    HDassert(ctx);
+
+    /* Encode native elements into raw elements */
+    while(nelmts) {
+        /* Encode element */
+        /* (advances 'raw' pointer) */
+        H5F_addr_encode_len(ctx->file_addr_len, &raw, elmt->addr);
+	UINT64ENCODE_VAR(raw, elmt->nbytes, ctx->chunk_size_len);
+        UINT32ENCODE(raw, elmt->filter_mask);
+
+        /* Advance native element pointer */
+        elmt++;
+
+        /* Decrement # of elements to encode */
+        nelmts--;
+    } /* end while */
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_filt_encode() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_filt_decode
+ *
+ * Purpose:	Decode an element from "raw" to "native" form
+ *
+ * Return:	Success:	non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_filt_decode(const void *_raw, void *_elmt, size_t nelmts, void *_ctx)
+{
+    H5D_farray_ctx_t *ctx = (H5D_farray_ctx_t *)_ctx;   /* Fixed array callback context */
+    H5D_farray_filt_elmt_t *elmt = (H5D_farray_filt_elmt_t *)_elmt;           /* Convenience pointer to native elements */
+    const uint8_t *raw = (const uint8_t *)_raw; /* Convenience pointer to raw elements */
+
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Sanity checks */
+    HDassert(raw);
+    HDassert(elmt);
+    HDassert(nelmts);
+
+    /* Decode raw elements into native elements */
+    while(nelmts) {
+        /* Decode element */
+        /* (advances 'raw' pointer) */
+        H5F_addr_decode_len(ctx->file_addr_len, &raw, &elmt->addr);
+	UINT64DECODE_VAR(raw, elmt->nbytes, ctx->chunk_size_len);
+        UINT32DECODE(raw, elmt->filter_mask);
+
+        /* Advance native element pointer */
+        elmt++;
+
+        /* Decrement # of elements to decode */
+        nelmts--;
+    } /* end while */
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_filt_decode() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_filt_debug
+ *
+ * Purpose:	Display an element for debugging
+ *
+ * Return:	Success:	non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_filt_debug(FILE *stream, int indent, int fwidth, hsize_t idx,
+    const void *_elmt)
+{
+    const H5D_farray_filt_elmt_t *elmt = (const H5D_farray_filt_elmt_t *)_elmt;           /* Convenience pointer to native elements */
+    char temp_str[128];     /* Temporary string, for formatting */
+
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Sanity checks */
+    HDassert(stream);
+    HDassert(elmt);
+
+    /* Print element */
+    sprintf(temp_str, "Element #%llu:", (unsigned long long)idx);
+    HDfprintf(stream, "%*s%-*s {%a, %u, %0x}\n", indent, "", fwidth, temp_str,
+        elmt->addr, elmt->nbytes, elmt->filter_mask);
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_filt_debug() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:    H5D__farray_idx_init
+ *
+ * Purpose:     Initialize the indexing information for a dataset.
+ *
+ * Return:      Non-negative on success/Negative on failure
+ *
+ * Programmer:  Neil Fortner
+ *              Wednensday, May 23, 2012
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_init(const H5D_chk_idx_info_t *idx_info, const H5S_t H5_ATTR_UNUSED *space, haddr_t dset_ohdr_addr)
+{
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Check args */
+    HDassert(idx_info);
+    HDassert(idx_info->storage);
+    HDassert(H5F_addr_defined(dset_ohdr_addr));
+
+    idx_info->storage->u.farray.dset_ohdr_addr = dset_ohdr_addr;
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_idx_init() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_open
+ *
+ * Purpose:	Opens an existing fixed array and initializes
+ *              the layout struct with information about the storage.
