/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * Copyright by The HDF Group. * * Copyright by the Board of Trustees of the University of Illinois. * * All rights reserved. * * * * This file is part of HDF5. The full HDF5 copyright notice, including * * terms governing use, modification, and redistribution, is contained in * * the files COPYING and Copyright.html. COPYING can be found at the root * * of the source code distribution tree; Copyright.html can be found at the * * root level of an installed copy of the electronic HDF5 document set and * * is linked from the top-level documents page. It can also be found at * * http://hdfgroup.org/HDF5/doc/Copyright.html. If you do not have * * access to either file, you may request a copy from help@hdfgroup.org. * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ /*------------------------------------------------------------------------- * * Created: H5Ocopy.c * Nov 6 2006 * Quincey Koziol * * Purpose: Object copying routines. * *------------------------------------------------------------------------- */ /****************/ /* Module Setup */ /****************/ #define H5O_PACKAGE /*suppress error about including H5Opkg */ /***********/ /* Headers */ /***********/ #include "H5private.h" /* Generic Functions */ #include "H5Aprivate.h" /* Attributes */ #include "H5Eprivate.h" /* Error handling */ #include "H5FLprivate.h" /* Free lists */ #include "H5Iprivate.h" /* IDs */ #include "H5HGprivate.h" /* Global Heaps */ #include "H5FOprivate.h" /* File objects */ #include "H5Lprivate.h" /* Links */ #include "H5MFprivate.h" /* File memory management */ #include "H5MMprivate.h" /* Memory management */ #include "H5Opkg.h" /* Object headers */ #include "H5Pprivate.h" /* Property lists */ #include "H5VLprivate.h" /* VOL */ /****************/ /* Local Macros */ /****************/ /******************/ /* Local Typedefs */ /******************/ /* Key object for skiplist of committed datatypes */ typedef struct H5O_copy_search_comm_dt_key_t { H5T_t *dt; /* Datatype */ unsigned long fileno; /* File number */ } H5O_copy_search_comm_dt_key_t; /* Callback struct for building a list of committed datatypes */ typedef struct H5O_copy_search_comm_dt_ud_t { H5SL_t *dst_dt_list; /* Skip list of committed datatypes */ H5G_loc_t *dst_root_loc; /* Starting location for iteration */ H5O_loc_t obj_oloc; /* Object location (for attribute iteration callback) */ hid_t dxpl_id; /* Dataset transfer property list id */ } H5O_copy_search_comm_dt_ud_t; /********************/ /* Package Typedefs */ /********************/ /********************/ /* Local Prototypes */ /********************/ static herr_t H5O_copy_free_addrmap_cb(void *item, void *key, void *op_data); static herr_t H5O_copy_header_real(const H5O_loc_t *oloc_src, H5O_loc_t *oloc_dst /*out*/, hid_t dxpl_id, H5O_copy_t *cpy_info, H5O_type_t *obj_type, void **udata); static herr_t H5O_copy_header(const H5O_loc_t *oloc_src, H5O_loc_t *oloc_dst /*out*/, hid_t dxpl_id, hid_t ocpypl_id); static herr_t H5O_copy_obj(H5G_loc_t *src_loc, H5G_loc_t *dst_loc, const char *dst_name, hid_t ocpypl_id, hid_t lcpl_id); static herr_t H5O_copy_obj_by_ref(H5O_loc_t *src_oloc, hid_t dxpl_id, H5O_loc_t *dst_oloc, H5G_loc_t *dst_root_loc, H5O_copy_t *cpy_info); static herr_t H5O_copy_free_comm_dt_cb(void *item, void *key, void *op_data); static int H5O_copy_comm_dt_cmp(const void *dt1, const void *dt2); static herr_t H5O_copy_search_comm_dt_cb(hid_t group, const char *name, const H5L_info_t *linfo, void *udata); static htri_t H5O_copy_search_comm_dt(H5F_t *file_src, H5O_t *oh_src, H5O_loc_t *oloc_dst/*in, out*/, hid_t dxpl_id, H5O_copy_t *cpy_info); static herr_t H5O_copy_insert_comm_dt(H5F_t *file_src, H5O_t *oh_src, H5O_loc_t *oloc_dst, hid_t dxpl_id, H5O_copy_t *cpy_info); /*********************/ /* Package Variables */ /*********************/ /* Declare a free list to manage the H5O_addr_map_t struct */ H5FL_DEFINE(H5O_addr_map_t); /* Declare a free list to manage the H5O_copy_search_comm_dt_key_t struct */ H5FL_DEFINE(H5O_copy_search_comm_dt_key_t); /* Declare a free list to manage haddr_t variables */ H5FL_DEFINE(haddr_t); /*****************************/ /* Library Private Variables */ /*****************************/ /*******************/ /* Local Variables */ /*******************/ /*------------------------------------------------------------------------- * Function: H5Ocopy * * Purpose: Copy an object (group or dataset) to destination location * within a file or cross files. PLIST_ID is a property list * which is used to pass user options and properties to the * copy. The name, dst_name, must not already be taken by some * other object in the destination group. * * H5Ocopy() will fail if the name of the destination object * exists in the destination group. For example, * H5Ocopy(fid_src, "/dset", fid_dst, "/dset", ...) * will fail if "/dset" exists in the destination file * * OPTIONS THAT HAVE BEEN IMPLEMENTED. * H5O_COPY_SHALLOW_HIERARCHY_FLAG * If this flag is specified, only immediate members of * the group are copied. Otherwise (default), it will * recursively copy all objects below the group * H5O_COPY_EXPAND_SOFT_LINK_FLAG * If this flag is specified, it will copy the objects * pointed by the soft links. Otherwise (default), it * will copy the soft link as they are * H5O_COPY_WITHOUT_ATTR_FLAG * If this flag is specified, it will copy object without * copying attributes. Otherwise (default), it will * copy object along with all its attributes * H5O_COPY_EXPAND_REFERENCE_FLAG * 1) Copy object between two different files: * When this flag is specified, it will copy objects that * are pointed by the references and update the values of * references in the destination file. Otherwise (default) * the values of references in the destination will set to * zero * The current implementation does not handle references * inside of other datatype structure. For example, if * a member of compound datatype is reference, H5Ocopy() * will copy that field as it is. It will not set the * value to zero as default is used nor copy the object * pointed by that field the flag is set * 2) Copy object within the same file: * This flag does not have any effect to the H5Ocopy(). * Datasets or attributes of references are copied as they * are, i.e. values of references of the destination object * are the same as the values of the source object * * OPTIONS THAT MAY APPLY TO COPY IN THE FUTURE. * H5O_COPY_EXPAND_EXT_LINK_FLAG * If this flag is specified, it will expand the external links * into new objects, Otherwise (default), it will keep external * links as they are (default) * * PROPERTIES THAT MAY APPLY TO COPY IN FUTURE * Change data layout such as chunk size * Add filter such as data compression. * Add an attribute to the copied object(s) that say the date/time * for the copy or other information about the source file. * * The intermediate group creation property should be passed in * using the lcpl instead of the ocpypl. * * Usage: H5Ocopy(src_loc_id, src_name, dst_loc_id, dst_name, ocpypl_id, lcpl_id) * hid_t src_loc_id IN: Source file or group identifier. * const char *src_name IN: Name of the source object to be copied * hid_t dst_loc_id IN: Destination file or group identifier * const char *dst_name IN: Name of the destination object * hid_t ocpypl_id IN: Properties which apply to the copy * hid_t lcpl_id IN: Properties which apply to the new hard link * * * Return: Non-negative on success/Negative on failure * * Programmer: Peter Cao * June 4, 2005 * *------------------------------------------------------------------------- */ herr_t H5Ocopy(hid_t src_loc_id, const char *src_name, hid_t dst_loc_id, const char *dst_name, hid_t ocpypl_id, hid_t lcpl_id) { void *obj1 = NULL; /* object token of src_id */ H5VL_t *vol_plugin1; /* VOL plugin information */ H5VL_loc_params_t loc_params1; void *obj2 = NULL; /* object token of dst_id */ H5VL_t *vol_plugin2; /* VOL plugin information */ H5VL_loc_params_t loc_params2; herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER_API(FAIL) H5TRACE6("e", "i*si*sii", src_loc_id, src_name, dst_loc_id, dst_name, ocpypl_id, lcpl_id); /* Get correct property lists */ if(H5P_DEFAULT == lcpl_id) { if((lcpl_id = H5L_get_default_lcpl()) < 0) HGOTO_ERROR(H5E_PLIST, H5E_CANTINIT, FAIL, "unable to get default lcpl") } /* end if */ else if(TRUE != H5P_isa_class(lcpl_id, H5P_LINK_CREATE)) HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not link creation property list") /* Get object copy property list */ if(H5P_DEFAULT == ocpypl_id) ocpypl_id = H5P_OBJECT_COPY_DEFAULT; else if(TRUE != H5P_isa_class(ocpypl_id, H5P_OBJECT_COPY)) HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not object copy property list") /* get the object */ if(NULL == (obj1 = (void *)H5I_object(src_loc_id))) HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "invalid location identifier") /* get the plugin pointer */ if (NULL == (vol_plugin1 = (H5VL_t *)H5I_get_aux(src_loc_id))) HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "src ID does not contain VOL information") loc_params1.type = H5VL_OBJECT_BY_SELF; loc_params1.obj_type = H5I_get_type(src_loc_id); /* get the object */ if(NULL == (obj2 = (void *)H5I_object(dst_loc_id))) HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "invalid location identifier") /* get the plugin pointer */ if (NULL == (vol_plugin2 = (H5VL_t *)H5I_get_aux(dst_loc_id))) HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "dst ID does not contain VOL information") loc_params2.type = H5VL_OBJECT_BY_SELF; loc_params2.obj_type = H5I_get_type(dst_loc_id); /* Open the object through the VOL */ if((ret_value = H5VL_object_copy(obj1, loc_params1, vol_plugin1, src_name, obj2, loc_params2, vol_plugin2, dst_name, ocpypl_id, lcpl_id, H5AC_dxpl_id, H5_EVENT_QUEUE_NULL)) < 0) HGOTO_ERROR(H5E_SYM, H5E_CANTINIT, FAIL, "unable to open object") done: FUNC_LEAVE_API(ret_value) } /* end H5Ocopy() */ /*------------------------------------------------------------------------- * Function: H5O_copy * * Purpose: private version of H5Ocopy * * Return: Non-negative on success/Negative on failure * * Programmer: Mohamad Chaarawi * April, 2012 * *------------------------------------------------------------------------- */ herr_t H5O_copy(H5G_loc_t *loc, const char *src_name, H5G_loc_t *dst_loc, const char *dst_name, hid_t ocpypl_id, hid_t lcpl_id) { H5G_loc_t src_loc; /* Source object group location */ /* for opening the destination object */ H5G_name_t src_path; /* Opened source object hier. path */ H5O_loc_t src_oloc; /* Opened source object object location */ hbool_t loc_found = FALSE; /* Location at 'name' found */ hbool_t obj_open = FALSE; /* Entry at 'name' found */ herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER_NOAPI_NOINIT /* check if destination name already exists */ { H5G_name_t tmp_path; H5O_loc_t tmp_oloc; H5G_loc_t tmp_loc; /* Set up group location */ tmp_loc.oloc = &tmp_oloc; tmp_loc.path = &tmp_path; H5G_loc_reset(&tmp_loc); /* Check if object already exists in destination */ if(H5G_loc_find(dst_loc, dst_name, &tmp_loc, H5P_DEFAULT, H5AC_dxpl_id) >= 0) { H5G_name_free(&tmp_path); HGOTO_ERROR(H5E_SYM, H5E_EXISTS, FAIL, "destination object already exists") } /* end if */ } /* Set up opened group location to fill in */ src_loc.oloc = &src_oloc; src_loc.path = &src_path; H5G_loc_reset(&src_loc); /* Find the source object to copy */ if(H5G_loc_find(loc, src_name, &src_loc/*out*/, H5P_DEFAULT, H5AC_dxpl_id) < 0) HGOTO_ERROR(H5E_SYM, H5E_NOTFOUND, FAIL, "source object not found") loc_found = TRUE; /* Open source object's object header */ if(H5O_open(&src_oloc) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTOPENOBJ, FAIL, "unable to open object") obj_open = TRUE; /* Do the actual copying of the object */ if(H5O_copy_obj(&src_loc, dst_loc, dst_name, ocpypl_id, lcpl_id) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTCOPY, FAIL, "unable to copy object") done: if(loc_found && H5G_loc_free(&src_loc) < 0) HDONE_ERROR(H5E_SYM, H5E_CANTRELEASE, FAIL, "can't free location") if(obj_open) H5O_close(&src_oloc); FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy() */ /*------------------------------------------------------------------------- * Function: H5O_copy_header_real * * Purpose: Copy header object from one location to another using * pre-copy, copy, and post-copy callbacks for each message * type. * * The source header object is compressed into a single chunk * (since we know how big it is) and any continuation messages * are converted into NULL messages. * * By default, NULL messages are not copied. * * Return: Non-negative on success/Negative on failure * * Programmer: Peter Cao * May 30, 2005 * * Modifications: * Vailin Choi; Feb 2012 * Bug fix for HDFFV-7853 * When the object is opened, call the object's flush class action * to ensure that cached data is flushed so that H5Ocopy will get * the correct data. * *------------------------------------------------------------------------- */ static herr_t H5O_copy_header_real(const H5O_loc_t *oloc_src, H5O_loc_t *oloc_dst /*out*/, hid_t dxpl_id, H5O_copy_t *cpy_info, H5O_type_t *obj_type, void **udata /*out*/) { H5O_addr_map_t *addr_map = NULL; /* Address mapping of object copied */ H5O_t *oh_src = NULL; /* Object header for source object */ H5O_t *oh_dst = NULL; /* Object header for destination object */ unsigned mesgno = 0; haddr_t addr_new = HADDR_UNDEF; hbool_t *deleted = NULL; /* Array of flags indicating whether messages should be copied */ hbool_t inserted = FALSE; /* Whether the destination object header has been inserted into the cache */ size_t null_msgs; /* Number of NULL messages found in each loop */ size_t orig_dst_msgs; /* Original # of messages in dest. object */ H5O_mesg_t *mesg_src; /* Message in source object header */ H5O_mesg_t *mesg_dst; /* Message in source object header */ const H5O_msg_class_t *copy_type; /* Type of message to use for copying */ const H5O_obj_class_t *obj_class = NULL; /* Type of object we are copying */ void *cpy_udata = NULL; /* User data for passing to message callbacks */ uint64_t dst_oh_size; /* Total size of the destination OH */ size_t dst_oh_null; /* Size of the null message to add to destination OH */ size_t dst_oh_gap; /* Size of the gap in chunk #0 of destination OH */ uint8_t *current_pos; /* Current position in destination image */ size_t msghdr_size; herr_t ret_value = SUCCEED; FUNC_ENTER_NOAPI_NOINIT_TAG(dxpl_id, oloc_src->addr, FAIL) HDassert(oloc_src); HDassert(oloc_src->file); HDassert(H5F_addr_defined(oloc_src->addr)); HDassert(oloc_dst->file); HDassert(cpy_info); /* Get pointer to object class for this object */ if((obj_class = H5O_obj_class(oloc_src, dxpl_id)) == NULL) HGOTO_ERROR(H5E_OHDR, H5E_CANTINIT, FAIL, "unable to determine object type") /* Check if the object at the address is already open in the file */ if(H5FO_opened(oloc_src->file, oloc_src->addr) != NULL) { H5G_loc_t tmp_loc; /* Location of object */ H5O_loc_t tmp_oloc; /* Location of object */ H5G_name_t tmp_path; /* Object's path */ tmp_loc.oloc = &tmp_oloc; tmp_loc.path = &tmp_path; tmp_oloc.file = oloc_src->file; tmp_oloc.addr = oloc_src->addr; tmp_oloc.holding_file = oloc_src->holding_file; H5G_name_reset(tmp_loc.path); /* Flush the object of this class */ if(obj_class->flush && obj_class->flush(&tmp_loc, dxpl_id) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTFLUSH, FAIL, "unable to flush object") } /* Get source object header */ if(NULL == (oh_src = H5O_protect(oloc_src, dxpl_id, H5AC_READ))) HGOTO_ERROR(H5E_OHDR, H5E_CANTPROTECT, FAIL, "unable to load object header") /* Retrieve user data for particular type of object to copy */ if(obj_class->get_copy_file_udata && (NULL == (cpy_udata = (obj_class->get_copy_file_udata)()))) HGOTO_ERROR(H5E_OHDR, H5E_CANTINIT, FAIL, "unable to retrieve copy user data") /* If we are merging committed datatypes, check for a match in the destination * file now */ if(cpy_info->merge_comm_dt && obj_class->type == H5O_TYPE_NAMED_DATATYPE) { unsigned long fileno_src; /* fileno for source file */ unsigned long fileno_dst; /* fileno for destination file */ htri_t merge; /* Whether we found a match in the destination file */ /* Check if the source and dest file are the same. If so, just return * the source object address */ H5F_GET_FILENO(oloc_src->file, fileno_src); H5F_GET_FILENO(oloc_dst->file, fileno_dst); if(fileno_src == fileno_dst) { merge = TRUE; oloc_dst->addr = oloc_src->addr; } /* end if */ else /* Search for a matching committed datatype, building the list if * necessary */ if((merge = H5O_copy_search_comm_dt(oloc_src->file, oh_src, oloc_dst, dxpl_id, cpy_info)) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTGET, FAIL, "can't search for matching committed datatype") if(merge) { /* Found a match, add to skip list and exit */ /* Allocate space for the address mapping of the object copied */ if(NULL == (addr_map = H5FL_MALLOC(H5O_addr_map_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Insert the address mapping for the found object into the copied * list */ addr_map->src_obj_pos.fileno = fileno_src; addr_map->src_obj_pos.addr = oloc_src->addr; addr_map->dst_addr = oloc_dst->addr; addr_map->is_locked = TRUE; /* We've locked the object currently */ addr_map->inc_ref_count = 0; /* Start with no additional ref counts to add */ addr_map->obj_class = obj_class; addr_map->udata = cpy_udata; /* Insert into skip list */ if(H5SL_insert(cpy_info->map_list, addr_map, &(addr_map->src_obj_pos)) < 0) { addr_map = H5FL_FREE(H5O_addr_map_t, addr_map); HGOTO_ERROR(H5E_OHDR, H5E_CANTINSERT, FAIL, "can't insert object into skip list") } /* end if */ HGOTO_DONE(SUCCEED) } /* end if */ } /* end if */ /* Flush any dirty messages in source object header to update the header chunks */ if(H5O_flush_msgs(oloc_src->file, oh_src) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTFLUSH, FAIL, "unable to flush object header messages") /* Allocate the destination object header and fill in header fields */ if(NULL == (oh_dst = H5FL_CALLOC(H5O_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Initialize header information */ oh_dst->version = oh_src->version; oh_dst->flags = oh_src->flags; oh_dst->link_msgs_seen = oh_src->link_msgs_seen; oh_dst->attr_msgs_seen = oh_src->attr_msgs_seen; oh_dst->sizeof_size = H5F_SIZEOF_SIZE(oloc_dst->file); oh_dst->sizeof_addr = H5F_SIZEOF_ADDR(oloc_dst->file); /* Copy time fields */ oh_dst->atime = oh_src->atime; oh_dst->mtime = oh_src->mtime; oh_dst->ctime = oh_src->ctime; oh_dst->btime = oh_src->btime; /* Copy attribute storage information */ oh_dst->max_compact = oh_src->max_compact; oh_dst->min_dense = oh_src->min_dense; /* Initialize size of chunk array. Start off with zero chunks so this field * is consistent with the current state of the chunk array. This is * important if an error occurs. */ oh_dst->alloc_nchunks = oh_dst->nchunks = 0; /* Allocate memory for the chunk array - always start with 1 chunk */ if(NULL == (oh_dst->chunk = H5FL_SEQ_MALLOC(H5O_chunk_t, 1))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Update number of allocated chunks. There are still no chunks used. */ oh_dst->alloc_nchunks = 1; /* Allocate memory for "deleted" array. This array marks the message in * the source that shouldn't be copied to the destination. */ if(NULL == (deleted = (hbool_t *)HDmalloc(sizeof(hbool_t) * oh_src->nmesgs))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") HDmemset(deleted, FALSE, sizeof(hbool_t) * oh_src->nmesgs); /* "pre copy" pass over messages, to gather information for actual message copy operation * (for messages which depend on information from other messages) * Keep track of how many NULL or deleted messages we find (or create) */ null_msgs = 0; for(mesgno = 0; mesgno < oh_src->nmesgs; mesgno++) { /* Set up convenience variables */ mesg_src = &(oh_src->mesg[mesgno]); /* Sanity check */ HDassert(!mesg_src->dirty); /* Should be cleared by earlier call to flush messages */ /* Get message class to operate on */ copy_type = mesg_src->type; /* Check for continuation message; these are converted to NULL * messages because the destination OH will have only one chunk */ if(H5O_CONT_ID == mesg_src->type->id || H5O_NULL_ID == mesg_src->type->id) { deleted[mesgno] = TRUE; ++null_msgs; copy_type = H5O_MSG_NULL; } /* end if */ HDassert(copy_type); if(copy_type->pre_copy_file) { /* Decode the message if necessary. */ H5O_LOAD_NATIVE(oloc_src->file, dxpl_id, 0, oh_src, mesg_src, FAIL) /* Perform "pre copy" operation on message */ if((copy_type->pre_copy_file)(oloc_src->file, mesg_src->native, &(deleted[mesgno]), cpy_info, cpy_udata) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTINIT, FAIL, "unable to perform 'pre copy' operation on message") /* Check if the message should be deleted in the destination */ if(deleted[mesgno]) /* Mark message as deleted */ ++null_msgs; } /* end if(copy_type->pre_copy_file) */ } /* end for */ /* Initialize size of message list. It may or may not include the NULL messages * detected above. */ if(cpy_info->preserve_null) oh_dst->alloc_nmesgs = oh_dst->nmesgs = oh_src->nmesgs; else oh_dst->alloc_nmesgs = oh_dst->nmesgs = (oh_src->nmesgs - null_msgs); /* Allocate memory for destination message array */ if(oh_dst->alloc_nmesgs > 0) if(NULL == (oh_dst->mesg = H5FL_SEQ_CALLOC(H5O_mesg_t, oh_dst->alloc_nmesgs))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* "copy" pass over messages, to perform main message copying */ null_msgs = 0; for(mesgno = 0; mesgno < oh_dst->nmesgs; mesgno++) { /* Skip any deleted or NULL messages in the source unless the * preserve_null flag is set */ if(FALSE == cpy_info->preserve_null) { while(deleted[mesgno + null_msgs]) { ++null_msgs; HDassert(mesgno + null_msgs < oh_src->nmesgs); } /* end while */ } /* end if */ /* Set up convenience variables */ mesg_src = &(oh_src->mesg[mesgno + null_msgs]); mesg_dst = &(oh_dst->mesg[mesgno]); /* Initialize non-zero components of destination message */ mesg_dst->crt_idx = mesg_src->crt_idx; mesg_dst->flags = mesg_src->flags; mesg_dst->raw_size = mesg_src->raw_size; mesg_dst->type = mesg_src->type; /* If we're preserving deleted messages, set their types to 'NULL' * in the destination. */ if(cpy_info->preserve_null && deleted[mesgno]) { mesg_dst->type = H5O_MSG_NULL; mesg_dst->flags = 0; mesg_dst->dirty = TRUE; } /* end if */ /* Check for message class to operate on */ /* (Use destination message, in case the message has been removed (i.e * converted to a nil message) in the destination -QAK) */ copy_type = mesg_dst->type; HDassert(copy_type); /* copy this message into destination file */ if(copy_type->copy_file) { hbool_t recompute_size; /* Whether copy_file callback created a shared message */ unsigned mesg_flags; /* Message flags */ /* Decode the message if necessary. */ H5O_LOAD_NATIVE(oloc_src->file, dxpl_id, 0, oh_src, mesg_src, FAIL) /* Get destination message flags, and unset shared and shareable * flags. mesg_dst->flags will contain the original flags for now. */ mesg_flags = (unsigned)mesg_dst->flags & ~H5O_MSG_FLAG_SHARED & ~H5O_MSG_FLAG_SHAREABLE; /* Copy the source message */ recompute_size = FALSE; if((mesg_dst->native = H5O_msg_copy_file(copy_type, oloc_src->file, mesg_src->native, oloc_dst->file, &recompute_size, &mesg_flags, cpy_info, cpy_udata, dxpl_id)) == NULL) HGOTO_ERROR(H5E_OHDR, H5E_CANTCOPY, FAIL, "unable to copy object header message") /* Check if the sharing state changed, and recompute the size if so */ if(!(mesg_flags & H5O_MSG_FLAG_SHARED) != !(mesg_dst->flags & H5O_MSG_FLAG_SHARED)) recompute_size = TRUE; /* Set destination message flags */ mesg_dst->flags = (uint8_t)mesg_flags; /* Recompute message's size */ /* (its sharing status or one of its components (for attributes) * could have changed) */ if(recompute_size) mesg_dst->raw_size = H5O_ALIGN_OH(oh_dst, H5O_msg_raw_size(oloc_dst->file, mesg_dst->type->id, FALSE, mesg_dst->native)); /* Mark the message in the destination as dirty, so it'll get encoded when the object header is flushed */ mesg_dst->dirty = TRUE; } /* end if (mesg_src->type->copy_file) */ } /* end of mesgno loop */ /* Allocate the destination header and copy any messages that didn't have * copy callbacks. They get copied directly from the source image to the * destination image. */ /* Calculate how big the destination object header will be on disk. * This isn't necessarily the same size as the original. */ /* Compute space for messages. */ dst_oh_size = 0; for(mesgno = 0; mesgno < oh_dst->nmesgs; mesgno++) { dst_oh_size += (uint64_t)H5O_SIZEOF_MSGHDR_OH(oh_dst); dst_oh_size += oh_dst->mesg[mesgno].raw_size; } /* end for */ /* Check if we need to determine correct value for chunk #0 size bits */ if(oh_dst->version > H5O_VERSION_1) { /* Reset destination object header's "chunk 0 size" flags */ oh_dst->flags = (uint8_t)(oh_dst->flags & ~H5O_HDR_CHUNK0_SIZE); /* Determine correct value for chunk #0 size bits */ if(dst_oh_size > 4294967295) oh_dst->flags |= H5O_HDR_CHUNK0_8; else if(dst_oh_size > 65535) oh_dst->flags |= H5O_HDR_CHUNK0_4; else if(dst_oh_size > 255) oh_dst->flags |= H5O_HDR_CHUNK0_2; } /* end if */ /* Check if the chunk's data portion is too small */ dst_oh_gap = dst_oh_null = 0; if(dst_oh_size < H5O_MIN_SIZE) { size_t delta = (size_t)(H5O_MIN_SIZE - dst_oh_size); /* Delta in chunk size needed */ /* Sanity check */ HDassert((oh_dst->flags & H5O_HDR_CHUNK0_SIZE) == H5O_HDR_CHUNK0_1); /* Determine whether to create gap or NULL message */ if(delta < H5O_SIZEOF_MSGHDR_OH(oh_dst)) dst_oh_gap = delta; else dst_oh_null = delta; /* Increase destination object header size */ dst_oh_size += delta; /* Sanity check */ HDassert(dst_oh_size <= 255); } /* end if */ /* Add in destination's object header size now */ dst_oh_size += H5O_SIZEOF_HDR(oh_dst); /* Allocate space for chunk in destination file */ if(HADDR_UNDEF == (oh_dst->chunk[0].addr = H5MF_alloc(oloc_dst->file, H5FD_MEM_OHDR, dxpl_id, (hsize_t)dst_oh_size))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "file allocation failed for object header") addr_new = oh_dst->chunk[0].addr; /* Create memory image for the new chunk */ /* Note: we use calloc() instead of malloc() here because older versions of * some messages don't initialize "unused" bytes and because we want to * write out the same