From f1a24d0e4c32735fa016cbb262b61a1cce5960fc Mon Sep 17 00:00:00 2001 From: Pascal Hogan-Lamarre Date: Thu, 9 Jul 2020 14:38:19 +0200 Subject: unit cell vectors are correct, space group missing --- libcrystfel/src/index.c | 288 ++++++++++-- libcrystfel/src/index.h | 5 +- libcrystfel/src/uthash.h | 1150 ++++++++++++++++++++++++++++++++++++++++++++++ src/indexamajig.c | 8 +- 4 files changed, 1419 insertions(+), 32 deletions(-) create mode 100755 libcrystfel/src/uthash.h diff --git a/libcrystfel/src/index.c b/libcrystfel/src/index.c index dc689df2..ab451c41 100644 --- a/libcrystfel/src/index.c +++ b/libcrystfel/src/index.c @@ -60,9 +60,31 @@ #include "xgandalf.h" #include "pinkindexer.h" +#include "uthash.h" + /** \file index.h */ +struct skip_private +{ + char path_to_sol[50]; + float solutions[]; +}; + +struct record_key_t{ //added + char filename[100]; + char event_path[35]; + int event_dim; +}; + +struct record_t{ //added + struct record_key_t key; + int line; + UT_hash_handle hh; +}; + +//declared as global variable +struct record_t *line_hash = NULL; //added struct _indexingprivate { @@ -75,6 +97,24 @@ struct _indexingprivate void **engine_private; }; +void delete_all() { + struct record_t *current_line, *tmp; + + HASH_ITER(hh, line_hash, current_line, tmp) { + HASH_DEL(line_hash, current_line); + free(current_line); + } +} + +void print_struct() { + struct record_t *s; + s = (struct record_t *)malloc(sizeof *s); + memset(s, 0, sizeof *s); + + for(s=line_hash; s != NULL; s=(struct record_t*)(s->hh.next)) { + printf("The line is event_path %s and event_dim %d in file %s \n", s->key.event_path, s->key.event_dim, s->key.filename); + } +} static const char *onoff(int a) { @@ -113,37 +153,225 @@ static void show_indexing_flags(IndexingFlags flags) } -static int debug_index(struct image *image) -{ +void *skip_prepare(char *solution_filename) +{ FILE *fh; - Crystal *cr; - UnitCell *cell; - float asx, asy, asz, bsx, bsy, bsz, csx, csy, csz; + int nlines; + int nparams_in_solution; + int nparams_per_line; + int nparams; + char *filename[35]; //??? is that correct + char *event_path[35]; //??? is that correct + int event_dim; + int current_line; + int position_in_current_line; + struct record_t *item; + + //Assembling solution file name from input file name to crystfel + char path_to_sol[50],extension[10]; + strcpy(path_to_sol,"../"); + strcpy(extension,".sol"); + strtok(solution_filename, "."); //Takes the first part of the list name (before the .) + strcat(path_to_sol, strtok(solution_filename, ".") ); //Add .sol at the previously splitted name + strcat(path_to_sol, extension ); + + char cwd[PATH_MAX]; + if (getcwd(cwd, sizeof(cwd)) != NULL) { + //printf("Path where skip_prepare is ran: %s\n", cwd); + } + + fh = fopen(path_to_sol, "r"); - fh = fopen("../../indexing.debug", "r"); if ( fh == NULL ) { - ERROR("indexing.debug not found\n"); + ERROR("indexing.sol not found by skip_prepare\n"); return 0; } - if ( fscanf(fh, "%e %e %e", &asx, &asy, &asz) != 3 ) { - ERROR("Failed to read a* from indexing.debug\n"); - return 0; + nlines = ncrystals_in_sol(path_to_sol); + nparams_per_line = 11; //There are 9 vector component and 2 detector shifts excluding filename and event + nparams_in_solution = nlines*nparams_per_line; + nparams = nlines*(nparams_per_line+3); + + float *params = malloc(nparams_in_solution * sizeof( float)); + + //Reads indexing solutions + int j = 0; //index that follows the solution parameter + for(int i = 0; i < nparams; i++) + { + + current_line = i/(nparams_per_line+3); + + position_in_current_line = (i)%(nparams_per_line+3); + + if (position_in_current_line == 0){ + + if ( fscanf(fh, "%s", filename) != 1 ) { + if (current_line == (nlines-1)){ + break; + } + else{ + printf("Failed to read a filename from indexing.sol with skip_prepare\n"); + return 0; + } + } + } + + if (position_in_current_line == 1){ + + if ( fscanf(fh, "%s", event_path) != 1 ) { + printf("Failed to read an event_path from indexing.sol with skip_prepare\n"); + return 0; + } + } + + if (position_in_current_line == 2){ + if ( fscanf(fh, "%d", &event_dim) != 1 ) { + printf("Failed to read an event from indexing.sol with skip_prepare\n"); + return 0; + } + + //Prepare to add to the hash table once an event is read + item = (struct record_t *)malloc(sizeof *item); + memset(item, 0, sizeof *item); + strcpy(item->key.filename, filename); + strcpy(item->key.event_path, event_path); + item->key.event_dim = event_dim; + item->line=current_line; + + //Verify the uniqueness of the key + struct record_t *uniqueness_test; + HASH_FIND(hh, line_hash, &item->key, sizeof(struct record_key_t), uniqueness_test); /* id already in the hash? */ + if (uniqueness_test==NULL) { + //If not in the table, add + HASH_ADD(hh, line_hash, key, sizeof(struct record_key_t), item); + } + else{ + //If already in the table, break with error + printf("Keys to the data must be unique! Verify the combination filename, event_path, event_dim"); + return 0; + } + + + + } + + if (position_in_current_line > 2){ + if ( fscanf(fh, "%e", ¶ms[j]) != 1 ) { + printf("Failed to read a parameter from indexing.sol with skip_prepare\n"); + return 0; + } + j+=1; + } + } + + fclose(fh); + + struct skip_private *dp; + dp = (struct skip_private *) malloc( sizeof(struct skip_private) + nparams * sizeof( float) ); + + if ( dp == NULL ) return NULL; + + memcpy(dp->path_to_sol, path_to_sol, sizeof path_to_sol); + + for (int k = 0; k < nparams; k++) + { + dp->solutions[k] = params[k]; } - if ( fscanf(fh, "%e %e %e", &bsx, &bsy, &bsz) != 3 ) { - ERROR("Failed to read b* from indexing.debug\n"); + + free(params); + + return (void *)dp; +} + +int ncrystals_in_sol(char *path) +{ + FILE *fh; + int count = 0; // Line counter (result) + char c; // To store a character read from file + + fh = fopen(path, "r"); + + if ( fh == NULL ) { + ERROR("%s not found by ncrystals_in_sol\n",path); return 0; } - if ( fscanf(fh, "%e %e %e", &csx, &csy, &csz) != 3 ) { - ERROR("Failed to read c* from indexing.debug\n"); + + for (c = getc(fh); c != EOF; c = getc(fh)) + if (c == '\n') // Increment count if this character is newline + count = count + 1; + + //For the last line, which has no \n at the end + count = count + 1; + + // Close the file + fclose(fh); + + return count; + +} + +//Fonction from pinkindexer.c to update the detector center of individual crystals +//hack for electron crystallography while crystal_set_det_shift is not working approprietly +static void update_detector(struct