[GRASS-dev] release planning and no volume display on Mac - Any info on where crash happens?
Michael Barton
Michael.Barton at asu.edu
Wed Jan 2 22:22:09 PST 2013
GREAT NEWS!
Commenting out both gvl_align_data lines (#684 and #1009) in gvl_calc_c makes this work. Both slices and isosurfaces display and do not crash. I don't know if there would be a problem with larger files or not. But this is finally functional again.
BUT the command you sent does NOT work. It gives a segmentation fault error:
m.nviz.image elevation_map=JR_2008_ALL_dem at test3d -a mode=fine resolution_fine=6 color_map=JR_2008_ALL_dem at test3d volume=jr_7408MR_2m_t70 at test3d volume_shading=gouraud volume_resolution=1 volume_position=0,0,20 isosurf_level=1:18.0 isosurf_color_map=jr_7408MR_2m_t70 at test3d isosurf_transparency_value=0 slice=1:x,1:z slice_position=0.000000,1.000000,0.520000,1.000000,0.000000,1.000000,0.250000,0.720000,0.080000,1.000000,0.000000,1.000000 slice_transparency=0,0 position=0.84,0.16 height=356 perspective=20 twist=0 zexag=5.000000 focus=569,593,28 light_position=0.68,0.68,0.80 light_brightness=80 light_ambient=20 light_color=255:255:255 output=jrvoltest format=tif size=798,545
Loading raster map <JR_2008_ALL_dem at test3d>...
100%
Loading raster map <JR_2008_ALL_dem at test3d>...
100%
Translating colors from raster map <JR_2008_ALL_dem at test3d>...
100%
Loading 3d raster map <jr_7408MR_2m_t70 at test3d>...
Segmentation fault: 11
Also, somewhere there is a bug somewhere that is sending progress bar text to the screen for any nviz activity (GRASS_INFO_PERCENT: 0...)
So now we have some kind of workaround. I don't know if there are any other down sides to bypassing this memory reallocation, but this is a good start on fixing this finally. Thanks Anna and Helena.
Michael
____________________
C. Michael Barton
Director, Center for Social Dynamics & Complexity
Professor of Anthropology, School of Human Evolution & Social Change
Arizona State University
voice: 480-965-6262 (SHESC), 480-727-9746 (CSDC)
fax: 480-965-7671 (SHESC), 480-727-0709 (CSDC)
www: http://www.public.asu.edu/~cmbarton, http://csdc.asu.edu
On Jan 2, 2013, at 10:45 PM, Helena Mitasova <hmitaso at ncsu.edu>
wrote:
> Michael,
>
> what you describe sounds as if you had only one depth layer so let us check first that the 3D region is right.
> If the 3d region is set to the provided 3d raster given here
> http://skagit.meas.ncsu.edu/~helena/grasswork/JR_7408MR_2m_t70.asci
> http://skagit.meas.ncsu.edu/~helena/grasswork/JR_2008_ALL.asci (reference 2d raster)
> it should look like this
>
> GRASS 6.4.3svn (nc_spm_05):~ > g.region -p3
> projection: 99 (Lambert Conformal Conic)
> zone: 0
> datum: nad83
> ellipsoid: a=6378137 es=0.006694380022900787
> north: 250690
> south: 249502
> west: 912791
> east: 913931
> top: 64.00000000
> bottom: 0.00000000
> nsres: 2
> nsres3: 2
> ewres: 2
> ewres3: 2
> tbres: 8
> rows: 594
> rows3: 594
> cols: 570
> cols3: 570
> depths: 8
>
> can you then try to run the following command (please adjust the names of the 2d and 3d rasters to your actual names)
>
> m.nviz.image elevation_map=JR_2008_ALL at Baseline_JR -a mode=fine resolution_fine=6 color_map=JR_2008_ALL at Baseline_JR \
> volume=JR_7408MR_2m_t70 at Baseline_JR volume_shading=gouraud volume_resolution=1 volume_position=0,0,20 isosurf_level=1:18.0 isosurf_color_map=JR_7408MR_2m_t70 at Baseline_JR isosurf_transparency_value=0 slice=1:x,1:z slice_position=0.000000,1.000000,0.520000,1.000000,0.000000,1.000000,0.250000,0.720000,0.080000,1.000000,0.000000,1.000000 slice_transparency=0,0 position=0.84,0.16 height=356 perspective=20 twist=0 zexag=5.000000 focus=569,593,28 \
> light_position=0.68,0.68,0.80 light_brightness=80 light_ambient=20 light_color=255:255:255 \
> output=jrvoltest format=tif size=798,545
>
> it should generate an image with isosurfaces and a tilted crossection - it is not quite what I have on the screen, because
> it apparently uses some default values instead of actual values (e.g. for toggle normal direction and crossection) but it should have some
> isosurfaces. Let us know whether the command line works and we can go from there.
