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authorBill Wendling <wendling@ncsa.uiuc.edu>2003-02-10 21:53:08 (GMT)
committerBill Wendling <wendling@ncsa.uiuc.edu>2003-02-10 21:53:08 (GMT)
commit273479f8f8e4621be5c273e3dd9b3e1bddb3709e (patch)
tree800825f8029ec5506c4e9d46a28b76a731a220fc /src
parentfab16671cb2245bb75e6531ec07c0949b0ae7a68 (diff)
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[svn-r6392] Purpose:
Update Description: Folded in Quincey's changes to the caching stuff. (Stole the code from the H5FDmpio driver). Roughed in some code for doing a read from the SAP. Also roughed in code for doing a write. However, the write requires an OID, which I'm not sure how to pass down into the driver (maybe via the dxpl_id?...but then it has always to be set before calling one of these routines...). Removed some of the global variables which were there because of the FPHDF5 stuff... Removed the H5Ofphdf5.* stuff from the Makefile.in, since I'm pretty sure it's going away and I don't want to waste time updating that module if that's the case...so just don't compile it. Platforms tested: Linux
Diffstat (limited to 'src')
-rw-r--r--src/H5FDfphdf5.c1401
-rw-r--r--src/H5FDfphdf5.h40
-rw-r--r--src/Makefile.in13
3 files changed, 874 insertions, 580 deletions
diff --git a/src/H5FDfphdf5.c b/src/H5FDfphdf5.c
index 689101b..2eddc55 100644
--- a/src/H5FDfphdf5.c
+++ b/src/H5FDfphdf5.c
@@ -14,10 +14,12 @@
#include "H5private.h" /* Library functions */
#include "H5ACprivate.h" /* Metadata cache */
+#include "H5Dprivate.h" /* Dataset functions */
#include "H5Eprivate.h" /* Error handling */
#include "H5Fprivate.h" /* Files */
#include "H5FDprivate.h" /* File driver */
#include "H5FDfphdf5.h" /* Flexible PHDF5 I/O file driver */
+#include "H5FDmpio.h" /* MPI I/O file driver */
#include "H5Iprivate.h" /* Object IDs */
#include "H5MMprivate.h" /* Memory allocation */
#include "H5Pprivate.h" /* Property lists */
@@ -37,15 +39,20 @@ static hid_t H5FD_FPHDF5_g = 0;
/*
* The description of a file belonging to this driver.
*
- * The EOF value is only used just after the file is opened in order for
+ * The FILE_ID field is an SAP defined value. When reading/writing to the
+ * SAP, this value should be sent.
+ *
+ * The EOF field is only used just after the file is opened in order for
* the library to determine whether the file is empty, truncated, or
- * okay. The MPIO driver doesn't bother to keep it updated since it's an
- * expensive operation.
+ * okay. The FPHDF5 driver doesn't bother to keep it updated since it's
+ * an expensive operation.
*/
typedef struct H5FP_fphdf5_t {
H5FD_t pub; /*Public stuff, must be first (ick!) */
+ unsigned file_id; /*ID used by the SAP */
MPI_File f; /*MPIO file handle */
MPI_Comm comm; /*Communicator */
+ MPI_Comm barrier_comm; /*Barrier communicator */
MPI_Info info; /*File information */
int mpi_rank; /*This process's rank */
int mpi_size; /*Total number of processes */
@@ -74,18 +81,21 @@ static herr_t H5FD_fphdf5_set_eoa(H5FD_t *_file, haddr_t addr);
static haddr_t H5FD_fphdf5_get_eof(H5FD_t *_file);
static herr_t H5FD_fphdf5_get_handle(H5FD_t *_file, hid_t fapl,
void **file_handle);
-static herr_t H5FD_fphdf5_read(H5FD_t *_file, H5FD_mem_t type, hid_t dxpl_id,
- haddr_t addr, size_t size, void *buf);
+static herr_t H5FD_fphdf5_read(H5FD_t *_file, H5FD_mem_t mem_type, hid_t dxpl_id,
+ haddr_t addr, size_t size, void *buf);
static herr_t H5FD_fphdf5_write(H5FD_t *_file, H5FD_mem_t type, hid_t dxpl_id,
- haddr_t addr, size_t size, const void *buf);
-static herr_t H5FD_fphdf5_flush(H5FD_t *_file, unsigned closing);
+ haddr_t addr, size_t size, const void *buf);
+static herr_t H5FD_fphdf5_flush(H5FD_t *_file, hid_t dxpl_id, unsigned closing);
/*
* FPHDF5-specific file access properties
*/
typedef struct H5FD_fphdf5_fapl_t {
- MPI_Comm comm; /*communicator */
- MPI_Info info; /*file information */
+ MPI_Comm comm; /*communicator */
+ MPI_Comm barrier_comm; /*barrier communicator */
+ MPI_Info info; /*file information */
+ unsigned sap_rank; /*SAP's rank */
+ unsigned capt_rank; /*captain rank */
} H5FD_fphdf5_fapl_t;
/*
@@ -121,18 +131,6 @@ static const H5FD_class_t H5FD_fphdf5_g = {
H5FD_FLMAP_SINGLE, /*fl_map */
};
-/*
- * Global var to allow elimination of redundant metadata writes to be
- * controlled by the value of an environment variable.
- *
- * Use the elimination by default unless this is the Intel Red machine
- */
-#ifndef __PUMAGON__
-hbool_t H5_fphdf5_1_metawrite_g = TRUE;
-#else
-hbool_t H5_fphdf5_1_metawrite_g = FALSE;
-#endif
-
/* Interface initialization */
#define PABLO_MASK H5FD_fphdf5_mask
#define INTERFACE_INIT H5FD_fphdf5_init
@@ -218,26 +216,34 @@ done:
*-------------------------------------------------------------------------
*/
herr_t
-H5Pset_fapl_fphdf5(hid_t fapl_id, MPI_Comm comm, MPI_Info info)
+H5Pset_fapl_fphdf5(hid_t fapl_id, MPI_Comm comm, MPI_Comm barrier_comm,
+ MPI_Info info, unsigned sap_rank)
{
H5FD_fphdf5_fapl_t fa;
H5P_genplist_t *plist;
+ int mrc, comm_size;
herr_t ret_value;
FUNC_ENTER_API(H5Pset_fapl_fphdf5, FAIL);
- H5TRACE3("e","iMcMi",fapl_id,comm,info);
+ H5TRACE5("e","iMcMcMiIu",fapl_id,comm,barrier_comm,info,sap_rank);
if (fapl_id == H5P_DEFAULT)
HGOTO_ERROR(H5E_PLIST, H5E_BADVALUE, FAIL,
"can't set values in default property list");
/* Check arguments */
- if ((plist = H5P_object_verify(fapl_id,H5P_FILE_ACCESS)) == NULL)
+ if ((plist = H5P_object_verify(fapl_id, H5P_FILE_ACCESS)) == NULL)
HGOTO_ERROR(H5E_PLIST, H5E_BADTYPE, FAIL, "not a file access list");
+ if ((mrc = MPI_Comm_size(comm, &comm_size)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_Comm_size failed", mrc);
+
/* Initialize driver specific properties */
fa.comm = comm;
+ fa.barrier_comm = barrier_comm;
fa.info = info;
+ fa.sap_rank = sap_rank;
+ fa.capt_rank = (sap_rank + 1) % comm_size;
ret_value = H5P_set_driver(plist, H5FD_FPHDF5, &fa);
@@ -265,14 +271,16 @@ done:
*-------------------------------------------------------------------------
*/
herr_t
-H5Pget_fapl_fphdf5(hid_t fapl_id, MPI_Comm *comm /*out*/, MPI_Info *info /*out*/)
+H5Pget_fapl_fphdf5(hid_t fapl_id, MPI_Comm *comm, MPI_Comm *barrier_comm,
+ MPI_Info *info, unsigned *sap_rank, unsigned *capt_rank)
{
H5FD_fphdf5_fapl_t *fa;
H5P_genplist_t *plist;
herr_t ret_value = SUCCEED;
FUNC_ENTER_API(H5Pget_fapl_fphdf5, FAIL);
- H5TRACE3("e","ixx",fapl_id,comm,info);
+ H5TRACE6("e","i*Mc*Mc*Mi*Iu*Iu",fapl_id,comm,barrier_comm,info,sap_rank,
+ capt_rank);
if ((plist = H5P_object_verify(fapl_id, H5P_FILE_ACCESS)) == NULL)
HGOTO_ERROR(H5E_PLIST, H5E_BADTYPE, FAIL, "not a file access list");
@@ -286,9 +294,18 @@ H5Pget_fapl_fphdf5(hid_t fapl_id, MPI_Comm *comm /*out*/, MPI_Info *info /*out*/
if (comm)
*comm = fa->comm;
+ if (barrier_comm)
+ *barrier_comm = fa->barrier_comm;
+
if (info)
*info = fa->info;
+ if (sap_rank)
+ *sap_rank = fa->sap_rank;
+
+ if (capt_rank)
+ *capt_rank = fa->capt_rank;
+
done:
FUNC_LEAVE_API(ret_value);
}
@@ -323,6 +340,37 @@ done:
FUNC_LEAVE_NOAPI(ret_value);
}
+/*-------------------------------------------------------------------------
+ * Function: H5FD_fphdf5_barrier_communicator
+ * Purpose: Returns the MPI communicator for the file that can be
+ * used in an MPI_Barrier() statement for the client
+ * processes.
+ * Return: Success: The barrier communicator
+ * Failure: NULL
+ * Programmer: Bill Wendling
+ * 10. February 2003
+ * Modifications:
+ *-------------------------------------------------------------------------
+ */
+MPI_Comm
+H5FD_fphdf5_barrier_communicator(H5FD_t *_file)
+{
+ H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
+ MPI_Comm ret_value;
+
+ FUNC_ENTER_NOAPI(H5FD_fphdf5_communicator, MPI_COMM_NULL);
+
+ /* check args */
+ assert(file);
+ assert(file->pub.driver_id == H5FD_FPHDF5);
+
+ /* Set return value */
+ ret_value = file->barrier_comm;
+
+done:
+ FUNC_LEAVE_NOAPI(ret_value);
+}
+
/*-------------------------------------------------------------------------
* Function: H5FD_fphdf5_mpi_rank
@@ -471,21 +519,104 @@ done:
/*-------------------------------------------------------------------------
- * Function: H5FD_fphdf5_fapl_get
- *
- * Purpose: Returns a file access property list which could be used to
- * create another file the same as this one.
+ * Function: H5Pset_dxpl_fphdf5
+ * Purpose: Set the data transfer property list DXPL_ID to use
+ * transfer mode XFER_MODE. The property list can then be
+ * used to control the I/O transfer mode during data I/O
+ * operations. The valid transfer modes are:
*
- * Return: Success: Ptr to new file access property list with all
- * fields copied from the file pointer.
- *
- * Failure: NULL
- *
- * Programmer: Robb Matzke
- * Friday, August 13, 1999
+ * H5FD_MPIO_INDEPENDENT:
+ * Use independent I/O access (the default).
*
+ * H5FD_MPIO_COLLECTIVE:
+ * Use collective I/O access.