detector *det, double xoffs, double yoffs) +{ + int i; + + for (i = 0; i < det->n_panels; i++) { + struct panel *p = &det->panels[i]; + p->cnx += xoffs * p->res; + p->cny += yoffs * p->res; + } +} + +static int skip_index(struct image *image, void *mpriv) +{ + Crystal *cr; + UnitCell *cell; + float asx, asy, asz, bsx, bsy, bsz, csx, csy, csz, xshift, yshift; + int serial; + int nparams_per_line; + struct record_t *item, *p; + int line_number; + + struct skip_private *dp = (struct skip_private *)mpriv; + + //Look up the hash table + item = (struct record_t *)malloc(sizeof *item); + memset(item, 0, sizeof *item); + strcpy(item->key.filename, image->filename); + strcpy(item->key.event_path, *image->event->path_entries); + item->key.event_dim = *image->event->dim_entries; + + HASH_FIND(hh, line_hash, &item->key, sizeof(struct record_key_t), p); /* id already in the hash? */ + if (p==NULL) { + printf("Not indexing file %s, event %s %d \n", image->filename, *image->event->path_entries, *image->event->dim_entries); return 0; } + line_number = p->line; + nparams_per_line = 11; + + asx = dp->solutions[(line_number * nparams_per_line) + 0]; + asy = dp->solutions[(line_number * nparams_per_line) + 1]; + asz = dp->solutions[(line_number * nparams_per_line) + 2]; + bsx = dp->solutions[(line_number * nparams_per_line) + 3]; + bsy = dp->solutions[(line_number * nparams_per_line) + 4]; + bsz = dp->solutions[(line_number * nparams_per_line) + 5]; + csx = dp->solutions[(line_number * nparams_per_line) + 6]; + csy = dp->solutions[(line_number * nparams_per_line) + 7]; + csz = dp->solutions[(line_number * nparams_per_line) + 8]; + xshift = dp->solutions[(line_number * nparams_per_line) + 9]; + yshift = dp->solutions[(line_number * nparams_per_line) + 10]; + cr = crystal_new(); cell = cell_new(); - cell_set_reciprocal(cell, asx, asy, asz, bsx, bsy, bsz, csx, csy, csz); + cell_set_reciprocal(cell, asx * 1e9, asy * 1e9, asz* 1e9, bsx * 1e9, bsy * 1e9, bsz * 1e9, csx * 1e9, csy * 1e9, csz* 1e9); + crystal_set_cell(cr, cell); + crystal_set_det_shift(cr, xshift * 1e-3, yshift * 1e-3); + update_detector(image->det, xshift * 1e-3, yshift * 1e-3); image_add_crystal(image, cr); + return 1; } @@ -201,8 +429,8 @@ static char *base_indexer_str(IndexingMethod indm) strcpy(str, "simulation"); break; - case INDEXING_DEBUG : - strcpy(str, "debug"); + case INDEXING_FILE : + strcpy(str, "file"); break; default : @@ -238,7 +466,8 @@ static void *prepare_method(IndexingMethod *m, UnitCell *cell, struct xgandalf_options *xgandalf_opts, struct pinkIndexer_options* pinkIndexer_opts, struct felix_options *felix_opts, - struct taketwo_options *taketwo_opts) + struct taketwo_options *taketwo_opts, + char *filename) { char *str; IndexingMethod in = *m; @@ -266,8 +495,8 @@ static void *prepare_method(IndexingMethod *m, UnitCell *cell, priv = xds_prepare(m, cell); break; - case INDEXING_DEBUG : - priv = (IndexingPrivate *)strdup("Hello!"); + case INDEXING_FILE : + priv = skip_prepare(filename); break; case INDEXING_FELIX : @@ -320,7 +549,8 @@ IndexingPrivate *setup_indexing(const char *method_list, UnitCell *cell, struct taketwo_options *ttopts, struct xgandalf_options *xgandalf_opts, struct pinkIndexer_options *pinkIndexer_opts, - struct felix_options *felix_opts) + struct felix_options *felix_opts, + char *filename) { int i, n; char **method_strings; @@ -417,7 +647,8 @@ IndexingPrivate *setup_indexing(const char *method_list, UnitCell *cell, xgandalf_opts, pinkIndexer_opts, felix_opts, - ttopts); + ttopts, + filename); if ( ipriv->engine_private[i] == NULL ) return NULL; @@ -518,8 +749,9 @@ void cleanup_indexing(IndexingPrivate *ipriv) felix_cleanup(ipriv->engine_private[n]); break; - case INDEXING_DEBUG : + case INDEXING_FILE : free(ipriv->engine_private[n]); + delete_all(); break; case INDEXING_TAKETWO : @@ -645,9 +877,9 @@ static int try_indexer(struct image *image, IndexingMethod indm, r = run_xds(image, mpriv); break; - case INDEXING_DEBUG : - set_last_task(last_task, "indexing:debug"); - r = debug_index(image); + case INDEXING_FILE : + set_last_task(last_task, "indexing:file"); + r = skip_index(image,mpriv); break; case INDEXING_FELIX : @@ -1080,9 +1312,9 @@ IndexingMethod get_indm_from_string_2(const char *str, int *err) method = INDEXING_SIMULATION; return method; - } else if ( strcmp(bits[i], "debug") == 0) { + } else if ( strcmp(bits[i], "file") == 0) { if ( have_method ) return warn_method(str); - method = INDEXING_DEBUG; + method = INDEXING_FILE; return method; } else if ( strcmp(bits[i], "latt") == 0) { diff --git a/libcrystfel/src/index.h b/libcrystfel/src/index.h index 0c899199..bd5be68e 100644 --- a/libcrystfel/src/index.h +++ b/libcrystfel/src/index.h @@ -77,7 +77,7 @@ typedef enum { INDEXING_FELIX = 4, /**< Invoke Felix program */ INDEXING_XDS = 5, /**< Invoke XDS program (NB not nXDS) */ INDEXING_SIMULATION = 6, /**< Dummy value for simulated data */ - INDEXING_DEBUG = 7, /**< Results injector for debugging */ + INDEXING_FILE = 7, /**< Results injector for debugging */ INDEXING_ASDF = 8, /**< Use built-in ASDF algorithm */ INDEXING_TAKETWO = 9, /**< Use built-in TakeTwo algorithm */ INDEXING_XGANDALF = 10, /**< Use XGANDALF (via optional library) */ @@ -159,7 +159,8 @@ extern IndexingPrivate *setup_indexing(const char *methods, UnitCell *cell, struct taketwo_options *ttopts, struct xgandalf_options *xgandalf_opts, struct pinkIndexer_options *pinkIndexer_opts, - struct felix_options *felix_opts); + struct felix_options *felix_opts, + char *filename); extern const IndexingMethod *indexing_methods(IndexingPrivate *p, int *n); diff --git a/libcrystfel/src/uthash.h b/libcrystfel/src/uthash.h new file mode 100755 index 00000000..5e5866a3 --- /dev/null +++ b/libcrystfel/src/uthash.h @@ -0,0 +1,1150 @@ +/* +Copyright (c) 2003-2018, Troy D. Hanson http://troydhanson.github.com/uthash/ +All rights reserved. + +Redistribution and use in source and binary forms, with or without +modification, are permitted provided that the following conditions are met: + + * Redistributions of source code must retain the above copyright + notice, this list of conditions and the following disclaimer. + +THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS +IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED +TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A +PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER +OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, +EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, +PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR +PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF +LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING +NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS +SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. +*/ + +#ifndef UTHASH_H +#define UTHASH_H + +#define UTHASH_VERSION 2.1.0 + +#include /* memcmp, memset, strlen */ +#include /* ptrdiff_t */ +#include /* exit */ + +/* These macros use decltype or the earlier __typeof GNU extension. + As decltype is only available in newer compilers (VS2010 or gcc 4.3+ + when compiling c++ source) this code uses whatever method is needed + or, for VS2008 where neither is available, uses casting workarounds. */ +#if !defined(DECLTYPE) && !defined(NO_DECLTYPE) +#if defined(_MSC_VER) /* MS compiler */ +#if _MSC_VER >= 1600 && defined(__cplusplus) /* VS2010 or newer in C++ mode */ +#define DECLTYPE(x) (decltype(x)) +#else /* VS2008 or older (or VS2010 in C mode) */ +#define NO_DECLTYPE +#endif +#elif defined(__BORLANDC__) || defined(__ICCARM__) || defined(__LCC__) || defined(__WATCOMC__) +#define NO_DECLTYPE +#else /* GNU, Sun and other compilers */ +#define DECLTYPE(x) (__typeof(x)) +#endif +#endif + +#ifdef NO_DECLTYPE +#define DECLTYPE(x) +#define DECLTYPE_ASSIGN(dst,src) \ +do { \ + char **_da_dst = (char**)(&(dst)); \ + *_da_dst = (char*)(src); \ +} while (0) +#else +#define DECLTYPE_ASSIGN(dst,src) \ +do { \ + (dst) = DECLTYPE(dst)(src); \ +} while (0) +#endif + +/* a number of the hash function use uint32_t which isn't defined on Pre VS2010 */ +#if defined(_WIN32) +#if defined(_MSC_VER) && _MSC_VER >= 1600 +#include +#elif defined(__WATCOMC__) || defined(__MINGW32__) || defined(__CYGWIN__) +#include +#else +typedef unsigned int uint32_t; +typedef unsigned char uint8_t; +#endif +#elif defined(__GNUC__) && !defined(__VXWORKS__) +#include +#else +typedef unsigned int uint32_t; +typedef unsigned char uint8_t; +#endif + +#ifndef uthash_malloc +#define uthash_malloc(sz) malloc(sz) /* malloc fcn */ +#endif +#ifndef uthash_free +#define uthash_free(ptr,sz) free(ptr) /* free fcn */ +#endif +#ifndef uthash_bzero +#define uthash_bzero(a,n) memset(a,'\0',n) +#endif +#ifndef uthash_strlen +#define uthash_strlen(s) strlen(s) +#endif + +#ifdef uthash_memcmp +/* This warning will not catch programs that define uthash_memcmp AFTER including uthash.h. */ +#warning "uthash_memcmp is deprecated; please use HASH_KEYCMP instead" +#else +#define uthash_memcmp(a,b,n) memcmp(a,b,n) +#endif + +#ifndef HASH_KEYCMP +#define HASH_KEYCMP(a,b,n) uthash_memcmp(a,b,n) +#endif + +#ifndef uthash_noexpand_fyi +#define uthash_noexpand_fyi(tbl) /* can be defined to log noexpand */ +#endif +#ifndef uthash_expand_fyi +#define uthash_expand_fyi(tbl) /* can be defined to log expands */ +#endif + +#ifndef HASH_NONFATAL_OOM +#define HASH_NONFATAL_OOM 0 +#endif + +#if HASH_NONFATAL_OOM +/* malloc failures can be recovered from */ + +#ifndef uthash_nonfatal_oom +#define uthash_nonfatal_oom(obj) do {} while (0) /* non-fatal OOM error */ +#endif + +#define HASH_RECORD_OOM(oomed) do { (oomed) = 1; } while (0) +#define IF_HASH_NONFATAL_OOM(x) x + +#else +/* malloc failures result in lost memory, hash tables are unusable */ + +#ifndef uthash_fatal +#define uthash_fatal(msg) exit(-1) /* fatal OOM error */ +#endif + +#define HASH_RECORD_OOM(oomed) uthash_fatal("out of memory") +#define IF_HASH_NONFATAL_OOM(x) + +#endif + +/* initial number of buckets */ +#define HASH_INITIAL_NUM_BUCKETS 32U /* initial number of buckets */ +#define HASH_INITIAL_NUM_BUCKETS_LOG2 5U /* lg2 of initial number of buckets */ +#define HASH_BKT_CAPACITY_THRESH 10U /* expand when bucket count reaches */ + +/* calculate the element whose hash handle address is hhp */ +#define ELMT_FROM_HH(tbl,hhp) ((void*)(((char*)(hhp)) - ((tbl)->hho))) +/* calculate the hash handle from element address elp */ +#define HH_FROM_ELMT(tbl,elp) ((UT_hash_handle*)(void*)(((char*)(elp)) + ((tbl)->hho))) + +#define HASH_ROLLBACK_BKT(hh, head, itemptrhh) \ +do { \ + struct UT_hash_handle *_hd_hh_item = (itemptrhh); \ + unsigned _hd_bkt; \ + HASH_TO_BKT(_hd_hh_item->hashv, (head)->hh.tbl->num_buckets, _hd_bkt); \ + (head)->hh.tbl->buckets[_hd_bkt].count++; \ + _hd_hh_item->hh_next = NULL; \ + _hd_hh_item->hh_prev = NULL; \ +} while (0) + +#define HASH_VALUE(keyptr,keylen,hashv) \ +do { \ + HASH_FCN(keyptr, keylen, hashv); \ +} while (0) + +#define HASH_FIND_BYHASHVALUE(hh,head,keyptr,keylen,hashval,out) \ +do { \ + (out) = NULL; \ + if (head) { \ + unsigned _hf_bkt; \ + HASH_TO_BKT(hashval, (head)->hh.tbl->num_buckets, _hf_bkt); \ + if (HASH_BLOOM_TEST((head)->hh.tbl, hashval) != 0) { \ + HASH_FIND_IN_BKT((head)->hh.tbl, hh, (head)->hh.tbl->buckets[ _hf_bkt ], keyptr, keylen, hashval, out); \ + } \ + } \ +} while (0) + +#define HASH_FIND(hh,head,keyptr,keylen,out) \ +do { \ + (out) = NULL; \ + if (head) { \ + unsigned _hf_hashv; \ + HASH_VALUE(keyptr, keylen, _hf_hashv); \ + HASH_FIND_BYHASHVALUE(hh, head, keyptr, keylen, _hf_hashv, out); \ + } \ +} while (0) + +#ifdef HASH_BLOOM +#define HASH_BLOOM_BITLEN (1UL << HASH_BLOOM) +#define HASH_BLOOM_BYTELEN (HASH_BLOOM_BITLEN/8UL) + (((HASH_BLOOM_BITLEN%8UL)!=0UL) ? 1UL : 0UL) +#define HASH_BLOOM_MAKE(tbl,oomed) \ +do { \ + (tbl)->bloom_nbits = HASH_BLOOM; \ + (tbl)->bloom_bv = (uint8_t*)uthash_malloc(HASH_BLOOM_BYTELEN); \ + if (!(tbl)->bloom_bv) { \ + HASH_RECORD_OOM(oomed); \ + } else { \ + uthash_bzero((tbl)->bloom_bv, HASH_BLOOM_BYTELEN); \ + (tbl)->bloom_sig = HASH_BLOOM_SIGNATURE; \ + } \ +} while (0) + +#define HASH_BLOOM_FREE(tbl) \ +do { \ + uthash_free((tbl)->bloom_bv, HASH_BLOOM_BYTELEN); \ +} while (0) + +#define HASH_BLOOM_BITSET(bv,idx) (bv[(idx)/8U] |= (1U << ((idx)%8U))) +#define HASH_BLOOM_BITTEST(bv,idx) (bv[(idx)/8U] & (1U << ((idx)%8U))) + +#define HASH_BLOOM_ADD(tbl,hashv) \ + HASH_BLOOM_BITSET((tbl)->bloom_bv, ((hashv) & (uint32_t)((1UL << (tbl)->bloom_nbits) - 1U))) + +#define HASH_BLOOM_TEST(tbl,hashv) \ + HASH_BLOOM_BITTEST((tbl)->bloom_bv, ((hashv) & (uint32_t)((1UL << (tbl)->bloom_nbits) - 1U))) + +#else +#define HASH_BLOOM_MAKE(tbl,oomed) +#define HASH_BLOOM_FREE(tbl) +#define HASH_BLOOM_ADD(tbl,hashv) +#define HASH_BLOOM_TEST(tbl,hashv) (1) +#define HASH_BLOOM_BYTELEN 0U +#endif + +#define HASH_MAKE_TABLE(hh,head,oomed) \ +do { \ + (head)->hh.tbl = (UT_hash_table*)uthash_malloc(sizeof(UT_hash_table)); \ + if (!