+ *
+ * Return:	Success:	non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_open(const H5D_chk_idx_info_t *idx_info)
+{
+    H5D_farray_ctx_ud_t udata;          /* User data for fixed array open call */
+    herr_t ret_value = SUCCEED;         /* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Check args */
+    HDassert(idx_info);
+    HDassert(idx_info->f);
+    HDassert(idx_info->pline);
+    HDassert(idx_info->layout);
+    HDassert(H5D_CHUNK_IDX_FARRAY == idx_info->layout->idx_type);
+    HDassert(idx_info->storage);
+    HDassert(H5D_CHUNK_IDX_FARRAY == idx_info->storage->idx_type);
+    HDassert(H5F_addr_defined(idx_info->storage->idx_addr));
+    HDassert(NULL == idx_info->storage->u.farray.fa);
+
+    /* Set up the user data */
+    udata.f = idx_info->f;
+    udata.chunk_size = idx_info->layout->size;
+
+    /* Open the fixed array for the chunk index */
+    if(NULL == (idx_info->storage->u.farray.fa = H5FA_open(idx_info->f, idx_info->dxpl_id, idx_info->storage->idx_addr, &udata)))
+	HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "can't open fixed array")
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* end H5D__farray_idx_open() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_create
+ *
+ * Purpose:	Creates a new indexed-storage fixed array and initializes
+ *              the layout struct with information about the storage.  The
+ *		struct should be immediately written to the object header.
+ *
+ *		This function must be called before passing LAYOUT to any of
+ *		the other indexed storage functions!
+ *
+ * Return:	Non-negative on success (with the LAYOUT argument initialized
+ *		and ready to write to an object header). Negative on failure.
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_create(const H5D_chk_idx_info_t *idx_info)
+{
+    H5FA_create_t 	cparam; /* Fixed array creation parameters */
+    H5D_farray_ctx_ud_t udata;  /* User data for fixed array create call */
+    herr_t 	ret_value = SUCCEED; 	/* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Check args */
+    HDassert(idx_info);
+    HDassert(idx_info->f);
+    HDassert(idx_info->pline);
+    HDassert(idx_info->layout);
+    HDassert(idx_info->storage);
+    HDassert(!H5F_addr_defined(idx_info->storage->idx_addr));
+    HDassert(NULL == idx_info->storage->u.farray.fa);
+    HDassert(idx_info->layout->nchunks);
+
+    /* General parameters */
+    if(idx_info->pline->nused > 0) {
+	unsigned chunk_size_len;        /* Size of encoded chunk size */
+
+        /* Compute the size required for encoding the size of a chunk, allowing
+         *      for an extra byte, in case the filter makes the chunk larger.
+         */
+        chunk_size_len = 1 + ((H5VM_log2_gen((uint64_t)idx_info->layout->size) + 8) / 8);
+        if(chunk_size_len > 8)
+            chunk_size_len = 8;
+
+        cparam.cls = H5FA_CLS_FILT_CHUNK;
+        cparam.raw_elmt_size = (uint8_t)(H5F_SIZEOF_ADDR(idx_info->f) + chunk_size_len + 4);
+    } /* end if */
+    else {
+        cparam.cls = H5FA_CLS_CHUNK;
+        cparam.raw_elmt_size = (uint8_t)H5F_SIZEOF_ADDR(idx_info->f);
+    } /* end else */
+    cparam.max_dblk_page_nelmts_bits = idx_info->layout->u.farray.cparam.max_dblk_page_nelmts_bits;
+    HDassert(cparam.max_dblk_page_nelmts_bits > 0);
+    cparam.nelmts = idx_info->layout->max_nchunks;
+
+    /* Set up the user data */
+    udata.f = idx_info->f;
+    udata.chunk_size = idx_info->layout->size;
+    
+    /* Create the fixed array for the chunk index */
+    if(NULL == (idx_info->storage->u.farray.fa = H5FA_create(idx_info->f, idx_info->dxpl_id, &cparam, &udata)))
+	HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "can't create fixed array")
+
+    /* Get the address of the fixed array in file */
+    if(H5FA_get_addr(idx_info->storage->u.farray.fa, &(idx_info->storage->idx_addr)) < 0)
+	HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't query fixed array address")
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* end H5D__farray_idx_create() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_is_space_alloc
+ *
+ * Purpose:	Query if space is allocated for index method
+ *
+ * Return:	Non-negative on success/Negative on failure
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static hbool_t
+H5D__farray_idx_is_space_alloc(const H5O_storage_chunk_t *storage)
+{
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Check args */
+    HDassert(storage);
+
+    FUNC_LEAVE_NOAPI((hbool_t)H5F_addr_defined(storage->idx_addr))
+} /* end H5D__farray_idx_is_space_alloc() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_insert
+ *
+ * Purpose:	Insert chunk address into the indexing structure.
