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Diffstat (limited to 'perform/sio_engine.c')
| -rw-r--r-- | perform/sio_engine.c | 1310 |
1 files changed, 0 insertions, 1310 deletions
diff --git a/perform/sio_engine.c b/perform/sio_engine.c deleted file mode 100644 index 07e6b16c..0000000 --- a/perform/sio_engine.c +++ /dev/null @@ -1,1310 +0,0 @@ -/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * - * Copyright by The HDF Group. * - * 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. * - * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ - -/* - * Author: Christian Chilan, April 2008 - */ - -#include <sys/types.h> -#include <sys/stat.h> -#include <stdio.h> -#include <stdlib.h> -#include <fcntl.h> -#ifdef H5_HAVE_UNISTD_H -# include <unistd.h> -#endif -#include <errno.h> - -#include "hdf5.h" - -#include "sio_perf.h" -#include "sio_timer.h" - -/* Macro definitions */ - -/* sizes of various items. these sizes won't change during program execution */ -#define ELMT_H5_TYPE H5T_NATIVE_UCHAR - -#define GOTOERROR(errcode) { ret_code = errcode; goto done; } -#define ERRMSG(mesg) { \ - fprintf(stderr, "*** Assertion failed (%s) at line %4d in %s\n", \ - mesg, (int)__LINE__, __FILE__); \ -} - -/* verify: if val is false (0), print mesg. */ -#define VRFY(val, mesg) do { \ - if (!val) { \ - ERRMSG(mesg); \ - GOTOERROR(FAIL); \ - } \ -} while(0) - -/* POSIX I/O macros */ -#define POSIXCREATE(fn) HDopen(fn, O_CREAT|O_TRUNC|O_RDWR, 0600) -#define POSIXOPEN(fn, F) HDopen(fn, F, 0600) -#define POSIXCLOSE(F) HDclose(F) -#define POSIXSEEK(F,L) HDlseek(F, L, SEEK_SET) -#define POSIXWRITE(F,B,S) HDwrite(F,B,S) -#define POSIXREAD(F,B,S) HDread(F,B,S) - -enum { - SIO_CREATE = 1, - SIO_WRITE = 2, - SIO_READ = 4 -}; - -/* Global variables */ -static int clean_file_g = -1; /*whether to cleanup temporary test */ -/*files. -1 is not defined; */ -/*0 is no cleanup; 1 is do cleanup */ - -/* the different types of file descriptors we can expect */ -typedef union _file_descr { - int posixfd; /* POSIX file handle*/ - hid_t h5fd; /* HDF5 file */ -} file_descr; - -/* local functions */ -static char *sio_create_filename(iotype iot, const char *base_name, - char *fullname, size_t size, parameters *param); -static herr_t do_write(results *res, file_descr *fd, parameters *parms, void *buffer); -static herr_t do_read(results *res, file_descr *fd, parameters *parms, void *buffer); -static herr_t dset_write(int local_dim, file_descr *fd, parameters *parms, void *buffer); -static herr_t posix_buffer_write(int local_dim, file_descr *fd, parameters *parms, void *buffer); -static herr_t dset_read(int localrank, file_descr *fd, parameters *parms, void *buffer, const char *buffer2); -static herr_t posix_buffer_read(int local_dim, file_descr *fd, parameters *parms, void *buffer); -static herr_t do_fopen(parameters *param, char *fname, file_descr *fd /*out*/, - int flags); -hid_t set_vfd(parameters *param); -static herr_t do_fclose(iotype iot, file_descr *fd); -static void do_cleanupfile(iotype iot, char *fname); - -/* global variables */ -static off_t offset[MAX_DIMS]; /* dataset size in bytes */ -static size_t buf_offset[MAX_DIMS]; /* dataset size in bytes */ -static int order[MAX_DIMS]; /* dimension access order */ -static size_t linear_buf_size; /* linear buffer size */ -static int cont_dim; /* lowest dimension for contiguous POSIX - access */ -static size_t cont_size; /* size of contiguous POSIX access */ -static hid_t fapl; /* file access list */ -static unsigned char *buf_p; /* buffer pointer */ -static const char *multi_letters = "msbrglo"; /* string for multi driver */ - -/* HDF5 global variables */ -static hsize_t h5count[MAX_DIMS]; /*selection count */ -static hssize_t h5offset[MAX_DIMS]; /* Selection offset within dataspace */ -static hid_t h5dset_space_id = -1; /*dataset space ID */ -static hid_t h5mem_space_id = -1; /*memory dataspace ID */ -static hid_t h5ds_id = -1; /*dataset handle */ -static hid_t h5dcpl = -1; /* Dataset creation property list */ -static hid_t h5dxpl = -1; /* Dataset transfer property list */ - -/* - * Function: do_sio - * Purpose: SIO Engine where IO are