(head)->hh.tbl) { \ + HASH_RECORD_OOM(oomed); \ + } else { \ + uthash_bzero((head)->hh.tbl, sizeof(UT_hash_table)); \ + (head)->hh.tbl->tail = &((head)->hh); \ + (head)->hh.tbl->num_buckets = HASH_INITIAL_NUM_BUCKETS; \ + (head)->hh.tbl->log2_num_buckets = HASH_INITIAL_NUM_BUCKETS_LOG2; \ + (head)->hh.tbl->hho = (char*)(&(head)->hh) - (char*)(head); \ + (head)->hh.tbl->buckets = (UT_hash_bucket*)uthash_malloc( \ + HASH_INITIAL_NUM_BUCKETS * sizeof(struct UT_hash_bucket)); \ + (head)->hh.tbl->signature = HASH_SIGNATURE; \ + if (!(head)->hh.tbl->buckets) { \ + HASH_RECORD_OOM(oomed); \ + uthash_free((head)->hh.tbl, sizeof(UT_hash_table)); \ + } else { \ + uthash_bzero((head)->hh.tbl->buckets, \ + HASH_INITIAL_NUM_BUCKETS * sizeof(struct UT_hash_bucket)); \ + HASH_BLOOM_MAKE((head)->hh.tbl, oomed); \ + IF_HASH_NONFATAL_OOM( \ + if (oomed) { \ + uthash_free((head)->hh.tbl->buckets, \ + HASH_INITIAL_NUM_BUCKETS*sizeof(struct UT_hash_bucket)); \ + uthash_free((head)->hh.tbl, sizeof(UT_hash_table)); \ + } \ + ) \ + } \ + } \ +} while (0) + +#define HASH_REPLACE_BYHASHVALUE_INORDER(hh,head,fieldname,keylen_in,hashval,add,replaced,cmpfcn) \ +do { \ + (replaced) = NULL; \ + HASH_FIND_BYHASHVALUE(hh, head, &((add)->fieldname), keylen_in, hashval, replaced); \ + if (replaced) { \ + HASH_DELETE(hh, head, replaced); \ + } \ + HASH_ADD_KEYPTR_BYHASHVALUE_INORDER(hh, head, &((add)->fieldname), keylen_in, hashval, add, cmpfcn); \ +} while (0) + +#define HASH_REPLACE_BYHASHVALUE(hh,head,fieldname,keylen_in,hashval,add,replaced) \ +do { \ + (replaced) = NULL; \ + HASH_FIND_BYHASHVALUE(hh, head, &((add)->fieldname), keylen_in, hashval, replaced); \ + if (replaced) { \ + HASH_DELETE(hh, head, replaced); \ + } \ + HASH_ADD_KEYPTR_BYHASHVALUE(hh, head, &((add)->fieldname), keylen_in, hashval, add); \ +} while (0) + +#define HASH_REPLACE(hh,head,fieldname,keylen_in,add,replaced) \ +do { \ + unsigned _hr_hashv; \ + HASH_VALUE(&((add)->fieldname), keylen_in, _hr_hashv); \ + HASH_REPLACE_BYHASHVALUE(hh, head, fieldname, keylen_in, _hr_hashv, add, replaced); \ +} while (0) + +#define HASH_REPLACE_INORDER(hh,head,fieldname,keylen_in,add,replaced,cmpfcn) \ +do { \ + unsigned _hr_hashv; \ + HASH_VALUE(&((add)->fieldname), keylen_in, _hr_hashv); \ + HASH_REPLACE_BYHASHVALUE_INORDER(hh, head, fieldname, keylen_in, _hr_hashv, add, replaced, cmpfcn); \ +} while (0) + +#define HASH_APPEND_LIST(hh, head, add) \ +do { \ + (add)->hh.next = NULL; \ + (add)->hh.prev = ELMT_FROM_HH((head)->hh.tbl, (head)->hh.tbl->tail); \ + (head)->hh.tbl->tail->next = (add); \ + (head)->hh.tbl->tail = &((add)->hh); \ +} while (0) + +#define HASH_AKBI_INNER_LOOP(hh,head,add,cmpfcn) \ +do { \ + do { \ + if (cmpfcn(DECLTYPE(head)(_hs_iter), add) > 0) { \ + break; \ + } \ + } while ((_hs_iter = HH_FROM_ELMT((head)->hh.tbl, _hs_iter)->next)); \ +} while (0) + +#ifdef NO_DECLTYPE +#undef HASH_AKBI_INNER_LOOP +#define HASH_AKBI_INNER_LOOP(hh,head,add,cmpfcn) \ +do { \ + char *_hs_saved_head = (char*)(head); \ + do { \ + DECLTYPE_ASSIGN(head, _hs_iter); \ + if (cmpfcn(head, add) > 0) { \ + DECLTYPE_ASSIGN(head, _hs_saved_head); \ + break; \ + } \ + DECLTYPE_ASSIGN(head, _hs_saved_head); \ + } while ((_hs_iter = HH_FROM_ELMT((head)->hh.tbl, _hs_iter)->next)); \ +} while (0) +#endif + +#if HASH_NONFATAL_OOM + +#define HASH_ADD_TO_TABLE(hh,head,keyptr,keylen_in,hashval,add,oomed) \ +do { \ + if (!(oomed)) { \ + unsigned _ha_bkt; \ + (head)->hh.tbl->num_items++; \ + HASH_TO_BKT(hashval, (head)->hh.tbl->num_buckets, _ha_bkt); \ + HASH_ADD_TO_BKT((head)->hh.tbl->buckets[_ha_bkt], hh, &(add)->hh, oomed); \ + if (oomed) { \ + HASH_ROLLBACK_BKT(hh, head, &(add)->hh); \ + HASH_DELETE_HH(hh, head, &(add)->hh); \ + (add)->hh.tbl = NULL; \ + uthash_nonfatal_oom(add); \ + } else { \ + HASH_BLOOM_ADD((head)->hh.tbl, hashval); \ + HASH_EMIT_KEY(hh, head, keyptr, keylen_in); \ + } \ + } else { \ + (add)->hh.tbl = NULL; \ + uthash_nonfatal_oom(add); \ + } \ +} while (0) + +#else + +#define HASH_ADD_TO_TABLE(hh,head,keyptr,keylen_in,hashval,add,oomed) \ +do { \ + unsigned _ha_bkt; \ + (head)->hh.tbl->num_items++; \ + HASH_TO_BKT(hashval, (head)->hh.tbl->num_buckets, _ha_bkt); \ + HASH_ADD_TO_BKT((head)->hh.tbl->buckets[_ha_bkt], hh, &(add)->hh, oomed); \ + HASH_BLOOM_ADD((head)->hh.tbl, hashval); \ + HASH_EMIT_KEY(hh, head, keyptr, keylen_in); \ +} while (0) + +#endif + + +#define HASH_ADD_KEYPTR_BYHASHVALUE_INORDER(hh,head,keyptr,keylen_in,hashval,add,cmpfcn) \ +do { \ + IF_HASH_NONFATAL_OOM( int _ha_oomed = 0; ) \ + (add)->hh.hashv = (hashval); \ + (add)->hh.key = (char*) (keyptr); \ + (add)->hh.keylen = (unsigned) (keylen_in); \ + if (!(head)) { \ + (add)->hh.next = NULL; \ + (add)->hh.prev = NULL; \ + HASH_MAKE_TABLE(hh, add, _ha_oomed); \ + IF_HASH_NONFATAL_OOM( if (!_ha_oomed) { ) \ + (head) = (add); \ + IF_HASH_NONFATAL_OOM( } ) \ + } else { \ + void *_hs_iter = (head); \ + (add)->hh.tbl = (head)->hh.tbl; \ + HASH_AKBI_INNER_LOOP(hh, head, add, cmpfcn); \ + if (_hs_iter) { \ + (add)->hh.next = _hs_iter; \ + if (((add)->hh.prev = HH_FROM_ELMT((head)->hh.tbl, _hs_iter)->prev)) { \ + HH_FROM_ELMT((head)->hh.tbl, (add)->hh.prev)->next = (add); \ + } else { \ + (head) = (add); \ + } \ + HH_FROM_ELMT((head)->hh.tbl, _hs_iter)->prev = (add); \ + } else { \ + HASH_APPEND_LIST(hh, head, add); \ + } \ + } \ + HASH_ADD_TO_TABLE(hh, head, keyptr, keylen_in, hashval, add, _ha_oomed); \ + HASH_FSCK(hh, head, "HASH_ADD_KEYPTR_BYHASHVALUE_INORDER"); \ +} while (0) + +#define HASH_ADD_KEYPTR_INORDER(hh,head,keyptr,keylen_in,add,cmpfcn) \ +do { \ + unsigned _hs_hashv; \ + HASH_VALUE(keyptr, keylen_in, _hs_hashv); \ + HASH_ADD_KEYPTR_BYHASHVALUE_INORDER(hh, head, keyptr, keylen_in, _hs_hashv, add, cmpfcn); \ +} while (0) + +#define HASH_ADD_BYHASHVALUE_INORDER(hh,head,fieldname,keylen_in,hashval,add,cmpfcn) \ + HASH_ADD_KEYPTR_BYHASHVALUE_INORDER(hh, head, &((add)->fieldname), keylen_in, hashval, add, cmpfcn) + +#define HASH_ADD_INORDER(hh,head,fieldname,keylen_in,add,cmpfcn) \ + HASH_ADD_KEYPTR_INORDER(hh, head, &((add)->fieldname), keylen_in, add, cmpfcn) + +#define HASH_ADD_KEYPTR_BYHASHVALUE(hh,head,keyptr,keylen_in,hashval,add) \ +do { \ + IF_HASH_NONFATAL_OOM( int _ha_oomed = 0; ) \ + (add)->hh.hashv = (hashval); \ + (add)->hh.key = (char*) (keyptr); \ + (add)->hh.keylen = (unsigned) (keylen_in); \ + if (!(head)) { \ + (add)->hh.next = NULL; \ + (add)->hh.prev = NULL; \ + HASH_MAKE_TABLE(hh, add, _ha_oomed); \ + IF_HASH_NONFATAL_OOM( if (!