+ *
+ * Return:	Non-negative on success/Negative on failure
+ *
+ * Programmer:	Vailin Choi; 5 May 2014
+ *              
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_insert(const H5D_chk_idx_info_t *idx_info, H5D_chunk_ud_t *udata,
+    const H5D_t H5_ATTR_UNUSED *dset)
+{
+    H5FA_t      *fa;  	/* Pointer to fixed array structure */
+    herr_t	ret_value = SUCCEED;		/* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Sanity checks */
+    HDassert(idx_info);
+    HDassert(idx_info->f);
+    HDassert(idx_info->pline);
+    HDassert(idx_info->layout);
+    HDassert(idx_info->storage);
+    HDassert(H5F_addr_defined(idx_info->storage->idx_addr));
+    HDassert(udata);
+
+    /* Check if the fixed array is open yet */
+    if(NULL == idx_info->storage->u.farray.fa) {
+        /* Open the fixed array in file */
+        if(H5D__farray_idx_open(idx_info) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTOPENOBJ, FAIL, "can't open fixed array")
+    } else  /* Patch the top level file pointer contained in fa if needed */
+	H5FA_patch_file(idx_info->storage->u.farray.fa, idx_info->f);
+
+    /* Set convenience pointer to fixed array structure */
+    fa = idx_info->storage->u.farray.fa;
+
+    if(!H5F_addr_defined(udata->chunk_block.offset))
+        HGOTO_ERROR(H5E_DATASET, H5E_CANTALLOC, FAIL, "The chunk should have allocated already")
+    if(udata->chunk_idx != (udata->chunk_idx & 0xffffffff)) /* negative value */
+        HGOTO_ERROR(H5E_ARGS, H5E_BADRANGE, FAIL, "chunk index must be less than 2^32")
+
+    /* Check for filters on chunks */
+    if(idx_info->pline->nused > 0) {
+        H5D_farray_filt_elmt_t elmt;            /* Fixed array element */
+
+	elmt.addr = udata->chunk_block.offset;
+        H5_CHECKED_ASSIGN(elmt.nbytes, uint32_t, udata->chunk_block.length, hsize_t);
+        elmt.filter_mask = udata->filter_mask;
+
+        /* Set the info for the chunk */
+        if(H5FA_set(fa, idx_info->dxpl_id, udata->chunk_idx, &elmt) < 0)
+	    HGOTO_ERROR(H5E_DATASET, H5E_CANTSET, FAIL, "can't set chunk info")
+    } /* end if */
+    else {
+        /* Set the address for the chunk */
+        if(H5FA_set(fa, idx_info->dxpl_id, udata->chunk_idx, &udata->chunk_block.offset) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTSET, FAIL, "can't set chunk address")
+    } /* end else */
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* H5D__farray_idx_insert() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_get_addr
+ *
+ * Purpose:	Get the file address of a chunk if file space has been
+ *		assigned.  Save the retrieved information in the udata
+ *		supplied.
+ *
+ * Return:	Non-negative on success/Negative on failure
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_get_addr(const H5D_chk_idx_info_t *idx_info, H5D_chunk_ud_t *udata)
+{
+    H5FA_t      *fa;  	/* Pointer to fixed array structure */
+    hsize_t     idx;   	/* Array index of chunk */
+    herr_t	ret_value = SUCCEED;		/* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Sanity checks */
+    HDassert(idx_info);
+    HDassert(idx_info->f);
+    HDassert(idx_info->pline);
+    HDassert(idx_info->layout);
+    HDassert(idx_info->storage);
+    HDassert(H5F_addr_defined(idx_info->storage->idx_addr));
+    HDassert(udata);
+
+    /* Check if the fixed array is open yet */
+    if(NULL == idx_info->storage->u.farray.fa) {
+        /* Open the fixed array in file */
+        if(H5D__farray_idx_open(idx_info) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTOPENOBJ, FAIL, "can't open fixed array")
+    } else  /* Patch the top level file pointer contained in fa if needed */
+	H5FA_patch_file(idx_info->storage->u.farray.fa, idx_info->f);
+
+    /* Set convenience pointer to fixed array structure */
+    fa = idx_info->storage->u.farray.fa;
+
+    /* Calculate the index of this chunk */
+    idx = H5VM_array_offset_pre((idx_info->layout->ndims - 1), idx_info->layout->max_down_chunks, udata->common.scaled);
+
+    udata->chunk_idx = idx;
+
+    /* Check for filters on chunks */
+    if(idx_info->pline->nused > 0) {
+        H5D_farray_filt_elmt_t elmt;            /* Fixed array element */
+
+        /* Get the information for the chunk */
+        if(H5FA_get(fa, idx_info->dxpl_id, idx, &elmt) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get chunk info")
+
+        /* Set the info for the chunk */
+        udata->chunk_block.offset = elmt.addr;
+        udata->chunk_block.length = elmt.nbytes;
+        udata->filter_mask = elmt.filter_mask;
+    } /* end if */
+    else {
+        /* Get the address for the chunk */
+        if(H5FA_get(fa, idx_info->dxpl_id, idx, &udata->chunk_block.offset) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get chunk address")
+
+        /* Update the other (constant) information for the chunk */
+	udata->chunk_block.length = idx_info->layout->size;
+        udata->filter_mask = 0;
+    } /* end else */
+
+    if(!H5F_addr_defined(udata->chunk_block.offset))
+	udata->chunk_block.length = 0;
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* H5D__farray_idx_get_addr() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_iterate_cb
+ *
+ * Purpose:	Callback routine for fixed array element iteration.