executed. - * Return: results - * Programmer: Christian Chilan, April, 2008 - * Modifications: - */ - results -do_sio(parameters param) -{ - char *buffer = NULL; /*data buffer pointer */ - size_t buf_size[MAX_DIMS]; /* general buffer size in bytes */ - file_descr fd; /* file handles */ - iotype iot; /* API type */ - char base_name[256]; /* test file base name */ - /* return codes */ - herr_t ret_code = 0; /*return code */ - results res; - - char fname[FILENAME_MAX]; /* test file name */ - int i; - /* HDF5 variables */ - herr_t hrc; /*HDF5 return code */ - - /* Sanity check parameters */ - - /* IO type */ - iot = param.io_type; - - switch (iot) { - case POSIXIO: - fd.posixfd = -1; - res.timers = sio_time_new(); - break; - case HDF5: - fd.h5fd = -1; - res.timers = sio_time_new(); - break; - default: - /* unknown request */ - HDfprintf(stderr, "Unknown IO type request (%d)\n", (int)iot); - GOTOERROR(FAIL); - } - - linear_buf_size = 1; - - for (i=0; i<param.rank; i++){ - buf_size[i] = param.buf_size[i]; - order[i] = param.order[i]; - linear_buf_size *= buf_size[i]; - buf_offset[i] = 0; - offset[i] = 0; - - /* Validate transfer buffer size */ - if (param.buf_size[i]<=0) { - HDfprintf(stderr, - "Transfer buffer size[%d] (%zu) must be > 0\n", i,buf_size[i]); - GOTOERROR(FAIL); - } - - if ((param.dset_size[i]%param.buf_size[i])!=0) { - HDfprintf(stderr, - "Dataset size[%d] (%" H5_PRINTF_LL_WIDTH "d) must be a multiple of the " - "trasfer buffer size[%d] (%zu)\n",param.rank, - (long long)param.dset_size[i], param.rank, param.buf_size[i]); - GOTOERROR(FAIL); - } - - } - - /* Allocate transfer buffer */ - if ((buffer = malloc(linear_buf_size)) == NULL){ - HDfprintf(stderr, "malloc for transfer buffer size (%zu) failed\n", linear_buf_size); - GOTOERROR(FAIL); - } - - if (sio_debug_level >= 4) - - /* output all of the times for all iterations */ - fprintf(output, "Timer details:\n"); - - /* - * Write performance measurement - */ - /* Open file for write */ - - HDstrcpy(base_name, "#sio_tmp"); - sio_create_filename(iot, base_name, fname, sizeof(fname), ¶m); - - if (sio_debug_level > 0) - HDfprintf(output, "data filename=%s\n", - fname); - - set_time(res.timers, HDF5_GROSS_WRITE_FIXED_DIMS, TSTART); - hrc = do_fopen(¶m, fname, &fd, SIO_CREATE | SIO_WRITE); - VRFY((hrc == SUCCESS), "do_fopen failed"); - - set_time(res.timers, HDF5_FINE_WRITE_FIXED_DIMS, TSTART); - hrc = do_write(&res, &fd, ¶m, buffer); - set_time(res.timers, HDF5_FINE_WRITE_FIXED_DIMS, TSTOP); - VRFY((hrc == SUCCESS), "do_write failed"); - - /* Close file for write */ - hrc = do_fclose(iot, &fd); - set_time(res.timers, HDF5_GROSS_WRITE_FIXED_DIMS, TSTOP); - VRFY((hrc == SUCCESS), "do_fclose failed"); - - if (!param.h5_write_only) { - /* - * Read performance measurement - */ - - /* Open file for read */ - set_time(res.timers, HDF5_GROSS_READ_FIXED_DIMS, TSTART); - hrc = do_fopen(¶m, fname, &fd, SIO_READ); - VRFY((hrc == SUCCESS), "do_fopen failed"); - - set_time(res.timers, HDF5_FINE_READ_FIXED_DIMS, TSTART); - hrc = do_read(&res, &fd, ¶m, buffer); - set_time(res.timers, HDF5_FINE_READ_FIXED_DIMS, TSTOP); - VRFY((hrc == SUCCESS), "do_read failed"); - - /* Close file for read */ - hrc = do_fclose(iot, &fd); - - set_time(res.timers, HDF5_GROSS_READ_FIXED_DIMS, TSTOP); - VRFY((hrc == SUCCESS), "do_fclose failed"); - } - - do_cleanupfile(iot, fname); - -done: - /* clean up */ - /* release HDF5 objects */ - - /* close any opened files */ - /* no remove(fname) because that should have happened normally. */ - switch (iot) { - case POSIXIO: - if (fd.posixfd != -1) - hrc = do_fclose(iot, &fd); - break; - case HDF5: - if (fd.h5fd != -1) - hrc = do_fclose(iot, &fd); - break; - default: - /* unknown request */ - HDassert(0 && "Unknown IO type"); - break; - } - - /* release generic resources */ - if (buffer) - free(buffer); - - res.ret_code = ret_code; - return res; -} - -/* - * Function: sio_create_filename - * Purpose: Create a new filename to write to. Determine the correct - * suffix to append to the filename by the type of I/O we're - * doing. Also, place in the /tmp/{$USER,$LOGIN} directory if - * USER or LOGIN are specified in the