version of the object header and older versions of * object headers aligned messages. In both those situations, it's * complex and error-prone to determine all the proper ways/places to * clear to zero bytes, so we just set the buffer to zero's here. * (QAK - 2010/08/17) */ if(NULL == (oh_dst->chunk[0].image = H5FL_BLK_CALLOC(chunk_image, (size_t)dst_oh_size))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Set dest. chunk information */ oh_dst->chunk[0].size = (size_t)dst_oh_size; oh_dst->chunk[0].gap = dst_oh_gap; /* Update size of chunk array. The destination now has one chunk. */ oh_dst->nchunks = 1; /* Set up raw pointers and copy messages that didn't need special * treatment. This has to happen after the destination header has been * allocated. */ HDassert(H5O_SIZEOF_MSGHDR_OH(oh_src) == H5O_SIZEOF_MSGHDR_OH(oh_dst)); msghdr_size = H5O_SIZEOF_MSGHDR_OH(oh_dst); current_pos = oh_dst->chunk[0].image; /* Write the magic number for versions > 1 and skip the rest of the * header. This will be written when the header is flushed to disk. */ if(oh_dst->version > H5O_VERSION_1) HDmemcpy(current_pos, H5O_HDR_MAGIC, (size_t)H5_SIZEOF_MAGIC); current_pos += H5O_SIZEOF_HDR(oh_dst) - H5O_SIZEOF_CHKSUM_OH(oh_dst); /* Loop through destination messages, updating their "raw" info */ null_msgs = 0; for(mesgno = 0; mesgno < oh_dst->nmesgs; mesgno++) { /* Skip any deleted or NULL messages in the source unless the * preserve_null flag is set. */ if(FALSE == cpy_info->preserve_null) { while(deleted[mesgno + null_msgs]) { ++null_msgs; HDassert(mesgno + null_msgs < oh_src->nmesgs); } /* end while */ } /* end if */ /* Set up convenience variables */ mesg_src = &(oh_src->mesg[mesgno + null_msgs]); mesg_dst = &(oh_dst->mesg[mesgno]); /* Copy each message that wasn't dirtied above */ if(!mesg_dst->dirty) /* Copy the message header plus the message's raw data. */ HDmemcpy(current_pos, mesg_src->raw - msghdr_size, msghdr_size + mesg_src->raw_size); /* Set message's raw pointer to destination chunk's new "image" */ mesg_dst->raw = current_pos + msghdr_size; /* Move to location where next message should go */ current_pos += mesg_dst->raw_size + msghdr_size; } /* end for */ /* Save this in case more messages are added during NULL message checking */ orig_dst_msgs = oh_dst->nmesgs; /* Check if we need to add a NULL message to this header */ if(dst_oh_null > 0) { size_t null_idx; /* Index of new NULL message */ /* Make sure we have enough space for new NULL message */ if(oh_dst->nmesgs + 1 > oh_dst->alloc_nmesgs) if(H5O_alloc_msgs(oh_dst, (size_t)1) < 0) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "can't allocate more space for messages") /* Create null message for [rest of] space in new chunk */ /* (account for chunk's magic # & checksum) */ null_idx = oh_dst->nmesgs++; oh_dst->mesg[null_idx].type = H5O_MSG_NULL; oh_dst->mesg[null_idx].dirty = TRUE; oh_dst->mesg[null_idx].native = NULL; oh_dst->mesg[null_idx].raw = current_pos + msghdr_size; oh_dst->mesg[null_idx].raw_size = dst_oh_null - msghdr_size; oh_dst->mesg[null_idx].chunkno = 0; } /* end if */ /* Make sure we filled the chunk, except for room at the end for a checksum */ HDassert(current_pos + dst_oh_gap + dst_oh_null + H5O_SIZEOF_CHKSUM_OH(oh_dst) == (size_t)dst_oh_size + oh_dst->chunk[0].image); /* Set the dest. object location to the first chunk address */ HDassert(H5F_addr_defined(addr_new)); oloc_dst->addr = addr_new; /* If we are merging committed datatypes and this is a committed datatype, insert * the copied datatype into the list of committed datatypes in the target file. */ if(cpy_info->merge_comm_dt && obj_class->type == H5O_TYPE_NAMED_DATATYPE) if(H5O_copy_insert_comm_dt(oloc_src->file, oh_src, oloc_dst, dxpl_id, cpy_info) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTGET, FAIL, "can't insert committed datatype into destination list") /* Allocate space for the address mapping of the object copied */ if(NULL == (addr_map = H5FL_MALLOC(H5O_addr_map_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Insert the address mapping for the new object into the copied list */ /* (Do this here, because "post copy" possibly checks it) */ H5F_GET_FILENO(oloc_src->file, addr_map->src_obj_pos.fileno); addr_map->src_obj_pos.addr = oloc_src->addr; addr_map->dst_addr = oloc_dst->addr; addr_map->is_locked = TRUE; /* We've locked the object currently */ addr_map->inc_ref_count = 0; /* Start with no additional ref counts to add */ addr_map->obj_class = obj_class; addr_map->udata = cpy_udata; /* Insert into skip list */ if(H5SL_insert(cpy_info->map_list, addr_map, &(addr_map->src_obj_pos)) < 0) { addr_map = H5FL_FREE(H5O_addr_map_t, addr_map); HGOTO_ERROR(H5E_OHDR, H5E_CANTINSERT, FAIL, "can't insert object into skip list") } /* end if */ /* "post copy" loop over messages, to fix up any messages which require a complete * object header for destination object */ null_msgs = 0; for(mesgno = 0; mesgno < orig_dst_msgs; mesgno++) { /* Skip any deleted or NULL messages in the source unless the * preserve_null flag is set */ if(FALSE == cpy_info->preserve_null) { while(deleted[mesgno + null_msgs]) { ++null_msgs; HDassert(mesgno + null_msgs < oh_src->nmesgs); } /* end while */ } /* end if */ /* Set up convenience variables */ mesg_src = &(oh_src->mesg[mesgno + null_msgs]); mesg_dst = &(oh_dst->mesg[mesgno]); /* Check for message class to operate on */ /* (Use destination message, in case the message has been removed (i.e * converted to a nil message) in the destination -QAK) */ copy_type = mesg_dst->type; HDassert(copy_type); if(copy_type->post_copy_file && mesg_src->native) { unsigned mesg_flags; /* Message flags */ /* Sanity check destination message */ HDassert(mesg_dst->type == mesg_src->type); HDassert(mesg_dst->native); /* Get destination message flags. mesg_dst->flags will contain the * original flags for now. */ mesg_flags = (unsigned)mesg_dst->flags; /* the object header is needed in the post copy for shared message */ cpy_info->oh_dst = oh_dst; /* Perform "post copy" operation on message */ if((copy_type->post_copy_file)(oloc_src, mesg_src->native, oloc_dst, mesg_dst->native, &mesg_flags, dxpl_id, cpy_info) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTINIT, FAIL, "unable to perform 'post copy' operation on message") /* Verify that the flags did not change */ HDassert(mesg_flags == (unsigned) mesg_dst->flags); } /* end if */ } /* end for */ /* Indicate that the destination address will no longer be locked */ addr_map->is_locked = FALSE; /* Increment object header's reference count, if any descendents have created links to this object */ if(addr_map->inc_ref_count) { H5_CHECK_OVERFLOW(addr_map->inc_ref_count, hsize_t, unsigned); oh_dst->nlink += (unsigned)addr_map->inc_ref_count; } /* end if */ /* Set metadata tag for destination object's object header */ H5_BEGIN_TAG(dxpl_id, oloc_dst->addr, FAIL); /* Insert destination object header in cache */ if(H5AC_insert_entry(oloc_dst->file, dxpl_id, H5AC_OHDR, oloc_dst->addr, oh_dst, H5AC__NO_FLAGS_SET) < 0) HGOTO_ERROR_TAG(H5E_OHDR, H5E_CANTINSERT, FAIL, "unable to cache object header") oh_dst = NULL; inserted = TRUE; /* Reset metadat tag */ H5_END_TAG(FAIL); /* Retag all copied metadata to apply the destination object's tag */ if(H5AC_retag_copied_metadata(oloc_dst->file, oloc_dst->addr) < 0) HGOTO_ERROR(H5E_CACHE, H5E_CANTTAG, FAIL, "unable to re-tag metadata entries") /* Set obj_type and udata, if requested */ if(obj_type) { HDassert(udata); *obj_type = obj_class->type; *udata = cpy_udata; } /* end if */ done: /* Free deleted array */ if(deleted) HDfree(deleted); /* Release pointer to source object header and its derived objects */ if(oh_src && H5O_unprotect(oloc_src, dxpl_id, oh_src, H5AC__NO_FLAGS_SET) < 0) HDONE_ERROR(H5E_OHDR, H5E_CANTUNPROTECT, FAIL, "unable to release object header") /* Free destination object header on failure */ if(ret_value < 0 && oh_dst && !inserted) { if(H5O_free(oh_dst) < 0) HDONE_ERROR(H5E_OHDR, H5E_CANTFREE, FAIL, "unable to destroy object header data") if(H5O_loc_reset(oloc_dst) < 0) HDONE_ERROR(H5E_OHDR, H5E_CANTFREE, FAIL, "unable to destroy object header data") } /* end if */ FUNC_LEAVE_NOAPI_TAG(ret_value, FAIL) } /* end H5O_copy_header_real() */ /*------------------------------------------------------------------------- * Function: H5O_copy_header_map * * Purpose: Copy header object from one location to another, detecting * already mapped objects, etc. * * Return: Non-negative on success/Negative on failure * * Programmer: Quincey Koziol * November 1, 2005 * *------------------------------------------------------------------------- */ herr_t H5O_copy_header_map(const H5O_loc_t *oloc_src, H5O_loc_t *oloc_dst /*out*/, hid_t dxpl_id, H5O_copy_t *cpy_info, hbool_t inc_depth, H5O_type_t *obj_type, void **udata /*out*/) { H5O_addr_map_t *addr_map = NULL; /* Address mapping of object copied */ H5_obj_t src_obj_pos; /* Position of source object */ hbool_t inc_link; /* Whether to increment the link count for the object */ herr_t ret_value = SUCCEED; FUNC_ENTER_NOAPI(FAIL) /* Sanity check */ HDassert(oloc_src); HDassert(oloc_src->file); HDassert(oloc_dst); HDassert(oloc_dst->file); HDassert(cpy_info); /* Create object "position" struct */ H5F_GET_FILENO(oloc_src->file, src_obj_pos.fileno); src_obj_pos.addr = oloc_src->addr; /* Search for the object in the skip list of copied objects */ addr_map = (H5O_addr_map_t *)H5SL_search(cpy_info->map_list, &src_obj_pos); /* Check if address is already in list of objects copied */ if(addr_map == NULL) { /* Copy object for the first time */ /* Check for incrementing the depth of copy */ /* (Can't do this for all copies, since committed datatypes should always be copied) */ if(inc_depth) cpy_info->curr_depth++; /* Copy object referred to */ if(H5O_copy_header_real(oloc_src, oloc_dst, dxpl_id, cpy_info, obj_type, udata) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTCOPY, FAIL, "unable to copy object") /* Check for incrementing the depth of copy */ if(inc_depth) cpy_info->curr_depth--; /* When an object is copied for the first time, increment it's link */ inc_link = TRUE; /* indicate that a new object is created */ ret_value++; } /* end if */ else { /* Object has already been copied, set its address in destination file */ oloc_dst->addr = addr_map->dst_addr; /* Return saved obj_type and udata, if requested */ if(obj_type) { HDassert(udata); *obj_type = addr_map->obj_class->type; *udata = addr_map->udata; } /* end if */ /* If the object is locked currently (because we are copying a group * hierarchy and this is a link to a group higher in the hierarchy), * increment it's deferred reference count instead of incrementing the * reference count now. */ if(addr_map->is_locked) { addr_map->inc_ref_count++; inc_link = FALSE; } /* end if */ else inc_link = TRUE; } /* end else */ /* Increment destination object's link count, if allowed */ if(inc_link) if(H5O_link(oloc_dst, 1, dxpl_id) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTINIT, FAIL, "unable to increment object link count") done: FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy_header_map() */ /*-------------------------------------------------------------------------- NAME H5O_copy_free_addrmap_cb PURPOSE Internal routine to free address maps from the skip list for copying objects USAGE herr_t H5O_copy_free_addrmap_cb(item, key, op_data) void *item; IN/OUT: Pointer to addr void *key; IN/OUT: (unused) void *op_data; IN: (unused) RETURNS Returns zero on success, negative on failure. DESCRIPTION Releases the memory for the address. GLOBAL VARIABLES COMMENTS, BUGS, ASSUMPTIONS EXAMPLES REVISION LOG --------------------------------------------------------------------------*/ static herr_t H5O_copy_free_addrmap_cb(void *_item, void UNUSED *key, void UNUSED *op_data) { H5O_addr_map_t *item = (H5O_addr_map_t *)_item; FUNC_ENTER_NOAPI_NOINIT_NOERR HDassert(item); /* Release user data for particular type of object */ if(item->udata) { HDassert(item->obj_class); HDassert(item->obj_class->free_copy_file_udata); (item->obj_class->free_copy_file_udata)(item->udata); } /* end if */ /* Release the item */ item = H5FL_FREE(H5O_addr_map_t, item); FUNC_LEAVE_NOAPI(0) } /* H5O_copy_free_addrmap_cb() */ /*------------------------------------------------------------------------- * Function: H5O_copy_header * * Purpose: copy header object from one location to another. * * Return: Non-negative on success/Negative on failure * * Programmer: Peter Cao * May 30, 2005 * *------------------------------------------------------------------------- */ static herr_t H5O_copy_header(const H5O_loc_t *oloc_src, H5O_loc_t *oloc_dst /*out */, hid_t dxpl_id, hid_t ocpypl_id) { H5O_copy_t cpy_info; /* Information for copying object */ H5P_genplist_t *ocpy_plist; /* Object copy property list created */ H5O_copy_dtype_merge_list_t *dt_list = NULL; /* List of datatype merge suggestions */ H5O_mcdt_cb_info_t cb_info; /* Callback info struct */ unsigned cpy_option = 0; /* Copy options */ herr_t ret_value = SUCCEED; FUNC_ENTER_NOAPI_NOINIT /* Sanity check */ HDassert(oloc_src); HDassert(oloc_src->file); HDassert(H5F_addr_defined(oloc_src->addr)); HDassert(oloc_dst->file); /* Intialize copy info before errors can be thrown */ HDmemset(&cpy_info, 0, sizeof(H5O_copy_t)); /* Get the copy property list */ if(NULL == (ocpy_plist = (H5P_genplist_t *)H5I_object(ocpypl_id))) HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not a property list") /* Retrieve the copy parameters */ if(H5P_get(ocpy_plist, H5O_CPY_OPTION_NAME, &cpy_option) < 0) HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get object copy flag") /* Retrieve the marge committed datatype list */ if(H5P_get(ocpy_plist, H5O_CPY_MERGE_COMM_DT_LIST_NAME, &dt_list) < 0) HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get merge committed datatype list") /* Get callback info */ if(H5P_get(ocpy_plist, H5O_CPY_MCDT_SEARCH_CB_NAME, &cb_info) < 0) HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't get callback info") /* Convert copy flags into copy struct */ if((cpy_option & H5O_COPY_SHALLOW_HIERARCHY_FLAG) > 0) { cpy_info.copy_shallow = TRUE; cpy_info.max_depth = 1; } /* end if */ else cpy_info.max_depth = -1; /* Current default is for full, recursive hier. copy */ cpy_info.curr_depth = 0; if((cpy_option & H5O_COPY_EXPAND_SOFT_LINK_FLAG) > 0) cpy_info.expand_soft_link = TRUE; if((cpy_option & H5O_COPY_EXPAND_EXT_LINK_FLAG) > 0) cpy_info.expand_ext_link = TRUE; if((cpy_option & H5O_COPY_EXPAND_REFERENCE_FLAG) > 0) cpy_info.expand_ref = TRUE; if((cpy_option & H5O_COPY_WITHOUT_ATTR_FLAG) > 0) cpy_info.copy_without_attr = TRUE; if((cpy_option & H5O_COPY_PRESERVE_NULL_FLAG) > 0) cpy_info.preserve_null = TRUE; if((cpy_option & H5O_COPY_MERGE_COMMITTED_DTYPE_FLAG) > 0) cpy_info.merge_comm_dt = TRUE; /* Add dt_list to copy struct */ cpy_info.dst_dt_suggestion_list = dt_list; /* Add set callback information */ cpy_info.mcdt_cb = cb_info.func; cpy_info.mcdt_ud = cb_info.user_data; /* Create a skip list to keep track of which objects are copied */ if(NULL == (cpy_info.map_list = H5SL_create(H5SL_TYPE_OBJ, NULL))) HGOTO_ERROR(H5E_SLIST, H5E_CANTCREATE, FAIL, "cannot make skip list") /* copy the object from the source file to the destination file */ if(H5O_copy_header_real(oloc_src, oloc_dst, dxpl_id, &cpy_info, NULL, NULL) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTCOPY, FAIL, "unable to copy object") done: if(cpy_info.map_list) H5SL_destroy(cpy_info.map_list, H5O_copy_free_addrmap_cb, NULL); if(cpy_info.dst_dt_list) H5SL_destroy(cpy_info.dst_dt_list, H5O_copy_free_comm_dt_cb, NULL); FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy_header() */ /*------------------------------------------------------------------------- * Function: H5O_copy_obj * * Purpose: Copy an object to destination location * * Return: Non-negative on success/Negative on failure * * Programmer: Peter Cao * June 4, 2005 * *------------------------------------------------------------------------- */ static herr_t H5O_copy_obj(H5G_loc_t *src_loc, H5G_loc_t *dst_loc, const char *dst_name, hid_t ocpypl_id, hid_t lcpl_id) { H5G_name_t new_path; /* Copied object group hier. path */ H5O_loc_t new_oloc; /* Copied object object location */ H5G_loc_t new_loc; /* Group location of object copied */ H5F_t *cached_dst_file; /* Cached destination file */ hbool_t entry_inserted = FALSE; /* Flag to indicate that the new entry was inserted into a group */ hid_t dxpl_id = H5AC_dxpl_id; /* DXPL for operation */ herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER_NOAPI(FAIL) HDassert(src_loc); HDassert(src_loc->oloc->file); HDassert(dst_loc); HDassert(dst_loc->oloc->file); HDassert(dst_name); /* Set up copied object location to fill in */ new_loc.oloc = &new_oloc; new_loc.path = &new_path; H5G_loc_reset(&new_loc); new_oloc.file = dst_loc->oloc->file; /* Make a copy of the destination file, in case the original is changed by * H5O_copy_header. If and when oloc's point to the shared file struct, * this will no longer be necessary, so this code can be removed. */ cached_dst_file = dst_loc->oloc->file; /* Copy the object from the source file to the destination file */ if(H5O_copy_header(src_loc->oloc, &new_oloc, dxpl_id, ocpypl_id) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTCOPY, FAIL, "unable to copy object") /* Patch dst_loc. Again, this can be removed once oloc's point to shared * file structs. */ dst_loc->oloc->file = cached_dst_file; /* Insert the new object in the destination file's group */ if(H5L_link(dst_loc, dst_name, &new_loc, lcpl_id, H5P_DEFAULT, dxpl_id) < 0) HGOTO_ERROR(H5E_DATATYPE, H5E_CANTINIT, FAIL, "unable to insert link") entry_inserted = TRUE; done: /* Free the ID to name buffers */ if(entry_inserted) H5G_loc_free(&new_loc); FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy_obj() */ /*------------------------------------------------------------------------- * Function: H5O_copy_obj_by_ref * * Purpose: Copy the object pointed by _src_ref. * * Return: Non-negative on success/Negative on failure * * Programmer: Peter Cao * Aug 7 2006 * *------------------------------------------------------------------------- */ static herr_t H5O_copy_obj_by_ref(H5O_loc_t *src_oloc, hid_t dxpl_id, H5O_loc_t *dst_oloc, H5G_loc_t *dst_root_loc, H5O_copy_t *cpy_info) { herr_t ret_value = SUCCEED; FUNC_ENTER_NOAPI(FAIL) HDassert(src_oloc); HDassert(dst_oloc); /* Perform the copy, or look up existing copy */ if((ret_value = H5O_copy_header_map(src_oloc, dst_oloc, dxpl_id, cpy_info, FALSE, NULL, NULL)) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTCOPY, FAIL, "unable to copy object") /* Check if a new valid object is copied to the destination */ if(H5F_addr_defined(dst_oloc->addr) && (ret_value > SUCCEED)) { char tmp_obj_name[80]; H5G_name_t new_path; H5O_loc_t new_oloc; H5G_loc_t new_loc; /* Set up group location for new object */ new_loc.oloc = &new_oloc; new_loc.path = &new_path; H5G_loc_reset(&new_loc); new_oloc.file = dst_oloc->file; new_oloc.addr = dst_oloc->addr; /* Pick a default name for the new object */ HDsnprintf(tmp_obj_name, sizeof(tmp_obj_name), "~obj_pointed_by_%llu", (unsigned long long)dst_oloc->addr); /* Create a link to the newly copied object */ /* Note: since H5O_copy_header_map actually copied the target object, it * must exist either in cache or on disk, therefore it is is safe to not * pass the obj_type and udata fields returned by H5O_copy_header_map. * This could be changed in the future to slightly improve performance * --NAF */ if(H5L_link(dst_root_loc, tmp_obj_name, &new_loc, H5P_DEFAULT, H5P_DEFAULT, dxpl_id) < 0) HGOTO_ERROR(H5E_DATATYPE, H5E_CANTINIT, FAIL, "unable to insert link") H5G_loc_free(&new_loc); } /* if (H5F_addr_defined(dst_oloc.addr)) */ done: FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy_obj_by_ref() */ /*------------------------------------------------------------------------- * Function: H5O_copy_expand_ref * * Purpose: Copy the object pointed by _src_ref. * * Return: Non-negative on success/Negative on failure * * Programmer: Peter Cao * Aug 7 2006 * *------------------------------------------------------------------------- */ herr_t H5O_copy_expand_ref(H5F_t *file_src, void *_src_ref, hid_t dxpl_id, H5F_t *file_dst, void *_dst_ref, size_t ref_count, H5R_type_t ref_type, H5O_copy_t *cpy_info) { H5O_loc_t dst_oloc; /* Copied object object location */ H5O_loc_t src_oloc; /* Temporary object location for source object */ H5G_loc_t dst_root_loc; /* The location of root group of the destination file */ uint8_t *p; /* Pointer to OID to store */ size_t i; /* Local index variable */ herr_t ret_value = SUCCEED; FUNC_ENTER_NOAPI(FAIL) /* Sanity checks */ HDassert(file_src); HDassert(_src_ref); HDassert(file_dst); HDassert(_dst_ref); HDassert(ref_count); HDassert(cpy_info); /* Initialize object locations */ H5O_loc_reset(&src_oloc); H5O_loc_reset(&dst_oloc); src_oloc.file = file_src; dst_oloc.file = file_dst; /* Set up the root group in the destination file */ if(NULL == (dst_root_loc.oloc = H5G_oloc(H5G_rootof(file_dst)))) HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "unable to get object location for root group") if(NULL == (dst_root_loc.path = H5G_nameof(H5G_rootof(file_dst)))) HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "unable to get path for root group") /* Copy object references */ if(H5R_OBJECT == ref_type) { hobj_ref_t *src_ref = (hobj_ref_t *)_src_ref; hobj_ref_t *dst_ref = (hobj_ref_t *)_dst_ref; /* Making equivalent references in the destination file */ for(i = 0; i < ref_count; i++) { /* Set up for the object copy for the reference */ p = (uint8_t *)(&src_ref[i]); H5F_addr_decode(src_oloc.file, (const uint8_t **)&p, &(src_oloc.addr)); dst_oloc.addr = HADDR_UNDEF; /* Attempt to copy object from source to destination file */ if(src_oloc.addr != (haddr_t)0) { if(H5O_copy_obj_by_ref(&src_oloc, dxpl_id, &dst_oloc, &dst_root_loc, cpy_info) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTCOPY, FAIL, "unable to copy object") } /* end if */ else /* Set parameters so the reference is written as all 0's */ HDmemset(&dst_oloc.addr, 0, sizeof(dst_oloc.addr)); /* Set the object reference info for the destination file */ p = (uint8_t *)(&dst_ref[i]); H5F_addr_encode(dst_oloc.file, &p, dst_oloc.addr); } /* end for */ } /* end if */ /* Copy region references */ else if(H5R_DATASET_REGION == ref_type) { hdset_reg_ref_t *src_ref = (hdset_reg_ref_t *)_src_ref; hdset_reg_ref_t *dst_ref = (hdset_reg_ref_t *)_dst_ref; uint8_t *buf = NULL; /* Buffer to store serialized selection in */ H5HG_t hobjid; /* Heap object ID */ size_t buf_size; /* Length of object in heap */ /* Making equivalent references in the destination file */ for(i = 0; i < ref_count; i++) { /* Get the heap ID for the dataset region */ p = (uint8_t *)(&src_ref[i]); H5F_addr_decode(src_oloc.file, (const uint8_t **)&p, &(hobjid.addr)); INT32DECODE(p, hobjid.idx); if(hobjid.addr != (haddr_t)0) { /* Get the dataset region from the heap (allocate inside routine) */ if((buf = (uint8_t *)H5HG_read(src_oloc.file, dxpl_id, &hobjid, NULL, &buf_size)) == NULL) HGOTO_ERROR(H5E_REFERENCE, H5E_READERROR, FAIL, "Unable to read dataset region information") /* Get the object oid for the dataset */ p = (uint8_t *)buf; H5F_addr_decode(src_oloc.file, (const uint8_t **)&p, &(src_oloc.addr)); dst_oloc.addr = HADDR_UNDEF; /* copy the object pointed by the ref to the destination */ if(H5O_copy_obj_by_ref(&src_oloc, dxpl_id, &dst_oloc, &dst_root_loc, cpy_info) < 0) { H5MM_xfree(buf); HGOTO_ERROR(H5E_OHDR, H5E_CANTCOPY, FAIL, "unable to copy object") } /* end if */ /* Serialize object ID */ p = (uint8_t *)buf; H5F_addr_encode(dst_oloc.file, &p, dst_oloc.addr); /* Save the serialized buffer to the destination */ if(H5HG_insert(dst_oloc.file, dxpl_id, buf_size, buf, &hobjid) < 0) { H5MM_xfree(buf); HGOTO_ERROR(H5E_OHDR, H5E_CANTCOPY, FAIL, "Unable to write dataset region information") } /* end if */ } /* end if */ else /* Set parameters so the reference is written as all 0's */ HDmemset(&hobjid, 0, sizeof(hobjid)); /* Set the dataset region reference info for the destination file */ p = (uint8_t *)(&dst_ref[i]); H5F_addr_encode(dst_oloc.file, &p, hobjid.addr); INT32ENCODE(p, hobjid.idx); /* Free the buffer allocated in H5HG_read() */ H5MM_xfree(buf); } /* end for */ } /* end if */ else HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "invalid reference type") done: FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy_expand_ref() */ /*------------------------------------------------------------------------- * Function: H5O_copy_free_comm_dt_cb * * Purpose: Frees the merge committed dt skip list key and object. * * Return: SUCCEED (never fails) * * Programmer: Neil Fortner * Oct 6 2011 * *------------------------------------------------------------------------- */ static herr_t H5O_copy_free_comm_dt_cb(void *item, void *_key, void UNUSED *op_data) { haddr_t *addr = (haddr_t *)item; H5O_copy_search_comm_dt_key_t *key = (H5O_copy_search_comm_dt_key_t *)_key; FUNC_ENTER_NOAPI_NOINIT_NOERR HDassert(addr); HDassert(key); HDassert(key->dt); key->dt = (H5T_t *)H5O_msg_free(H5O_DTYPE_ID, key->dt); key = H5FL_FREE(H5O_copy_search_comm_dt_key_t, key); addr = H5FL_FREE(haddr_t, addr); FUNC_LEAVE_NOAPI(SUCCEED) } /* end H5O_copy_free_comm_dt_cb */ /*------------------------------------------------------------------------- * Function: H5O_copy_comm_dt_cmp * * Purpose: Skiplist callback used to compare 2 keys for the merge * committed dt list. Mostly a wrapper for H5T_cmp. * * Return: 0 if key1 and key2 are equal. * <0 if key1 is less than key2. * >0 if key1 is greater than key2. * * Programmer: Neil Fortner * Oct 6 2011 * *------------------------------------------------------------------------- */ static int H5O_copy_comm_dt_cmp(const void *_key1, const void *_key2) { const H5O_copy_search_comm_dt_key_t *key1 = (const H5O_copy_search_comm_dt_key_t *)_key1; const H5O_copy_search_comm_dt_key_t *key2 = (const H5O_copy_search_comm_dt_key_t *)_key2; int ret_value = 0; FUNC_ENTER_NOAPI_NOINIT_NOERR /* Check fileno. It is unlikely to be different so check if they are equal * first so only one comparison needs to be made. */ if(key1->fileno != key2->fileno) { if(key1->fileno < key2->fileno) HGOTO_DONE(-1) if(key1->fileno > key2->fileno) HGOTO_DONE(1) } /* end if */ ret_value = H5T_cmp(key1->dt, key2->dt, FALSE); done: FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy_comm_dt_cmp */ /*------------------------------------------------------------------------- * Function: H5O_copy_search_comm_dt_attr_cb * * Purpose: Callback for H5O_attr_iterate_real from * H5O_copy_search_comm_dt_check. Checks if the attribute's * datatype is committed. If it is, adds it to the merge * committed dt skiplist present in udata if it does not match * any already present. * * Return: Non-negative on success/Negative on failure * * Programmer: Neil Fortner * Nov 3 2011 * *------------------------------------------------------------------------- */ static herr_t H5O_copy_search_comm_dt_attr_cb(const H5A_t *attr, void *_udata) { H5O_copy_search_comm_dt_ud_t *udata = (H5O_copy_search_comm_dt_ud_t *)_udata; H5T_t *dt = NULL; /* Datatype */ H5O_copy_search_comm_dt_key_t *key = NULL; /* Skiplist key */ haddr_t *addr = NULL; /* Destination address */ hbool_t obj_inserted = FALSE; /* Object inserted into skip list */ herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER_NOAPI_NOINIT /* Sanity checks */ HDassert(attr); HDassert(udata); HDassert(udata->dst_dt_list); HDassert(H5F_addr_defined(udata->obj_oloc.addr)); /* Get attribute datatype */ if(NULL == (dt = H5A_type(attr))) HGOTO_ERROR(H5E_OHDR, H5E_CANTGET, FAIL, "can't get attribute datatype") /* Check if the datatype is committed and search the skip list if so */ if(H5T_committed(dt)) { /* Allocate key */ if(NULL == (key = H5FL_MALLOC(H5O_copy_search_comm_dt_key_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Copy datatype into key */ if(NULL == (key->dt = (H5T_t *)H5O_msg_copy(H5O_DTYPE_ID, dt, NULL))) HGOTO_ERROR(H5E_OHDR, H5E_CANTINIT, FAIL, "unable to copy datatype message") /* Get datatype object fileno */ H5F_GET_FILENO(udata->obj_oloc.file, key->fileno); if(!H5SL_search(udata->dst_dt_list, key)) { /* Allocate destination address */ if(NULL == (addr = H5FL_MALLOC(haddr_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Add the destination datatype to the skip list */ *addr = ((H5O_shared_t *)(key->dt))->u.loc.oh_addr; if(H5SL_insert(udata->dst_dt_list, addr, key) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTINSERT, FAIL, "can't insert object into skip list") obj_inserted = TRUE; } /* end if */ } /* end if */ done: /* Release resources */ if(!obj_inserted) { if(key) { if(key->dt) key->dt = (H5T_t *)H5O_msg_free(H5O_DTYPE_ID, key->dt); key = H5FL_FREE(H5O_copy_search_comm_dt_key_t, key); } /* end if */ if(addr) { HDassert(ret_value < 0); addr = H5FL_FREE(haddr_t, addr); } /* end if */ } /* end if */ FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy_search_comm_dt_attr_cb */ /*------------------------------------------------------------------------- * Function: H5O_copy_search_comm_dt_check * * Purpose: Check if the object at obj_oloc is or contains a reference * to a committed datatype. If it does, adds it to the merge * committed dt skiplist present in udata if it does not match * any already present. * * Return: Non-negative on success/Negative on failure * * Programmer: Neil Fortner * Nov 3 2011 * * Modifications: * Vailin Choi; August 2012 * Use H5O_obj_class to get object type instead of * H5O_get_info(...TRUE....) saving time in traversing metadata. *------------------------------------------------------------------------- */ static herr_t H5O_copy_search_comm_dt_check(H5O_loc_t *obj_oloc, H5O_copy_search_comm_dt_ud_t *udata) { H5O_copy_search_comm_dt_key_t *key = NULL; /* Skiplist key */ haddr_t *addr = NULL; /* Destination address */ hbool_t obj_inserted = FALSE; /* Object inserted into skip list */ H5A_attr_iter_op_t attr_op; /* Attribute iteration operator */ const H5O_obj_class_t *obj_class = NULL; /* Type of object */ herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER_NOAPI_NOINIT /* Sanity checks */ HDassert(obj_oloc); HDassert(udata); HDassert(udata->dst_dt_list); HDassert(udata->dst_root_loc); /* Get pointer to object class for this object */ if((obj_class = H5O_obj_class(obj_oloc, udata->dxpl_id)) == NULL) HGOTO_ERROR(H5E_OHDR, H5E_CANTINIT, FAIL, "unable to determine object type") /* Check if the object is a datatype, a dataset using a committed * datatype, or contains an attribute using a committed datatype */ if(obj_class->type == H5O_TYPE_NAMED_DATATYPE) { /* Allocate key */ if(NULL == (key = H5FL_MALLOC(H5O_copy_search_comm_dt_key_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Read the destination datatype */ if(NULL == (key->dt = (H5T_t *)H5O_msg_read(obj_oloc, H5O_DTYPE_ID, NULL, udata->dxpl_id))) HGOTO_ERROR(H5E_OHDR, H5E_CANTGET, FAIL, "can't read DTYPE message") /* Get destination object fileno */ H5F_GET_FILENO(obj_oloc->file, key->fileno); /* Check if the datatype is already present in the skip list */ if(!H5SL_search(udata->dst_dt_list, key)) { /* Allocate destination address */ if(NULL == (addr = H5FL_MALLOC(haddr_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Add the destination datatype to the skip list */ *addr = obj_oloc->addr; if(H5SL_insert(udata->dst_dt_list, addr, key) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTINSERT, FAIL, "can't insert object into skip list") obj_inserted = TRUE; } /* end if */ } /* end if */ else if(obj_class->type == H5O_TYPE_DATASET) { /* Allocate key */ if(NULL == (key = H5FL_MALLOC(H5O_copy_search_comm_dt_key_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Read the destination datatype */ if(NULL == (key->dt = (H5T_t *)H5O_msg_read(obj_oloc, H5O_DTYPE_ID, NULL, udata->dxpl_id))) HGOTO_ERROR(H5E_OHDR, H5E_CANTGET, FAIL, "can't read DTYPE message") /* Check if the datatype is committed and search the skip list if so */ if(H5T_committed(key->dt)) { /* Get datatype object fileno */ H5F_GET_FILENO(obj_oloc->file, key->fileno); if(!H5SL_search(udata->dst_dt_list, key)) { /* Allocate destination address */ if(NULL == (addr = H5FL_MALLOC(haddr_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Add the destination datatype to the skip list */ *addr = ((H5O_shared_t *)(key->dt))->u.loc.oh_addr; if(H5SL_insert(udata->dst_dt_list, addr, key) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTINSERT, FAIL, "can't insert object into skip list") obj_inserted = TRUE; } /* end if */ } /* end if */ } /* end else */ /* Search within attributes */ attr_op.op_type = H5A_ATTR_OP_LIB; attr_op.u.lib_op = H5O_copy_search_comm_dt_attr_cb; udata->obj_oloc.file = obj_oloc->file; udata->obj_oloc.addr = obj_oloc->addr; if(H5O_attr_iterate_real((hid_t)-1, obj_oloc, udata->dxpl_id, H5_INDEX_NAME, H5_ITER_NATIVE, 0, NULL, &attr_op, udata) < 0) HGOTO_ERROR(H5E_OHDR, H5E_BADITER, FAIL, "error iterating over attributes"); done: /* Release resources */ if(!obj_inserted) { if(key) { if(key->dt) key->dt = (H5T_t *)H5O_msg_free(H5O_DTYPE_ID, key->dt); key = H5FL_FREE(H5O_copy_search_comm_dt_key_t, key); } /* end if */ if(addr) { HDassert(ret_value < 0); addr = H5FL_FREE(haddr_t, addr); } /* end if */ } /* end if */ FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy_search_comm_dt_check */ /*------------------------------------------------------------------------- * Function: H5O_copy_search_comm_dt_cb * * Purpose: H5G_visit callback to add committed datatypes to the merge * committed dt skiplist. Mostly a wrapper for * H5O_copy_search_comm_dt_check. * * Return: Non-negative on success/Negative on failure * * Programmer: Neil Fortner * Oct 6 2011 * *------------------------------------------------------------------------- */ static herr_t H5O_copy_search_comm_dt_cb(hid_t UNUSED group, const char *name, const H5L_info_t *linfo, void *_udata) { H5O_copy_search_comm_dt_ud_t *udata = (H5O_copy_search_comm_dt_ud_t *)_udata; /* Skip list of dtypes in dest file */ H5G_loc_t obj_loc; /* Location of object */ H5O_loc_t obj_oloc; /* Object's object location */ H5G_name_t obj_path; /* Object's group hier. path */ hbool_t obj_found = FALSE; /* Object at 'name' found */ herr_t ret_value = H5_ITER_CONT; /* Return value */ FUNC_ENTER_NOAPI_NOINIT /* Sanity checks */ HDassert(name); HDassert(linfo); HDassert(udata); HDassert(udata->dst_dt_list); HDassert(udata->dst_root_loc); /* Check if this is a hard link */ if(linfo->type == H5L_TYPE_HARD) { /* Set up opened group location to fill in */ obj_loc.oloc = &obj_oloc; obj_loc.path = &obj_path; H5G_loc_reset(&obj_loc); /* Find the object */ if(H5G_loc_find(udata->dst_root_loc, name, &obj_loc/*out*/, H5P_LINK_ACCESS_DEFAULT, udata->dxpl_id) < 0) HGOTO_ERROR(H5E_OHDR, H5E_NOTFOUND, H5_ITER_ERROR, "object not found") obj_found = TRUE; /* Check object and add to skip list if appropriate */ if(H5O_copy_search_comm_dt_check(&obj_oloc, udata) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTGET, H5_ITER_ERROR, "can't