+ *
+ * Return:	Non-negative on success/Negative on failure
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static int
+H5D__farray_idx_iterate_cb(hsize_t H5_ATTR_UNUSED idx, const void *_elmt, void *_udata)
+{
+    H5D_farray_it_ud_t   *udata = (H5D_farray_it_ud_t *)_udata; /* User data */
+    unsigned ndims;                 /* Rank of chunk */
+    int curr_dim;                   /* Current dimension */
+    int ret_value = H5_ITER_CONT;   /* Return value */
+
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Compose generic chunk record for callback */
+    if(udata->filtered) {
+        const H5D_farray_filt_elmt_t *filt_elmt = (const H5D_farray_filt_elmt_t *)_elmt;
+
+        udata->chunk_rec.chunk_addr = filt_elmt->addr;
+        udata->chunk_rec.nbytes = filt_elmt->nbytes;
+        udata->chunk_rec.filter_mask = filt_elmt->filter_mask;
+    } /* end if */
+    else
+        udata->chunk_rec.chunk_addr = *(const haddr_t *)_elmt;
+
+    /* Make "generic chunk" callback */
+    if(H5F_addr_defined(udata->chunk_rec.chunk_addr))
+	if((ret_value = (udata->cb)(&udata->chunk_rec, udata->udata)) < 0)
+	    HERROR(H5E_DATASET, H5E_CALLBACK, "failure in generic chunk iterator callback");
+
+    /* Update coordinates of chunk in dataset */
+    ndims = udata->common.layout->ndims - 1;
+    HDassert(ndims > 0);
+    curr_dim = (int)(ndims - 1);
+    while(curr_dim >= 0) {
+        /* Increment coordinate in current dimension */
+        udata->chunk_rec.scaled[curr_dim]++;
+
+        /* Check if we went off the end of the current dimension */
+        if(udata->chunk_rec.scaled[curr_dim] >= udata->common.layout->chunks[curr_dim]) {
+            /* Reset coordinate & move to next faster dimension */
+            udata->chunk_rec.scaled[curr_dim] = 0;
+            curr_dim--;
+        } /* end if */
+        else
+            break;
+    } /* end while */
+
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* H5D__farray_idx_iterate_cb() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_iterate
+ *
+ * Purpose:	Iterate over the chunks in an index, making a callback
+ *              for each one.