+ * Return: Success: SUCCEED
+ * Failure: FAIL
+ * Programmer: Bill Wendling
+ * 10. February 2003
+ * Modifications:
+ *-------------------------------------------------------------------------
+ */
+herr_t
+H5Pset_dxpl_fphdf5(hid_t dxpl_id, H5FD_mpio_xfer_t xfer_mode)
+{
+ H5P_genplist_t *plist;
+ herr_t ret_value = SUCCEED;
+
+ FUNC_ENTER_API(H5Pset_dxpl_fphdf5, FAIL);
+ H5TRACE2("e","iDt",dxpl_id,xfer_mode);
+
+ if (dxpl_id == H5P_DEFAULT)
+ HGOTO_ERROR(H5E_PLIST, H5E_BADVALUE, FAIL,
+ "can't set values in default property list");
+
+ /* Check arguments */
+ if ((plist = H5P_object_verify(dxpl_id,H5P_DATASET_XFER)) == NULL)
+ HGOTO_ERROR(H5E_PLIST, H5E_BADTYPE, FAIL, "not a dxpl");
+
+ if (xfer_mode != H5FD_MPIO_INDEPENDENT && xfer_mode != H5FD_MPIO_COLLECTIVE)
+ HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "incorrect xfer_mode");
+
+ /* Set the transfer mode */
+ if (H5P_set(plist, H5D_XFER_IO_XFER_MODE_NAME, &xfer_mode) < 0)
+ HGOTO_ERROR(H5E_PLIST, H5E_CANTSET, FAIL, "unable to set value");
+
+ /* Initialize driver-specific properties */
+ ret_value = H5P_set_driver(plist, H5FD_MPIO, NULL);
+
+done:
+ FUNC_LEAVE_API(ret_value);
+}
+
+
+/*-------------------------------------------------------------------------
+ * Function: H5Pget_dxpl_fphdf5
+ * Purpose: Queries the transfer mode current set in the data
+ * transfer property list DXPL_ID. This is not collective.
+ * Return: Success: SUCCEED - with the transfer mode returned
+ * through the XFER_MODE argument if
+ * it is non-null.
+ * Failure: FAIL
+ * Programmer: Bill Wendling
+ * 10. February 2003
+ * Modifications:
+ *-------------------------------------------------------------------------
+ */
+herr_t
+H5Pget_dxpl_fphdf5(hid_t dxpl_id, H5FD_mpio_xfer_t *xfer_mode)
+{
+ H5P_genplist_t *plist;
+ herr_t ret_value = SUCCEED;
+
+ FUNC_ENTER_API(H5Pget_dxpl_fphdf5, FAIL);
+ H5TRACE2("e","i*Dt",dxpl_id,xfer_mode);
+
+ if ((plist = H5P_object_verify(dxpl_id,H5P_DATASET_XFER)) == NULL)
+ HGOTO_ERROR(H5E_PLIST, H5E_BADTYPE, FAIL, "not a dxpl");
+
+ if (H5P_get_driver(plist) != H5FD_FPHDF5)
+ HGOTO_ERROR(H5E_PLIST, H5E_BADVALUE, FAIL, "incorrect VFL driver");
+
+ /* Get the transfer mode */
+ if (xfer_mode)
+ if (H5P_get(plist, H5D_XFER_IO_XFER_MODE_NAME, xfer_mode) < 0)
+ HGOTO_ERROR(H5E_PLIST, H5E_CANTSET, FAIL, "unable to get value");
+
+done:
+ FUNC_LEAVE_API(ret_value);
+}
+
+
+/*-------------------------------------------------------------------------
+ * Function: H5FD_fphdf5_fapl_get
+ * Purpose: Returns a file access property list which could be used
+ * to create another file the same as this one.
+ * Return: Success: Ptr to new file access property list with all
+ * fields copied from the file pointer.
+ * Failure: NULL
+ * Programmer: Bill Wendling
+ * 07. February 2003
* Modifications:
- *
*-------------------------------------------------------------------------
*/
static void *
@@ -506,6 +637,7 @@ H5FD_fphdf5_fapl_get(H5FD_t *_file)
/* These should both be copied. --rpm, 1999-08-13 */
fa->comm = file->comm;
+ fa->barrier_comm = file->barrier_comm;
fa->info = file->info;
/* Set return value */
@@ -537,15 +669,17 @@ H5FD_fphdf5_open(const char *name, unsigned flags, hid_t fapl_id, haddr_t maxadd
H5FP_fphdf5_t *file = NULL;
MPI_File fh;
int mpi_amode;
+ int mpi_rank;
+ int mpi_size;
int mrc;
MPI_Offset size;
- const H5FD_fphdf5_fapl_t *fa = NULL;
H5FD_fphdf5_fapl_t _fa;
+ const H5FD_fphdf5_fapl_t *fa = NULL;
H5P_genplist_t *plist;
H5FD_t *ret_value = NULL;
unsigned file_id;
unsigned req_id;
- MPI_Status status;
+ MPI_Status status;
/* Flag to indicate that the file was successfully opened */
unsigned file_opened = FALSE;
@@ -555,13 +689,14 @@ H5FD_fphdf5_open(const char *name, unsigned flags, hid_t fapl_id, haddr_t maxadd
/* check args */
assert(name);
- /* Obtain a pointer to mpio-specific file access properties */
+ /* Obtain a pointer to fphdf5-specific file access properties */
if ((plist = H5P_object_verify(fapl_id, H5P_FILE_ACCESS)) == NULL)
HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, NULL, "not a file access property list");
if (fapl_id == H5P_FILE_ACCESS_DEFAULT || H5P_get_driver(plist) != H5FD_FPHDF5) {
- _fa.comm = MPI_COMM_SELF; /*default*/
- _fa.info = MPI_INFO_NULL; /*default*/
+ _fa.comm = MPI_COMM_SELF; /*default*/
+ _fa.barrier_comm = MPI_COMM_SELF; /*default*/
+ _fa.info = MPI_INFO_NULL; /*default*/
fa = &_fa;
} else {
fa = H5P_get_driver_info(plist);
@@ -584,15 +719,18 @@ H5FD_fphdf5_open(const char *name, unsigned flags, hid_t fapl_id, haddr_t maxadd
file_opened = TRUE;
- if (H5FP_request_open(name, (int)strlen(name), H5FP_OBJ_FILE, maxaddr,
+ if (H5FP_request_open(name, (int)strlen(name), H5FP_OBJ_FILE, (MPI_Offset)maxaddr,
&file_id, &req_id) == FAIL)
- HGOTO_ERROR(H5E_IO, H5E_CANTOPENFILE, NULL,
+ HGOTO_ERROR(H5E_FPHDF5, H5E_CANTOPENFILE, NULL,
"can't inform SAP of file open");
+ if ((mrc = MPI_Comm_rank(H5FP_SAP_COMM, &mpi_rank)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(NULL, "MPI_Comm_rank failed", mrc);
+
HDmemset(&status, 0, sizeof(status));
/* Get the file ID from the SAP */
- if (H5FP_my_rank == H5FP_capt_rank)
+ if ((unsigned)mpi_rank == H5FP_capt_rank)
if ((mrc = MPI_Recv(&file_id, 1, MPI_UNSIGNED, (int)H5FP_sap_rank,
H5FP_TAG_FILE_ID, H5FP_SAP_COMM,
&status)) != MPI_SUCCESS)
@@ -600,18 +738,18 @@ H5FD_fphdf5_open(const char *name, unsigned flags, hid_t fapl_id, haddr_t maxadd
/* Broadcast the file ID */
if ((mrc = MPI_Bcast(&file_id, 1, MPI_UNSIGNED,
- 0, H5FP_SAP_BARRIER_COMM)) != MPI_SUCCESS)
+ (int)H5FP_capt_rank, H5FP_SAP_BARRIER_COMM)) != MPI_SUCCESS)
HMPI_GOTO_ERROR(NULL, "MPI_Bcast failed", mrc);
/* The captain rank will get the filesize and broadcast it. */
- if (H5FP_my_rank == H5FP_capt_rank)
+ if ((unsigned)mpi_rank == H5FP_capt_rank)
/* Get current file size */
if ((mrc = MPI_File_get_size(fh, &size)) != MPI_SUCCESS)
HMPI_GOTO_ERROR(NULL, "MPI_File_get_size failed", mrc);
- /* Broadcast file-size */
+ /* Broadcast file size */
if ((mrc = MPI_Bcast(&size, sizeof(MPI_Offset), MPI_BYTE,
- 0, H5FP_SAP_BARRIER_COMM)) != MPI_SUCCESS)
+ (int)H5FP_capt_rank, H5FP_SAP_BARRIER_COMM)) != MPI_SUCCESS)
HMPI_GOTO_ERROR(NULL, "MPI_Bcast failed", mrc);
/* Only if size > 0, truncate the file - if requested */
@@ -626,20 +764,24 @@ H5FD_fphdf5_open(const char *name, unsigned flags, hid_t fapl_id, haddr_t maxadd
size = 0;
}
+ /* Grab the size of the communicator */
+ if ((mrc = MPI_Comm_size(H5FP_SAP_COMM, &mpi_size)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(NULL, "MPI_Comm_size failed", mrc);
+
/* Build the return value and initialize it */
if ((file = H5MM_calloc(sizeof(H5FP_fphdf5_t))) == NULL)
HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, NULL, "memory allocation failed");
+ file->file_id = file_id;
file->f = fh;
file->comm = fa->comm;
file->info = fa->info;
- file->mpi_rank = H5FP_my_rank;
- file->mpi_size = H5FP_comm_size;
+ file->mpi_rank = mpi_rank;
+ file->mpi_size = mpi_size;
file->eof = H5FD_fphdf5_MPIOff_to_haddr(size);
/* Set return value */
ret_value = (H5FD_t *)file;
- ret_value->fphdf5_id = file_id; /* the file descriptor used in FPHDF5 */
done:
if (!ret_value && file_opened)
@@ -651,39 +793,36 @@ done:
/*-------------------------------------------------------------------------
* Function: H5FD_fphdf5_close
- *
- * Purpose: Closes a file. This is collective.
- *
- * Return: Success: Non-negative
- *
- * Failure: Negative
- *
- * Programmer: Unknown
- * January 30, 1998
- *
+ * Purpose: Closes a file. This is collective.
+ * Return: Success: SUCCEED
+ * Failure: FAIL
+ * Programmer: Bill Wendling
+ * 07. February 2003
* Modifications:
- * Robb Matzke, 1998-02-18
- * Added the ACCESS_PARMS argument.
- *
- * Robb Matzke, 1999-08-06
- * Modified to work with the virtual file layer.
*-------------------------------------------------------------------------
*/
static herr_t
H5FD_fphdf5_close(H5FD_t *_file)
{
- H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
- int mpi_code; /* mpi return code */
- herr_t ret_value=SUCCEED; /* Return value */
+ H5FP_fphdf5_t *file = (H5FP_fphdf5_t *)_file;
+ H5FP_status_t status;
+ unsigned req_id;
+ int mrc;
+ herr_t ret_value = SUCCEED;
FUNC_ENTER_NOAPI(H5FD_fphdf5_close, FAIL);
+ /* check args */
assert(file);
- assert(H5FD_FPHDF5==file->pub.driver_id);
+ assert(file->pub.driver_id == H5FD_FPHDF5);
/* MPI_File_close sets argument to MPI_FILE_NULL */
- if (MPI_SUCCESS != (mpi_code=MPI_File_close(&(file->f)/*in,out*/)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_close failed", mpi_code);
+ if ((mrc = MPI_File_close(&file->f)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_close failed", mrc);
+
+ if (H5FP_request_close(_file, file->file_id, &req_id, &status) == FAIL)
+ HGOTO_ERROR(H5E_IO, H5E_CANTCLOSEFILE, FAIL,
+ "can't inform SAP of file close");
/* Clean up other stuff */
H5MM_xfree(file);
@@ -694,44 +833,45 @@ done:
/*-------------------------------------------------------------------------
- * Function: H5FD_fphdf5_query
- *
- * Purpose: Set the flags that this VFL driver is capable of supporting.
