Errors when running r.li.* modules

[veroandreo]

I get different errors when trying to run different r.li.* modules. Here some examples:

r.li.shannon --overwrite input=landclass96 at PERMANENT config=forest_mov_win
output=forest_mov_win_sh
munmap_chunk(): invalid pointer

The map is created but cannot be read or displayed:

Failed to run command 'd.rast map=forest_mov_win_sh@user1'. Details:           
                                                                               
GRASS_INFO_WARNING(12641,1): LZ4 decompression error                           
GRASS_INFO_END(12641,1)                                                        
                                                                               
GRASS_INFO_ERROR(12641,2): Error uncompressing null data for row 474 of <forest_mov_win_sh>
GRASS_INFO_END(12641,2)                                                        

GRASS 7.7.svn (nc_spm_08_grass7):~ > r.univar forest_mov_win_sh
WARNING: LZ4 decompression error
ERROR: Error uncompressing null data for row 474 of <forest_mov_win_sh>

Further attempts:

r.mapcalc "forest = if(landclass96 == 5, 1, null())"
r.li.edgedensity input=forest config=forest_mov_win output=forest_edge_mw
double free or corruption (!prev) <<<--- THIS
Aborted (core dumped)

... but map is created and no error related to compression.

Instead, if I do something equivalent:

r.li.edgedensity --verbose input=landclass96@PERMANENT config=forest_mov_win output=forest_edge patch_type=5
munmap_chunk(): invalid pointer <<<--- THIS
Aborted (core dumped)

r.univar forest_edge
WARNING: LZ4 decompression error
ERROR: Error uncompressing null data for row 474 of <forest_edge>

I attach the config file for reproducibility. And here's the thread in grass-dev: ​https://lists.osgeo.org/pipermail/grass-dev/2018-October/090155.html with Markus' valgrind test.

[veroandreo]

config file created with g.gui.rlisetup

[veroandreo]

Here the results using grass74 relbranch:

GRASS 7.4.2svn (nc_spm_08_grass7):~ > r.li.shannon --overwrite input=landclass96@PERMANENT config=forest_mov_win output=forest_mov_win_sh
munmap_chunk(): invalid pointer
Aborted (core dumped)

GRASS 7.4.2svn (nc_spm_08_grass7):~ > d.rast forest_mov_win_sh
WARNING: LZ4 decompression error
ERROR: Error uncompressing null data for row 473 of <forest_mov_win_sh>

GRASS 7.4.2svn (nc_spm_08_grass7):~ > r.mapcalc "forest = if(landclass96 == 5, 1, null())" --o
GRASS 7.4.2svn (nc_spm_08_grass7):~ > r.li.edgedensity input=forest config=forest_mov_win output=forest_edge_mw --o
corrupted size vs. prev_size
Aborted (core dumped)

r.li.edgedensity --verbose input=landclass96@PERMANENT config=forest_mov_win output=forest_edge patch_type=5 --o
r.li.edgedensity complete. Raster map <forest_edge> created.

The last one worked... no idea

[mmetz]

In 73488:

r.li: fix segfault in r.li.shannon (see #3676)

[mmetz]

In 73489:

r.li: fix segfault in r.li.shannon (see #3676, backport trunk r73488)

[mmetz]

In 73490:

r.li: fix segfault in r.li.shannon (see #3676, backport trunk r73488)

[mmetz]

The reason was that excessive rows were written to the output, causing memory corruption. Valgrind output is now clean for the mentioned test case and test commands, including the test commands with r.li.edgedensity.

[veroandreo]

Tested in trunk and 74 relbranch, no more errors. Thanks! Closing