+ *
+ * Return:	Non-negative on success/Negative on failure
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static int
+H5D__farray_idx_iterate(const H5D_chk_idx_info_t *idx_info,
+    H5D_chunk_cb_func_t chunk_cb, void *chunk_udata)
+{
+    H5FA_t      *fa;            /* Pointer to fixed array structure */
+    H5FA_stat_t fa_stat;        /* Fixed array statistics */
+    int ret_value = FAIL;       /* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Sanity checks */
+    HDassert(idx_info);
+    HDassert(idx_info->f);
+    HDassert(idx_info->pline);
+    HDassert(idx_info->layout);
+    HDassert(idx_info->storage);
+    HDassert(H5F_addr_defined(idx_info->storage->idx_addr));
+    HDassert(chunk_cb);
+    HDassert(chunk_udata);
+
+    /* Check if the fixed array is open yet */
+    if(NULL == idx_info->storage->u.farray.fa) {
+        /* Open the fixed array in file */
+        if(H5D__farray_idx_open(idx_info) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTOPENOBJ, FAIL, "can't open fixed array")
+    } else  /* Patch the top level file pointer contained in fa if needed */
+	H5FA_patch_file(idx_info->storage->u.farray.fa, idx_info->f);
+
+    /* Set convenience pointer to fixed array structure */
+    fa = idx_info->storage->u.farray.fa;
+
+    /* Get the fixed array statistics */
+    if(H5FA_get_stats(fa, &fa_stat) < 0)
+	HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't query fixed array statistics")
+
+    /* Check if there are any array elements */
+    if(fa_stat.nelmts > 0) {
+        H5D_farray_it_ud_t udata;   /* User data for iteration callback */
+
+	/* Initialize userdata */
+	HDmemset(&udata, 0, sizeof udata);
+	udata.common.layout = idx_info->layout;
+	udata.common.storage = idx_info->storage;
+        HDmemset(&udata.chunk_rec, 0, sizeof(udata.chunk_rec));
+        udata.filtered = (idx_info->pline->nused > 0);
+        if(!udata.filtered) {
+            udata.chunk_rec.nbytes = idx_info->layout->size;
+            udata.chunk_rec.filter_mask = 0;
+        } /* end if */
+	udata.cb = chunk_cb;
+	udata.udata = chunk_udata;
+	
+        /* Iterate over the fixed array elements */
+	if((ret_value = H5FA_iterate(fa, idx_info->dxpl_id, H5D__farray_idx_iterate_cb, &udata)) < 0)
+	    HERROR(H5E_DATASET, H5E_BADITER, "unable to iterate over fixed array chunk index");
+    } /* end if */
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* end H5D__farray_idx_iterate() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_remove
+ *
+ * Purpose:	Remove chunk from index.
+ *
+ * Return:	Non-negative on success/Negative on failure
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_remove(const H5D_chk_idx_info_t *idx_info, H5D_chunk_common_ud_t *udata)
+{
+    H5FA_t      *fa;  	/* Pointer to fixed array structure */
+    hsize_t     idx;   	/* Array index of chunk */
+    herr_t	ret_value = SUCCEED;		/* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Sanity checks */
+    HDassert(idx_info);
+    HDassert(idx_info->f);
+    HDassert(idx_info->pline);
+    HDassert(idx_info->layout);
+    HDassert(idx_info->storage);
+    HDassert(H5F_addr_defined(idx_info->storage->idx_addr));
+    HDassert(udata);
+
+    /* Check if the fixed array is open yet */
+    if(NULL == idx_info->storage->u.farray.fa)
+        /* Open the fixed array in file */
+        if(H5D__farray_idx_open(idx_info) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTOPENOBJ, FAIL, "can't open fixed array")
+
+    /* Set convenience pointer to fixed array structure */
+    fa = idx_info->storage->u.farray.fa;
+
+    /* Calculate the index of this chunk */
+    idx = H5VM_array_offset_pre((idx_info->layout->ndims - 1), idx_info->layout->max_down_chunks, udata->scaled);
+
+    /* Check for filters on chunks */
+    if(idx_info->pline->nused > 0) {
+        H5D_farray_filt_elmt_t elmt;            /* Fixed array element */
+
+        /* Get the info about the chunk for the index */
+        if(H5FA_get(fa, idx_info->dxpl_id, idx, &elmt) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get chunk info")
+
+        /* Remove raw data chunk from file */
+        HDassert(H5F_addr_defined(elmt.addr));
+        H5_CHECK_OVERFLOW(elmt.nbytes, /*From: */uint32_t, /*To: */hsize_t);