- * (listed in H5FDpublic.h)
- *
- * Return: Success: non-negative
- *
- * Failure: negative
- *
- * Programmer: Quincey Koziol
- * Friday, August 25, 2000
- *
+ * Function: H5FD_fphdf5_query
+ * Purpose: Set the flags that this VFL driver is capable of
+ * supporting. (listed in H5FDpublic.h)
+ * Return: Success: SUCCEED
+ * Failure: FAIL
+ * Programmer: Bill Wendling
+ * 07. February 2003
* Modifications:
- *
*-------------------------------------------------------------------------
*/
static herr_t
H5FD_fphdf5_query(const H5FD_t UNUSED *_file, unsigned long *flags /* out */)
{
- herr_t ret_value=SUCCEED;
+ herr_t ret_value = SUCCEED;
FUNC_ENTER_NOAPI(H5FD_fphdf5_query, FAIL);
/* Set the VFL feature flags that this driver supports */
- if(flags) {
- *flags=0;
- *flags|=H5FD_FEAT_AGGREGATE_METADATA; /* OK to aggregate metadata allocations */
-
- /* Distinguish between updating the metadata accumulator on writes and
- * reads. This is particularly (perhaps only, even) important for MPI-I/O
- * where we guarantee that writes are collective, but reads may not be.
- * If we were to allow the metadata accumulator to be written during a
- * read operation, the application would hang.
+ if (flags) {
+ *flags = 0;
+
+ /* OK to aggregate metadata allocations */
+ *flags |= H5FD_FEAT_AGGREGATE_METADATA;
+
+ /*
+ * Distinguish between updating the metadata accumulator on
+ * writes and reads. This is particularly (perhaps only, even)
+ * important for MPI-I/O where we guarantee that writes are
+ * collective, but reads may not be. If we were to allow the
+ * metadata accumulator to be written during a read operation,
+ * the application would hang.
*/
- *flags|=H5FD_FEAT_ACCUMULATE_METADATA_WRITE; /* OK to accumulate metadata for faster writes */
- *flags|=H5FD_FEAT_AGGREGATE_SMALLDATA; /* OK to aggregate "small" raw data allocations */
- } /* end if */
+ /* OK to accumulate metadata for faster writes */
+ *flags |= H5FD_FEAT_ACCUMULATE_METADATA_WRITE;
+
+ /* OK to aggregate "small" raw data allocations */
+ *flags |= H5FD_FEAT_AGGREGATE_SMALLDATA;
+ }
done:
FUNC_LEAVE_NOAPI(ret_value);
@@ -739,36 +879,31 @@ done:
/*-------------------------------------------------------------------------
- * Function: H5FD_fphdf5_get_eoa
- *
- * Purpose: Gets the end-of-address marker for the file. The EOA marker
- * is the first address past the last byte allocated in the
- * format address space.
- *
- * Return: Success: The end-of-address marker.
- *
- * Failure: HADDR_UNDEF
- *
- * Programmer: Robb Matzke
- * Friday, August 6, 1999
- *
+ * Function: H5FD_fphdf5_get_eoa
+ * Purpose: Gets the end-of-address marker for the file. The EOA
+ * marker is the first address past the last byte allocated
+ * in the format address space.
+ * Return: Success: The end-of-address marker.
+ * Failure: HADDR_UNDEF
+ * Programmer: Bill Wendling
+ * 07. February 2003
* Modifications:
- *
*-------------------------------------------------------------------------
*/
static haddr_t
H5FD_fphdf5_get_eoa(H5FD_t *_file)
{
- H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
- haddr_t ret_value; /* Return value */
+ H5FP_fphdf5_t *file = (H5FP_fphdf5_t *)_file;
+ haddr_t ret_value;
FUNC_ENTER_NOAPI(H5FD_fphdf5_get_eoa, HADDR_UNDEF);
+ /* check args */
assert(file);
- assert(H5FD_FPHDF5==file->pub.driver_id);
+ assert(file->pub.driver_id == H5FD_FPHDF5);
/* Set return value */
- ret_value=file->eoa;
+ ret_value = file->eoa;
done:
FUNC_LEAVE_NOAPI(ret_value);
@@ -776,33 +911,29 @@ done:
/*-------------------------------------------------------------------------
- * Function: H5FD_fphdf5_set_eoa
- *
- * Purpose: Set the end-of-address marker for the file. This function is
- * called shortly after an existing HDF5 file is opened in order
- * to tell the driver where the end of the HDF5 data is located.
- *
- * Return: Success: 0
- *
- * Failure: -1
- *
- * Programmer: Robb Matzke
- * Friday, August 6, 1999
- *
+ * Function: H5FD_fphdf5_set_eoa
+ * Purpose: Set the end-of-address marker for the file. This function
+ * is called shortly after an existing HDF5 file is opened
+ * in order to tell the driver where the end of the HDF5
+ * data is located.
+ * Return: Success: SUCCEED
+ * Failure: FAIL
+ * Programmer: Bill Wendling
+ * 06. February 2003
* Modifications:
- *
*-------------------------------------------------------------------------
*/
static herr_t
H5FD_fphdf5_set_eoa(H5FD_t *_file, haddr_t addr)
{
- H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
- herr_t ret_value=SUCCEED; /* Return value */
+ H5FP_fphdf5_t *file = (H5FP_fphdf5_t *)_file;
+ herr_t ret_value = SUCCEED;
FUNC_ENTER_NOAPI(H5FD_fphdf5_set_eoa, FAIL);
+ /* check args */
assert(file);
- assert(H5FD_FPHDF5==file->pub.driver_id);
+ assert(file->pub.driver_id == H5FD_FPHDF5);
file->eoa = addr;
@@ -812,43 +943,38 @@ done:
/*-------------------------------------------------------------------------
- * Function: H5FD_fphdf5_get_eof
- *
- * Purpose: Gets the end-of-file marker for the file. The EOF marker
- * is the real size of the file.
- *
- * The MPIO driver doesn't bother keeping this field updated
- * since that's a relatively expensive operation. Fortunately
- * the library only needs the EOF just after the file is opened
- * in order to determine whether the file is empty, truncated,
- * or okay. Therefore, any MPIO I/O function will set its value
- * to HADDR_UNDEF which is the error return value of this
- * function.
- *
- * Return: Success: The end-of-address marker.
- *
- * Failure: HADDR_UNDEF
- *
- * Programmer: Robb Matzke
- * Friday, August 6, 1999
- *
+ * Function: H5FD_fphdf5_get_eof
+ * Purpose: Gets the end-of-file marker for the file. The EOF marker
+ * is the real size of the file.
+ *
+ * The FPHDF5 driver doesn't bother keeping this field updated
+ * since that's a relatively expensive operation.
+ * Fortunately the library only needs the EOF just after the
+ * file is opened in order to determine whether the file is
+ * empty, truncated, or okay. Therefore, any MPIO I/O
+ * function will set its value to HADDR_UNDEF which is the
+ * error return value of this function.
+ * Return: Success: The end-of-address marker
+ * Failure: HADDR_UNDEF
+ * Programmer: Bill Wendling
+ * 06. February 2003
* Modifications:
- *
*-------------------------------------------------------------------------
*/
static haddr_t
H5FD_fphdf5_get_eof(H5FD_t *_file)
{
- H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
- haddr_t ret_value; /* Return value */
+ H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
+ haddr_t ret_value;
FUNC_ENTER_NOAPI(H5FD_fphdf5_get_eof, HADDR_UNDEF);
+ /* check args */
assert(file);
- assert(H5FD_FPHDF5==file->pub.driver_id);
+ assert(file->pub.driver_id == H5FD_FPHDF5);
/* Set return value */
- ret_value=file->eof;
+ ret_value = file->eof;
done:
FUNC_LEAVE_NOAPI(ret_value);
@@ -856,227 +982,222 @@ done:
/*-------------------------------------------------------------------------
- * Function: H5FD_fphdf5_get_handle
- *
- * Purpose: Returns the file handle of MPIO file driver.
- *
- * Returns: Non-negative if succeed or negative if fails.
- *
- * Programmer: Raymond Lu
- * Sept. 16, 2002
- *
+ * Function: H5FD_fphdf5_get_handle
+ * Purpose: Returns the file handle of MPIO file driver.
+ * Returns: Success: SUCCEED
+ * Failure: FAIL
+ * Programmer: Bill Wendling
+ * 06. February 2003
* Modifications:
- *
*-------------------------------------------------------------------------
*/
static herr_t
H5FD_fphdf5_get_handle(H5FD_t *_file, hid_t UNUSED fapl, void** file_handle)
{
- H5FP_fphdf5_t *file = (H5FP_fphdf5_t *)_file;
- herr_t ret_value = SUCCEED;
+ H5FP_fphdf5_t *file = (H5FP_fphdf5_t *)_file;
+ herr_t ret_value = SUCCEED;
FUNC_ENTER_NOAPI(H5FD_fphdf5_get_handle, FAIL);
+
+ /* check args */
+ assert(file);
- if(!file_handle)
+ if (!file_handle)
HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "file handle not valid");
- *file_handle = &(file->f);
+ *file_handle = &file->f;
done:
FUNC_LEAVE_NOAPI(ret_value);
}
-
+
/*-------------------------------------------------------------------------
- * Function: H5FD_fphdf5_read
- *
- * Purpose: Reads SIZE bytes of data from FILE beginning at address ADDR
- * into buffer BUF according to data transfer properties in
- * DXPL_ID using potentially complex file and buffer types to
- * effect the transfer.
- *
- * Reading past the end of the MPI file returns zeros instead of
- * failing. MPI is able to coalesce requests from different
- * processes (collective or independent).
- *
- * Return: Success: Zero. Result is stored in caller-supplied
- * buffer BUF.
- *
- * Failure: -1, Contents of buffer BUF are undefined.
- *
- * Programmer: rky, 1998-01-30
- *
+ * Function: H5FD_fphdf5_read
+ * Purpose: Reads SIZE bytes of data from FILE beginning at address
+ * ADDR into buffer BUF according to data transfer
+ * properties in DXPL_ID using potentially complex file and
+ * buffer types to effect the transfer.
+ *
+ * Reading past the end of the MPI file returns zeros
+ * instead of failing. MPI is able to coalesce requests
+ * from different processes (collective or independent).
+ * Return: Success: SUCCEED - Result is stored in caller-supplied
+ * buffer BUF
+ * Failure: FAIL - Contents of buffer BUF are undefined
+ * Programmer: Bill Wendling
+ * 10. February 2003
* Modifications:
- * Robb Matzke, 1998-02-18
- * Added the ACCESS_PARMS argument.
