[GRASS-dev] Aborted (core dumped), during v.build

Pietro Zambelli peter.zamb at gmail.com
Fri Nov 29 02:20:16 PST 2013


Hi Martin,

On Friday 29 Nov 2013 09:30:10 Martin wrote:
> > I did, actually, so should be something else I guess...
> 
> please could you provide more detailed info using gdb [1] ?

ok, I attached the gdb result... I try also with valgrind but didn't work it 
terminated with this odd message:

==2885== 
==2885==     Valgrind's memory management: out of memory:
==2885==        memcheck:allocate new SecMap's request for 16384 bytes failed.
==2885==        6948536320 bytes have already been allocated.
==2885==     Valgrind cannot continue.  Sorry.
==2885== 
==2885==     There are several possible reasons for this.
==2885==     - You have some kind of memory limit in place.  Look at the
==2885==       output of 'ulimit -a'.  Is there a limit on the size of
==2885==       virtual memory or address space?
==2885==     - You have run out of swap space.
==2885==     - Valgrind has a bug.  
[cut]
==2885== 
==2885==     Whatever the reason, Valgrind cannot continue.  Sorry.

this is the result of:

$ ulimit -a
core file size          (blocks, -c) 0
data seg size           (kbytes, -d) unlimited
scheduling priority             (-e) 30
file size               (blocks, -f) unlimited
pending signals                 (-i) 192592
max locked memory       (kbytes, -l) unlimited
max memory size         (kbytes, -m) unlimited
open files                      (-n) 1024
pipe size            (512 bytes, -p) 8
POSIX message queues     (bytes, -q) 819200
real-time priority              (-r) 99
stack size              (kbytes, -s) 8192
cpu time               (seconds, -t) unlimited
max user processes              (-u) 192592
virtual memory          (kbytes, -v) unlimited
file locks                      (-x) unlimited

That it seems ok to me.

The current machine, that I'm using for testing, has 24Gb of ram and 8 Gb of 
swap, when I was using valgrind the consume of memory was under 6 Gb, rather 
than using gdb was around 12Gb.

However, I reduced the number of segments increasing the minsize variable of 
the i.segment module and it works:

G70> r.to.vect --o --v input=seg_0.05_final_64 at pietro output=seg005_64 
type=area
Using native format
Extracting areas...
 100%
Writing areas...
 100%
Building topology for vector map <seg005_64 at pietro>...
Registering primitives...
10552849 primitives registered
140744636 vertices registered
Building areas...
 100%
2774561 areas built
125253 isles built
Attaching islands...
 100%
Attaching centroids...
 100%
Topology was built
Number of nodes: 5128980
Number of primitives: 10552849
Number of points: 0
Number of lines: 0
Number of boundaries: 7778288
Number of centroids: 2774561
Number of areas: 2774561
Number of isles: 125253
r.to.vect complete.

So maybe it is the high number of primitives that crash the module.
Do you see any other reason from the gdb backtrace?

thank you for the help

Pietro
-------------- next part --------------
G70> gdb `which v.build`




(gdb) run map=seg005
[cut]
D1/2: Vect_Rewind(): name = seg005 level = 1
D1/2: Vect_open_sidx(): name = seg005 mapset= pietro mode = new
D1/2: Memory based spatial index
D2/2: dig_cidx_free()
D1/2: Vect_Rewind(): name = seg005 level = 1
Building areas...
Unexpected error.

Program received signal SIGABRT, Aborted.
0x00007ffff729b3d9 in raise () from /usr/lib/libc.so.6