_ha_oomed) { ) \ + (head) = (add); \ + IF_HASH_NONFATAL_OOM( } ) \ + } else { \ + (add)->hh.tbl = (head)->hh.tbl; \ + HASH_APPEND_LIST(hh, head, add); \ + } \ + HASH_ADD_TO_TABLE(hh, head, keyptr, keylen_in, hashval, add, _ha_oomed); \ + HASH_FSCK(hh, head, "HASH_ADD_KEYPTR_BYHASHVALUE"); \ +} while (0) + +#define HASH_ADD_KEYPTR(hh,head,keyptr,keylen_in,add) \ +do { \ + unsigned _ha_hashv; \ + HASH_VALUE(keyptr, keylen_in, _ha_hashv); \ + HASH_ADD_KEYPTR_BYHASHVALUE(hh, head, keyptr, keylen_in, _ha_hashv, add); \ +} while (0) + +#define HASH_ADD_BYHASHVALUE(hh,head,fieldname,keylen_in,hashval,add) \ + HASH_ADD_KEYPTR_BYHASHVALUE(hh, head, &((add)->fieldname), keylen_in, hashval, add) + +#define HASH_ADD(hh,head,fieldname,keylen_in,add) \ + HASH_ADD_KEYPTR(hh, head, &((add)->fieldname), keylen_in, add) + +#define HASH_TO_BKT(hashv,num_bkts,bkt) \ +do { \ + bkt = ((hashv) & ((num_bkts) - 1U)); \ +} while (0) + +/* delete "delptr" from the hash table. + * "the usual" patch-up process for the app-order doubly-linked-list. + * The use of _hd_hh_del below deserves special explanation. + * These used to be expressed using (delptr) but that led to a bug + * if someone used the same symbol for the head and deletee, like + * HASH_DELETE(hh,users,users); + * We want that to work, but by changing the head (users) below + * we were forfeiting our ability to further refer to the deletee (users) + * in the patch-up process. Solution: use scratch space to + * copy the deletee pointer, then the latter references are via that + * scratch pointer rather than through the repointed (users) symbol. + */ +#define HASH_DELETE(hh,head,delptr) \ + HASH_DELETE_HH(hh, head, &(delptr)->hh) + +#define HASH_DELETE_HH(hh,head,delptrhh) \ +do { \ + struct UT_hash_handle *_hd_hh_del = (delptrhh); \ + if ((_hd_hh_del->prev == NULL) && (_hd_hh_del->next == NULL)) { \ + HASH_BLOOM_FREE((head)->hh.tbl); \ + uthash_free((head)->hh.tbl->buckets, \ + (head)->hh.tbl->num_buckets * sizeof(struct UT_hash_bucket)); \ + uthash_free((head)->hh.tbl, sizeof(UT_hash_table)); \ + (head) = NULL; \ + } else { \ + unsigned _hd_bkt; \ + if (_hd_hh_del == (head)->hh.tbl->tail) { \ + (head)->hh.tbl->tail = HH_FROM_ELMT((head)->hh.tbl, _hd_hh_del->prev); \ + } \ + if (_hd_hh_del->prev != NULL) { \ + HH_FROM_ELMT((head)->hh.tbl, _hd_hh_del->prev)->next = _hd_hh_del->next; \ + } else { \ + DECLTYPE_ASSIGN(head, _hd_hh_del->next); \ + } \ + if (_hd_hh_del->next != NULL) { \ + HH_FROM_ELMT((head)->hh.tbl, _hd_hh_del->next)->prev = _hd_hh_del->prev; \ + } \ + HASH_TO_BKT(_hd_hh_del->hashv, (head)->hh.tbl->num_buckets, _hd_bkt); \ + HASH_DEL_IN_BKT((head)->hh.tbl->buckets[_hd_bkt], _hd_hh_del); \ + (head)->hh.tbl->num_items--; \ + } \ + HASH_FSCK(hh, head, "HASH_DELETE_HH"); \ +} while (0) + +/* convenience forms of HASH_FIND/HASH_ADD/HASH_DEL */ +#define HASH_FIND_STR(head,findstr,out) \ +do { \ + unsigned _uthash_hfstr_keylen = (unsigned)uthash_strlen(findstr); \ + HASH_FIND(hh, head, findstr, _uthash_hfstr_keylen, out); \ +} while (0) +#define HASH_ADD_STR(head,strfield,add) \ +do { \ + unsigned _uthash_hastr_keylen = (unsigned)uthash_strlen((add)->strfield); \ + HASH_ADD(hh, head, strfield[0], _uthash_hastr_keylen, add); \ +} while (0) +#define HASH_REPLACE_STR(head,strfield,add,replaced) \ +do { \ + unsigned _uthash_hrstr_keylen = (unsigned)uthash_strlen((add)->strfield); \ + HASH_REPLACE(hh, head, strfield[0], _uthash_hrstr_keylen, add, replaced); \ +} while (0) +#define HASH_FIND_INT(head,findint,out) \ + HASH_FIND(hh,head,findint,sizeof(int),out) +#define HASH_ADD_INT(head,intfield,add) \ + HASH_ADD(hh,head,intfield,sizeof(int),add) +#define HASH_REPLACE_INT(head,intfield,add,replaced) \ + HASH_REPLACE(hh,head,intfield,sizeof(int),add,replaced) +#define HASH_FIND_PTR(head,findptr,out) \ + HASH_FIND(hh,head,findptr,sizeof(void *),out) +#define HASH_ADD_PTR(head,ptrfield,add) \ + HASH_ADD(hh,head,ptrfield,sizeof(void *),add) +#define HASH_REPLACE_PTR(head,ptrfield,add,replaced) \ + HASH_REPLACE(hh,head,ptrfield,sizeof(void *),add,replaced) +#define HASH_DEL(head,delptr) \ + HASH_DELETE(hh,head,delptr) + +/* HASH_FSCK checks hash integrity on every add/delete when HASH_DEBUG is defined. + * This is for uthash developer only; it compiles away if HASH_DEBUG isn't defined. + */ +#ifdef HASH_DEBUG +#include /* fprintf, stderr */ +#define HASH_OOPS(...) do { fprintf(stderr, __VA_ARGS__); exit(-1); } while (0) +#define HASH_FSCK(hh,head,where) \ +do { \ + struct UT_hash_handle *_thh; \ + if (head) { \ + unsigned _bkt_i; \ + unsigned _count = 0; \ + char *_prev; \ + for (_bkt_i = 0; _bkt_i < (head)->hh.tbl->num_buckets; ++_bkt_i) { \ + unsigned _bkt_count = 0; \ + _thh = (head)->hh.tbl->buckets[_bkt_i].hh_head; \ + _prev = NULL; \ + while (_thh) { \ + if (_prev != (char*)(_thh->hh_prev)) { \ + HASH_OOPS("%s: invalid hh_prev %p, actual %p\n", \ + (where), (void*)_thh->hh_prev, (void*)_prev); \ + } \ + _bkt_count++; \ + _prev = (char*)(_thh); \ + _thh = _thh->hh_next; \ + } \ + _count += _bkt_count; \ + if ((head)->hh.tbl->buckets[_bkt_i].count != _bkt_count) { \ + HASH_OOPS("%s: invalid bucket count %u, actual %u\n", \ + (where), (head)->hh.tbl->buckets[_bkt_i].count, _bkt_count); \ + } \ + } \ + if (_count != (head)->hh.tbl->num_items) { \ + HASH_OOPS("%s: invalid hh item count %u, actual %u\n", \ + (where), (head)->hh.tbl->num_items, _count); \ + } \ + _count = 0; \ + _prev = NULL; \ + _thh = &(head)->hh; \ + while (_thh) { \ + _count++; \ + if (_prev != (char*)_thh->prev) { \ + HASH_OOPS("%s: invalid prev %p, actual %p\n", \ + (where), (void*)_thh->prev, (void*)_prev); \ + } \ + _prev = (char*)ELMT_FROM_HH((head)->hh.tbl, _thh); \ + _thh = (_thh->next ? HH_FROM_ELMT((head)->hh.tbl, _thh->next) : NULL); \ + } \ + if (_count != (head)->hh.tbl->num_items) { \ + HASH_OOPS("%s: invalid app item count %u, actual %u\n", \ + (where), (head)->hh.tbl->num_items, _count); \ + } \ + } \ +} while (0) +#else +#define HASH_FSCK(hh,head,where) +#endif + +/* When compiled with -DHASH_EMIT_KEYS, length-prefixed keys are emitted to + * the descriptor to which this macro is defined for tuning the hash function. + * The app can #include to get the prototype for write(2). */ +#ifdef HASH_EMIT_KEYS +#define HASH_EMIT_KEY(hh,head,keyptr,fieldlen) \ +do { \ + unsigned _klen = fieldlen; \ + write(HASH_EMIT_KEYS, &_klen, sizeof(_klen)); \ + write(HASH_EMIT_KEYS, keyptr, (unsigned long)fieldlen); \ +} while (0) +#else +#define HASH_EMIT_KEY(hh,head,keyptr,fieldlen) +#endif + +/* default to Jenkin's hash unless overridden e.g. DHASH_FUNCTION=HASH_SAX */ +#ifdef HASH_FUNCTION +#define HASH_FCN HASH_FUNCTION +#else +#define HASH_FCN HASH_JEN +#endif + +/* The Bernstein hash function, used in Perl prior to v5.6. Note (x<<5+x)=x*33. */ +#define HASH_BER(key,keylen,hashv) \ +do { \ + unsigned _hb_keylen = (unsigned)keylen; \ + const unsigned char *_hb_key = (const unsigned char*)(key); \ + (hashv) = 0; \ + while (_hb_keylen-- != 0U) { \ + (hashv) = (((hashv) << 5) + (hashv)) + *_hb_key++; \ + } \ +} while (0) + + +/* SAX/FNV/OAT/JEN hash functions are macro variants of those listed at + * http://eternallyconfuzzled.com/tuts/algorithms/jsw_tut_hashing.aspx */ +#define HASH_SAX(key,keylen,hashv) \ +do { \ + unsigned _sx_i; \ + const unsigned char *_hs_key = (const unsigned char*)(key); \ + hashv = 0; \ + for (_sx_i=0; _sx_i < keylen; _sx_i++) { \ + hashv ^= (hashv << 5) + (hashv >> 2) + _hs_key[_sx_i]; \ + } \ +} while (0) +/* FNV-1a variation */ +#define HASH_FNV(key,keylen,hashv) \ +do { \ + unsigned _fn_i; \ + const unsigned char *_hf_key = (const unsigned char*)(key); \ + (hashv) = 2166136261U; \ + for (_fn_i=0; _fn_i < keylen; _fn_i++) { \ + hashv = hashv ^ _hf_key[_fn_i]; \ + hashv = hashv * 16777619U; \ + } \ +} while (0) + +#define HASH_OAT(key,keylen,hashv) \ +do { \ + unsigned _ho_i; \ + const unsigned char *_ho_key=(const unsigned char*)(key); \ + hashv = 0; \ + for(_ho_i=0; _ho_i < keylen; _ho_i++) { \ + hashv += _ho_key[_ho_i]; \ + hashv += (hashv << 10); \ + hashv ^= (hashv >> 6); \ + } \ + hashv += (hashv << 3); \ + hashv ^= (hashv >> 11); \ + hashv += (hashv << 15); \ +} while (0) + +#define HASH_JEN_MIX(a,b,c) \ +do { \ + a -= b; a -= c; a ^= ( c >> 13 ); \ + b -= c; b -= a; b ^= ( a << 8 ); \ + c -= a; c -= b; c ^= ( b >> 13 ); \ + a -= b; a -= c; a ^= ( c >> 12 ); \ + b -= c; b -= a; b ^= ( a << 16 ); \ + c -= a; c -= b; c ^= ( b >> 5 ); \ + a -= b; a -= c; a ^= ( c >> 3 ); \ + b -= c; b -= a; b ^= ( a << 10 ); \ + c -= a; c -= b; c ^= ( b >> 15 ); \ +} while (0) + +#define HASH_JEN(key,keylen,hashv) \ +do { \ + unsigned _hj_i,_hj_j,_hj_k; \ + unsigned const char *_hj_key=(unsigned const char*)(key); \ + hashv = 0xfeedbeefu; \ + _hj_i = _hj_j = 0x9e3779b9u; \ + _hj_k = (unsigned)(keylen); \ + while (_hj_k >= 12U) { \ + _hj_i += (_hj_key[0] + ( (unsigned)_hj_key[1] << 8 ) \ + + ( (unsigned)_hj_key[2] << 16 ) \ + + ( (unsigned)_hj_key[3] << 24 ) ); \ + _hj_j += (_hj_key[4] + ( (unsigned)_hj_key[5] << 8 ) \ + + ( (unsigned)_hj_key[6] << 16 ) \ + + ( (unsigned)_hj_key[7] << 24 ) ); \ + hashv += (_hj_key[8] + ( (unsigned)_hj_key[9] << 8 ) \ + + ( (unsigned)_hj_key[10] << 16 ) \ + + ( (unsigned)_hj_key[11] << 24 ) ); \ + \ + HASH_JEN_MIX(_hj_i, _hj_j, hashv); \ + \ + _hj_key += 12; \ + _hj_k -= 12U; \ + } \ + hashv += (unsigned)(keylen); \ + switch ( _hj_k ) { \ + case 11: hashv += ( (unsigned)_hj_key[10] << 24 ); /* FALLTHROUGH */ \ + case 10: hashv += ( (unsigned)_hj_key[9] << 16 ); /* FALLTHROUGH */ \ + case 9: hashv += ( (unsigned)_hj_key[8] << 8 ); /* FALLTHROUGH */ \ + case 8: _hj_j += ( (unsigned)_hj_key[7] << 24 ); /* FALLTHROUGH */ \ + case 7: _hj_j += ( (unsigned)_hj_key[6] << 16 ); /* FALLTHROUGH */ \ + case 6: _hj_j += ( (unsigned)_hj_key[5] << 8 ); /* FALLTHROUGH */ \ + case 5: _hj_j += _hj_key[4]; /* FALLTHROUGH */ \ + case 4: _hj_i += ( (unsigned)_hj_key[3] << 24 ); /* FALLTHROUGH */ \ + case 3: _hj_i += ( (unsigned)_hj_key[2] << 16 ); /* FALLTHROUGH */ \ + case 2: _hj_i += ( (unsigned)_hj_key[1] << 8 ); /* FALLTHROUGH */ \ + case 1: _hj_i += _hj_key[0]; \ + } \ + HASH_JEN_MIX(_hj_i, _hj_j, hashv); \ +} while (0) + +/* The Paul Hsieh hash function */ +#undef get16bits +#if (defined(__GNUC__) && defined(__i386__)) || defined(__WATCOMC__) \ + || defined(_MSC_VER) || defined (__BORLANDC__) || defined (__TURBOC__) +#define get16bits(d) (*((const uint16_t *) (d))) +#endif + +#if !defined (get16bits) +#define get16bits(d) ((((uint32_t)(((const uint8_t *)(d))[1])) << 8) \ + +(uint32_t)(((const uint8_t *)(d))[0]) ) +#endif +#define HASH_SFH(key,keylen,hashv) \ +do { \ + unsigned const char *_sfh_key=(unsigned const char*)(key); \ + uint32_t _sfh_tmp, _sfh_len = (uint32_t)keylen; \ + \ + unsigned _sfh_rem = _sfh_len & 3U; \ + _sfh_len >>= 2; \ + hashv = 0xcafebabeu; \ + \ + /* Main loop */ \ + for (;_sfh_len > 0U; _sfh_len--) { \ + hashv += get16bits (_sfh_key); \ + _sfh_tmp = ((uint32_t)(get16bits (_sfh_key+2)) << 11) ^ hashv; \ + hashv = (hashv << 16) ^ _sfh_tmp; \ + _sfh_key += 2U*sizeof (uint16_t); \ + hashv += hashv >> 11; \ + } \ + \ + /* Handle end cases */ \ + switch (_sfh_rem) { \ + case 3: hashv += get16bits (_sfh_key); \ + hashv ^= hashv << 16; \ + hashv ^= (uint32_t)(_sfh_key[sizeof (uint16_t)]) << 18; \ + hashv += hashv >> 11; \ + break; \ + case 2: hashv += get16bits (_sfh_key); \ + hashv ^= hashv << 11; \ + hashv += hashv >> 17; \ + break; \ + case 1: hashv += *_sfh_key; \ + hashv ^= hashv << 10; \ + hashv += hashv >> 1; \ + } \ + \ + /* Force "avalanching" of final 127 bits */ \ + hashv ^= hashv << 3; \ + hashv += hashv >> 5; \ + hashv ^= hashv << 4; \ + hashv += hashv >> 17; \ + hashv ^= hashv << 25; \ + hashv += hashv >> 6; \ +} while (0) + +/* iterate over items in a known bucket to find desired item */ +#define HASH_FIND_IN_BKT(tbl,hh,head,keyptr,keylen_in,hashval,out) \ +do { \ + if ((head).hh_head != NULL) { \ + DECLTYPE_ASSIGN(out, ELMT_FROM_HH(tbl, (head).hh_head)); \ + } else { \ + (out) = NULL; \ + } \ + while ((out) != NULL) { \ + if ((out)->hh.hashv == (hashval) && (out)->hh.keylen == (keylen_in)) { \ + if (HASH_KEYCMP((out)->hh.key, keyptr, keylen_in) == 0) { \ + break; \ + } \ + } \ + if ((out)->hh.hh_next != NULL) { \ + DECLTYPE_ASSIGN(out, ELMT_FROM_HH(tbl, (out)->hh.hh_next)); \ + } else { \ + (out) = NULL; \ + } \ + } \ +} while (0) + +/* add an item to a bucket */ +#define HASH_ADD_TO_BKT(head,hh,addhh,oomed) \ +do { \ + UT_hash_bucket *_ha_head = &(head); \ + _ha_head->count++; \ + (addhh)->hh_next = _ha_head->hh_head; \ + (addhh)->hh_prev = NULL; \ + if (_ha_head->hh_head != NULL) { \ + _ha_head->hh_head->hh_prev = (addhh); \ + } \ + _ha_head->hh_head = (addhh); \ + if ((_ha_head->count >= ((_ha_head->expand_mult + 1U) * HASH_BKT_CAPACITY_THRESH)) \ + && !