- *
- * rky, 1998-04-10
- * Call independent or collective MPI read, based on
- * ACCESS_PARMS.
- *
- * Albert Cheng, 1998-06-01
- * Added XFER_MODE to control independent or collective MPI
- * read.
- *
- * rky, 1998-08-16
- * Use BTYPE, FTYPE, and DISP from access parms. The guts of
- * H5FD_fphdf5_read and H5FD_fphdf5_write should be replaced by a
- * single dual-purpose routine.
- *
- * Robb Matzke, 1999-04-21
- * Changed XFER_MODE to XFER_PARMS for all H5F_*_read()
- * callbacks.
- *
- * Robb Matzke, 1999-07-28
- * The ADDR argument is passed by value.
- *
- * Robb Matzke, 1999-08-06
- * Modified to work with the virtual file layer.
- *
- * Quincey Koziol, 2002-05-14
- * Only call MPI_Get_count if we can use MPI_BYTE for the MPI type
- * for the I/O transfer. Someday we might include code to decode
- * the MPI type used for more complicated transfers and call
- * MPI_Get_count all the time.
- *
- * Quincey Koziol - 2002/06/17
- * Removed 'disp' parameter from H5FD_fphdf5_setup routine and use
- * the address of the dataset in MPI_File_set_view() calls, as
- * necessary.
- *
- * Quincey Koziol - 2002/06/24
- * Removed "lazy" MPI_File_set_view() calls, since they would fail
- * if the first I/O was a collective I/O using MPI derived types
- * and the next I/O was an independent I/O.
- *
*-------------------------------------------------------------------------
*/
static herr_t
-H5FD_fphdf5_read(H5FD_t *_file, H5FD_mem_t UNUSED type, hid_t dxpl_id, haddr_t addr, size_t size,
- void *buf/*out*/)
+H5FD_fphdf5_read(H5FD_t *_file, H5FD_mem_t mem_type, hid_t dxpl_id,
+ haddr_t addr, size_t size, void *buf)
{
-#if 0
- H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
- const H5FD_fphdf5_dxpl_t *dx=NULL;
- H5FD_fphdf5_dxpl_t _dx;
- MPI_Offset mpi_off, mpi_disp;
- MPI_Status mpi_stat;
- int mpi_code; /* mpi return code */
- MPI_Datatype buf_type, file_type;
- int size_i, bytes_read, n;
- unsigned use_view_this_time=0;
- H5P_genplist_t *plist; /* Property list pointer */
- herr_t ret_value=SUCCEED;
+ H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
+ MPI_Offset mpi_off;
+ MPI_Offset mpi_disp;
+ MPI_Status status;
+ int mrc;
+ MPI_Datatype buf_type;
+ MPI_Datatype file_type;
+ int size_i;
+ int bytes_read;
+ int n;
+ unsigned use_view_this_time = 0;
+ H5P_genplist_t *plist;
+ H5FD_mpio_xfer_t xfer_mode = H5FD_MPIO_INDEPENDENT;
+ herr_t ret_value = SUCCEED;
FUNC_ENTER_NOAPI(H5FD_fphdf5_read, FAIL);
+ /* check args */
assert(file);
- assert(H5FD_FPHDF5==file->pub.driver_id);
- /* Make certain we have the correct type of property list */
- assert(H5I_GENPROP_LST==H5I_get_type(dxpl_id));
- assert(TRUE==H5P_isa_class(dxpl_id,H5P_DATASET_XFER));
+ assert(file->pub.driver_id == H5FD_FPHDF5);
assert(buf);
+ /* make certain we have the correct type of property list */
+ assert(H5I_get_type(dxpl_id) == H5I_GENPROP_LST);
+ assert(H5P_isa_class(dxpl_id, H5P_DATASET_XFER) == TRUE);
+
/* Portably initialize MPI status variable */
- HDmemset(&mpi_stat,0,sizeof(MPI_Status));
+ HDmemset(&status, 0, sizeof(MPI_Status));
+
+ /* Some numeric conversions */
+ if (H5FD_fphdf5_haddr_to_MPIOff(addr, &mpi_off) < 0)
+ HGOTO_ERROR(H5E_INTERNAL, H5E_BADRANGE, FAIL,
+ "can't convert from haddr_t to MPI offset");
- /* some numeric conversions */
- if (H5FD_fphdf5_haddr_to_MPIOff(addr, &mpi_off/*out*/)<0)
- HGOTO_ERROR(H5E_INTERNAL, H5E_BADRANGE, FAIL, "can't convert from haddr to MPI off");
size_i = (int)size;
+
if ((hsize_t)size_i != size)
- HGOTO_ERROR(H5E_INTERNAL, H5E_BADRANGE, FAIL, "can't convert from size to size_i");
+ HGOTO_ERROR(H5E_INTERNAL, H5E_BADRANGE, FAIL, "can't convert from size_t to int");
+
+ /* If metadata, check the metadata cache first */
+ if (mem_type != H5FD_MEM_DRAW) {
+ /*
+ * This is metadata - we want to try to read it from the SAP
+ * first.
+ */
+ H5FP_status_t sap_status;
+ unsigned req_id;
+
+ if (H5FP_request_read_metadata(_file, file->file_id, mem_type, mpi_off,
+ size, (uint8_t**)&buf, &bytes_read, &req_id,
+ &sap_status) != SUCCEED) {
+ /* FIXME: The read failed, for some reason */
+HDfprintf(stderr, "%s:%d: Metadata cache read failed!\n", FUNC, __LINE__);
+ }
+
+ if (sap_status == H5FP_STATUS_OK) {
+ /* WAH-HOO! We've found it! We can leave now */
+ goto finished_read;
+ } else if (sap_status != H5FP_STATUS_MDATA_NOT_CACHED) {
+ /* FIXME: something bad happened */
+HDfprintf(stderr, "%s:%d: Metadata cache read failed!\n", FUNC, __LINE__);
+ }
+ }
/* Obtain the data transfer properties */
- if(NULL == (plist = H5I_object(dxpl_id)))
+ if ((plist = H5I_object(dxpl_id)) == NULL)
HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not a file access property list");
- if (H5FD_FPHDF5!=H5P_get_driver(plist)) {
- _dx.xfer_mode = H5FD_FPHDF5_INDEPENDENT; /*the default*/
- dx = &_dx;
- } else {
- dx = H5P_get_driver_info(plist);
- assert(dx);
- }
-
+
+ if (H5P_get_driver(plist) == H5FD_FPHDF5)
+ /* Get the transfer mode */
+ xfer_mode = H5P_peek_unsigned(plist, H5D_XFER_IO_XFER_MODE_NAME);
+
/*
- * Set up for a fancy xfer using complex types, or single byte block. We
- * wouldn't need to rely on the use_view field if MPI semantics allowed
- * us to test that btype=ftype=MPI_BYTE (or even MPI_TYPE_NULL, which
- * could mean "use MPI_BYTE" by convention).
+ * Set up for a fancy xfer using complex types, or single byte block.
+ * We wouldn't need to rely on the use_view field if MPI semantics
+ * allowed us to test that btype == ftype == MPI_BYTE (or even
+ * MPI_TYPE_NULL, which could mean "use MPI_BYTE" by convention).
*/
- if(H5P_exist_plist(plist,H5FD_FPHDF5_XFER_USE_VIEW_NAME)>0)
- if(H5P_get(plist,H5FD_FPHDF5_XFER_USE_VIEW_NAME,&use_view_this_time)<0)
+ if (H5P_exist_plist(plist, H5FD_FPHDF5_XFER_USE_VIEW_NAME) > 0)
+ if (H5P_get(plist, H5FD_FPHDF5_XFER_USE_VIEW_NAME, &use_view_this_time) < 0)
HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get MPI-I/O type property");
if (use_view_this_time) {
- /* prepare for a full-blown xfer using btype, ftype, and disp */
- if(H5P_get(plist,H5FD_FPHDF5_XFER_MEM_MPI_TYPE_NAME,&buf_type)<0)
+ /* Prepare for a full-blown xfer using btype, ftype, and disp */
+ if (H5P_get(plist, H5FD_FPHDF5_XFER_MEM_MPI_TYPE_NAME, &buf_type) < 0)
HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get MPI-I/O type property");
- if(H5P_get(plist,H5FD_FPHDF5_XFER_FILE_MPI_TYPE_NAME,&file_type)<0)
+
+ if (H5P_get(plist, H5FD_FPHDF5_XFER_FILE_MPI_TYPE_NAME, &file_type) < 0)
HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get MPI-I/O type property");
- /* When using types, use the address as the displacement for
+ /*
+ * When using types, use the address as the displacement for
* MPI_File_set_view and reset the address for the read to zero
*/
- mpi_disp=mpi_off;
- mpi_off=0;
- } /* end if */
- else {
+ mpi_disp = mpi_off;
+ mpi_off = 0;
+ } else {
/*
* Prepare for a simple xfer of a contiguous block of bytes. The
* btype, ftype, and disp fields are not used.
*/
buf_type = MPI_BYTE;
file_type = MPI_BYTE;
- mpi_disp = 0; /* mpi_off is alread set */
- } /* end else */
+ mpi_disp = 0; /* mpi_off is already set */
+ }
/*
* Set the file view when we are using MPI derived types
*/
- if (use_view_this_time) {
+ if (use_view_this_time)
/*OKAY: CAST DISCARDS CONST QUALIFIER*/
- if (MPI_SUCCESS != (mpi_code=MPI_File_set_view(file->f, mpi_disp, MPI_BYTE, file_type, (char*)"native", file->info)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_set_view failed", mpi_code);
- } /* end if */
+ if ((mrc = MPI_File_set_view(file->f, (MPI_Offset)mpi_disp, MPI_BYTE,
+ file_type, (char*)"native",
+ file->info)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_set_view failed", mrc);
/* Read the data. */
- assert(H5FD_FPHDF5_INDEPENDENT==dx->xfer_mode || H5FD_FPHDF5_COLLECTIVE==dx->xfer_mode);
- if (H5FD_FPHDF5_INDEPENDENT==dx->xfer_mode) {
- if (MPI_SUCCESS!= (mpi_code=MPI_File_read_at(file->f, mpi_off, buf, size_i, buf_type, &mpi_stat)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_read_at failed", mpi_code);
+ assert(xfer_mode == H5FD_MPIO_INDEPENDENT || xfer_mode == H5FD_MPIO_COLLECTIVE);
+
+ if (xfer_mode == H5FD_MPIO_INDEPENDENT) {
+ if ((mrc = MPI_File_read_at(file->f, mpi_off, buf, size_i,
+ buf_type, &status)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_read_at failed", mrc);
} else {
- if (MPI_SUCCESS!= (mpi_code=MPI_File_read_at_all(file->f, mpi_off, buf, size_i, buf_type, &mpi_stat )))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_read_at_all failed", mpi_code);
+ if ((mrc = MPI_File_read_at_all(file->f, mpi_off, buf, size_i,
+ buf_type, &status )) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_read_at_all failed", mrc);
}
- /* KLUDGE, Robb Matzke, 2000-12-29
+ /*
+ * KLUDGE, Robb Matzke, 2000-12-29
* The LAM implementation of MPI_Get_count() says
+ *
* MPI_Get_count: invalid argument (rank 0, MPI_COMM_WORLD)
+ *
* So I'm commenting this out until it can be investigated. The
- * returned `bytes_written' isn't used anyway because of Kim's
- * kludge to avoid bytes_written<0. Likewise in H5FD_fphdf5_write(). */
+ * returned `bytes_written' isn't used anyway because of Kim's kludge
+ * to avoid bytes_written < 0. Likewise in H5FD_fphdf5_write().