(gdb) bt full
#0  0x00007ffff729b3d9 in raise () from /usr/lib/libc.so.6
No symbol table info available.
#1  0x00007ffff729c7d8 in abort () from /usr/lib/libc.so.6
No symbol table info available.
#2  0x00007ffff7294506 in __assert_fail_base () from /usr/lib/libc.so.6
No symbol table info available.
#3  0x00007ffff72945b2 in __assert_fail () from /usr/lib/libc.so.6
No symbol table info available.
#4  0x00007ffff6601ebd in RTreeNewListBranch (t=0x609c30) at node.c:441
        p = 0x0
        __PRETTY_FUNCTION__ = "RTreeNewListBranch"
#5  0x00007ffff6601f0e in RTreeReInsertBranch (b=..., level=0, 
    ee=0x7fffffffc530, t=0x609c30) at node.c:456
        l = 0xe6bbdb
#6  0x00007ffff660248b in RTreeRemoveBranches (n=0x20e7d8db0, b=0x609d58, 
    ee=0x7fffffffc530, cover=0x20dcff3c0, t=0x609c30) at node.c:526
        i = 0
        j = 2
        maxkids = 9
        type = 0
        center_r = 7090380.0850708243
        delta = 0
        rdist = {{id = 8, distance = 21.734826991031039}, {id = 6, 
            distance = 25.265005897599387}, {id = 9, 
            distance = 50.460792597578418}, {id = 7, 
            distance = 56.067547330275147}, {id = 4, 
            distance = 66.035111299513773}, {id = 2, 
            distance = 71.503427645668225}, {id = 3, 
            distance = 101.47533875529244}, {id = 1, 
            distance = 155.7431870289096}, {id = 0, 
            distance = 259.84885517371265}, {id = 5, 
            distance = 269.47032316330291}}
        new_cover = 0x609d98
        center_n = 0x60a820
        __PRETTY_FUNCTION__ = "RTreeRemoveBranches"
#7  0x00007ffff6602727 in RTreeAddBranch (b=0x609d58, n=0x20e7d8db0, 
    newnode=0x7fffffffc490, ee=0x7fffffffc530, cover=0x20dcff3c0, 
    overflow=0x7fffffffc510 '\001' <repeats 20 times>, "\377\177", t=0x609c30)
    at node.c:579
        i = 9
        maxkids = 9
        __PRETTY_FUNCTION__ = "RTreeAddBranch"
#8  0x00007ffff66001c8 in RTreeInsertRect2M (r=0x7ffff6c27908 <rect.14882>, 
    child=..., level=0, newnode=0x7fffffffc538, t=0x609c30, 
    ee=0x7fffffffc530, 
    overflow=0x7fffffffc510 '\001' <repeats 20 times>, "\377\177")
    at indexm.c:135
        i = 2
        n = 0x20dcff380
        n2 = 0x0
        cover = 0x20dcff3c0
        top = 8
        down = 0
        result = 0
        b = 0x609d58
        s = 0x60a0c0
#9  0x00007ffff66004b7 in RTreeInsertRectM (r=0x7ffff6c27908 <rect.14882>, 
    child=..., level=0, t=0x609c30) at indexm.c:199
        newnode = 0x5459d4
        newroot = 0x5b0c3348cc056741
        reInsertList = 0x0
        e = 0x3
        result = 3
        overflow = '\001' <repeats 20 times>
        b = 0x609d48
#10 0x00007ffff66051d8 in RTreeInsertRect (r=0x7ffff6c27908 <rect.14882>, 
    tid=5528020, t=0x609c30) at index.c:324
        newchild = {id = 5528020, ptr = 0x5459d4, pos = 5528020}
        __PRETTY_FUNCTION__ = "RTreeInsertRect"
#11 0x00007ffff6a16b22 in dig_spidx_add_area (Plus=0x7fffffffd290, 
    area=5528020, box=0x7fffffffc680) at spindex.c:373
---Type <return> to continue, or q <return> to quit---
        rect = {boundary = 0x1bfb8c9e0}
        rect_init = 6
#12 0x00007ffff6a10c9a in dig_add_area (plus=0x7fffffffd290, n_lines=4, 
    lines=0x1bfb9ce30, box=0x7fffffffc680) at plus_area.c:241
        i = 4
        area = 5528020
        line = 15121371
        Area = 0x20e85acc0
        Line = 0x15cbd6470
        topo = 0x15cbd6490
#13 0x00007ffff7b83b6b in Vect_build_line_area (Map=0x7fffffffd280, 
    iline=15119628, side=1) at build.c:129
        area = 0
        isle = 0
        n_lines = 4
        plus = 0x7fffffffd290
        box = {N = 7090381.6636432782, S = 7090378.5064983703, 
          E = 745714.53107862209, W = 745710.32155207801, T = 0, B = 0}
        APoints = 0x1bfb71050
        lines = 0x1bfb9ce30
        area_size = 9.4138104151934385
#14 0x00007ffff7b86940 in Vect_build_nat (Map=0x7fffffffd280, build=4)
    at build_nat.c:149
        plus = 0x7fffffffd290
        i = 22296794
        s = 0
        type = -2
        line = 15119628
        offset = 3198718951
        side = 1
        area = 6338176
        Cats = 0x60bb30
        Line = 0x15cb2d620
        Area = 0x7ffff6a0a100
        box = {N = 7089187.4735818272, S = 7089187.4735818272, 
          E = 756241.2414881211, W = 756241.2414881211, T = 0, B = 0}
#15 0x00007ffff7b85138 in Vect_build_partial (Map=0x7fffffffd280, build=4)
    at build.c:858
        plus = 0x7fffffffd290
        ret = 0
#16 0x00007ffff7b848f3 in Vect_build (Map=0x7fffffffd280) at build.c:559
No locals.
#17 0x0000000000401935 in main (argc=2, argv=0x7fffffffdbe8) at main.c:118
        module = 0x7ffff7b59d08 <state+40>
        map_opt = 0x7ffff7b59d68 <state+136>