environment. - * Return: Pointer to filename or NULL - * Programmer: Bill Wendling, 21. November 2001 - * Modifications: Support for file drivers. Christian Chilan, April, 2008 - */ - static char * -sio_create_filename(iotype iot, const char *base_name, char *fullname, size_t size, parameters *param) -{ - const char *prefix, *suffix=""; - char *ptr, last = '\0'; - size_t i, j; - vfdtype vfd; - vfd = param->vfd; - - if (!base_name || !fullname || size < 1) - return NULL; - - memset(fullname, 0, size); - - switch (iot) { - case POSIXIO: - suffix = ".posix"; - break; - case HDF5: - suffix = ".h5"; - if (vfd == family) - suffix = "%05d.h5"; - else if (vfd == multi) - suffix = NULL; - break; - default: - /* unknown request */ - HDfprintf(stderr, "Unknown IO type request (%d)\n", (int)iot); - HDassert(0 && "Unknown IO type"); - break; - } - - /* First use the environment variable and then try the constant */ - prefix = HDgetenv("HDF5_PREFIX"); - -#ifdef HDF5_PREFIX - if (!prefix) - prefix = HDF5_PREFIX; -#endif /* HDF5_PREFIX */ - - /* Prepend the prefix value to the base name */ - if (prefix && *prefix) { - /* If the prefix specifies the HDF5_PREFIX directory, then - * default to using the "/tmp/$USER" or "/tmp/$LOGIN" - * directory instead. */ - register char *user, *login, *subdir; - - user = HDgetenv("USER"); - login = HDgetenv("LOGIN"); - subdir = (user ? user : login); - - if (subdir) { - for (i = 0; i < size-1 && prefix[i]; i++) - fullname[i] = prefix[i]; - - fullname[i++] = '/'; - - for (j = 0; i < size && subdir[j]; i++, j++) - fullname[i] = subdir[j]; - } else { - /* We didn't append the prefix yet */ - HDstrncpy(fullname, prefix, size); - fullname[size - 1] = '\0'; - } - - if ((HDstrlen(fullname) + HDstrlen(base_name) + 1) < size) { - /* Append the base_name with a slash first. Multiple slashes are - * handled below. */ - h5_stat_t buf; - - if (HDstat(fullname, &buf) < 0) - /* The directory doesn't exist just yet */ - if (HDmkdir(fullname, 0755) < 0 && errno != EEXIST) { - /* We couldn't make the "/tmp/${USER,LOGIN}" subdirectory. - * Default to PREFIX's original prefix value. */ - HDstrcpy(fullname, prefix); - } - - HDstrcat(fullname, "/"); - HDstrcat(fullname, base_name); - } else { - /* Buffer is too small */ - return NULL; - } - } else if (strlen(base_name) >= size) { - /* Buffer is too small */ - return NULL; - } else { - HDstrcpy(fullname, base_name); - } - - /* Append a suffix */ - if (suffix) { - if (HDstrlen(fullname) + HDstrlen(suffix) >= size) - return NULL; - - HDstrcat(fullname, suffix); - } - - /* Remove any double slashes in the filename */ - for (ptr = fullname, i = j = 0; ptr && (i < size); i++, ptr++) { - if (*ptr != '/' || last != '/') - fullname[j++] = *ptr; - - last = *ptr; - } - - return fullname; -} - -/* - * Function: do_write - * Purpose: Write the required amount of data to the file. - * Return: SUCCESS or FAIL - * Programmer: Christian Chilan, April, 2008 - * Modifications: - */ -static herr_t -do_write(results *res, file_descr *fd, parameters *parms, void *buffer) -{ - int ret_code = SUCCESS; - char dname[64]; - long i; - /* HDF5 variables */ - herr_t hrc; /*HDF5 return code */ - hsize_t h5dims[MAX_DIMS]; /*dataset dim sizes */ - hsize_t h5chunk[MAX_DIMS]; /*dataset dim sizes */ - hsize_t h5block[MAX_DIMS]; /*dataspace selection */ - hsize_t h5stride[MAX_DIMS]; /*selection stride */ - hsize_t h5start[MAX_DIMS]; /*selection start */ - hsize_t h5maxdims[MAX_DIMS]; - int rank; /*rank of dataset */ - /* Prepare buffer for verifying data */ -/* if (parms->verify) - memset(buffer,1,linear_buf_size); */ - - buf_p=(unsigned char *)buffer; - - for (i=0; i < linear_buf_size; i++) - buf_p[i]=i%128; - - rank = parms->rank; - - for (i=0; i<rank; i++) { - h5offset[i] = offset[i] = 0; - } - - /* I/O Access specific setup */ - switch (parms->io_type) { - case POSIXIO: - - /* determine lowest dimension for contiguous POSIX access */ - cont_dim = rank; - - for (i=rank-1; i>=0; i--) { - if (parms->buf_size[i]==parms->dset_size[i]) - cont_dim = i; - else - break; - } - - /* determine size of the contiguous POSIX access */ - cont_size = (!cont_dim)? 