+ */
#ifdef H5_HAVE_MPI_GET_COUNT /* Bill and Albert's kludge*/
- /* Yet Another KLUDGE, Albert Cheng & Bill Wendling, 2001-05-11.
+ /*
+ * Yet Another KLUDGE, Albert Cheng & Bill Wendling, 2001-05-11.
* Many systems don't support MPI_Get_count so we need to do a
- * configure thingy to fix this. */
+ * configure thingy to fix this.
+ */
- /* Calling MPI_Get_count with "MPI_BYTE" is only valid when we actually
- * had the 'buf_type' set to MPI_BYTE -QAK
+ /*
+ * Calling MPI_Get_count with "MPI_BYTE" is only valid when we
+ * actually had the 'buf_type' set to MPI_BYTE -QAK
*/
- if(use_view_this_time) {
- /* Figure out the mapping from the MPI 'buf_type' to bytes, someday...
- * If this gets fixed (and MPI_Get_count() is reliable), the
- * kludge below where the 'bytes_read' value from MPI_Get_count() is
- * overwritten with the 'size_i' parameter can be removed. -QAK
+ if (use_view_this_time) {
+ /*
+ * Figure out the mapping from the MPI 'buf_type' to bytes,
+ * someday... If this gets fixed (and MPI_Get_count() is
+ * reliable), the kludge below where the 'bytes_read' value from
+ * MPI_Get_count() is overwritten with the 'size_i' parameter can
+ * be removed. -QAK
*/
- } /* end if */
- else {
+ } else {
/* How many bytes were actually read? */
- if (MPI_SUCCESS != (mpi_code=MPI_Get_count(&mpi_stat, MPI_BYTE, &bytes_read)))
- HMPI_GOTO_ERROR(FAIL, "MPI_Get_count failed", mpi_code);
- } /* end else */
+ if ((mrc = MPI_Get_count(&status, MPI_BYTE, &bytes_read)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_Get_count failed", mrc);
+ }
#endif /* H5_HAVE_MPI_GET_COUNT */
/*
@@ -1086,355 +1207,507 @@ H5FD_fphdf5_read(H5FD_t *_file, H5FD_mem_t UNUSED type, hid_t dxpl_id, haddr_t a
*/
bytes_read = size_i;
- /* Check for read failure */
- if (bytes_read<0 || bytes_read>size_i)
- HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "file read failed");
-
/*
* Reset the file view when we used MPI derived types
*/
- if (use_view_this_time) {
+ if (use_view_this_time)
/*OKAY: CAST DISCARDS CONST QUALIFIER*/
- if (MPI_SUCCESS != (mpi_code=MPI_File_set_view(file->f, 0, MPI_BYTE, MPI_BYTE, (char*)"native", file->info)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_set_view failed", mpi_code);
- } /* end if */
-
+ if ((mrc = MPI_File_set_view(file->f, (MPI_Offset)0, MPI_BYTE, MPI_BYTE,
+ (char*)"native", file->info)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_set_view failed", mrc);
+
+finished_read:
+ /* Check for read failure */
+ if (bytes_read < 0 || bytes_read > size_i)
+ HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "file read failed");
+
/*
- * This gives us zeroes beyond end of physical MPI file. What about
+ * This gives us zeroes beyond end of physical MPI file. What about
* reading past logical end of HDF5 file???
*/
- if ((n=(size_i-bytes_read)) > 0) {
- if (use_view_this_time) {
+ n = size_i - bytes_read;
+
+ if (n > 0) {
+ if (use_view_this_time)
/*
* INCOMPLETE rky 1998-09-18
* Haven't implemented reading zeros beyond EOF. What to do???
*/
HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "eof file read failed");
- } else {
- memset((char*)buf+bytes_read, 0, (size_t)n);
- }
+
+ memset((char*)buf + bytes_read, 0, (size_t)n);
}
done:
FUNC_LEAVE_NOAPI(ret_value);
-#else
- return SUCCEED;
-#endif
}
/*-------------------------------------------------------------------------
- * Function: H5FD_fphdf5_write
- *
- * Purpose: Writes SIZE bytes of data to FILE beginning at address ADDR
- * from buffer BUF according to data transfer properties in
- * DXPL_ID using potentially complex file and buffer types to
- * effect the transfer.
- *
- * MPI is able to coalesce requests from different processes
- * (collective and independent).
- *
- * Return: Success: Zero. USE_TYPES and OLD_USE_TYPES in the
- * access params are altered.
- *
- * Failure: -1, USE_TYPES and OLD_USE_TYPES in the
- * access params may be altered.
- *
- * Programmer: Unknown
- * January 30, 1998
- *
+ * Function: H5FD_fphdf5_write
+ * Purpose: Writes SIZE bytes of data to FILE beginning at address
+ * ADDR from buffer BUF according to data transfer
+ * properties in DXPL_ID using potentially complex file and
+ * buffer types to effect the transfer.
+ *
+ * MPI is able to coalesce requests from different processes
+ * (collective and independent).
+ * Return: Success: SUCCEED - USE_TYPES and OLD_USE_TYPES in the
+ * access params are altered.
+ * Failure: FAIL - USE_TYPES and OLD_USE_TYPES in the
+ * access params may be altered.
+ * Programmer: Bill Wendling
+ * 10. February 2003
* Modifications:
- * rky, 1998-08-28
- * If the file->allsame flag is set, we assume that all the
- * procs in the relevant MPI communicator will write identical
- * data at identical offsets in the file, so only proc 0 will
- * write, and all other procs will wait for p0 to finish. This
- * is useful for writing metadata, for example. Note that we
- * don't _check_ that the data is identical. Also, the mechanism
- * we use to eliminate the redundant writes is by requiring a
- * call to H5FD_fphdf5_tas_allsame before the write, which is
- * rather klugey. Would it be better to pass a parameter to
- * low-level writes like H5F_block_write and H5F_low_write,
- * instead? Or...??? Also, when I created this mechanism I
- * wanted to minimize the difference in behavior between the old
- * way of doing things (i.e., all procs write) and the new way,
- * so the writes are eliminated at the very lowest level, here
- * in H5FD_fphdf5_write. It may be better to rethink that, and
- * short-circuit the writes at a higher level (e.g., at the
- * points in the code where H5FD_fphdf5_tas_allsame is called).
- *
- *
- * Robb Matzke, 1998-02-18
- * Added the ACCESS_PARMS argument.
- *
- * rky, 1998-04-10
- * Call independent or collective MPI write, based on
- * ACCESS_PARMS.
- *
- * rky, 1998-04-24
- * Removed redundant write from H5FD_fphdf5_write.
- *
- * Albert Cheng, 1998-06-01
- * Added XFER_MODE to control independent or collective MPI
- * write.
- *
- * rky, 1998-08-16
- * Use BTYPE, FTYPE, and DISP from access parms. The guts of
- * H5FD_fphdf5_read and H5FD_fphdf5_write should be replaced by a
- * single dual-purpose routine.
- *
- * rky, 1998-08-28
- * Added ALLSAME parameter to make all but proc 0 skip the
- * actual write.
- *
- * Robb Matzke, 1999-04-21
- * Changed XFER_MODE to XFER_PARMS for all H5FD_*_write()
- * callbacks.
- *
- * Robb Matzke, 1999-07-28
- * The ADDR argument is passed by value.
- *
- * Robb Matzke, 1999-08-06
- * Modified to work with the virtual file layer.
- *
- * Albert Cheng, 1999-12-19
- * When only-p0-write-allsame-data, p0 Bcasts the
- * ret_value to other processes. This prevents
- * a racing condition (that other processes try to
- * read the file before p0 finishes writing) and also
- * allows all processes to report the same ret_value.
- *
- * Kim Yates, Pat Weidhaas, 2000-09-26
- * Move block of coding where only p0 writes after the
- * MPI_File_set_view call.
- *
- * Quincey Koziol, 2002-05-10
- * Instead of always writing metadata from process 0, spread the
- * burden among all the processes by using a round-robin rotation
- * scheme.
- *
- * Quincey Koziol, 2002-05-10
- * Removed allsame code, keying off the type parameter instead.
- *
- * Quincey Koziol, 2002-05-14
- * Only call MPI_Get_count if we can use MPI_BYTE for the MPI type
- * for the I/O transfer. Someday we might include code to decode
- * the MPI type used for more complicated transfers and call
- * MPI_Get_count all the time.
- *
- * Quincey Koziol - 2002/06/17
- * Removed 'disp' parameter from H5FD_fphdf5_setup routine and use
- * the address of the dataset in MPI_File_set_view() calls, as
- * necessary.
- *
- * Quincey Koziol - 2002/06/24
- * Removed "lazy" MPI_File_set_view() calls, since they would fail
- * if the first I/O was a collective I/O using MPI derived types
- * and the next I/O was an independent I/O.
- *
- * Quincey Koziol - 2002/07/18
- * Added "block_before_meta_write" dataset transfer flag, which
- * is set during writes from a metadata cache flush and indicates
- * that all the processes must sync up before (one of them)
- * writing metadata.
