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https://github.com/Unidata/netcdf-c/issues/1168 https://github.com/Unidata/netcdf-c/issues/1163 https://github.com/Unidata/netcdf-c/issues/1162 This PR partially fixes memory leaks in the netcdf-c library, in the ncdump utility, and in some test cases. The netcdf-c library now runs memory clean with the assumption that the --disable-utilities option is used. The primary remaining problem is ncgen. Once that is fixed, I believe the netcdf-c library will run memory clean with no limitations. Notes ----------- 1. Memory checking was performed using gcc -fsanitize=address. Valgrind-based testing has yet to be performed. 2. The pnetcdf, hdf4, and examples code has not been tested. Misc. Non-leak changes 1. Make tst_diskless2 only run when netcdf4 is enabled (issue 1162) 2. Fix CmakeLists.txt to turn off logging if ENABLE_NETCDF_4 is OFF 3. Isolated all my debug scripts into a single top-level directory called debug 4. Fix some USE_NETCDF4 dependencies in nc_test and nc_test4 Makefile.am
532 lines
24 KiB
C
532 lines
24 KiB
C
/*
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Test part variable fetch code
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*/
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#include <stdlib.h>
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#include <stdio.h>
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#include <string.h>
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#include "netcdf.h"
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#include "ncdispatch.h"
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#include "nctestserver.h"
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/* The DDS in netcdf classic form is as follows:
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netcdf ingrid {
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dimensions:
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ISTA = 35 ;
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IZ = 44 ;
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variables:
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int ISTA(ISTA) ;
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float IZ(IZ) ;
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float v3H(ISTA, IZ) ;
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}
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*/
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#define PARAMS ""
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#define DTSTEST "/ingrid"
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#define VAR "v3H"
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#define ISTA 35
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#define IZ 44
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#define RANK 2
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/* Define the delta for float equality */
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#define DELTA 0.005
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#define ERRCODE 2
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#define ERR(e) {printf("Error: %s\n", nc_strerror(e)); exit(ERRCODE);}
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#undef DEBUG
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/* Setup an odometer */
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typedef struct Odom {
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int rank;
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size_t* index;
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size_t* stop;
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size_t* start;
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size_t* count;
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} Odom;
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#if 0
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static float targetwhole[ISTA*IZ];
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#endif
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static float targetpart[ISTA*IZ];
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static float target_content[ISTA*IZ];
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static Odom* odom_create(int rank);
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static void odom_reclaim(Odom* odom);
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static void odom_set(Odom* odom, size_t* start, size_t* count);
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static int odom_more(Odom* odom);
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static int odom_incr(Odom* odom);
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static size_t odom_count(Odom* odom);
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static size_t subslice(int rank, size_t* count, int startdim);
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static int check(float*, size_t* start, size_t* count);
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/* Define whole variable start/count */
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static size_t start0[RANK] = {0,0};
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static size_t count0[RANK] = {ISTA,IZ};
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static int
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floateq(float f1, float f2)
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{
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float diff = f1 - f2;
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if(diff >= 0 && diff < DELTA) return 1;
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if(diff < 0 && diff > -DELTA) return 1;
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return 0;
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}
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void dump(float* source, size_t start, size_t count)
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{
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#ifdef DEBUG
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int i;
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printf("start=%lu count=%lu\n",(unsigned long)start,(unsigned long)count);
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for(i=0;i<count;i++) {
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printf(" %g",source[start+i]);
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if((i % 6) == 5) printf("\n");
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}
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printf("\n");
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#endif
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}
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int
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main()
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{
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int ncid, varid;
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int retval;
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size_t start[RANK];