+        if(H5MF_xfree(idx_info->f, H5FD_MEM_DRAW, idx_info->dxpl_id, elmt.addr, (hsize_t)elmt.nbytes) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTFREE, FAIL, "unable to free chunk")
+
+        /* Reset the info about the chunk for the index */
+        elmt.addr = HADDR_UNDEF;
+        elmt.nbytes = 0;
+        elmt.filter_mask = 0;
+        if(H5FA_set(fa, idx_info->dxpl_id, idx, &elmt) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTSET, FAIL, "unable to reset chunk info")
+    } /* end if */
+    else {
+        haddr_t     addr = HADDR_UNDEF;     /* Chunk address */
+
+        /* Get the address of the chunk for the index */
+        if(H5FA_get(fa, idx_info->dxpl_id, idx, &addr) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get chunk address")
+
+        /* Remove raw data chunk from file */
+        HDassert(H5F_addr_defined(addr));
+        H5_CHECK_OVERFLOW(idx_info->layout->size, /*From: */uint32_t, /*To: */hsize_t);
+        if(H5MF_xfree(idx_info->f, H5FD_MEM_DRAW, idx_info->dxpl_id, addr, (hsize_t)idx_info->layout->size) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTFREE, FAIL, "unable to free chunk")
+
+        /* Reset the address of the chunk for the index */
+        addr = HADDR_UNDEF;
+        if(H5FA_set(fa, idx_info->dxpl_id, idx, &addr) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTSET, FAIL, "unable to reset chunk address")
+    } /* end else */
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* H5D__farray_idx_remove() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_delete_cb
+ *
+ * Purpose:	Delete space for chunk in file
+ *
+ * Return:	Success:	Non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static int
+H5D__farray_idx_delete_cb(hsize_t H5_ATTR_UNUSED idx, const void *_elmt, void *_udata)
+{
+    H5D_farray_del_ud_t *udata = (H5D_farray_del_ud_t *)_udata;         /* User data for callback */
+    haddr_t chunk_addr;                 /* Address of chunk */
+    uint32_t nbytes;                    /* Size of chunk */
+    int ret_value = H5_ITER_CONT;       /* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Sanity checks */
+    HDassert(_elmt);
+    HDassert(udata);
+    HDassert(udata->f);
+
+    /* Check for filtered elements */
+    if(udata->filtered) {
+        const H5D_farray_filt_elmt_t *filt_elmt = (const H5D_farray_filt_elmt_t *)_elmt;
+
+        chunk_addr = filt_elmt->addr;
+        nbytes = filt_elmt->nbytes;
+    } /* end if */
+    else {
+        chunk_addr = *(const haddr_t *)_elmt;
+        nbytes = udata->unfilt_size;
+    } /* end else */
+
+    /* Remove raw data chunk from file */
+    H5_CHECK_OVERFLOW(nbytes, /*From: */uint32_t, /*To: */hsize_t);
+    if(H5MF_xfree(udata->f, H5FD_MEM_DRAW, udata->dxpl_id, chunk_addr, (hsize_t)nbytes) < 0)
+        HGOTO_ERROR(H5E_DATASET, H5E_CANTFREE, H5_ITER_ERROR, "unable to free chunk")
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* end H5D__farray_idx_delete_cb() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_delete
+ *
+ * Purpose:	Delete index and raw data storage for entire dataset
+ *              (i.e. all chunks)
+ *
+ * Return:	Success:	Non-negative
+ *		Failure:	negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_delete(const H5D_chk_idx_info_t *idx_info)
+{
+    herr_t ret_value = SUCCEED;     /* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Sanity checks */
+    HDassert(idx_info);
+    HDassert(idx_info->f);
+    HDassert(idx_info->pline);
+    HDassert(idx_info->layout);
+    HDassert(idx_info->storage);
+
+    /* Check if the index data structure has been allocated */
+    if(H5F_addr_defined(idx_info->storage->idx_addr)) {
+        H5FA_t      *fa;            /* Pointer to fixed array structure */
+        H5FA_stat_t fa_stat;        /* Fixed array statistics */
+        H5D_farray_ctx_ud_t ctx_udata;  /* User data for fixed array open call */
+
+        /* Check if the fixed array is open yet */
+        if(NULL == idx_info->storage->u.farray.fa)
+            /* Open the fixed array in file */
+            if(H5D__farray_idx_open(idx_info) < 0)
+                HGOTO_ERROR(H5E_DATASET, H5E_CANTOPENOBJ, FAIL, "can't open fixed array")
+
+        /* Set convenience pointer to fixed array structure */
+        fa = idx_info->storage->u.farray.fa;