(addhh)->tbl->noexpand) { \ + HASH_EXPAND_BUCKETS(addhh,(addhh)->tbl, oomed); \ + IF_HASH_NONFATAL_OOM( \ + if (oomed) { \ + HASH_DEL_IN_BKT(head,addhh); \ + } \ + ) \ + } \ +} while (0) + +/* remove an item from a given bucket */ +#define HASH_DEL_IN_BKT(head,delhh) \ +do { \ + UT_hash_bucket *_hd_head = &(head); \ + _hd_head->count--; \ + if (_hd_head->hh_head == (delhh)) { \ + _hd_head->hh_head = (delhh)->hh_next; \ + } \ + if ((delhh)->hh_prev) { \ + (delhh)->hh_prev->hh_next = (delhh)->hh_next; \ + } \ + if ((delhh)->hh_next) { \ + (delhh)->hh_next->hh_prev = (delhh)->hh_prev; \ + } \ +} while (0) + +/* Bucket expansion has the effect of doubling the number of buckets + * and redistributing the items into the new buckets. Ideally the + * items will distribute more or less evenly into the new buckets + * (the extent to which this is true is a measure of the quality of + * the hash function as it applies to the key domain). + * + * With the items distributed into more buckets, the chain length + * (item count) in each bucket is reduced. Thus by expanding buckets + * the hash keeps a bound on the chain length. This bounded chain + * length is the essence of how a hash provides constant time lookup. + * + * The calculation of tbl->ideal_chain_maxlen below deserves some + * explanation. First, keep in mind that we're calculating the ideal + * maximum chain length based on the *new* (doubled) bucket count. + * In fractions this is just n/b (n=number of items,b=new num buckets). + * Since the ideal chain length is an integer, we want to calculate + * ceil(n/b). We don't depend on floating point arithmetic in this + * hash, so to calculate ceil(n/b) with integers we could write + * + * ceil(n/b) = (n/b) + ((n%b)?1:0) + * + * and in fact a previous version of this hash did just that. + * But now we have improved things a bit by recognizing that b is + * always a power of two. We keep its base 2 log handy (call it lb), + * so now we can write this with a bit shift and logical AND: + * + * ceil(n/b) = (n>>lb) + ( (n & (b-1)) ? 1:0) + * + */ +#define HASH_EXPAND_BUCKETS(hh,tbl,oomed) \ +do { \ + unsigned _he_bkt; \ + unsigned _he_bkt_i; \ + struct UT_hash_handle *_he_thh, *_he_hh_nxt; \ + UT_hash_bucket *_he_new_buckets, *_he_newbkt; \ + _he_new_buckets = (UT_hash_bucket*)uthash_malloc( \ + 2UL * (tbl)->num_buckets * sizeof(struct UT_hash_bucket)); \ + if (!_he_new_buckets) { \ + HASH_RECORD_OOM(oomed); \ + } else { \ + uthash_bzero(_he_new_buckets, \ + 2UL * (tbl)->num_buckets * sizeof(struct UT_hash_bucket)); \ + (tbl)->ideal_chain_maxlen = \ + ((tbl)->num_items >> ((tbl)->log2_num_buckets+1U)) + \ + ((((tbl)->num_items & (((tbl)->num_buckets*2U)-1U)) != 0U) ? 1U : 0U); \ + (tbl)->nonideal_items = 0; \ + for (_he_bkt_i = 0; _he_bkt_i < (tbl)->num_buckets; _he_bkt_i++) { \ + _he_thh = (tbl)->buckets[ _he_bkt_i ].hh_head; \ + while (_he_thh != NULL) { \ + _he_hh_nxt = _he_thh->hh_next; \ + HASH_TO_BKT(_he_thh->hashv, (tbl)->num_buckets * 2U, _he_bkt); \ + _he_newbkt = &(_he_new_buckets[_he_bkt]); \ + if (++(_he_newbkt->count) > (tbl)->ideal_chain_maxlen) { \ + (tbl)->nonideal_items++; \ + if (_he_newbkt->count > _he_newbkt->expand_mult * (tbl)->ideal_chain_maxlen) { \ + _he_newbkt->expand_mult++; \ + } \ + } \ + _he_thh->hh_prev = NULL; \ + _he_thh->hh_next = _he_newbkt->hh_head; \ + if (_he_newbkt->hh_head != NULL) { \ + _he_newbkt->hh_head->hh_prev = _he_thh; \ + } \ + _he_newbkt->hh_head = _he_thh; \ + _he_thh = _he_hh_nxt; \ + } \ + } \ + uthash_free((tbl)->buckets, (tbl)->num_buckets * sizeof(struct UT_hash_bucket)); \ + (tbl)->num_buckets *= 2U; \ + (tbl)->log2_num_buckets++; \ + (tbl)->buckets = _he_new_buckets; \ + (tbl)->ineff_expands = ((tbl)->nonideal_items > ((tbl)->num_items >> 1)) ? \ + ((tbl)->ineff_expands+1U) : 0U; \ + if ((tbl)->ineff_expands > 1U) { \ + (tbl)->noexpand = 1; \ + uthash_noexpand_fyi(tbl); \ + } \ + uthash_expand_fyi(tbl); \ + } \ +} while (0) + + +/* This is an adaptation of Simon Tatham's O(n log(n)) mergesort */ +/* Note that HASH_SORT assumes the hash handle name to be hh. + * HASH_SRT was added to allow the hash handle name to be passed in. */ +#define HASH_SORT(head,cmpfcn) HASH_SRT(hh,head,cmpfcn) +#define HASH_SRT(hh,head,cmpfcn) \ +do { \ + unsigned _hs_i; \ + unsigned _hs_looping,_hs_nmerges,_hs_insize,_hs_psize,_hs_qsize; \ + struct UT_hash_handle *_hs_p, *_hs_q, *_hs_e, *_hs_list, *_hs_tail; \ + if (head != NULL) { \ + _hs_insize = 1; \ + _hs_looping = 1; \ + _hs_list = &((head)->hh); \ + while (_hs_looping != 0U) { \ + _hs_p = _hs_list; \ + _hs_list = NULL; \ + _hs_tail = NULL; \ + _hs_nmerges = 0; \ + while (_hs_p != NULL) { \ + _hs_nmerges++; \ + _hs_q = _hs_p; \ + _hs_psize = 0; \ + for (_hs_i = 0; _hs_i < _hs_insize; ++_hs_i) { \ + _hs_psize++; \ + _hs_q = ((_hs_q->next != NULL) ? \ + HH_FROM_ELMT((head)->hh.tbl, _hs_q->next) : NULL); \ + if (_hs_q == NULL) { \ + break; \ + } \ + } \ + _hs_qsize = _hs_insize; \ + while ((_hs_psize != 0U) || ((_hs_qsize != 0U) && (_hs_q != NULL))) { \ + if (_hs_psize == 0U) { \ + _hs_e = _hs_q; \ + _hs_q = ((_hs_q->next != NULL) ? \ + HH_FROM_ELMT((head)->hh.tbl, _hs_q->next) : NULL); \ + _hs_qsize--; \ + } else if ((_hs_qsize == 0U) || (_hs_q == NULL)) { \ + _hs_e = _hs_p; \ + if (_hs_p != NULL) { \ + _hs_p = ((_hs_p->next != NULL) ? \ + HH_FROM_ELMT((head)->hh.tbl, _hs_p->next) : NULL); \ + } \ + _hs_psize--; \ + } else if ((cmpfcn( \ + DECLTYPE(head)(ELMT_FROM_HH((head)->hh.tbl, _hs_p)), \ + DECLTYPE(head)(ELMT_FROM_HH((head)->hh.tbl, _hs_q)) \ + )) <= 0) { \ + _hs_e = _hs_p; \ + if (_hs_p != NULL) { \ + _hs_p = ((_hs_p->next != NULL) ? \ + HH_FROM_ELMT((head)->hh.tbl, _hs_p->next) : NULL); \ + } \ + _hs_psize--; \ + } else { \ + _hs_e = _hs_q; \ + _hs_q = ((_hs_q->next != NULL) ? \ + HH_FROM_ELMT((head)->hh.tbl, _hs_q->next) : NULL); \ + _hs_qsize--; \ + } \ + if ( _hs_tail != NULL ) { \ + _hs_tail->next = ((_hs_e != NULL) ? \ + ELMT_FROM_HH((head)->hh.tbl, _hs_e) : NULL); \ + } else { \ + _hs_list = _hs_e; \ + } \ + if (_hs_e != NULL) { \ + _hs_e->prev = ((_hs_tail != NULL) ? \ + ELMT_FROM_HH((head)->hh.tbl, _hs_tail) : NULL); \ + } \ + _hs_tail = _hs_e; \ + } \ + _hs_p = _hs_q; \ + } \ + if (_hs_tail != NULL) { \ + _hs_tail->next = NULL; \ + } \ + if (_hs_nmerges <= 1U) { \ + _hs_looping = 0; \ + (head)->hh.tbl->tail = _hs_tail; \ + DECLTYPE_ASSIGN(head, ELMT_FROM_HH((head)->hh.tbl, _hs_list)); \ + } \ + _hs_insize *= 2U; \ + } \ + HASH_FSCK(hh, head, "HASH_SRT"); \ + } \ +} while (0) + +/* This function selects items from one hash into another hash. + * The end result is that the selected items have dual presence + * in both hashes. There is no copy of the items made; rather + * they are added into the new hash through a secondary hash + * hash handle that must be present in the structure. */ +#define HASH_SELECT(hh_dst, dst, hh_src, src, cond) \ +do { \ + unsigned _src_bkt, _dst_bkt; \ + void *_last_elt = NULL, *_elt; \ + UT_hash_handle *_src_hh, *_dst_hh, *_last_elt_hh=NULL; \ + ptrdiff_t _dst_hho = ((char*)(&(dst)->hh_dst) - (char*)(dst)); \ + if ((src) != NULL) { \ + for (_src_bkt=0; _src_bkt < (src)->hh_src.tbl->num_buckets; _src_bkt++) { \ + for (_src_hh = (src)->hh_src.tbl->buckets[_src_bkt].hh_head; \ + _src_hh != NULL; \ + _src_hh = _src_hh->hh_next) { \ + _elt = ELMT_FROM_HH((src)->hh_src.tbl, _src_hh); \ + if (cond(_elt)) { \ + IF_HASH_NONFATAL_OOM( int _hs_oomed = 0; ) \ + _dst_hh = (UT_hash_handle*)(void*)(((char*)_elt) + _dst_hho); \ + _dst_hh->key = _src_hh->key; \ + _dst_hh->keylen = _src_hh->keylen; \ + _dst_hh->hashv = _src_hh->hashv; \ + _dst_hh->prev = _last_elt; \ + _dst_hh->next = NULL; \ + if (_last_elt_hh != NULL) { \ + _last_elt_hh->next = _elt; \ + } \ + if ((dst) == NULL) { \ + DECLTYPE_ASSIGN(dst, _elt); \ + HASH_MAKE_TABLE(hh_dst, dst, _hs_oomed); \ + IF_HASH_NONFATAL_OOM( \ + if (_hs_oomed) { \ + uthash_nonfatal_oom(_elt); \ + (dst) = NULL; \ + continue; \ + } \ + ) \ + } else { \ + _dst_hh->tbl = (dst)->hh_dst.tbl; \ + } \ + HASH_TO_BKT(_dst_hh->hashv, _dst_hh->tbl->num_buckets, _dst_bkt); \ + HASH_ADD_TO_BKT(_dst_hh->tbl->buckets[_dst_bkt], hh_dst, _dst_hh, _hs_oomed); \ + (dst)->hh_dst.tbl->num_items++; \ + IF_HASH_NONFATAL_OOM( \ + if (_hs_oomed) { \ + HASH_ROLLBACK_BKT(hh_dst, dst, _dst_hh); \ + HASH_DELETE_HH(hh_dst, dst, _dst_hh); \ + _dst_hh->tbl = NULL; \ + uthash_nonfatal_oom(_elt); \ + continue; \ + } \ + ) \ + HASH_BLOOM_ADD(_dst_hh->tbl, _dst_hh->hashv); \ + _last_elt = _elt; \ + _last_elt_hh = _dst_hh; \ + } \ + } \ + } \ + } \ + HASH_FSCK(hh_dst, dst, "HASH_SELECT"); \ +} while (0) + +#define HASH_CLEAR(hh,head) \ +do { \ + if ((head) != NULL) { \ + HASH_BLOOM_FREE((head)->hh.tbl); \ + uthash_free((head)->hh.tbl->buckets, \ + (head)->hh.tbl->num_buckets*sizeof(struct UT_hash_bucket)); \ + uthash_free((head)->hh.tbl, sizeof(UT_hash_table)); \ + (head) = NULL; \ + } \ +} while (0) + +#define HASH_OVERHEAD(hh,head) \ + (((head) != NULL) ? ( \ + (size_t)(((head)->hh.tbl->num_items * sizeof(UT_hash_handle)) + \ + ((head)->hh.tbl->num_buckets * sizeof(UT_hash_bucket)) + \ + sizeof(UT_hash_table) + \ + (HASH_BLOOM_BYTELEN))) : 0U) + +#ifdef NO_DECLTYPE +#define HASH_ITER(hh,head,el,tmp) \ +for(((el)=(head)), ((*(char**)(&(tmp)))=(char*)((head!=NULL)?(head)->hh.next:NULL)); \ + (el) != NULL; ((el)=(tmp)), ((*(char**)(&(tmp)))=(char*)((tmp!=NULL)?(tmp)->hh.next:NULL))) +#else +#define HASH_ITER(hh,head,el,tmp) \ +for(((el)=(head)), ((tmp)=DECLTYPE(el)((head!=NULL)?(head)->hh.next:NULL)); \ + (el) != NULL; ((el)=(tmp)), ((tmp)=DECLTYPE(el)((tmp!=NULL)?(tmp)->hh.next:NULL))) +#endif + +/* obtain a count of items in the hash */ +#define HASH_COUNT(head) HASH_CNT(hh,head) +#define HASH_CNT(hh,head) ((head != NULL)?((head)->hh.tbl->num_items):0U) + +typedef struct UT_hash_bucket { + struct UT_hash_handle *hh_head; + unsigned count; + + /* expand_mult is normally set to 0. In this situation, the max chain length + * threshold is enforced at its default value, HASH_BKT_CAPACITY_THRESH. (If + * the bucket's chain exceeds this length, bucket expansion is triggered). + * However, setting expand_mult to a non-zero value delays bucket expansion + * (that would be triggered by additions to this particular bucket) + * until its chain length reaches a *multiple* of HASH_BKT_CAPACITY_THRESH. + * (The multiplier is simply expand_mult+1). The whole idea of this + * multiplier is to reduce bucket expansions, since they are expensive, in + * situations where we know that a particular bucket tends to be overused. + * It is better to let its chain length grow to a longer yet-still-bounded + * value, than to do an O(n) bucket expansion too often. + */ + unsigned expand_mult; + +} UT_hash_bucket; + +/* random signature used only to find hash tables in external analysis */ +#define HASH_SIGNATURE 0xa0111fe1u +#define HASH_BLOOM_SIGNATURE 0xb12220f2u + +typedef struct UT_hash_table { + UT_hash_bucket *buckets; + unsigned num_buckets, log2_num_buckets; + unsigned num_items; + struct UT_hash_handle *tail; /* tail hh in app order, for fast append */ + ptrdiff_t hho; /* hash handle offset (byte pos of hash handle in element */ + + /* in an ideal situation (all buckets used equally), no bucket would have + * more than ceil(#items/#buckets) items. that's the ideal chain length. */ + unsigned ideal_chain_maxlen; + + /* nonideal_items is the number of items in the hash whose chain position + * exceeds the ideal chain maxlen. these items pay the penalty for an uneven + * hash distribution; reaching them in a chain traversal takes >ideal steps */ + unsigned nonideal_items; + + /* ineffective expands occur when a bucket doubling was performed, but + * afterward, more than half the items in the hash had nonideal chain + * positions. If this happens on two consecutive expansions we inhibit any + * further expansion, as it's not helping; this happens when the hash + * function isn't a good fit for the key domain. When expansion is inhibited + * the hash will still work, albeit no longer in constant time. */ + unsigned ineff_expands, noexpand; + + uint32_t signature; /* used only to find hash tables in external analysis */ +#ifdef HASH_BLOOM + uint32_t bloom_sig; /* used only to test bloom exists in external analysis */ + uint8_t *bloom_bv; + uint8_t bloom_nbits; +#endif + +} UT_hash_table; + +typedef struct UT_hash_handle { + struct UT_hash_table *tbl; + void *prev; /* prev element in app order */ + void *next; /* next element in app order */ + struct UT_hash_handle *hh_prev; /* previous hh in bucket order */ + struct UT_hash_handle *hh_next; /* next hh in bucket order */ + void *key; /* ptr to enclosing struct's key */ + unsigned keylen; /* enclosing struct's key len */ + unsigned hashv; /* result of hash-fcn(key) */ +} UT_hash_handle; + +#endif /* UTHASH_H */ diff --git a/src/indexamajig.c b/src/indexamajig.c index a03955ba..bfeb2960 100644 --- a/src/indexamajig.c +++ b/src/indexamajig.c @@ -848,7 +848,7 @@ int main(int argc, char *argv[]) ERROR("Failed to open input file '%s'\n", args.filename); return 1; } - free(args.filename); + /* Check prefix (if given) */ if ( args.check_prefix ) { @@ -1007,7 +1007,11 @@ int main(int argc, char *argv[]) taketwo_opts, xgandalf_opts, pinkindexer_opts, - felix_opts); + felix_opts, + args.filename); + + free(args.filename); + if ( args.iargs.ipriv == NULL ) { ERROR("Failed to set up indexing system\n"); return 1; -- cgit v1.2.3