        opt = 0x607410
        err_opt = 0x607350
        chk = 0x7ffff7b59d38 <state+88>
        Map = {format = 0, temporary = 0, dblnk = 0x60b740, plus = {
            version = {topo = {major = 0, minor = 0, back_major = 0, 
                back_minor = 0}, spidx = {major = 0, minor = 0, 
                back_major = 0, back_minor = 0}, cidx = {major = 0, 
                minor = 0, back_major = 0, back_minor = 0}}, with_z = 0, 
            spidx_with_z = 0, off_t_size = 0, head_size = 0, 
            spidx_head_size = 0, cidx_head_size = 0, release_support = 0, 
            port = {byte_order = 0, off_t_size = 0, 
              dbl_cnvrt = "\000\000\000\000\000\000\000", 
              flt_cnvrt = "\000\000\000", lng_cnvrt = "\000\000\000", 
              int_cnvrt = "\000\000\000", shrt_cnvrt = "\000", 
              off_t_cnvrt = "\000\000\000\000\000\000\000", dbl_quick = 0, 
              flt_quick = 0, lng_quick = 0, int_quick = 0, shrt_quick = 0, 
              off_t_quick = 0}, spidx_port = {byte_order = 0, off_t_size = 0, 
              dbl_cnvrt = "\000\000\000\000\000\000\000", 
              flt_cnvrt = "\000\000\000", lng_cnvrt = "\000\000\000", 
              int_cnvrt = "\000\000\000", shrt_cnvrt = "\000", 
              off_t_cnvrt = "\000\000\000\000\000\000\000", dbl_quick = 0, 
              flt_quick = 0, lng_quick = 0, int_quick = 0, shrt_quick = 0, 
              off_t_quick = 0}, cidx_port = {byte_order = 0, off_t_size = 0, 
              dbl_cnvrt = "\000\000\000\000\000\000\000", 
              flt_cnvrt = "\000\000\000", lng_cnvrt = "\000\000\000", 
              int_cnvrt = "\000\000\000", shrt_cnvrt = "\000", 
---Type <return> to continue, or q <return> to quit---
              off_t_cnvrt = "\000\000\000\000\000\000\000", dbl_quick = 0, 
              flt_quick = 0, lng_quick = 0, int_quick = 0, shrt_quick = 0, 
              off_t_quick = 0}, mode = 0, built = 1, box = {
              N = 7104206.8011954101, S = 7089186.6842956003, 
              E = 759827.49500820006, W = 745280.94984459004, T = 0, B = 0}, 
            Node = 0x7fffdd179010, Line = 0x7fffb8c80010, 
            Area = 0x7fffe5ec3010, Isle = 0x7fffeac63010, n_plines = 0, 
            n_llines = 0, n_blines = 16325866, n_clines = 5970928, 
            n_flines = 0, n_klines = 0, n_vfaces = 0, n_hfaces = 0, 
            n_nodes = 10693030, n_edges = 0, n_lines = 22296794, 
            n_areas = 5528019, n_isles = 309687, n_faces = 0, n_volumes = 0, 
            n_holes = 0, alloc_nodes = 10694000, alloc_edges = 0, 
            alloc_lines = 22297000, alloc_areas = 5529000, 
            alloc_isles = 310000, alloc_faces = 0, alloc_volumes = 0, 
            alloc_holes = 0, Node_offset = 0, Edge_offset = 0, 
            Line_offset = 0, Area_offset = 0, Isle_offset = 0, 
            Volume_offset = 0, Hole_offset = 0, Spidx_built = 1, 
            Spidx_new = 1, Spidx_file = 0, spidx_fp = {file = 0x0, 
              start = 0x0, current = 0x0, end = 0x0, size = 0, alloc = 0, 
              loaded = 0}, Node_spidx_offset = 0, Line_spidx_offset = 0, 
            Area_spidx_offset = 0, Isle_spidx_offset = 0, 
            Face_spidx_offset = 0, Volume_spidx_offset = 0, 
            Hole_spidx_offset = 0, Node_spidx = 0x607af0, 
            Line_spidx = 0x609020, Area_spidx = 0x609c30, 
            Isle_spidx = 0x60a840, Face_spidx = 0x0, Volume_spidx = 0x0, 
            Hole_spidx = 0x0, update_cidx = 0, n_cidx = 2, a_cidx = 5, 
            cidx = 0x60b450, cidx_up_to_date = 0, coor_size = 0, 
            coor_mtime = 0, uplist = {do_uplist = 0, uplines = 0x0, 
              uplines_offset = 0x0, alloc_uplines = 0, n_uplines = 0, 
              upnodes = 0x0, alloc_upnodes = 0, n_upnodes = 0}}, 
          open = 1428335138, mode = 0, level = 1, head_only = 0, 
          support_updated = 1, name = 0x60b640 "seg005", 
          mapset = 0x60b6c0 "pietro", location = 0x60b6e0 "combabula", 
          gisdbase = 0x60b700 "/home/pietro", next_line = 0, constraint = {
            region_flag = 0, box = {N = 0, S = 0, E = 0, W = 0, T = 0, 
              B = 0}, type_flag = 0, type = 0, field_flag = 0, field = 0}, 
          proj = 0, hist_fp = 0x60bc00, dgraph = {line_type = 0, graph_s = {
              iErrno = 0, Version = 0 '\000', Endian = 0 '\000', 
              NodeAttrSize = 0, EdgeAttrSize = 0, aOpaqueSet = {
                0 <repeats 16 times>}, cNode = 0, cHead = 0, cTail = 0, 
              cAlone = 0, cEdge = 0, nnCost = 0, Flags = 0, nFamily = 0, 
              nOptions = 0, pNodeTree = 0x0, pEdgeTree = 0x0, 
              pNodeBuffer = 0x0, iNodeBuffer = 0, pEdgeBuffer = 0x0, 