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size_t count[RANK];
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size_t offset;
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char url[4096];
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char* svc = NULL;
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/* Find Test Server */
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svc = nc_findtestserver("dts",0,REMOTETESTSERVERS);
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if(svc == NULL) {
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fprintf(stderr,"Cannot locate test server\n");
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exit(0);
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}
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strncpy(url,PARAMS,sizeof(url));
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strlcat(url,svc,sizeof(url));
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strlcat(url,DTSTEST,sizeof(url));
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free(svc);
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printf("test_partvar: url=%s\n",url);
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if((retval = nc_open(url, NC_NOWRITE, &ncid)))
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ERR(retval);
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if((retval = nc_inq_varid(ncid, VAR, &varid)))
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ERR(retval);
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/* read piece by piece */
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memcpy(start,start0,sizeof(start0));
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memcpy(count,count0,sizeof(count0));
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count[0] = 1;
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memset((void*)targetpart,0,sizeof(targetpart));
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for(offset=0;start[0] < count0[0];start[0]++) {
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size_t nslice;
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float* fpos = (float*)targetpart;
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fpos += offset;
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if((retval = nc_get_vara_float(ncid,varid,start,count,fpos)))
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ERR(retval);
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nslice = subslice(RANK,count,1);
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offset += nslice;
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}
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#ifdef DEBUG
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dump((float*)targetpart,0,ISTA*IZ);
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#endif
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/* validate the part var */
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if(!check(targetpart,start0,count0)) goto fail;
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if((retval = nc_close(ncid)))
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ERR(retval);
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printf("*** PASS\n");
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return 0;
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fail:
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printf("*** FAIL\n");
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return 1;
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}
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static size_t
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subslice(int rank, size_t* count, int startdim)
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{
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int i;
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size_t offset = 1;
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for(i=startdim;i<rank;i++)
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offset *= count[i];
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return offset;
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}
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static int
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check(float* target, size_t* start, size_t* count)
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{
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int ok = 1;
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Odom* odom = odom_create(RANK);
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float* result = (float*)target;
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float* expected = (float*)target_content;
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odom_set(odom,start,count);
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while(odom_more(odom)) {
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size_t offset = odom_count(odom);
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int eq = floateq(result[offset],expected[offset]);
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if(eq == 0) {
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fprintf(stderr,"fail: result[%lu] = %f ; expected[%lu] = %f\n",
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(unsigned long)offset,result[offset],(unsigned long)offset,expected[offset]);
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ok=0;
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}
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odom_incr(odom);
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}
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odom_reclaim(odom);
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return ok;
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}
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static Odom*
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odom_create(int rank)
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{
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Odom* odom = (Odom*)malloc(sizeof(Odom));
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/* Init the odometer */
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odom->rank = rank;
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odom->index = (size_t*)calloc(sizeof(size_t)*rank,1);
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odom->stop = (size_t*)calloc(sizeof(size_t)*rank,1);
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odom->start = (size_t*)calloc(sizeof(size_t)*rank,1);
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odom->count = (size_t*)calloc(sizeof(size_t)*rank,1);
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return odom;
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}
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static void
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odom_reclaim(Odom* odom)
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{
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free(odom->index);