+
+        /* Get the fixed array statistics */
+        if(H5FA_get_stats(fa, &fa_stat) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't query fixed array statistics")
+
+        /* Check if there are any array elements */
+        if(fa_stat.nelmts > 0) {
+            H5D_farray_del_ud_t udata;         /* User data for callback */
+
+            /* Initialize user data for callback */
+            udata.f = idx_info->f;
+            udata.dxpl_id = idx_info->dxpl_id;
+            udata.filtered = (idx_info->pline->nused > 0);
+            udata.unfilt_size = idx_info->layout->size;
+
+            /* Iterate over the chunk addresses in the fixed array, deleting each chunk */
+            if(H5FA_iterate(fa, idx_info->dxpl_id, H5D__farray_idx_delete_cb, &udata) < 0)
+                HGOTO_ERROR(H5E_DATASET, H5E_BADITER, FAIL, "unable to iterate over chunk addresses")
+        } /* end if */
+
+        /* Close fixed array */
+        if(H5FA_close(idx_info->storage->u.farray.fa, idx_info->dxpl_id) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTCLOSEOBJ, FAIL, "unable to close fixed array")
+        idx_info->storage->u.farray.fa = NULL;
+
+        /* Set up the user data */
+        ctx_udata.f = idx_info->f;
+        ctx_udata.chunk_size = idx_info->layout->size;
+
+        /* Delete fixed array */
+        if(H5FA_delete(idx_info->f, idx_info->dxpl_id, idx_info->storage->idx_addr, &ctx_udata) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTDELETE, FAIL, "unable to delete chunk fixed array")
+        idx_info->storage->idx_addr = HADDR_UNDEF;
+    } /* end if */
+    else
+        HDassert(NULL == idx_info->storage->u.farray.fa);
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* end H5D__farray_idx_delete() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_copy_setup
+ *
+ * Purpose:	Set up any necessary information for copying chunks
+ *
+ * Return:	Non-negative on success/Negative on failure
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_copy_setup(const H5D_chk_idx_info_t *idx_info_src,
+    const H5D_chk_idx_info_t *idx_info_dst)
+{
+    herr_t      ret_value = SUCCEED;    /* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Check args */
+    HDassert(idx_info_src);
+    HDassert(idx_info_src->f);
+    HDassert(idx_info_src->pline);
+    HDassert(idx_info_src->layout);
+    HDassert(idx_info_src->storage);
+    HDassert(idx_info_dst);
+    HDassert(idx_info_dst->f);
+    HDassert(idx_info_dst->pline);
+    HDassert(idx_info_dst->layout);
+    HDassert(idx_info_dst->storage);
+    HDassert(!H5F_addr_defined(idx_info_dst->storage->idx_addr));
+
+    /* Check if the source fixed array is open yet */
+    if(NULL == idx_info_src->storage->u.farray.fa)
+        /* Open the fixed array in file */
+        if(H5D__farray_idx_open(idx_info_src) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTOPENOBJ, FAIL, "can't open fixed array")
+
+    /* Set copied metadata tag */
+    H5_BEGIN_TAG(idx_info_dst->dxpl_id, H5AC__COPIED_TAG, FAIL);
+
+    /* Create the fixed array that describes chunked storage in the dest. file */
+    if(H5D__farray_idx_create(idx_info_dst) < 0)
+        HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "unable to initialize chunked storage")
+    HDassert(H5F_addr_defined(idx_info_dst->storage->idx_addr));
+
+    /* Reset metadata tag */
+    H5_END_TAG(FAIL);
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* end H5D__farray_idx_copy_setup() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_copy_shutdown
+ *
+ * Purpose:	Shutdown any information from copying chunks
+ *
+ * Return:	Non-negative on success/Negative on failure
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_copy_shutdown(H5O_storage_chunk_t *storage_src,
+    H5O_storage_chunk_t *storage_dst, hid_t dxpl_id)
+{
+    herr_t      ret_value = SUCCEED;       /* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Check args */
+    HDassert(storage_src);
+    HDassert(storage_src->u.farray.fa);
+    HDassert(storage_dst);
+    HDassert(storage_dst->u.farray.fa);
+
+    /* Close fixed arrays */
+    if(H5FA_close(storage_src->u.farray.fa, dxpl_id) < 0)
+        HGOTO_ERROR(H5E_DATASET, H5E_CANTCLOSEOBJ, FAIL, "unable to close fixed array")