              iEdgeBuffer = 0, edgePrioritizer = {cEdge = 0, iEdge = 0, 
                pEdgePri32Item = 0x0, pvAVL = 0x0}, nodePrioritizer = {
                pvAVL = 0x0}}, spCache = {nStartNode = 0, NodeHeap = {
                index = 0, count = 0, block = 0, pnode = 0x0}, 
              pvVisited = 0x0, pvPredist = 0x0}, edge_fcosts = 0x0, 
            edge_bcosts = 0x0, node_costs = 0x0, cost_multip = 0}, head = {
            organization = 0x60b720 "", date = 0x607a70 "", 
            user_name = 0x607a90 "pietro", map_name = 0x607ab0 "", 
            source_date = 0x6072d0 "Thu Nov 28 20:55:18 2013", 
            orig_scale = 1, comment = 0x607520 "", proj = 1, 
            plani_zone = -55, digit_thresh = 0, coor_version = {major = 5, 
              minor = 1, back_major = 5, back_minor = 1}, with_z = 0, 
            size = 0, head_size = 18, port = {byte_order = 0, off_t_size = 0, 
              dbl_cnvrt = "\000\001\002\003\004\005\006\a", 
              flt_cnvrt = "\000\001\002\003", lng_cnvrt = "\000\001\002\003", 
              int_cnvrt = "\000\001\002\003", shrt_cnvrt = "\000\001", 
              off_t_cnvrt = "\000\001\002\003\004\005\006\a", dbl_quick = 1, 
              flt_quick = 1, lng_quick = 1, int_quick = 1, shrt_quick = 1, 
              off_t_quick = 1}, last_offset = 2793609156, recycle = 0x0}, 
          dig_fp = {file = 0x60b760, start = 0x0, current = 0x0, end = 0x0, 
            size = 0, alloc = 0, loaded = 0}, fInfo = {i = 0, ogr = {
              driver_name = 0x0, dsn = 0x0, layer_name = 0x0, driver = 0x0, 
              ds = 0x0, layer = 0x0, dbdriver = 0x0, dsn_options = 0x0, 
              layer_options = 0x0, cache = {lines = 0x0, lines_types = 0x0, 
                lines_cats = 0x0, lines_alloc = 0, lines_num = 0, 
                lines_next = 0, fid = 0, sf_type = SF_UNKNOWN, ctype = 0}, 
              feature_cache = 0x0, offset = {array = 0x0, array_num = 0, 
                array_alloc = 0}, next_line = 0}, pg = {conninfo = 0x0, 
---Type <return> to continue, or q <return> to quit---
              db_name = 0x0, schema_name = 0x0, table_name = 0x0, 
              fid_column = 0x0, geom_column = 0x0, feature_type = SF_UNKNOWN, 
              coor_dim = 0, srid = 0, dbdriver = 0x0, inTransaction = 0, 
              conn = 0x0, res = 0x0, cursor_name = 0x0, cursor_fid = 0, 
              next_line = 0, cache = {lines = 0x0, lines_types = 0x0, 
                lines_cats = 0x0, lines_alloc = 0, lines_num = 0, 
                lines_next = 0, fid = 0, sf_type = SF_UNKNOWN, ctype = 0}, 
              offset = {array = 0x0, array_num = 0, array_alloc = 0}, 
              topogeom_column = 0x0, toposchema_name = 0x0, 
              toposchema_id = 0, topo_geo_only = 0}}, site_att = 0x0, 
          n_site_att = 0, n_site_dbl = 0, n_site_str = 0}
        i = 1
        build = 1
        dump = 0
        sdump = 0
        cdump = 0
        fdump = 0
        xname = "\000\240\372\367\377\177\000\000\320T\373\367\377\177\000\000\000\000\000\000\000\000\000\000\320T\373\367\377\177", '\000' <repeats 19 times>, "\260\372\367\377\177\000\000д\372\367\377\177\000\000\250\271\372\367\377\177\000\000\210\000\373\367\377\177\000\000\330\364\372\367\377\177\000\000\000\240\372\367\377\177\000\000Ф\372\367\377\177\000\000\240\251\372\367\377\177\000\000\000\220\372\367\377\177\000\000\000P\373\367\377\177\000\000\000\340\372\367\377\177\000\000\320\344\372\367\377\177\000\000\320T\373\367\377\177\000\000\000\000\000\000\000\000\000\000P\222\336\367\377\177\000\000\000\375%\366\377\177\000\000\000\000\000\264\377\377\377\377\004\000\000\000\000\000\000\000\220\326\377\377\377\177\000\000\340$"...
        xmapset = "\000\000\000\000\377\177\000\000\000\300\372\367\377\177\000\000P\320\377\377\377\177\000\000\000\000 \240\377\377\377\377\260\224\371\365\377\177\000\000\345\224\336\367\377\177\000\000\001\000\000\000\377\177\000\000\240\331\372\367\377\177\000\000\200\320\377\377\377\177\000\000\000\000\200\240\377\377\377\377\240\224\371\365\377\177\000\000\345\224\336\367\377\177\000\000\001\000\000\000\000\000\000\000\320\324\372\367\377\177\000\000\260\320\377\377\377\177\000\000\061\000\000\000\064\000\000\000\220\224\371\365\377\177\000\000\345\224\336\367\377\177\000\000\001\000\000\000=\000\000\000\000\320\372\367\377\177\000\000\340\320\377\377\377\177\000\000C\000\000\000D\000\000\000\200\224\371\365\377\177\000\000\345\224\336\367\377\177\000\000\001\000\000\000\000\000\000\000"...
        opt_desc = 0x607540 "build;build topology;dump;write topology to stdout;sdump;write spatial index to stdout;cdump;write category index to stdout;fdump;write feature index to stdout (OGR simple-feature-based formats only)"