1 : parms->buf_size[cont_dim-1]; - for (i=cont_dim; i<rank; i++) - cont_size *= parms->buf_size[i]; - - break; - - case HDF5: /* HDF5 setup */ - - for (i=0; i < rank; i++){ - h5dims[i] = parms->dset_size[i]; - h5start[i] = 0; - h5stride[i] = 1; - h5block[i] = 1; - h5count[i] = parms->buf_size[i]; - h5chunk[i] = parms->chk_size[i]; - h5maxdims[i] = H5S_UNLIMITED; - - } - - if (parms->h5_use_chunks && parms->h5_extendable) { - h5dset_space_id = H5Screate_simple(rank, h5count, h5maxdims); - VRFY((h5dset_space_id >= 0), "H5Screate_simple"); - } - else { - h5dset_space_id = H5Screate_simple(rank, h5dims, NULL); - VRFY((h5dset_space_id >= 0), "H5Screate_simple"); - } - - hrc = H5Sselect_hyperslab(h5dset_space_id, H5S_SELECT_SET, - h5start, h5stride, h5count, h5block); - VRFY((hrc >= 0), "H5Sselect_hyperslab"); - - /* Create the memory dataspace that corresponds to the xfer buffer */ - h5mem_space_id = H5Screate_simple(rank, h5count, NULL); - VRFY((h5mem_space_id >= 0), "H5Screate_simple"); - - /* Create the dataset transfer property list */ - h5dxpl = H5Pcreate(H5P_DATASET_XFER); - if (h5dxpl < 0) { - fprintf(stderr, "HDF5 Property List Create failed\n"); - GOTOERROR(FAIL); - } - - break; - - default: - HDfprintf(stderr, "Unknown IO type request (%d)\n", (int)parms->io_type); - GOTOERROR(FAIL); - break; - } /* end switch */ - - - /* create dataset */ - switch (parms->io_type) { - case POSIXIO: - break; - - case HDF5: - h5dcpl = H5Pcreate(H5P_DATASET_CREATE); - - if (h5dcpl < 0) { - fprintf(stderr, "HDF5 Property List Create failed\n"); - GOTOERROR(FAIL); - } - - if(parms->h5_use_chunks) { - /* Set the chunk size to be the same as the buffer size */ - hrc = H5Pset_chunk(h5dcpl, rank, h5chunk); - if (hrc < 0) { - fprintf(stderr, "HDF5 Property List Set failed\n"); - GOTOERROR(FAIL); - } /* end if */ - } /* end if */ - - sprintf(dname, "Dataset_%ld", (unsigned long)parms->num_bytes); - h5ds_id = H5Dcreate2(fd->h5fd, dname, ELMT_H5_TYPE, - h5dset_space_id, H5P_DEFAULT, h5dcpl, H5P_DEFAULT); - - if (h5ds_id < 0) { - HDfprintf(stderr, "HDF5 Dataset Create failed\n"); - GOTOERROR(FAIL); - } - - hrc = H5Pclose(h5dcpl); - /* verifying the close of the dcpl */ - if (hrc < 0) { - HDfprintf(stderr, "HDF5 Property List Close failed\n"); - GOTOERROR(FAIL); - } - break; - - default: - /* unknown request */ - HDfprintf(stderr, "Unknown IO type request (%d)\n", (int)parms->io_type); - GOTOERROR(FAIL); - break; - } - - /* Start "raw data" write timer */ - set_time(res->timers, HDF5_RAW_WRITE_FIXED_DIMS, TSTART); - - /* Perform write */ - hrc = dset_write(rank-1, fd, parms, buffer); - - if (hrc < 0) { - fprintf(stderr, "Error in dataset write\n"); - GOTOERROR(FAIL); - } - - - /* Stop "raw data" write timer */ - set_time(res->timers, HDF5_RAW_WRITE_FIXED_DIMS, TSTOP); - - /* Calculate write time */ - - /* Close dataset. Only HDF5 needs to do an explicit close. */ - if (parms->io_type == HDF5) { - hrc = H5Dclose(h5ds_id); - - if (hrc < 0) { - fprintf(stderr, "HDF5 Dataset Close failed\n"); - GOTOERROR(FAIL); - } - - h5ds_id = -1; - } /* end if */ - -done: - - /* release HDF5 objects */ - if (h5dset_space_id != -1) { - hrc = H5Sclose(h5dset_space_id); - if (hrc < 0){ - fprintf(stderr, "HDF5 Dataset Space Close failed\n"); - ret_code = FAIL; - } else { - h5dset_space_id = -1; - } - } - - if (h5mem_space_id != -1) { - hrc = H5Sclose(h5mem_space_id); - if (hrc < 0) { - fprintf(stderr, "HDF5 Memory Space Close failed\n"); - ret_code = FAIL; - } else { - h5mem_space_id = -1; - } - } - - if (h5dxpl != -1) { - hrc = H5Pclose(h5dxpl); - if (hrc < 0) { - fprintf(stderr, "HDF5 Dataset Transfer Property List Close failed\n"); - ret_code = FAIL; - } else { - h5dxpl = -1; - } - } - - return ret_code; -} - -/* - * Function: dset_write - * Purpose: Write buffer into the dataset. - * Return: SUCCESS or FAIL - * Programmer: Christian Chilan, April, 2008 - * Modifications: - */ - -static herr_t dset_write(int local_dim, file_descr *fd, parameters *parms, void *buffer) -{ - int cur_dim = order[local_dim]-1; - int ret_code = SUCCESS; - int k; - hsize_t dims[MAX_DIMS], maxdims[MAX_DIMS]; - long i,j; - herr_t hrc; - - /* iterates