- *
*-------------------------------------------------------------------------
*/
static herr_t
-H5FD_fphdf5_write(H5FD_t *_file, H5FD_mem_t type, hid_t dxpl_id, haddr_t addr,
- size_t size, const void *buf)
+H5FD_fphdf5_write(H5FD_t *_file, H5FD_mem_t mem_type, hid_t dxpl_id,
+ haddr_t addr, size_t size, const void *buf)
{
-#if 0
- H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
- const H5FD_fphdf5_dxpl_t *dx=NULL;
- H5FD_fphdf5_dxpl_t _dx;
- MPI_Offset mpi_off, mpi_disp;
- MPI_Status mpi_stat;
- MPI_Datatype buf_type, file_type;
- int mpi_code; /* MPI return code */
- int size_i, bytes_written;
- unsigned use_view_this_time=0;
- unsigned block_before_meta_write=0; /* Whether to block before a metadata write */
- H5P_genplist_t *plist; /* Property list pointer */
- herr_t ret_value=SUCCEED;
+ H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
+ MPI_Offset mpi_off;
+ MPI_Offset mpi_disp;
+ MPI_Status status;
+ MPI_Datatype buf_type;
+ MPI_Datatype file_type;
+ int mrc;
+ int size_i;
+ int bytes_written;
+ unsigned use_view_this_time = 0;
+ unsigned block_before_meta_write = 0;
+ H5P_genplist_t *plist;
+ H5FD_mpio_xfer_t xfer_mode = H5FD_MPIO_INDEPENDENT;
+ herr_t ret_value = SUCCEED;
FUNC_ENTER_NOAPI(H5FD_fphdf5_write, FAIL);
+ /* check args */
assert(file);
- assert(H5FD_FPHDF5==file->pub.driver_id);
- /* Make certain we have the correct type of property list */
- assert(H5I_GENPROP_LST==H5I_get_type(dxpl_id));
- assert(TRUE==H5P_isa_class(dxpl_id,H5P_DATASET_XFER));
+ assert(file->pub.driver_id == H5FD_FPHDF5);
assert(buf);
+ /* Make certain we have the correct type of property list */
+ assert(H5I_get_type(dxpl_id) == H5I_GENPROP_LST);
+ assert(H5P_isa_class(dxpl_id, H5P_DATASET_XFER) == TRUE);
+
/* Portably initialize MPI status variable */
- HDmemset(&mpi_stat,0,sizeof(MPI_Status));
+ HDmemset(&status, 0, sizeof(MPI_Status));
/* some numeric conversions */
- if (H5FD_fphdf5_haddr_to_MPIOff(addr, &mpi_off)<0)
- HGOTO_ERROR(H5E_INTERNAL, H5E_BADRANGE, FAIL, "can't convert from haddr to MPI off");
+ if (H5FD_fphdf5_haddr_to_MPIOff(addr, &mpi_off) < 0)
+ HGOTO_ERROR(H5E_INTERNAL, H5E_BADRANGE, FAIL,
+ "can't convert from haddr to MPI off");
+
size_i = (int)size;
+
if ((hsize_t)size_i != size)
HGOTO_ERROR(H5E_INTERNAL, H5E_BADRANGE, FAIL, "can't convert from size to size_i");
+
+ /* FIXME: FPHDF5 stuff should go here */
+
+ /* If metadata, write to the metadata cache */
+ if (mem_type != H5FD_MEM_DRAW) {
+#if 0
+ unsigned req_id;
+ H5FP_status_t sap_status;
+
+ if (H5FP_request_write_metadata(file, file->file_id, uint8_t *obj_oid,
+ mem_type, mpi_off, size,
+ buf, &req_id, &sap_status)) {
+ }
+#endif
+ } else {
+ }
+
+
/* Obtain the data transfer properties */
- if(NULL == (plist = H5I_object(dxpl_id)))
+ if ((plist = H5I_object(dxpl_id)) == NULL)
HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not a file access property list");
- if (H5FD_FPHDF5!=H5P_get_driver(plist)) {
- _dx.xfer_mode = H5FD_FPHDF5_INDEPENDENT; /*the default*/
- dx = &_dx;
+
+ if (H5P_get_driver(plist) == H5FD_FPHDF5)
+ /* Get the transfer mode */
+ xfer_mode = H5P_peek_unsigned(plist, H5D_XFER_IO_XFER_MODE_NAME);
+
+ /*
+ * Set up for a fancy xfer using complex types, or single byte block.
+ * We wouldn't need to rely on the use_view field if MPI semantics
+ * allowed us to test that btype == ftype == MPI_BYTE (or even
+ * MPI_TYPE_NULL, which could mean "use MPI_BYTE" by convention).
+ */
+ if (H5P_exist_plist(plist, H5FD_FPHDF5_XFER_USE_VIEW_NAME) > 0)
+ if (H5P_get(plist, H5FD_FPHDF5_XFER_USE_VIEW_NAME, &use_view_this_time) < 0)
+ HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get MPI-I/O type property");
+
+ if (use_view_this_time) {
+ /* prepare for a full-blown xfer using btype, ftype, and disp */
+ if (H5P_get(plist, H5FD_FPHDF5_XFER_MEM_MPI_TYPE_NAME, &buf_type) < 0)
+ HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get MPI-I/O type property");
+
+ if (H5P_get(plist, H5FD_FPHDF5_XFER_FILE_MPI_TYPE_NAME, &file_type) < 0)
+ HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get MPI-I/O type property");
+
+ /*
+ * When using types, use the address as the displacement for
+ * MPI_File_set_view and reset the address for the read to zero
+ */
+ mpi_disp = mpi_off;
+ mpi_off = 0;
} else {
- dx = H5P_get_driver_info(plist);
- assert(dx);
+ /*
+ * Prepare for a simple xfer of a contiguous block of bytes. The
+ * btype, ftype, and disp fields are not used.
+ */
+ buf_type = MPI_BYTE;
+ file_type = MPI_BYTE;
+ mpi_disp = 0; /* mpi_off is already set */
}
+
+ /*
+ * Set the file view when we are using MPI derived types
+ */
+ if (use_view_this_time)
+ /*OKAY: CAST DISCARDS CONST QUALIFIER*/
+ if ((mrc = MPI_File_set_view(file->f, mpi_disp, MPI_BYTE,
+ file_type, (char*)"native",
+ file->info)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_set_view failed", mrc);
+ /* Metadata specific actions */
+ if (mem_type != H5FD_MEM_DRAW) {
+ /*
+ * Check if we need to syncronize all processes before attempting
+ * metadata write (Prevents race condition where the process
+ * writing the metadata goes ahead and writes the metadata to the
+ * file before all the processes have read the data,
+ * "transmitting" data from the "future" to the reading process.
+ * -QAK )
+ */
+ if (H5P_exist_plist(plist, H5AC_BLOCK_BEFORE_META_WRITE_NAME) > 0)
+ if (H5P_get(plist, H5AC_BLOCK_BEFORE_META_WRITE_NAME, &block_before_meta_write) < 0)
+ HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get H5AC property");
+
+ if (block_before_meta_write)
+ if ((mrc = MPI_Barrier(file->comm)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_Barrier failed", mrc);
+ }
+
+ /* Write the data. */
+ assert(xfer_mode == H5FD_MPIO_INDEPENDENT || xfer_mode == H5FD_MPIO_COLLECTIVE);
+
+ if (xfer_mode == H5FD_MPIO_INDEPENDENT) {
+ /*OKAY: CAST DISCARDS CONST QUALIFIER*/
+ if ((mrc = MPI_File_write_at(file->f, mpi_off, (void*)buf,
+ size_i, buf_type, &status)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_write_at failed", mrc);
+ } else {
+ /*OKAY: CAST DISCARDS CONST QUALIFIER*/
+ if ((mrc = MPI_File_write_at_all(file->f, mpi_off, (void*)buf,
+ size_i, buf_type, &status)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_write_at_all failed", mrc);
+ }
+
/*
- * Set up for a fancy xfer using complex types, or single byte block. We
- * wouldn't need to rely on the use_view field if MPI semantics allowed
- * us to test that btype=ftype=MPI_BYTE (or even MPI_TYPE_NULL, which
- * could mean "use MPI_BYTE" by convention).
+ * KLUDGE, Robb Matzke, 2000-12-29
+ * The LAM implementation of MPI_Get_count() says
+ *
+ * MPI_Get_count: invalid argument (rank 0, MPI_COMM_WORLD)
+ *
+ * So I'm commenting this out until it can be investigated. The
+ * returned `bytes_written' isn't used anyway because of Kim's kludge
+ * to avoid bytes_written<0. Likewise in H5FD_fphdf5_read().
*/
- if(H5P_exist_plist(plist,H5FD_FPHDF5_XFER_USE_VIEW_NAME)>0)
- if(H5P_get(plist,H5FD_FPHDF5_XFER_USE_VIEW_NAME,&use_view_this_time)<0)
+
+#ifdef H5_HAVE_MPI_GET_COUNT /* Bill and Albert's kludge*/
+ /*
+ * Yet Another KLUDGE, Albert Cheng & Bill Wendling, 2001-05-11.
+ * Many systems don't support MPI_Get_count so we need to do a
+ * configure thingy to fix this.
+ */
+
+ /*
+ * Calling MPI_Get_count with "MPI_BYTE" is only valid when we
+ * actually had the 'buf_type' set to MPI_BYTE -QAK
+ */
+ if (use_view_this_time) {
+ /*
+ * Figure out the mapping from the MPI 'buf_type' to bytes,
+ * someday... If this gets fixed (and MPI_Get_count() is
+ * reliable), the kludge below where the 'bytes_written' value
+ * from MPI_Get_count() is overwritten with the 'size_i'
+ * parameter can be removed. -QAK
+ */
+ } else {
+ /* How many bytes were actually written? */
+ if ((mrc = MPI_Get_count(&status, MPI_BYTE, &bytes_written)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_Get_count failed", mrc);
+ }
+#endif /* H5_HAVE_MPI_GET_COUNT */
+
+ /*
+ * KLUGE rky, 1998-02-02
+ *
+ * MPI_Get_count incorrectly returns negative count; fake a complete
+ * write.
+ */
+ bytes_written = size_i;
+
+ /* Check for write failure */
+ if (bytes_written < 0 || bytes_written > size_i)
+ HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "file write failed");
+
+ /*
+ * Reset the file view when we used MPI derived types
+ */
+ if (use_view_this_time)
+ /*OKAY: CAST DISCARDS CONST QUALIFIER*/
+ if ((mrc = MPI_File_set_view(file->f, (MPI_Offset)0, MPI_BYTE, MPI_BYTE,
+ (char*)"native",
+ file->info)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_set_view failed", mrc);
+
+ /* Forget the EOF value (see H5FD_fphdf5_get_eof()) --rpm 1999-08-06 */
+ file->eof = HADDR_UNDEF;
+
+done:
+ /* Guard against getting into metadate broadcast in failure cases */
+ if (ret_value != FAIL)
+ /*
+ * If only p<round> writes, need to broadcast the ret_value to
+ * other processes
+ */
+ if (mem_type != H5FD_MEM_DRAW) {
+ if ((mrc = MPI_Bcast(&ret_value, sizeof(ret_value), MPI_BYTE,
+ file->mpi_round, file->comm)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_Bcast failed", mrc);
+
+ /* Round-robin rotate to the next process */
+ file->mpi_round = (++file->mpi_round) % file->mpi_size;
+ }
+
+ FUNC_LEAVE_NOAPI(ret_value);
+}
+
+
+/*-------------------------------------------------------------------------
+ * Function: H5FD_fphdf5_write_real
+ * Purpose: Split off from the H5FD_fphdf5_write() function. It does
+ * the real work of writing to the file.
+ *
+ * Writes SIZE bytes of data to FILE beginning at address
+ * ADDR from buffer BUF according to data transfer
+ * properties in DXPL_ID using potentially complex file and
+ * buffer types to effect the transfer.
+ *
+ * MPI is able to coalesce requests from different processes
+ * (collective and independent).
+ * Return: Success: SUCCEED - USE_TYPES and OLD_USE_TYPES in the
+ * access params are altered.
+ * Failure: FAIL - USE_TYPES and OLD_USE_TYPES in the
+ * access params may be altered.
+ * Programmer: Bill Wendling
+ * 10. February 2003
+ * Modifications:
+ *-------------------------------------------------------------------------
+ */
+herr_t
+H5FD_fphdf5_write_real(H5FD_t *_file, H5FD_mem_t mem_type, hid_t dxpl_id,
+ MPI_Offset mpi_off, int size, const void *buf)
+{
+ H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
+ MPI_Offset mpi_disp;
+ MPI_Status status;
+ MPI_Datatype buf_type;
+ MPI_Datatype file_type;
+ int mrc;
+ int size_i;
+ int bytes_written;
+ unsigned use_view_this_time = 0;
+ unsigned block_before_meta_write = 0;
+ H5P_genplist_t *plist;
+ H5FD_mpio_xfer_t xfer_mode = H5FD_MPIO_INDEPENDENT;
+ herr_t ret_value = SUCCEED;
+
+ FUNC_ENTER_NOAPI(H5FD_fphdf5_write_real, FAIL);
+
+ /* check args */
+ assert(file);
+ assert(file->pub.driver_id == H5FD_FPHDF5);
+ assert(buf);
+
+ /* Make certain we have the correct type of property list */
+ assert(H5I_get_type(dxpl_id) == H5I_GENPROP_LST);
+ assert(H5P_isa_class(dxpl_id, H5P_DATASET_XFER) == TRUE);
+
+ /* Portably initialize MPI status variable */
+ HDmemset(&status, 0, sizeof(MPI_Status));
+
+ /* Obtain the data transfer properties */
+ if ((plist = H5I_object(dxpl_id)) == NULL)
+ HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not a file access property list");
+
+ if (H5P_get_driver(plist) == H5FD_FPHDF5)
+ /* Get the transfer mode */
+ xfer_mode = H5P_peek_unsigned(plist, H5D_XFER_IO_XFER_MODE_NAME);
+
+ /*
+ * Set up for a fancy xfer using complex types, or single byte block.