(gdb) l
24      int main(int argc, char *argv[])
25      {
26          struct GModule *module;
27          struct Option *map_opt, *opt, *err_opt;
28          struct Flag *chk;
29          struct Map_info Map;
30          int i, build, dump, sdump, cdump, fdump;
31          char xname[GNAME_MAX], xmapset[GMAPSET_MAX];
32          char *opt_desc;
33          G_gisinit(argv[0]);





(gdb) frame 2
#2  0x00007ffff7294506 in __assert_fail_base () from /usr/lib/libc.so.6





(gdb) l
34
35          module = G_define_module();
36          G_add_keyword(_("vector"));
37          G_add_keyword(_("topology"));
38          G_add_keyword(_("geometry"));
39          module->label = _("Creates topology for vector map.");
40          module->description = _("Optionaly also checks for topological errors.");
41
42          map_opt = G_define_standard_option(G_OPT_V_MAP);
43          map_opt->label = NULL;
-------------- next part --------------

G70> CMD="v.build map=seg005"




G70> valgrind --tool=memcheck --leak-check=yes --show-reachable=yes  $CMD
==2885== Memcheck, a memory error detector
==2885== Copyright (C) 2002-2013, and GNU GPL'd, by Julian Seward et al.
==2885== Using Valgrind-3.9.0 and LibVEX; rerun with -h for copyright info
==2885== Command: v.build map=seg005
==2885== 
D2/2: G_file_name(): path = /home/pietro/combabula/pietro
D1/2: Vect__open_old(): name = seg005, mapset = pietro, layer = NULL, update = 0, head_only = 0, is_tmp = 0
D1/2: Vect__open_old(): is_tmp = 0 (check GRASS_VECTOR_TEMPORARY)
D1/2: Vect_set_thresh(): thresh = 0.000000
D1/2: dig_spidx_init(), 2 dims
D1/2: G_find_vector2(): name=seg005 mapset=pietro
D2/2: G_file_name(): path = /home/pietro/combabula/pietro/vector/seg005
D1/2: Map: name = seg005, mapset = pietro, temporary = 0
D2/2: G_file_name(): path = /home/pietro/combabula/pietro/vector/seg005/frmt
D1/2: Vector format: 0 (native)
D1/2: Vect_set_thresh(): thresh = 0.000000
D1/2: Vect__read_head(): vector = seg005 at pietro
D2/2: G_file_name(): path = /home/pietro/combabula/pietro/vector/seg005/head
D2/2:   file open: read (mode = r)
D1/2: Vect_set_thresh(): thresh = 0.000000
D2/2: G_file_name(): path = /home/pietro/combabula/pietro/WIND
D2/2:   file open: read (mode = r)
D2/2: G__read_Cell_head
D2/2: G__read_Cell_head_array
D1/2: Level request = 1
D1/2: V1_open_old_nat(): name = seg005 mapset = pietro
D2/2: G_file_name(): path = /home/pietro/combabula/pietro/vector/seg005/coor
D2/2:   file open: read (mode = r)
D2/2: G_file_name(): path = /home/pietro/combabula/pietro/vector/seg005/coor
D1/2: get coor info: /home/pietro/combabula/pietro/vector/seg005/coor
D1/2: Vect_coor_info(): Info->size = 3198718980, Info->mtime = 1385672584
D2/2: dig__read_head(): name = 'seg005'
D2/2: Coor header: file version 5.1 , supported from GRASS version 5.1
D2/2:   byte order 0
D2/2:   header size 18
D2/2:   with_z 0
D2/2:   coor size 0
D2/2: G_file_name(): path = /home/pietro/combabula/pietro/vector/seg005/coor
D1/2: get coor info: /home/pietro/combabula/pietro/vector/seg005/coor
D1/2: Vect_coor_info(): Info->size = 3198718980, Info->mtime = 1385672584
D1/2: coor size in head = 0, real coor file size= 3198718980
WARNING: Coor file of vector map <seg005 at pietro> is larger than it should
         be (3198718980 bytes excess)
D2/2: dig_file_load ()
D2/2:   requested mode = 2
D2/2:   size = 3198718980
D2/2:   file was not loaded to the memory
D1/2: Vect__open_old(): vector opened on level 1
D1/2: Vect_read_dblinks(): map = seg005, mapset = pietro
D2/2: G_file_name(): path = /home/pietro/combabula/pietro/vector/seg005/dbln
D2/2:   file open: read (mode = r)
D1/2: dbln: 1/seg005|seg005|cat|$GISDBASE/$LOCATION_NAME/$MAPSET/sqlite/sqlite.db|sqlite
D1/2: field = 1 name = seg005, table = seg005, key = cat, database = $GISDBASE/$LOCATION_NAME/$MAPSET/sqlite/sqlite.db, driver = sqlite
D1/2: Dblinks read
D2/2: G_file_name(): path = /home/pietro/combabula/pietro/vector/seg005/hist
D2/2:   file open: read (mode = r)
D1/2: Vect_Rewind(): name = seg005 level = 1
D1/2: Vect_open_sidx(): name = seg005 mapset= pietro mode = new
D1/2: Memory based spatial index
D2/2: dig_cidx_free()
D1/2: Vect_Rewind(): name = seg005 level = 1
--2885:0:aspacem  <<< SHOW_SEGMENTS: out_of_memory (635 segments, 55 segnames)
--2885:0:aspacem  ( 0) /usr/lib/valgrind/memcheck-amd64-linux
--2885:0:aspacem  ( 1) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/bin/v.build
--2885:0:aspacem  ( 2) /usr/lib/ld-2.18.so
--2885:0:aspacem  ( 3) /tmp/vgdb-pipe-shared-mem-vgdb-2885-by-pietro-on-???
--2885:0:aspacem  ( 4) /usr/lib/valgrind/vgpreload_core-amd64-linux.so
--2885:0:aspacem  ( 5) /usr/lib/valgrind/vgpreload_memcheck-amd64-linux.so
--2885:0:aspacem  ( 6) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_vector.7.0.svn.so
--2885:0:aspacem  ( 7) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_gis.7.0.svn.so
--2885:0:aspacem  ( 8) /usr/lib/locale/locale-archive
--2885:0:aspacem  ( 9) /usr/lib/libm-2.18.so
--2885:0:aspacem  (10) /usr/lib/libc-2.18.so