according to the dimensions in order array */ - for (i=0; i < parms->dset_size[cur_dim]; i += parms->buf_size[cur_dim]){ - - h5offset[cur_dim] = offset[cur_dim] = i; - - if (local_dim > 0){ - - dset_write(local_dim-1, fd, parms, buffer); - - }else{ - - switch (parms->io_type) { - - case POSIXIO: - /* initialize POSIX offset in the buffer */ - for (j=0; j < parms->rank; j++) { - buf_offset[j]=0; - } - buf_p = (unsigned char *)buffer; - /* write POSIX buffer */ - posix_buffer_write(0, fd, parms, buffer); - break; - - case HDF5: - /* if dimensions are extendable, extend them as needed during - access */ - if (parms->h5_use_chunks && parms->h5_extendable) { - - hrc=H5Sget_simple_extent_dims(h5dset_space_id,dims,maxdims); - VRFY((hrc >= 0), "H5Sget_simple_extent_dims"); - - for (k=0; k < parms->rank; k++){ - - if (dims[k] <= h5offset[k]) { - dims[k] = dims[k]+h5count[k]; - hrc=H5Sset_extent_simple(h5dset_space_id,parms->rank,dims,maxdims); - VRFY((hrc >= 0), "H5Sset_extent_simple"); - hrc=H5Dset_extent(h5ds_id,dims); - VRFY((hrc >= 0), "H5Dextend"); - } - } - } - /* applies offset */ - hrc = H5Soffset_simple(h5dset_space_id, h5offset); - VRFY((hrc >= 0), "H5Soffset_simple"); - - /* Write the buffer out */ - hrc=H5Sget_simple_extent_dims(h5dset_space_id,dims,maxdims); - hrc = H5Dwrite(h5ds_id, ELMT_H5_TYPE, h5mem_space_id, - h5dset_space_id, h5dxpl, buffer); - VRFY((hrc >= 0), "H5Dwrite"); - - break; - - default: - /* unknown request */ - HDfprintf(stderr, "Unknown IO type request (%d)\n", (int)parms->io_type); - HDassert(0 && "Unknown IO type"); - break; - } /* switch (parms->io_type) */ - } - } -done: - return ret_code; -} - -/* - * Function: posix_buffer_write - * Purpose: Write buffer into the POSIX file considering contiguity. - * Return: SUCCESS or FAIL - * Programmer: Christian Chilan, April, 2008 - * Modifications: - */ - -static herr_t posix_buffer_write(int local_dim, file_descr *fd, parameters *parms, void *buffer) -{ - int dtype_size = 1; - int ret_code = SUCCESS; - long i; - size_t d_offset; - size_t linear_dset_offset = 0; - int j, rc; - - /* if dimension is not contiguous, call recursively */ - if (local_dim < parms->rank-1 && local_dim != cont_dim) { - - for (i=0; i < parms->buf_size[local_dim]; i += dtype_size) { - buf_offset[local_dim] = i; - posix_buffer_write(local_dim+1, fd, parms, buffer); - - /* if next dimension is cont_dim, it will fill out the buffer - traversing the entire dimension local_dim without the need - of performing iteration */ - if (local_dim+1==cont_dim) - break; - } - /* otherwise, perform contiguous POSIX access */ - } else { - - buf_offset[local_dim] = 0; - - /* determine offset in the buffer */ - for (i=0; i < parms->rank; i++){ - d_offset=1; - - for (j=i+1; j < parms->rank; j++) - d_offset *= parms->dset_size[j]; - - linear_dset_offset += (offset[i]+buf_offset[i])*d_offset; - } - - /* only care if seek returns error */ - rc = POSIXSEEK(fd->posixfd, linear_dset_offset) < 0 ? -1 : 0; - VRFY((rc==0), "POSIXSEEK"); - /* check if all bytes are written */ - rc = ((ssize_t)cont_size == - POSIXWRITE(fd->posixfd, buf_p, cont_size)); - VRFY((rc != 0), "POSIXWRITE"); - - /* Advance location in buffer */ - buf_p += cont_size; - - } -done: - return ret_code; -} - -/* - * Function: do_read - * Purpose: Read the required amount of data to the file. - * Return: SUCCESS or FAIL - * Programmer: Christian Chilan, April, 2008 - * Modifications: - */ -static herr_t -do_read(results *res, file_descr *fd, parameters *parms, void *buffer) -{ - char *buffer2 = NULL; /* Buffer for data verification */ - int ret_code = SUCCESS; - char dname[64]; - long i; - /* HDF5 variables */ - herr_t hrc; /*HDF5 return code */ - hsize_t h5dims[MAX_DIMS]; /*dataset dim sizes */ - hsize_t h5block[MAX_DIMS]; /*dataspace selection */ - hsize_t h5stride[MAX_DIMS]; /*selection stride */ - hsize_t h5start[MAX_DIMS]; /*selection start */ - int rank; - - /* Allocate data verification buffer */ - if(NULL == (buffer2 = (char *)malloc(linear_buf_size))) { - HDfprintf(stderr, "malloc for data verification buffer size (%Zu) failed\n", linear_buf_size); - GOTOERROR(FAIL); - } /* end if */ - - /* Prepare buffer for verifying data */ - for(i = 0; i < linear_buf_size; i++) - buffer2[i] = i % 128; - - rank = parms->rank; - for(i = 0; i < rank; i++) - h5offset[i] = offset[i] = 0; - - /* I/O Access specific setup */ - switch (parms->io_type) { - case POSIXIO: - cont_dim = rank; - - for (i=rank-1; i>=0; i--) { - if (parms->buf_size[i]==parms->dset_size[i]) - cont_dim = i; - else - break; - } - cont_size = (!cont_dim)? 