+    storage_src->u.farray.fa = NULL;
+    if(H5FA_close(storage_dst->u.farray.fa, dxpl_id) < 0)
+        HGOTO_ERROR(H5E_DATASET, H5E_CANTCLOSEOBJ, FAIL, "unable to close fixed array")
+    storage_dst->u.farray.fa = NULL;
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* end H5D__farray_idx_copy_shutdown() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:    H5D__farray_idx_size
+ *
+ * Purpose:     Retrieve the amount of index storage for chunked dataset
+ *
+ * Return:      Success:        Non-negative
+ *              Failure:        negative
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_size(const H5D_chk_idx_info_t *idx_info, hsize_t *index_size)
+{
+    H5FA_t      *fa;                    /* Pointer to fixed array structure */
+    H5FA_stat_t fa_stat;                /* Fixed array statistics */
+    herr_t ret_value = SUCCEED;         /* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Check args */
+    HDassert(idx_info);
+    HDassert(idx_info->f);
+    HDassert(idx_info->pline);
+    HDassert(idx_info->layout);
+    HDassert(idx_info->storage);
+    HDassert(H5F_addr_defined(idx_info->storage->idx_addr));
+    HDassert(index_size);
+
+    /* Open the fixed array in file */
+    if(H5D__farray_idx_open(idx_info) < 0)
+        HGOTO_ERROR(H5E_DATASET, H5E_CANTOPENOBJ, FAIL, "can't open fixed array")
+
+    /* Set convenience pointer to fixed array structure */
+    fa = idx_info->storage->u.farray.fa;
+
+    /* Get the fixed array statistics */
+    if(H5FA_get_stats(fa, &fa_stat) < 0)
+	HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't query fixed array statistics")
+
+    *index_size = fa_stat.hdr_size;
+    *index_size += fa_stat.dblk_size;
+
+done:
+    if(idx_info->storage->u.farray.fa) {
+        if(H5FA_close(idx_info->storage->u.farray.fa, idx_info->dxpl_id) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTCLOSEOBJ, FAIL, "unable to close fixed array")
+        idx_info->storage->u.farray.fa = NULL;
+    } /* end if */
+
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* end H5D__farray_idx_size() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_reset
+ *
+ * Purpose:	Reset indexing information.
+ *
+ * Return:	Non-negative on success/Negative on failure
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_reset(H5O_storage_chunk_t *storage, hbool_t reset_addr)
+{
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Check args */
+    HDassert(storage);
+
+    /* Reset index info */
+    if(reset_addr)
+	storage->idx_addr = HADDR_UNDEF;
+    storage->u.farray.fa = NULL;
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_idx_reset() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_dump
+ *
+ * Purpose:	Dump indexing information to a stream.
+ *
+ * Return:	Non-negative on success/Negative on failure
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_dump(const H5O_storage_chunk_t *storage, FILE *stream)
+{
+    FUNC_ENTER_STATIC_NOERR
+
+    /* Check args */
+    HDassert(storage);
+    HDassert(stream);
+
+    HDfprintf(stream, "    Address: %a\n", storage->idx_addr);
+
+    FUNC_LEAVE_NOAPI(SUCCEED)
+} /* end H5D__farray_idx_dump() */
+
+
+/*-------------------------------------------------------------------------
+ * Function:	H5D__farray_idx_dest
+ *
+ * Purpose:	Release indexing information in memory.
+ *
+ * Return:	Non-negative on success/Negative on failure
+ *
+ * Programmer:	Vailin Choi
+ *              Thursday, April 30, 2009
+ *
+ *-------------------------------------------------------------------------
+ */
+static herr_t
+H5D__farray_idx_dest(const H5D_chk_idx_info_t *idx_info)
+{
+    herr_t      ret_value = SUCCEED;       /* Return value */
+
+    FUNC_ENTER_STATIC
+
+    /* Check args */
+    HDassert(idx_info);
+    HDassert(idx_info->f);
+    HDassert(idx_info->storage);
+
+    /* Check if the fixed array is open */
+    if(idx_info->storage->u.farray.fa) {
+        /* Close fixed array */
+        if(H5FA_close(idx_info->storage->u.farray.fa, idx_info->dxpl_id) < 0)
+            HGOTO_ERROR(H5E_DATASET, H5E_CANTCLOSEOBJ, FAIL, "unable to close fixed array")
+        idx_info->storage->u.farray.fa = NULL;
+    } /* end if */
+
+done:
+    FUNC_LEAVE_NOAPI(ret_value)
+} /* end H5D__farray_idx_dest() */
+