check object") } /* end if */ done: /* Release resources */ if(obj_found && H5G_loc_free(&obj_loc) < 0) HDONE_ERROR(H5E_OHDR, H5E_CANTRELEASE, H5_ITER_ERROR, "can't free location") FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy_search_comm_dt_cb */ /*------------------------------------------------------------------------- * Function: H5O_copy_search_comm_dt * * Purpose: Checks if the committed datatype present in oh_src matches any * in the destination file, building the destination file * skiplist as necessary. * * Return: TRUE if a match is found in the destination file * - oloc_dst will contain the address * FALSE if a match is not found * Negative on failure * * Programmer: Neil Fortner * Sep 27 2011 * *------------------------------------------------------------------------- */ static htri_t H5O_copy_search_comm_dt(H5F_t *file_src, H5O_t *oh_src, H5O_loc_t *oloc_dst/*in, out*/, hid_t dxpl_id, H5O_copy_t *cpy_info) { H5O_copy_search_comm_dt_key_t *key = NULL; /* Skiplist key */ haddr_t *dst_addr; /* Destination datatype address */ H5G_loc_t dst_root_loc = {NULL, NULL}; /* Destination root group location */ H5O_copy_search_comm_dt_ud_t udata; /* Group iteration user data */ herr_t ret_value = FALSE; /* Return value */ FUNC_ENTER_NOAPI_NOINIT /* Sanity checks */ HDassert(oh_src); HDassert(oloc_dst); HDassert(oloc_dst->file); HDassert(H5F_FILE_ID(oloc_dst->file)); HDassert(cpy_info); /* Allocate key */ if(NULL == (key = H5FL_MALLOC(H5O_copy_search_comm_dt_key_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Read the source datatype */ if(NULL == (key->dt = (H5T_t *)H5O_msg_read_oh(file_src, dxpl_id, oh_src, H5O_DTYPE_ID, NULL))) HGOTO_ERROR(H5E_OHDR, H5E_CANTGET, FAIL, "can't read DTYPE message") /* Get destination object fileno */ H5F_GET_FILENO(oloc_dst->file, key->fileno); /* Check if the destination dtype list exists, create it if it does not */ if(!cpy_info->dst_dt_list) { /* Create the skip list */ if(NULL == (cpy_info->dst_dt_list = H5SL_create(H5SL_TYPE_GENERIC, H5O_copy_comm_dt_cmp))) HGOTO_ERROR(H5E_OHDR, H5E_CANTCREATE, FAIL, "can't create skip list for committed datatypes") /* Add suggested types to list, if they are present */ if(cpy_info->dst_dt_suggestion_list) { H5O_copy_dtype_merge_list_t *suggestion = cpy_info->dst_dt_suggestion_list; H5G_loc_t obj_loc; /* Location of object */ H5O_loc_t obj_oloc; /* Object's object location */ H5G_name_t obj_path; /* Object's group hier. path */ /* Set up the root group in the destination file */ if(NULL == (dst_root_loc.oloc = H5G_oloc(H5G_rootof(oloc_dst->file)))) HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "unable to get object location for root group") if(NULL == (dst_root_loc.path = H5G_nameof(H5G_rootof(oloc_dst->file)))) HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "unable to get path for root group") /* Set up opened group location to fill in */ obj_loc.oloc = &obj_oloc; obj_loc.path = &obj_path; H5G_loc_reset(&obj_loc); /* Build udata */ udata.dst_dt_list = cpy_info->dst_dt_list; udata.dst_root_loc = &dst_root_loc; udata.obj_oloc.file = NULL; udata.obj_oloc.addr = HADDR_UNDEF; udata.dxpl_id = dxpl_id; /* Walk through the list of datatype suggestions */ while(suggestion) { /* Find the object */ if(H5G_loc_find(&dst_root_loc, suggestion->path, &obj_loc/*out*/, H5P_LINK_ACCESS_DEFAULT, dxpl_id) < 0) /* Ignore errors - i.e. suggestions not present in * destination file */ H5E_clear_stack(NULL); else /* Check object and add to skip list if appropriate */ if(H5O_copy_search_comm_dt_check(&obj_oloc, &udata) < 0) { if(H5G_loc_free(&obj_loc) < 0) HERROR(H5E_OHDR, H5E_CANTRELEASE, "can't free location"); HGOTO_ERROR(H5E_OHDR, H5E_CANTGET, FAIL, "can't check object") } /* end if */ /* Free location */ if(H5G_loc_free(&obj_loc) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTRELEASE, FAIL, "can't free location"); /* Advance the suggestion pointer */ suggestion = suggestion->next; } /* end while */ } /* end if */ } if(!cpy_info->dst_dt_list_complete) { /* Search for the type in the destination file, and return its address * if found, but only if the list is populated with and only with * suggested types. We will search complete lists later. */ if(cpy_info->dst_dt_suggestion_list && NULL != (dst_addr = (haddr_t *)H5SL_search( cpy_info->dst_dt_list, key))) { oloc_dst->addr = *dst_addr; ret_value = TRUE; } /* end if */ else { H5O_mcdt_search_ret_t search_cb_ret = H5O_MCDT_SEARCH_CONT; /* Make callback to see if we should search destination file */ if(cpy_info->mcdt_cb) if((search_cb_ret = cpy_info->mcdt_cb(cpy_info->mcdt_ud)) == H5O_MCDT_SEARCH_ERROR) HGOTO_ERROR(H5E_OHDR, H5E_CALLBACK, FAIL, "callback returned error") if(search_cb_ret == H5O_MCDT_SEARCH_CONT) { /* Build the complete dst dt list */ /* Set up the root group in the destination file, if necessary */ if(!dst_root_loc.oloc) { HDassert(!dst_root_loc.path); if(NULL == (dst_root_loc.oloc = H5G_oloc(H5G_rootof(oloc_dst->file)))) HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "unable to get object location for root group") if(NULL == (dst_root_loc.path = H5G_nameof(H5G_rootof(oloc_dst->file)))) HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "unable to get path for root group") } /* end if */ else HDassert(dst_root_loc.path); /* Build udata. Note that this may be done twice in some cases, but * it should be rare and should be cheaper on average than trying to * keep track of whether it was done before. */ udata.dst_dt_list = cpy_info->dst_dt_list; udata.dst_root_loc = &dst_root_loc; udata.obj_oloc.file = NULL; udata.obj_oloc.addr = HADDR_UNDEF; udata.dxpl_id = dxpl_id; /* Traverse the destination file, adding committed datatypes to the skip * list */ if(H5G_visit(&dst_root_loc, "/", H5_INDEX_NAME, H5_ITER_NATIVE, H5O_copy_search_comm_dt_cb, &udata, H5P_LINK_ACCESS_DEFAULT, dxpl_id) < 0) HGOTO_ERROR(H5E_OHDR, H5E_BADITER, FAIL, "object visitation failed") cpy_info->dst_dt_list_complete = TRUE; } /* end if */ else if(search_cb_ret != H5O_MCDT_SEARCH_STOP) HGOTO_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "unknown return value for callback") } /* end if */ } /* end if */ /* Search for the type in the destination file, and return its address if * found, but only if the list is complete */ if(cpy_info->dst_dt_list_complete) { if(NULL != (dst_addr = (haddr_t *)H5SL_search(cpy_info->dst_dt_list, key))) { oloc_dst->addr = *dst_addr; ret_value = TRUE; } /* end if */ } /* end if */ done: if(key) { if(key->dt) key->dt = (H5T_t *)H5O_msg_free(H5O_DTYPE_ID, key->dt); key = H5FL_FREE(H5O_copy_search_comm_dt_key_t, key); } /* end if */ FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy_search_comm_dt */ /*------------------------------------------------------------------------- * Function: H5O_copy_insert_comm_dt * * Purpose: Insert the committed datatype at oloc_dst into the merge committed * dt skiplist. The datatype must not be present already. * * Return: Non-negative on success/Negative on failure * * Programmer: Neil Fortner * Oct 6 2011 * *------------------------------------------------------------------------- */ static herr_t H5O_copy_insert_comm_dt(H5F_t *file_src, H5O_t *oh_src, H5O_loc_t *oloc_dst, hid_t dxpl_id, H5O_copy_t *cpy_info) { H5O_copy_search_comm_dt_key_t *key = NULL; /* Skiplist key */ haddr_t *addr = NULL; /* Destination object address */ herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER_NOAPI_NOINIT /* Sanity checks */ HDassert(oh_src); HDassert(oloc_dst); HDassert(oloc_dst->file); HDassert(oloc_dst->addr != HADDR_UNDEF); HDassert(cpy_info); HDassert(cpy_info->dst_dt_list); /* Allocate key */ if(NULL == (key = H5FL_MALLOC(H5O_copy_search_comm_dt_key_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Read the datatype. Read from the source file because the destination * object could be changed in the post-copy. */ if(NULL == (key->dt = (H5T_t *)H5O_msg_read_oh(file_src, dxpl_id, oh_src, H5O_DTYPE_ID, NULL))) HGOTO_ERROR(H5E_OHDR, H5E_CANTGET, FAIL, "can't read DTYPE message") /* Get destination object fileno */ H5F_GET_FILENO(oloc_dst->file, key->fileno); /* Allocate destination address */ if(NULL == (addr = H5FL_MALLOC(haddr_t))) HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "memory allocation failed") /* Add the destination datatype to the skip list */ *addr = oloc_dst->addr; if(H5SL_insert(cpy_info->dst_dt_list, addr, key) < 0) HGOTO_ERROR(H5E_OHDR, H5E_CANTINSERT, FAIL, "can't insert object into skip list") done: if(ret_value < 0) { if(key) { if(key->dt) key->dt = (H5T_t *)H5O_msg_free(H5O_DTYPE_ID, key->dt); key = H5FL_FREE(H5O_copy_search_comm_dt_key_t, key); } /* end if */ if(addr) addr = H5FL_FREE(haddr_t, addr); } /* end if */ FUNC_LEAVE_NOAPI(ret_value) } /* end H5O_copy_insert_comm_dt */