1 : parms->buf_size[cont_dim-1]; - for (i=cont_dim; i<rank; i++) - cont_size *= parms->buf_size[i]; - - break; - - case HDF5: /* HDF5 setup */ - for (i=0; i < rank; i++){ - h5dims[i] = parms->dset_size[i]; - h5start[i] = 0; - h5stride[i] = 1; - h5block[i] = 1; - h5count[i] = parms->buf_size[i]; - } - - h5dset_space_id = H5Screate_simple(rank, h5dims, NULL); - VRFY((h5dset_space_id >= 0), "H5Screate_simple"); - - hrc = H5Sselect_hyperslab(h5dset_space_id, H5S_SELECT_SET, - h5start, h5stride, h5count, h5block); - VRFY((hrc >= 0), "H5Sselect_hyperslab"); - - /* Create the memory dataspace that corresponds to the xfer buffer */ - h5mem_space_id = H5Screate_simple(rank, h5count, NULL); - VRFY((h5mem_space_id >= 0), "H5Screate_simple"); - - /* Create the dataset transfer property list */ - h5dxpl = H5Pcreate(H5P_DATASET_XFER); - if (h5dxpl < 0) { - fprintf(stderr, "HDF5 Property List Create failed\n"); - GOTOERROR(FAIL); - } - break; - - default: - /* unknown request */ - HDfprintf(stderr, "Unknown IO type request (%d)\n", (int)parms->io_type); - GOTOERROR(FAIL); - break; - } /* end switch */ - - - /* create dataset */ - switch (parms->io_type) { - case POSIXIO: - break; - - case HDF5: - sprintf(dname, "Dataset_%ld", (long)parms->num_bytes); - h5ds_id = H5Dopen2(fd->h5fd, dname, H5P_DEFAULT); - if (h5ds_id < 0) { - HDfprintf(stderr, "HDF5 Dataset open failed\n"); - GOTOERROR(FAIL); - } - break; - - default: - /* unknown request */ - HDfprintf(stderr, "Unknown IO type request (%d)\n", (int)parms->io_type); - GOTOERROR(FAIL); - break; - } /* end switch */ - - /* Start "raw data" read timer */ - set_time(res->timers, HDF5_RAW_READ_FIXED_DIMS, TSTART); - hrc = dset_read(rank-1, fd, parms, buffer, buffer2); - - if (hrc < 0) { - fprintf(stderr, "Error in dataset read\n"); - GOTOERROR(FAIL); - } - - /* Stop "raw data" read timer */ - set_time(res->timers, HDF5_RAW_READ_FIXED_DIMS, TSTOP); - - /* Calculate read time */ - - /* Close dataset. Only HDF5 needs to do an explicit close. */ - if (parms->io_type == HDF5) { - hrc = H5Dclose(h5ds_id); - - if (hrc < 0) { - fprintf(stderr, "HDF5 Dataset Close failed\n"); - GOTOERROR(FAIL); - } - - h5ds_id = -1; - } /* end if */ - -done: - - /* release HDF5 objects */ - if (h5dset_space_id != -1) { - hrc = H5Sclose(h5dset_space_id); - if (hrc < 0){ - fprintf(stderr, "HDF5 Dataset Space Close failed\n"); - ret_code = FAIL; - } else { - h5dset_space_id = -1; - } - } - - if (h5mem_space_id != -1) { - hrc = H5Sclose(h5mem_space_id); - if (hrc < 0) { - fprintf(stderr, "HDF5 Memory Space Close failed\n"); - ret_code = FAIL; - } else { - h5mem_space_id = -1; - } - } - - if (h5dxpl != -1) { - hrc = H5Pclose(h5dxpl); - if (hrc < 0) { - fprintf(stderr, "HDF5 Dataset Transfer Property List Close failed\n"); - ret_code = FAIL; - } else { - h5dxpl = -1; - } - } - - /* release generic resources */ - if(buffer2) - free(buffer2); - - return ret_code; -} - -/* - * Function: dset_read - * Purpose: Read buffer into the dataset. - * Return: SUCCESS or FAIL - * Programmer: Christian Chilan, April, 2008 - * Modifications: - */ - -static herr_t dset_read(int local_dim, file_descr *fd, parameters *parms, - void *buffer, const char *buffer2) -{ - int cur_dim = order[local_dim]-1; - int ret_code = SUCCESS; - long i,j; - herr_t hrc; - - /* iterate on the current dimension */ - for (i=0; i < parms->dset_size[cur_dim]; i += parms->buf_size[cur_dim]){ - - h5offset[cur_dim] = offset[cur_dim] = i; - - /* if traverse in order array is incomplete, recurse */ - if (local_dim > 0){ - - ret_code = dset_read(local_dim-1, fd, parms, buffer, buffer2); - - /* otherwise, write buffer into dataset */ - }else{ - - switch (parms->io_type) { - - case POSIXIO: - for (j=0; j<parms->rank; j++) { - buf_offset[j] = 0; - } - buf_p = (unsigned char*)buffer; - posix_buffer_read(0, fd, parms, buffer); - break; - - case HDF5: - hrc = H5Soffset_simple(h5dset_space_id, h5offset); - VRFY((hrc >= 0), "H5Soffset_simple"); - /* Read the buffer out */ - hrc = H5Dread(h5ds_id, ELMT_H5_TYPE, h5mem_space_id, - h5dset_space_id, h5dxpl, buffer); - VRFY((hrc >= 0), "H5Dread"); -#if 0 - for (j=0; j<linear_buf_size; j++) { - buf_p = (unsigned char*)buffer; - if (buf_p[j]!