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free(odom->stop);
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free(odom->start);
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free(odom->count);
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free(odom);
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}
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static void
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odom_set(Odom* odom, size_t* start, size_t* count)
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{
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int i;
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/* Init the odometer */
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for(i=0;i<odom->rank;i++) {
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odom->start[i] = start[i];
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odom->count[i] = count[i];
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}
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for(i=0;i<odom->rank;i++) {
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odom->index[i] = odom->start[i];
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odom->stop[i] = odom->start[i] + odom->count[i];
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}
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}
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static int
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odom_more(Odom* odom)
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{
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return (odom->index[0] < odom->stop[0]?1:0);
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}
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static int
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odom_incr(Odom* odom)
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{
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int i; /* do not make unsigned */
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if(odom->rank == 0) return 0;
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for(i=odom->rank-1;i>=0;i--) {
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odom->index[i]++;
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if(odom->index[i] < odom->stop[i]) break;
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if(i == 0) return 0; /* leave the 0th entry if it overflows*/
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odom->index[i] = odom->start[i]; /* reset this position*/
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}
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return 1;
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}
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/* Convert current dapodometer settings to a single integer count*/
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static size_t
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odom_count(Odom* odom)
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{
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int i;
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size_t offset = 0;
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for(i=0;i<odom->rank;i++) {
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offset *= odom->count[i];
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offset += odom->index[i];
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}
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return offset;
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}
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/* Capture the complete set of data */
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static float target_content[ISTA*IZ] = {
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0, 0.009999833, 0.01999867, 0.0299955, 0.03998933, 0.04997917, 0.059964,
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0.06994285, 0.0799147, 0.08987855, 0.09983341, 0.1097783, 0.1197122,
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0.1296341, 0.1395431, 0.1494381, 0.1593182, 0.1691823, 0.1790296,
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0.1888589, 0.1986693, 0.2084599, 0.2182296, 0.2279775, 0.2377026,
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0.247404, 0.2570806, 0.2667314, 0.2763557, 0.2859522, 0.2955202,
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0.3050586, 0.3145666, 0.324043, 0.3334871, 0.3428978, 0.3522742,
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0.3616154, 0.3709205, 0.3801884, 0.3894183, 0.3986093, 0.4077604,
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0.4168708,
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0.4259395, 0.4349655, 0.4439481, 0.4528863, 0.4617792, 0.4706259,
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0.4794255, 0.4881772, 0.4968801, 0.5055333, 0.514136, 0.5226873,
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0.5311862, 0.539632, 0.5480239, 0.556361, 0.5646425, 0.5728675,
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0.5810351, 0.5891448, 0.5971954, 0.6051864, 0.6131169, 0.620986,
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0.628793, 0.6365372, 0.6442177, 0.6518338, 0.6593847, 0.6668696,
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0.6742879, 0.6816388, 0.6889215, 0.6961352, 0.7032794, 0.7103533,
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0.7173561, 0.7242872, 0.7311459, 0.7379314, 0.7446431, 0.7512804,
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0.7578425, 0.764329,
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0.7707389, 0.7770718, 0.7833269, 0.7895038, 0.7956016, 0.8016199,
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0.8075581, 0.8134155, 0.8191916, 0.8248857, 0.8304974, 0.836026,
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0.841471, 0.8468319, 0.852108, 0.857299, 0.8624042, 0.8674232, 0.8723555,
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0.8772005, 0.8819578, 0.8866269, 0.8912073, 0.8956987, 0.9001005,
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0.9044122, 0.9086335, 0.912764, 0.9168031, 0.9207506, 0.924606, 0.928369,
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0.9320391, 0.935616, 0.9390994, 0.9424888, 0.945784, 0.9489846,
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0.9520903, 0.9551008, 0.9580159, 0.960835, 0.9635582, 0.966185,
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0.9687151, 0.9711484, 0.9734845, 0.9757234, 0.9778646, 0.979908, 0.9818535,
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0.9837008, 0.9854497, 0.9871001, 0.9886518, 0.9901046, 0.9914584,
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0.992713, 0.9938684, 0.9949244, 0.9958808, 0.9967378, 0.997495,
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0.9981525, 0.9987102, 0.9991679, 0.9995258, 0.9997838, 0.9999417,
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0.9999997, 0.9999576, 0.9998156, 0.9995736, 0.9992316, 0.9987897,
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0.998248, 0.9976064, 0.996865, 0.996024, 0.9950833, 0.9940432, 0.9929036,