+ * We wouldn't need to rely on the use_view field if MPI semantics
+ * allowed us to test that btype == ftype == MPI_BYTE (or even
+ * MPI_TYPE_NULL, which could mean "use MPI_BYTE" by convention).
+ */
+ if (H5P_exist_plist(plist, H5FD_FPHDF5_XFER_USE_VIEW_NAME) > 0)
+ if (H5P_get(plist, H5FD_FPHDF5_XFER_USE_VIEW_NAME, &use_view_this_time) < 0)
HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get MPI-I/O type property");
if (use_view_this_time) {
/* prepare for a full-blown xfer using btype, ftype, and disp */
- if(H5P_get(plist,H5FD_FPHDF5_XFER_MEM_MPI_TYPE_NAME,&buf_type)<0)
+ if (H5P_get(plist, H5FD_FPHDF5_XFER_MEM_MPI_TYPE_NAME, &buf_type) < 0)
HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get MPI-I/O type property");
- if(H5P_get(plist,H5FD_FPHDF5_XFER_FILE_MPI_TYPE_NAME,&file_type)<0)
+
+ if (H5P_get(plist, H5FD_FPHDF5_XFER_FILE_MPI_TYPE_NAME, &file_type) < 0)
HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get MPI-I/O type property");
- /* When using types, use the address as the displacement for
+ /*
+ * When using types, use the address as the displacement for
* MPI_File_set_view and reset the address for the read to zero
*/
- mpi_disp=mpi_off;
- mpi_off=0;
- } /* end if */
- else {
+ mpi_disp = mpi_off;
+ mpi_off = 0;
+ } else {
/*
- * Prepare for a simple xfer of a contiguous block of bytes.
- * The btype, ftype, and disp fields are not used.
+ * Prepare for a simple xfer of a contiguous block of bytes. The
+ * btype, ftype, and disp fields are not used.
*/
buf_type = MPI_BYTE;
file_type = MPI_BYTE;
- mpi_disp = 0; /* mpi_off is already set */
- } /* end else */
+ mpi_disp = 0; /* mpi_off is already set */
+ }
/*
* Set the file view when we are using MPI derived types
*/
- if (use_view_this_time) {
+ if (use_view_this_time)
/*OKAY: CAST DISCARDS CONST QUALIFIER*/
- if (MPI_SUCCESS != (mpi_code=MPI_File_set_view(file->f, mpi_disp, MPI_BYTE, file_type, (char*)"native", file->info)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_set_view failed", mpi_code);
- } /* end if */
+ if ((mrc = MPI_File_set_view(file->f, (MPI_Offset)mpi_disp, MPI_BYTE,
+ file_type, (char*)"native",
+ file->info)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_set_view failed", mrc);
/* Metadata specific actions */
- if(type!=H5FD_MEM_DRAW) {
- /* Check if we need to syncronize all processes before attempting metadata write
- * (Prevents race condition where the process writing the metadata goes ahead
- * and writes the metadata to the file before all the processes have
- * read the data, "transmitting" data from the "future" to the reading
- * process. -QAK )
+ if (mem_type != H5FD_MEM_DRAW) {
+ /*
+ * Check if we need to syncronize all processes before attempting
+ * metadata write (Prevents race condition where the process
+ * writing the metadata goes ahead and writes the metadata to the
+ * file before all the processes have read the data,
+ * "transmitting" data from the "future" to the reading process.
+ * -QAK )
*/
- if(H5P_exist_plist(plist,H5AC_BLOCK_BEFORE_META_WRITE_NAME)>0)
- if(H5P_get(plist,H5AC_BLOCK_BEFORE_META_WRITE_NAME,&block_before_meta_write)<0)
+ if (H5P_exist_plist(plist, H5AC_BLOCK_BEFORE_META_WRITE_NAME) > 0)
+ if (H5P_get(plist, H5AC_BLOCK_BEFORE_META_WRITE_NAME, &block_before_meta_write) < 0)
HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get H5AC property");
- if(block_before_meta_write)
- if (MPI_SUCCESS!= (mpi_code=MPI_Barrier(file->comm)))
- HMPI_GOTO_ERROR(FAIL, "MPI_Barrier failed", mpi_code);
-
- /* Only p<round> will do the actual write if all procs in comm write same metadata */
- if (H5_fphdf5_1_metawrite_g) {
- if (file->mpi_rank != file->mpi_round) {
- HGOTO_DONE(SUCCEED) /* skip the actual write */
- }
- }
- } /* end if */
+ if (block_before_meta_write)
+ if ((mrc = MPI_Barrier(file->comm)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_Barrier failed", mrc);
+ }
/* Write the data. */
- assert(H5FD_MPIO_INDEPENDENT==dx->xfer_mode || H5FD_MPIO_COLLECTIVE==dx->xfer_mode);
- if (H5FD_MPIO_INDEPENDENT==dx->xfer_mode) {
+ assert(xfer_mode == H5FD_MPIO_INDEPENDENT || xfer_mode == H5FD_MPIO_COLLECTIVE);
+
+ if (xfer_mode == H5FD_MPIO_INDEPENDENT) {
/*OKAY: CAST DISCARDS CONST QUALIFIER*/
- if (MPI_SUCCESS != (mpi_code=MPI_File_write_at(file->f, mpi_off, (void*)buf, size_i, buf_type, &mpi_stat)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_write_at failed", mpi_code);
+ if ((mrc = MPI_File_write_at(file->f, mpi_off, (void*)buf,
+ size_i, buf_type, &status)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_write_at failed", mrc);
} else {
/*OKAY: CAST DISCARDS CONST QUALIFIER*/
- if (MPI_SUCCESS != (mpi_code=MPI_File_write_at_all(file->f, mpi_off, (void*)buf, size_i, buf_type, &mpi_stat)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_write_at_all failed", mpi_code);
+ if ((mrc = MPI_File_write_at_all(file->f, mpi_off, (void*)buf,
+ size_i, buf_type, &status)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_write_at_all failed", mrc);
}
- /* KLUDGE, Robb Matzke, 2000-12-29
+ /*
+ * KLUDGE, Robb Matzke, 2000-12-29
* The LAM implementation of MPI_Get_count() says
+ *
* MPI_Get_count: invalid argument (rank 0, MPI_COMM_WORLD)
+ *
* So I'm commenting this out until it can be investigated. The
- * returned `bytes_written' isn't used anyway because of Kim's
- * kludge to avoid bytes_written<0. Likewise in H5FD_fphdf5_read(). */
+ * returned `bytes_written' isn't used anyway because of Kim's kludge
+ * to avoid bytes_written<0. Likewise in H5FD_fphdf5_read().
+ */
#ifdef H5_HAVE_MPI_GET_COUNT /* Bill and Albert's kludge*/
- /* Yet Another KLUDGE, Albert Cheng & Bill Wendling, 2001-05-11.
+ /*
+ * Yet Another KLUDGE, Albert Cheng & Bill Wendling, 2001-05-11.
* Many systems don't support MPI_Get_count so we need to do a
- * configure thingy to fix this. */
+ * configure thingy to fix this.
+ */
- /* Calling MPI_Get_count with "MPI_BYTE" is only valid when we actually
- * had the 'buf_type' set to MPI_BYTE -QAK
+ /*
+ * Calling MPI_Get_count with "MPI_BYTE" is only valid when we
+ * actually had the 'buf_type' set to MPI_BYTE -QAK
*/
- if(use_view_this_time) {
- /* Figure out the mapping from the MPI 'buf_type' to bytes, someday...
- * If this gets fixed (and MPI_Get_count() is reliable), the
- * kludge below where the 'bytes_written' value from MPI_Get_count() is
- * overwritten with the 'size_i' parameter can be removed. -QAK
+ if (use_view_this_time) {
+ /*
+ * Figure out the mapping from the MPI 'buf_type' to bytes,
+ * someday... If this gets fixed (and MPI_Get_count() is
+ * reliable), the kludge below where the 'bytes_written' value
+ * from MPI_Get_count() is overwritten with the 'size_i'
+ * parameter can be removed. -QAK
*/
- } /* end if */
- else {
+ } else {
/* How many bytes were actually written? */
- if (MPI_SUCCESS!= (mpi_code=MPI_Get_count(&mpi_stat, MPI_BYTE, &bytes_written)))
- HMPI_GOTO_ERROR(FAIL, "MPI_Get_count failed", mpi_code);
- } /* end else */
+ if ((mrc = MPI_Get_count(&status, MPI_BYTE, &bytes_written)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_Get_count failed", mrc);
+ }
#endif /* H5_HAVE_MPI_GET_COUNT */
/*
* KLUGE rky, 1998-02-02
+ *
* MPI_Get_count incorrectly returns negative count; fake a complete
* write.