=buffer2[j]) - printf("Inconsistent data in %d\n", j); - } -#endif - break; - - default: - /* unknown request */ - HDfprintf(stderr, "Unknown IO type request (%d)\n", (int)parms->io_type); - HDassert(0 && "Unknown IO type"); - break; - } /* switch (parms->io_type) */ - } - } -done: - return ret_code; -} - -/* - * Function: posix_buffer_read - * Purpose: Read buffer into the POSIX file considering contiguity. - * Return: SUCCESS or FAIL - * Programmer: Christian Chilan, April, 2008 - * Modifications: - */ - -static herr_t posix_buffer_read(int local_dim, file_descr *fd, parameters *parms, void *buffer) -{ - int dtype_size = 1; - int ret_code = SUCCESS; - long i; - size_t d_offset; - size_t linear_dset_offset = 0; - int j, rc; - - /* if local dimension is not contiguous, recurse */ - if (local_dim < parms->rank-1 && local_dim != cont_dim) { - - for (i=0; i < parms->buf_size[local_dim]; i += dtype_size) { - buf_offset[local_dim] = i; - ret_code = posix_buffer_read(local_dim+1, fd, parms, buffer); - if (local_dim+1==cont_dim) - break; - } - /* otherwise, perform contiguous POSIX access */ - } else { - - buf_offset[local_dim] = 0; - /* determine offset in buffer */ - for (i=0; i<parms->rank; i++){ - d_offset=1; - - for (j=i+1; j<parms->rank; j++) - d_offset *= parms->dset_size[j]; - - linear_dset_offset += (offset[i]+buf_offset[i])*d_offset; - } - - /* only care if seek returns error */ - rc = POSIXSEEK(fd->posixfd, linear_dset_offset) < 0 ? -1 : 0; - VRFY((rc==0), "POSIXSEEK"); - /* check if all bytes are read */ - rc = ((ssize_t)cont_size == - POSIXREAD(fd->posixfd, buf_p, cont_size)); - VRFY((rc != 0), "POSIXREAD"); - - /* Advance location in buffer */ - buf_p += cont_size; - - } -done: - return ret_code; -} - - -/* - * Function: do_fopen - * Purpose: Open the specified file. - * Return: SUCCESS or FAIL - * Programmer: Albert Cheng, Bill Wendling, 2001/12/13 - * Modifications: Support for file drivers, Christian Chilan, April, 2008 - */ - static herr_t -do_fopen(parameters *param, char *fname, file_descr *fd /*out*/, int flags) -{ - int ret_code = SUCCESS; - - switch (param->io_type) { - case POSIXIO: - if (flags & (SIO_CREATE | SIO_WRITE)) - fd->posixfd = POSIXCREATE(fname); - else - fd->posixfd = POSIXOPEN(fname, O_RDONLY); - - if (fd->posixfd < 0 ) { - HDfprintf(stderr, "POSIX File Open failed(%s)\n", fname); - GOTOERROR(FAIL); - } - - break; - - case HDF5: - - fapl = set_vfd(param); - - if (fapl < 0) { - fprintf(stderr, "HDF5 Property List Create failed\n"); - GOTOERROR(FAIL); - } - - /* create the parallel file */ - if (flags & (SIO_CREATE | SIO_WRITE)) { - fd->h5fd = H5Fcreate(fname, H5F_ACC_TRUNC, H5P_DEFAULT, fapl); - } else { - fd->h5fd = H5Fopen(fname, H5F_ACC_RDONLY, fapl); - } - - - if (fd->h5fd < 0) { - fprintf(stderr, "HDF5 File Create failed(%s)\n", fname); - GOTOERROR(FAIL); - } - break; - - default: - /* unknown request */ - HDfprintf(stderr, "Unknown IO type request (%d)\n", (int)param->io_type); - GOTOERROR(FAIL); - break; - } - -done: - return ret_code; -} - -/* - * Function: set_vfd - * Purpose: Sets file driver. - * Return: SUCCESS or FAIL - * Programmer: Christian Chilan, April, 2008 - * Modifications: - */ - -hid_t -set_vfd(parameters *param) -{ - hid_t my_fapl = -1; - vfdtype vfd; - - vfd = param->vfd; - - if ((my_fapl=H5Pcreate(H5P_FILE_ACCESS))<0) return -1; - - if (vfd == sec2) { - /* Unix read() and write() system calls */ - if (H5Pset_fapl_sec2(my_fapl)<0) return -1; - } else if (vfd == stdio) { - /* Standard C fread() and fwrite() system calls */ - if (H5Pset_fapl_stdio(my_fapl)<0) return -1; - } else if (vfd == core) { - /* In-core temporary file with 1MB increment */ - if (H5Pset_fapl_core(my_fapl, (size_t)1024*1024, TRUE)<0) return -1; - } else if (vfd == split) { - /* Split meta data and raw data each using default driver */ - if (H5Pset_fapl_split(my_fapl, - "-m.h5", H5P_DEFAULT, - "-r.h5", H5P_DEFAULT)<0) - return -1; - } else if (vfd == multi) { - /* Multi-file driver, general case of the split driver */ - H5FD_mem_t memb_map[H5FD_MEM_NTYPES]; - hid_t memb_fapl[H5FD_MEM_NTYPES]; - const char *memb_name[H5FD_MEM_NTYPES]; - char sv[H5FD_MEM_NTYPES][1024]; - haddr_t memb_addr[H5FD_MEM_NTYPES]; - H5FD_mem_t mt; - - HDmemset(memb_map, 0, sizeof memb_map); - HDmemset(memb_fapl, 0, sizeof memb_fapl); - HDmemset(memb_name, 0, sizeof memb_name); - HDmemset(memb_addr, 0, sizeof memb_addr); - - HDassert(HDstrlen(multi_letters)==H5FD_MEM_NTYPES); - for (mt=H5FD_MEM_DEFAULT; mt<H5FD_MEM_NTYPES; H5_INC_ENUM(H5FD_mem_t,mt)) { - memb_fapl[mt] = H5P_DEFAULT; - sprintf(sv[mt], "%%s-%c.h5", multi_letters[mt]); - memb_name[mt] = sv[mt]; - memb_addr[mt] = MAX(mt-1,0)*(HADDR_MAX/10); - } - - if (H5Pset_fapl_multi(my_fapl, memb_map, memb_fapl, memb_name, - memb_addr, FALSE)<0) { - return -1; - } - } else if (vfd == family) { - hsize_t fam_size = 1*1024*1024; /*100 MB*/ - - /* Family of files, each 1MB and using the default driver */ - /* if ((val=HDstrtok(NULL, " \t\n\r"))) - fam_size = (hsize_t)(HDstrtod(val, NULL) * 1024*1024); */ - if (H5Pset_fapl_family(my_fapl, fam_size, H5P_DEFAULT)<0) - return -1; - } else if (vfd == direct) { -#ifdef H5_HAVE_DIRECT - /* Linux direct read() and write() system calls. Set memory boundary, file block size, - * and copy buffer size to the default values. */ - if (H5Pset_fapl_direct(my_fapl, 1024, 4096, 8*4096)<0) return -1; -#endif - } else { - /* Unknown driver */ - return -1; - } - - return my_fapl; -} - -/* - * Function: do_fclose - * Purpose: Close the specified file descriptor. - * Return: SUCCESS or FAIL - * Programmer: Albert Cheng, Bill Wendling, 2001/12/13 - * Modifications: - */ - static herr_t -do_fclose(iotype iot, file_descr *fd /*out*/) -{ - herr_t ret_code = SUCCESS, hrc; - int rc = 0; - - switch (iot) { - case POSIXIO: - rc = POSIXCLOSE(fd->posixfd); - - if (rc != 0){ - fprintf(stderr, "POSIX File Close failed\n"); - GOTOERROR(FAIL); - } - - fd->posixfd = -1; - break; - - case HDF5: - hrc = H5Fclose(fd->h5fd); - - if (hrc < 0) { - fprintf(stderr, "HDF5 File Close failed\n"); - GOTOERROR(FAIL); - } - - fd->h5fd = -1; - break; - - default: - /* unknown request */ - HDfprintf(stderr, "Unknown IO type request (%d)\n", (int)iot); - GOTOERROR(FAIL); - break; - } - -done: - return ret_code; -} - - -/* - * Function: do_cleanupfile - * Purpose: Cleanup temporary file unless HDF5_NOCLEANUP is set. - * Return: void - * Programmer: Albert Cheng 2001/12/12 - * Modifications: Support for file drivers. Christian Chilan, April, 2008 - */ - static void -do_cleanupfile(iotype iot, char *filename) -{ - char temp[2048]; - int j; - hid_t driver; - - if (clean_file_g == -1) - clean_file_g = (HDgetenv("HDF5_NOCLEANUP")==NULL) ? 1 : 0; - - if (clean_file_g){ - - switch (iot) { - case POSIXIO: - HDremove(filename); - break; - - case HDF5: - driver = H5Pget_driver(fapl); - - if (driver == H5FD_FAMILY) { - for (j = 0; /*void*/; j++) { - HDsnprintf(temp, sizeof temp, filename, j); - - if (HDaccess(temp, F_OK) < 0) - break; - - HDremove(temp); - } - } else if (driver == H5FD_CORE) { - hbool_t backing; /* Whether the core file has backing store */ - - H5Pget_fapl_core(fapl,NULL,&backing); - - /* If the file was stored to disk with bacing store, remove it */ - if(backing) - HDremove(filename); - - } else if (driver == H5FD_MULTI) { - H5FD_mem_t mt; - assert(HDstrlen(multi_letters)==H5FD_MEM_NTYPES); - - for (mt = H5FD_MEM_DEFAULT; mt < H5FD_MEM_NTYPES; H5_INC_ENUM(H5FD_mem_t,mt)) { - HDsnprintf(temp, sizeof temp, "%s-%c.h5", - filename, multi_letters[mt]); - HDremove(temp); /*don't care if it fails*/ - } - } else { - HDremove(filename); - } - H5Pclose(fapl); - break; - - default: - /* unknown request */ - HDfprintf(stderr, "Unknown IO type request (%d)\n", (int)iot); - HDassert(0 && "Unknown IO type"); - break; - } - } -} - |