--2885:0:aspacem  (11) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_dbmiclient.7.0.svn.so
--2885:0:aspacem  (12) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_dbmibase.7.0.svn.so
--2885:0:aspacem  (13) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_dgl.7.0.svn.so
--2885:0:aspacem  (14) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_dig2.7.0.svn.so
--2885:0:aspacem  (15) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_linkm.7.0.svn.so
--2885:0:aspacem  (16) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_rtree.7.0.svn.so
--2885:0:aspacem  (17) /usr/lib/libgeos-3.4.2.so
--2885:0:aspacem  (18) /usr/lib/libgeos_c.so.1.8.2
--2885:0:aspacem  (19) /usr/lib/libgdal.so.1.10.0
--2885:0:aspacem  (20) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_btree2.7.0.svn.so
--2885:0:aspacem  (21) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_gproj.7.0.svn.so
--2885:0:aspacem  (22) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_raster.7.0.svn.so
--2885:0:aspacem  (23) /usr/lib/libpq.so.5.6
--2885:0:aspacem  (24) /home/pietro/docdat/src/gis/grass/grass_trunk/dist.x86_64-unknown-linux-gnu/lib/libgrass_datetime.7.0.svn.so
--2885:0:aspacem  (25) /usr/lib/libz.so.1.2.8
--2885:0:aspacem  (26) /usr/lib/libpthread-2.18.so
--2885:0:aspacem  (27) /usr/lib/libstdc++.so.6.0.18
--2885:0:aspacem  (28) /usr/lib/libgcc_s.so.1
--2885:0:aspacem  (29) /usr/lib/libsqlite3.so.0.8.6
--2885:0:aspacem  (30) /usr/lib/libexpat.so.1.6.0
--2885:0:aspacem  (31) /usr/lib/libnetcdf.so.7.2.0
--2885:0:aspacem  (32) /usr/lib/libhdf5.so.8.0.0
--2885:0:aspacem  (33) /usr/lib/libgif.so.6.0.1
--2885:0:aspacem  (34) /usr/lib/libjpeg.so.8.0.2
--2885:0:aspacem  (35) /usr/lib/libgeotiff.so.2.1.0
--2885:0:aspacem  (36) /usr/lib/libtiff.so.5.2.0
--2885:0:aspacem  (37) /usr/lib/libpng16.so.16.7.0
--2885:0:aspacem  (38) /usr/lib/libcfitsio.so.1.3.35
--2885:0:aspacem  (39) /usr/lib/libdl-2.18.so
--2885:0:aspacem  (40) /usr/lib/libpcre.so.1.2.1
--2885:0:aspacem  (41) /usr/lib/libcurl.so.4.3.0
--2885:0:aspacem  (42) /usr/lib/libmysqlclient.so.18.0.0
--2885:0:aspacem  (43) /usr/lib/libproj.so.0.7.0
--2885:0:aspacem  (44) /usr/lib/libssl.so.1.0.0
--2885:0:aspacem  (45) /usr/lib/libcrypto.so.1.0.0
--2885:0:aspacem  (46) /usr/lib/libkrb5.so.3.3
--2885:0:aspacem  (47) /usr/lib/libcom_err.so.2.1
--2885:0:aspacem  (48) /usr/lib/libhdf5_hl.so.8.0.0
--2885:0:aspacem  (49) /usr/lib/liblzma.so.5.0.5
--2885:0:aspacem  (50) /usr/lib/libssh2.so.1.0.1
--2885:0:aspacem  (51) /usr/lib/libk5crypto.so.3.1
--2885:0:aspacem  (52) /usr/lib/libkrb5support.so.0.1
--2885:0:aspacem  (53) /usr/lib/libkeyutils.so.1.5
--2885:0:aspacem  (54) /usr/lib/libresolv-2.18.so
--2885:0:aspacem    0: RSVN 0000000000-00003fffff 4194304 ----- SmFixed
--2885:0:aspacem    1: file 0000400000-0000402fff   12288 r-xT- d=0x804 i=4868611 o=0       (1)
--2885:0:aspacem    2: RSVN 0000403000-0000601fff 2093056 ----- SmFixed
--2885:0:aspacem    3: file 0000602000-0000602fff    4096 rw--- d=0x804 i=4868611 o=8192    (1)
--2885:0:aspacem    4: RSVN 0000603000-0003ffffff     57m ----- SmFixed
--2885:0:aspacem    5: file 0004000000-000401ffff  131072 r-xT- d=0x802 i=1071405 o=0       (2)
--2885:0:aspacem    6: anon 0004020000-0004023fff   16384 rw---
--2885:0:aspacem    7:      0004024000-0004064fff  266240
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--2885:0:aspacem   10:      0004204000-000421efff  110592
--2885:0:aspacem   11: file 000421f000-000421ffff    4096 r---- d=0x802 i=1071405 o=126976  (2)
--2885:0:aspacem   12: file 0004220000-0004220fff    4096 rw--- d=0x802 i=1071405 o=131072  (2)
--2885:0:aspacem   13: anon 0004221000-0004221fff    4096 rw---
--2885:0:aspacem   14: anon 0004222000-0004222fff    4096 rwx--
--2885:0:aspacem   15: RSVN 0004223000-0004a21fff 8384512 ----- SmLower
--2885:0:aspacem   16: file 0004a22000-0004a22fff    4096 r-xT- d=0x802 i=1184969 o=0       (4)
--2885:0:aspacem   17: file 0004a23000-0004c21fff 2093056 ----- d=0x802 i=1184969 o=4096    (4)
--2885:0:aspacem   18: file 0004c22000-0004c22fff    4096 r---- d=0x802 i=1184969 o=0       (4)
--2885:0:aspacem   19: file 0004c23000-0004c23fff    4096 rw--- d=0x802 i=1184969 o=4096    (4)
--2885:0:aspacem   20: file 0004c24000-0004c30fff   53248 r-xT- d=0x802 i=1184915 o=0       (5)
--2885:0:aspacem   21: file 0004c31000-0004e2ffff 2093056 ----- d=0x802 i=1184915 o=53248   (5)
--2885:0:aspacem   22: file 0004e30000-0004e30fff    4096 r---- d=0x802 i=1184915 o=49152   (5)
--2885:0:aspacem   23: file 0004e31000-0004e31fff    4096 rw--- d=0x802 i=1184915 o=53248   (5)
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--2885:0:aspacem   25: file 0004eb3000-00050b1fff 2093056 ----- d=0x804 i=4866857 o=528384  (6)
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--2885:0:aspacem   28: file 00050f9000-00052f8fff 2097152 ----- d=0x804 i=4865792 o=278528  (7)
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--2885:0:aspacem   30: file 00052fb000-00053fcfff 1056768 r-xT- d=0x802 i=1071981 o=0       (9)