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0.9916648, 0.9903268, 0.9888898, 0.9873539, 0.9857192, 0.983986,
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0.9821543, 0.9802245, 0.9781966, 0.9760709, 0.9738476, 0.971527, 0.9691091,
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0.9665944, 0.963983, 0.9612752, 0.9584713, 0.9555715, 0.9525762,
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0.9494856, 0.9463001, 0.9430199, 0.9396455, 0.9361771, 0.932615,
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0.9289597, 0.9252115, 0.9213708, 0.917438, 0.9134133, 0.9092974,
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0.9050906, 0.9007932, 0.8964058, 0.8919287, 0.8873624, 0.8827074,
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0.8779641, 0.873133, 0.8682146, 0.8632094, 0.8581178, 0.8529405,
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0.8476778, 0.8423305, 0.8368988, 0.8313835, 0.825785, 0.8201039, 0.8143409,
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0.8084964, 0.8025711, 0.7965655, 0.7904802, 0.7843159, 0.7780732,
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0.7717527, 0.7653549, 0.7588807, 0.7523306, 0.7457052, 0.7390053,
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0.7322314, 0.7253844, 0.7184648, 0.7114733, 0.7044108, 0.6972777,
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0.690075, 0.6828032, 0.6754632, 0.6680556, 0.6605812, 0.6530408,
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0.645435, 0.6377647, 0.6300306, 0.6222336, 0.6143743, 0.6064535,
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0.5984721, 0.5904309, 0.5823306, 0.5741721, 0.5659562, 0.5576837,
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0.5493554, 0.5409722, 0.5325349, 0.5240443, 0.5155014, 0.5069069,
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0.4982616, 0.4895666,
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0.4808226, 0.4720306, 0.4631913, 0.4543057, 0.4453746, 0.4363991,
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0.4273799, 0.4183179, 0.4092142, 0.4000695, 0.3908848, 0.381661,
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0.372399, 0.3630998, 0.3537644, 0.3443935, 0.3349881, 0.3255493,
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0.316078, 0.306575, 0.2970414, 0.287478, 0.2778859, 0.2682661, 0.2586193,
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0.2489468, 0.2392493, 0.229528, 0.2197836, 0.2100173, 0.20023, 0.1904227,
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0.1805963, 0.1707518, 0.1608903, 0.1510127, 0.14112, 0.1312132,
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0.1212933, 0.1113612, 0.101418, 0.09146464, 0.08150215, 0.07153151,
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0.06155372, 0.05156977, 0.04158066, 0.0315874, 0.02159098, 0.01159239,
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0.001592653, -0.008407247, -0.01840631, -0.02840353, -0.0383979,
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-0.04838844, -0.05837414, -0.068354, -0.07832703, -0.08829223,
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-0.09824859, -0.1081951, -0.1181309, -0.1280548, -0.1379659, -0.1478632,
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-0.1577457, -0.1676124, -0.1774624, -0.1872947, -0.1971082, -0.206902,
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-0.2166751, -0.2264265, -0.2361553, -0.2458605, -0.2555411, -0.2651961,
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-0.2748247, -0.2844257, -0.2939983, -0.3035415, -0.3130544, -0.3225359,
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-0.3319852, -0.3414013, -0.3507832, -0.3601301,
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-0.369441, -0.3787149, -0.3879509, -0.3971482, -0.4063057, -0.4154226,
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-0.424498, -0.4335309, -0.4425204, -0.4514658, -0.4603659, -0.46922,
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-0.4780273, -0.4867867, -0.4954974, -0.5041586, -0.5127693, -0.5213288,
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-0.5298361, -0.5382905, -0.5466911, -0.5550369, -0.5633273, -0.5715613,
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-0.5797382, -0.5878571, -0.5959172, -0.6039178, -0.6118579, -0.6197369,
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-0.6275538, -0.635308, -0.6429988, -0.6506251, -0.6581865, -0.665682,
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-0.673111, -0.6804726, -0.6877661, -0.694991, -0.7021463, -0.7092314,
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-0.7162456, -0.7231881,
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-0.7300584, -0.7368556, -0.7435791, -0.7502283, -0.7568025, -0.763301,
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-0.7697231, -0.7760683, -0.7823359, -0.7885253, -0.7946358, -0.8006668,
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-0.8066177, -0.8124881, -0.8182771, -0.8239843, -0.8296092, -0.835151,
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-0.8406094, -0.8459837, -0.8512734, -0.856478, -0.8615969, -0.8666297,
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-0.8715758, -0.8764347, -0.881206, -0.8858892, -0.8904838, -0.8949894,
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-0.8994054, -0.9037315, -0.9079673, -0.9121122, -0.9161659, -0.920128,
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-0.9239982, -0.9277759, -0.9314608, -0.9350526, -0.9385508, -0.9419553,
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-0.9452655, -0.9484812,
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-0.9516021, -0.9546278, -0.957558, -0.9603925, -0.963131, -0.965773,
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-0.9683186, -0.9707673, -0.973119, -0.9753733, -0.9775301, -0.9795892,
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-0.9815503, -0.9834132, -0.9851778, -0.9868439, -0.9884112, -0.9898798,
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-0.9912494, -0.9925198, -0.993691, -0.9947628, -0.9957352, -0.996608,
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-0.9973811, -0.9980544, -0.998628, -0.9991017, -0.9994755, -0.9997494,
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-0.9999232, -0.9999971, -0.999971, -0.9998449, -0.9996188, -0.9992928,
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-0.9988668, -0.998341, -0.9977152, -0.9969898, -0.9961646, -0.9952399,
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-0.9942155, -0.9930918,
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-0.9918687, -0.9905465, -0.9891253, -0.9876051, -0.9859861, -0.9842686,
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-0.9824526, -0.9805384, -0.9785261, -0.976416, -0.9742082, -0.9719031,
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-0.9695007, -0.9670014, -0.9644054, -0.9617129, -0.9589243, -0.9560397,
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-0.9530596, -0.9499842, -0.9468138, -0.9435487, -0.9401892, -0.9367357,
|
|
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