*/
bytes_written = size_i;
/* Check for write failure */
- if (bytes_written<0 || bytes_written>size_i)
+ if (bytes_written < 0 || bytes_written > size_i)
HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "file write failed");
/*
* Reset the file view when we used MPI derived types
*/
- if (use_view_this_time) {
+ if (use_view_this_time)
/*OKAY: CAST DISCARDS CONST QUALIFIER*/
- if (MPI_SUCCESS != (mpi_code=MPI_File_set_view(file->f, 0, MPI_BYTE, MPI_BYTE, (char*)"native", file->info)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_set_view failed", mpi_code);
- } /* end if */
+ if ((mrc = MPI_File_set_view(file->f, (MPI_Offset)0, MPI_BYTE, MPI_BYTE,
+ (char*)"native",
+ file->info)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_set_view failed", mrc);
/* Forget the EOF value (see H5FD_fphdf5_get_eof()) --rpm 1999-08-06 */
file->eof = HADDR_UNDEF;
done:
/* Guard against getting into metadate broadcast in failure cases */
- if(ret_value!=FAIL) {
- /* if only p<round> writes, need to broadcast the ret_value to other processes */
- if ((type!=H5FD_MEM_DRAW) && H5_fphdf5_1_metawrite_g) {
- if (MPI_SUCCESS != (mpi_code=MPI_Bcast(&ret_value, sizeof(ret_value), MPI_BYTE, file->mpi_round, file->comm)))
- HMPI_GOTO_ERROR(FAIL, "MPI_Bcast failed", mpi_code);
+ if (ret_value != FAIL)
+ /*
+ * If only p<round> writes, need to broadcast the ret_value to
+ * other processes
+ */
+ if (mem_type != H5FD_MEM_DRAW) {
+ if ((mrc = MPI_Bcast(&ret_value, sizeof(ret_value), MPI_BYTE,
+ file->mpi_round, file->comm)) != MPI_SUCCESS)
+ HMPI_GOTO_ERROR(FAIL, "MPI_Bcast failed", mrc);
/* Round-robin rotate to the next process */
- file->mpi_round = (++file->mpi_round)%file->mpi_size;
- } /* end if */
- } /* end if */
+ file->mpi_round = (++file->mpi_round) % file->mpi_size;
+ }
FUNC_LEAVE_NOAPI(ret_value);
-#else
- return SUCCEED;
-#endif
}
@@ -1468,16 +1741,16 @@ done:
*-------------------------------------------------------------------------
*/
static herr_t
-H5FD_fphdf5_flush(H5FD_t *_file, unsigned closing)
+H5FD_fphdf5_flush(H5FD_t *_file, hid_t dxpl_id, unsigned closing)
{
#if 0
H5FP_fphdf5_t *file = (H5FP_fphdf5_t*)_file;
- int mpi_code; /* mpi return code */
+ int mrc; /* mpi return code */
MPI_Offset mpi_off;
herr_t ret_value=SUCCEED;
#ifdef OLD_WAY
uint8_t byte=0;
- MPI_Status mpi_stat;
+ MPI_Status status;
#endif /* OLD_WAY */
FUNC_ENTER_NOAPI(H5FD_fphdf5_flush, FAIL);
@@ -1487,7 +1760,7 @@ H5FD_fphdf5_flush(H5FD_t *_file, unsigned closing)
#ifdef OLD_WAY
/* Portably initialize MPI status variable */
- HDmemset(&mpi_stat,0,sizeof(MPI_Status));
+ HDmemset(&status,0,sizeof(MPI_Status));
#endif /* OLD_WAY */
/* Extend the file to make sure it's large enough, then sync.
@@ -1499,27 +1772,27 @@ H5FD_fphdf5_flush(H5FD_t *_file, unsigned closing)
if (0==file->mpi_rank) {
if (H5FD_fphdf5_haddr_to_MPIOff(file->eoa-1, &mpi_off)<0)
HGOTO_ERROR(H5E_INTERNAL, H5E_BADRANGE, FAIL, "cannot convert from haddr_t to MPI_Offset");
- if (MPI_SUCCESS != (mpi_code=MPI_File_read_at(file->f, mpi_off, &byte, 1, MPI_BYTE, &mpi_stat)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_read_at failed", mpi_code);
- if (MPI_SUCCESS != (mpi_code=MPI_File_write_at(file->f, mpi_off, &byte, 1, MPI_BYTE, &mpi_stat)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_write_at failed", mpi_code);
+ if (MPI_SUCCESS != (mrc=MPI_File_read_at(file->f, mpi_off, &byte, 1, MPI_BYTE, &status)))
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_read_at failed", mrc);
+ if (MPI_SUCCESS != (mrc=MPI_File_write_at(file->f, mpi_off, &byte, 1, MPI_BYTE, &status)))
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_write_at failed", mrc);
} /* end if */
#else /* OLD_WAY */
if (H5FD_fphdf5_haddr_to_MPIOff(file->eoa, &mpi_off)<0)
HGOTO_ERROR(H5E_INTERNAL, H5E_BADRANGE, FAIL, "cannot convert from haddr_t to MPI_Offset");
/* Extend the file's size */
- if (MPI_SUCCESS != (mpi_code=MPI_File_set_size(file->f, mpi_off)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_set_size failed", mpi_code);
+ if (MPI_SUCCESS != (mrc=MPI_File_set_size(file->f, mpi_off)))
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_set_size failed", mrc);
- /* Don't let any proc return until all have extended the file.
+ /* Don't let any proc return until all have extended the file.
* (Prevents race condition where some processes go ahead and write
* more data to the file before all the processes have finished making
* it the shorter length, potentially truncating the file and dropping
* the new data written)
*/
- if (MPI_SUCCESS!= (mpi_code=MPI_Barrier(file->comm)))
- HMPI_GOTO_ERROR(FAIL, "MPI_Barrier failed", mpi_code);
+ if (MPI_SUCCESS!= (mrc=MPI_Barrier(file->comm)))
+ HMPI_GOTO_ERROR(FAIL, "MPI_Barrier failed", mrc);
#endif /* OLD_WAY */
/* Update the 'last' eoa value */
@@ -1528,8 +1801,8 @@ H5FD_fphdf5_flush(H5FD_t *_file, unsigned closing)
/* Only sync the file if we are not going to immediately close it */
if(!closing) {
- if (MPI_SUCCESS != (mpi_code=MPI_File_sync(file->f)))
- HMPI_GOTO_ERROR(FAIL, "MPI_File_sync failed", mpi_code);
+ if (MPI_SUCCESS != (mrc=MPI_File_sync(file->f)))
+ HMPI_GOTO_ERROR(FAIL, "MPI_File_sync failed", mrc);
} /* end if */
done:
@@ -1573,7 +1846,7 @@ H5FD_fphdf5_MPIOff_to_haddr(MPI_Offset mpi_off)
*-------------------------------------------------------------------------
*/
static herr_t
-H5FD_fphdf5_haddr_to_MPIOff(haddr_t addr, MPI_Offset *mpi_off /*out*/)
+H5FD_fphdf5_haddr_to_MPIOff(haddr_t addr, MPI_Offset *mpi_off)
{
herr_t ret_value = FAIL;
diff --git a/src/H5FDfphdf5.h b/src/H5FDfphdf5.h
index 46061ec..2aca0ed 100644
--- a/src/H5FDfphdf5.h
+++ b/src/H5FDfphdf5.h
@@ -15,6 +15,7 @@
#ifndef H5FDFPHDF5_H__
#define H5FDFPHDF5_H__
+#include "H5FDmpio.h"
#include "H5FDpublic.h"
#include "H5Ipublic.h"
@@ -42,16 +43,37 @@
extern "C" {
#endif /* __cplusplus */
-H5_DLL hid_t H5FD_fphdf5_init(void);
-H5_DLL herr_t H5Pset_fapl_fphdf5(hid_t fapl_id, MPI_Comm comm, MPI_Info info);
-H5_DLL herr_t H5Pget_fapl_fphdf5(hid_t fapl_id, MPI_Comm *comm/*out*/,
- MPI_Info *info/*out*/);
+/*
+ *==--------------------------------------------------------------------------==
+ * API Functions
+ *==--------------------------------------------------------------------------==
+ */
+H5_DLL herr_t H5Pset_dxpl_fphdf5(hid_t dxpl_id, H5FD_mpio_xfer_t xfer_mode);
+H5_DLL herr_t H5Pget_dxpl_fphdf5(hid_t dxpl_id, H5FD_mpio_xfer_t *xfer_mode);
+H5_DLL herr_t H5Pset_fapl_fphdf5(hid_t fapl_id, MPI_Comm comm,
+ MPI_Comm barrier_comm, MPI_Info info,
+ unsigned sap_rank);
+H5_DLL herr_t H5Pget_fapl_fphdf5(hid_t fapl_id, MPI_Comm *comm,
+ MPI_Comm *barrier_comm, MPI_Info *info,
+ unsigned *sap_rank, unsigned *capt_rank);
+
+/*
+ *==--------------------------------------------------------------------------==
+ * Private Library Functions
+ *==--------------------------------------------------------------------------==
+ */
+H5_DLL hid_t H5FD_fphdf5_init(void);
H5_DLL MPI_Comm H5FD_fphdf5_communicator(H5FD_t *_file);
-H5_DLL herr_t H5FD_fphdf5_setup(hid_t dxpl_id, MPI_Datatype btype,
- MPI_Datatype ftype, unsigned use_view);
-H5_DLL herr_t H5FD_fphdf5_teardown(hid_t dxpl_id);
-H5_DLL int H5FD_fphdf5_mpi_rank(H5FD_t *_file);
-H5_DLL int H5FD_fphdf5_mpi_size(H5FD_t *_file);
+H5_DLL MPI_Comm H5FD_fphdf5_barrier_communicator(H5FD_t *_file);
+H5_DLL herr_t H5FD_fphdf5_setup(hid_t dxpl_id, MPI_Datatype btype,
+ MPI_Datatype ftype, unsigned use_view);
+H5_DLL herr_t H5FD_fphdf5_teardown(hid_t dxpl_id);
+H5_DLL int H5FD_fphdf5_mpi_rank(H5FD_t *_file);
+H5_DLL int H5FD_fphdf5_mpi_size(H5FD_t *_file);
+
+H5_DLL herr_t H5FD_fphdf5_write_real(H5FD_t *_file, H5FD_mem_t type,
+ hid_t dxpl_id, MPI_Offset mpi_off,
+ int size, const void *buf);
#ifdef __cplusplus
}
diff --git a/src/Makefile.in b/src/Makefile.in
index db8c717..b0e622a 100644
--- a/src/Makefile.in
+++ b/src/Makefile.in
@@ -34,13 +34,12 @@ LIB_SRC=H5.c H5A.c H5AC.c H5B.c H5D.c H5E.c H5F.c H5Farray.c H5Fcontig.c \
H5FDmulti.c H5FDsec2.c H5FDsrb.c H5FDstdio.c H5FDstream.c H5FL.c \
H5FO.c H5FP.c H5FPclient.c H5FPserver.c H5FS.c H5G.c H5Gent.c \
H5Gnode.c H5Gstab.c H5HG.c H5HL.c H5I.c H5MF.c H5MM.c H5O.c H5Oattr.c \
- H5Obogus.c H5Ocont.c H5Odtype.c H5Oefl.c H5Ofill.c H5Ofphdf5.c \
- H5Olayout.c H5Omtime.c H5Oname.c H5Onull.c H5Opline.c H5Oplist.c \
- H5Osdspace.c H5Oshared.c H5Ostab.c H5P.c H5Pdcpl.c H5Pdxpl.c \
- H5Pfapl.c H5Pfcpl.c H5R.c H5RS.c H5S.c H5Sall.c H5Shyper.c H5Smpio.c \
- H5Snone.c H5Spoint.c H5Sselect.c H5ST.c H5T.c H5Tbit.c H5Tconv.c \
- H5Tinit.c H5Tvlen.c H5TB.c H5TS.c H5V.c H5Z.c H5Zdeflate.c \
- H5Zshuffle.c H5Zadler32.c
+ H5Obogus.c H5Ocont.c H5Odtype.c H5Oefl.c H5Ofill.c H5Olayout.c \
+ H5Omtime.c H5Oname.c H5Onull.c H5Opline.c H5Oplist.c H5Osdspace.c \
+ H5Oshared.c H5Ostab.c H5P.c H5Pdcpl.c H5Pdxpl.c H5Pfapl.c H5Pfcpl.c \
+ H5R.c H5RS.c H5S.c H5Sall.c H5Shyper.c H5Smpio.c H5Snone.c H5Spoint.c \
+ H5Sselect.c H5ST.c H5T.c H5Tbit.c H5Tconv.c H5Tinit.c H5Tvlen.c \
+ H5TB.c H5TS.c H5V.c H5Z.c H5Zdeflate.c H5Zshuffle.c H5Zadler32.c
LIB_OBJ=$(LIB_SRC:.c=.lo)