--2885:0:aspacem   31: file 00053fd000-00055fbfff 2093056 ----- d=0x802 i=1071981 o=1056768 (9)
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--2885:0:aspacem   33: file 00055fd000-00055fdfff    4096 rw--- d=0x802 i=1071981 o=1056768 (9)
--2885:0:aspacem   34: file 00055fe000-000579ffff 1712128 r-xT- d=0x802 i=1071985 o=0       (10)
--2885:0:aspacem   35: file 00057a0000-000599efff 2093056 ----- d=0x802 i=1071985 o=1712128 (10)
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--2885:0:aspacem   38: anon 00059a5000-00059a8fff   16384 rw---
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--2885:0:aspacem   41: file 0005bb3000-0005bb3fff    4096 rw--- d=0x804 i=4866603 o=40960   (11)
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--2885:0:aspacem   43: file 0005bc6000-0005dc5fff 2097152 ----- d=0x804 i=4866530 o=73728   (12)
--2885:0:aspacem   44: file 0005dc6000-0005dc6fff    4096 rw--- d=0x804 i=4866530 o=73728   (12)
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--2885:0:aspacem   48: file 0005fe7000-0006004fff  122880 r-xT- d=0x804 i=4866772 o=0       (14)
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--2885:0:aspacem   81: file 0007ef4000-00080f2fff 2093056 ----- d=0x802 i=1051429 o=172032  (23)
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--2885:0:aspacem   89: file 0008515000-0008515fff    4096 r---- d=0x802 i=1052854 o=81920   (25)
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--2885:0:aspacem   93: file 000872f000-000872ffff    4096 r---- d=0x802 i=1067153 o=98304   (26)
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--2885:0:aspacem   95: anon 0008731000-0008734fff   16384 rw---
--2885:0:aspacem   96: file 0008735000-000881afff  942080 r-xT- d=0x802 i=1074627 o=0       (27)
--2885:0:aspacem   97: file 000881b000-0008a19fff 2093056 ----- d=0x802 i=1074627 o=942080  (27)
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--2885:0:aspacem  100: anon 0008a24000-0008a38fff   86016 rw---
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--2885:0:aspacem  102: file 0008a4e000-0008c4dfff 2097152 ----- d=0x802 i=1074870 o=86016   (28)
--2885:0:aspacem  103: file 0008c4e000-0008c4efff    4096 rw--- d=0x802 i=1074870 o=86016   (28)
--2885:0:aspacem  104: file 0008c4f000-0008d01fff  733184 r-xT- d=0x802 i=1075305 o=0       (29)
--2885:0:aspacem  105: file 0008d02000-0008f01fff 2097152 ----- d=0x802 i=1075305 o=733184  (29)
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--2885:0:aspacem  109: file 0008f2e000-000912dfff 2097152 ----- d=0x802 i=1054646 o=159744  (30)
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--2885:0:aspacem  114: file 0009420000-000946dfff  319488 r---- d=0x802 i=1067598 o=978944  (31)
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--2885:0:aspacem  487: anon 00bd803000-00bec02fff     20m rwx-H
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--2885:0:aspacem  519: anon 00d1eb0000-00d2eaffff     16m rwx-H
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--2885:0:aspacem  523: anon 00d568f000-00d6a8efff     20m rwx-H
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--2885:0:aspacem  530:      00d9d7a000-00da0cbfff 3481600
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--2885:0:aspacem  535: anon 00db96d000-00dbd6cfff 4194304 rwx-H
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--2885:0:aspacem  537: anon 00dbdfb000-00dd5fafff     24m rwx-H
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--2885:0:aspacem  539: anon 00dd98b000-00ded8afff     20m rwx-H
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--2885:0:aspacem  548:      00e5b9b000-00e5bf5fff  372736
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--2885:0:aspacem  555: anon 00e9fe9000-00ea3e8fff 4194304 rwx-H
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--2885:0:aspacem  557: anon 00ea6ab000-00eb2aafff     12m rwx-H
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--2885:0:aspacem  569: anon 00f6206000-00f7a05fff     24m rwx-H
--2885:0:aspacem  570:      00f7a06000-00f7c20fff 2207744
--2885:0:aspacem  571: anon 00f7c21000-00f8020fff 4194304 rwx-H
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--2885:0:aspacem  579: anon 00fcbc2000-00fd3c1fff 8388608 rwx-H
--2885:0:aspacem  580:      00fd3c2000-00fd484fff  798720
--2885:0:aspacem  581: anon 00fd485000-00fec84fff     24m rwx-H
--2885:0:aspacem  582:      00fec85000-00fef49fff 2904064
--2885:0:aspacem  583: anon 00fef4a000-0101749fff     40m rwx-H
--2885:0:aspacem  584:      010174a000-0101a58fff 3207168
--2885:0:aspacem  585: anon 0101a59000-0103258fff     24m rwx-H
--2885:0:aspacem  586:      0103259000-0103590fff 3375104
--2885:0:aspacem  587: anon 0103591000-0103990fff 4194304 rwx-H
--2885:0:aspacem  588:      0103991000-0103d5ffff 3993600
--2885:0:aspacem  589: anon 0103d60000-0105d5ffff     32m rwx-H
--2885:0:aspacem  590:      0105d60000-01060cefff 3600384
--2885:0:aspacem  591: anon 01060cf000-0107ccefff     28m rwx-H
--2885:0:aspacem  592:      0107ccf000-010806bfff 3788800
--2885:0:aspacem  593: anon 010806c000-010a46bfff     36m rwx-H
--2885:0:aspacem  594:      010a46c000-010a84dfff 4071424
--2885:0:aspacem  595: anon 010a84e000-010c44dfff     28m rwx-H
--2885:0:aspacem  596:      010c44e000-010c6e5fff 2719744
--2885:0:aspacem  597: anon 010c6e6000-010f2e5fff     44m rwx-H
--2885:0:aspacem  598:      010f2e6000-010f33afff  348160
--2885:0:aspacem  599: anon 010f33b000-011073afff     20m rwx-H
--2885:0:aspacem  600:      011073b000-0110a49fff 3207168
--2885:0:aspacem  601: anon 0110a4a000-0112649fff     28m rwx-H
--2885:0:aspacem  602:      011264a000-01126e8fff  651264
--2885:0:aspacem  603: anon 01126e9000-0112ee8fff 8388608 rwx-H
--2885:0:aspacem  604:      0112ee9000-01143bcfff     20m
--2885:0:aspacem  605: anon 01143bd000-01147bcfff 4194304 rwx-H
--2885:0:aspacem  606:      01147bd000-01150abfff 9367552
--2885:0:aspacem  607: anon 01150ac000-0117a85fff     41m rwx-H
--2885:0:aspacem  608:      0117a86000-0119f33fff     36m
--2885:0:aspacem  609: anon 0119f34000-011f0e1fff     81m rwx-H
--2885:0:aspacem  610:      011f0e2000-012009afff     15m
--2885:0:aspacem  611: anon 012009b000-012395efff     56m rwx-H
--2885:0:aspacem  612:      012395f000-0801ffffff  28134m
--2885:0:aspacem  613: RSVN 0802000000-0802000fff    4096 ----- SmFixed
--2885:0:aspacem  614: ANON 0802001000-0802a97fff     10m rwx--
--2885:0:aspacem  615: ANON 0802a98000-0802a99fff    8192 -----
--2885:0:aspacem  616: ANON 0802a9a000-0802b99fff 1048576 rwx--
--2885:0:aspacem  617: ANON 0802b9a000-0802b9bfff    8192 -----
--2885:0:aspacem  618: FILE 0802b9c000-0802b9cfff    4096 rw--- d=0x01d i=216896  o=0       (3)
--2885:0:aspacem  619: ANON 0802b9d000-0828feffff    612m rwx--
--2885:0:aspacem  620:      0828ff0000-0828ff0fff    4096
--2885:0:aspacem  621: ANON 0828ff1000-083b73afff    295m rwx--
--2885:0:aspacem  622:      083b73b000-083b73cfff    8192
--2885:0:aspacem  623: ANON 083b73d000-0848c68fff    213m rwx--
--2885:0:aspacem  624:      0848c69000-0848c69fff    4096
--2885:0:aspacem  625: ANON 0848c6a000-08a56e6fff   1482m rwx--
--2885:0:aspacem  626:      08a56e7000-0ffe800fff  30097m
--2885:0:aspacem  627: RSVN 0ffe801000-0ffeff6fff 8347648 ----- SmUpper
--2885:0:aspacem  628: anon 0ffeff7000-0fff000fff   40960 rw---
--2885:0:aspacem  629:      0fff001000-0fffffffff     15m
--2885:0:aspacem  630: RSVN 1000000000-7fff167cbfff 131004g ----- SmFixed
--2885:0:aspacem  631: ANON 7fff167cc000-7fff167ecfff  135168 rw---
--2885:0:aspacem  632: RSVN 7fff167ed000-ffffffffff5fffff  16383e ----- SmFixed
--2885:0:aspacem  633: ANON ffffffffff600000-ffffffffff600fff    4096 r-x--
--2885:0:aspacem  634: RSVN ffffffffff601000-ffffffffffffffff      9m ----- SmFixed
--2885:0:aspacem  >>>
--2885-- core    : 1619005440/1619005440  max/curr mmap'd, 6/0 unsplit/split sb unmmap'd,  1601950624/1601950624 max/curr,      123661/2029643136 totalloc-blocks/bytes,      122996 searches 8 rzB
--2885-- dinfo   : 32239616/32239616  max/curr mmap'd, 3/3 unsplit/split sb unmmap'd,  31211664/31158704 max/curr,      148067/  75052288 totalloc-blocks/bytes,      148408 searches 8 rzB
--2885-- client  : 4177838080/4177838080  max/curr mmap'd, 8091/117 unsplit/split sb unmmap'd,  1751547760/1751547760 max/curr,    65975133/173014014240 totalloc-blocks/bytes,    65980590 searches 24 rzB
--2885-- demangle:        0/       0  max/curr mmap'd, 0/0 unsplit/split sb unmmap'd,         0/       0 max/curr,           0/         0 totalloc-blocks/bytes,           0 searches 8 rzB
--2885-- ttaux   :   417792/  327680  max/curr mmap'd, 1/0 unsplit/split sb unmmap'd,    253168/  180576 max/curr,        1205/    482528 totalloc-blocks/bytes,        1201 searches 8 rzB
==2885== 
==2885==     Valgrind's memory management: out of memory:
==2885==        memcheck:allocate new SecMap's request for 16384 bytes failed.
==2885==        6948536320 bytes have already been allocated.
==2885==     Valgrind cannot continue.  Sorry.
==2885== 
==2885==     There are several possible reasons for this.
==2885==     - You have some kind of memory limit in place.  Look at the
==2885==       output of 'ulimit -a'.  Is there a limit on the size of
==2885==       virtual memory or address space?
==2885==     - You have run out of swap space.
==2885==     - Valgrind has a bug.  If you think this is the case or you are
==2885==     not sure, please let us know and we'll try to fix it.
==2885==     Please note that programs can take substantially more memory than
==2885==     normal when running under Valgrind tools, eg. up to twice or
==2885==     more, depending on the tool.  On a 64-bit machine, Valgrind
==2885==     should be able to make use of up 32GB memory.  On a 32-bit
==2885==     machine, Valgrind should be able to use all the memory available
==2885==     to a single process, up to 4GB if that's how you have your
==2885==     kernel configured.  Most 32-bit Linux setups allow a maximum of
==2885==     3GB per process.
==2885== 
==2885==     Whatever the reason, Valgrind cannot continue.  Sorry.


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