>
> Helena
>
> On Jan 3, 2013, at 12:08 AM, Michael Barton wrote:
>
>> When I put in values between 15 and 20 I can see the horizontal outline of a rectangle but not the 3D shape of a box. No isosurfaces display. No crash either.
>>
>> I un-commented line 684 and commented line 1009 in gvl_calc_c to see what happens to slices
>>
>> /* gvl_align_data(pos, slice->data); */
>>
>> A horizontal slice displays and I can manipulate it in the X and Y direction. But I cannot manipulate it in the Z direction. Also, a Z dimension slice shows up only as a line. Also, isosurfaces do not display. But there is no crash for either isosurfaces or slices when I comment out this line. On the face of it, a memory issue related to display in the Z dimension is causing a crash. Commenting out calls to gvl_align_data in gvl_calc_c stops the crash and stops display in the Z dimension. There is also something called gvl_calc2_c in this folder. Its code is very similar to gvl_calc_c
>>
>> I'm guessing that Martin and Helena know the most about the relevant C code for lib/ogsf/*. Glynn may have some insight into this too. Anyone else is welcome to chime in.
>>
>> FWIW, the last time gvl_calc_c was touched was by Glynn 4 years ago (glynn: Fix char/char* mismatch (merge from trunk, r32757)).
>>
>> Volume display worked as recently as fall 2011 AFAIK.
>>
>> Michael
>> ____________________
>> C. Michael Barton
>> Director, Center for Social Dynamics & Complexity
>> Professor of Anthropology, School of Human Evolution & Social Change
>> Arizona State University
>>
>> voice: 480-965-6262 (SHESC), 480-727-9746 (CSDC)
>> fax: 480-965-7671 (SHESC), 480-727-0709 (CSDC)
>> www: http://www.public.asu.edu/~cmbarton, http://csdc.asu.edu
>>
>>
>>
>>
>> On Jan 2, 2013, at 10:21 AM, Helena Mitasova <hmitaso at ncsu.edu> wrote:
>>
>>>
>>>
>>> On Jan 2, 2013, at 1:34 AM, Michael Barton wrote:
>>>
>>>> Testing with GRASS 6.4.3RC2
>>>>
>>>> Rem-ing out line 684 in gvl_calc_c
>>>>
>>>> /* gvl_align_data(dbuff[i].ndx_new, dbuff[i].new); */
>>>>
>>>> prevents crashing. But I don't see an isosurface.
>>>>
>>>>
>>>>
>>>> Helena,
>>>>
>>>> I'm using your test data (jr_7408MR_2m_t70)
>>>>
>>>> What is a good value to set for an isosurface to see anything?
>>>
>>> anything between 15 to 20 should work.
>>> You can move the volume a little bit above the surface to see the entire isosurface
>>> Here is an example of settings that I have used (the name of the volume raster is slightly different
>>> but it is the same data).
>>>
>>>> m.nviz.image elevation_map=JR_2008_ALL -a mode=fine resolution_fine=1 color=243:243:243 volume=JR_7408MR_2m volume_shading=gouraud volume_resolution=1 volume_position=0,0,20 isosurf_level=1:17.0 isosurf_color_map=JR_7408MR_2m isosurf_transp_value=0 position=0.11,0.07 height=243 perspective=13 twist=0 zexag=6.000000 focus=569,593,17 light_position=0.26,-0.30,0.61 light_brightness=94 light_ambient=55 light_color=255:255:255 output=nviz_output format=ppm size=798,545
>>>
>>> This volume includes no-data because the original rasters were masked, I think it would be useful to start with a volume without no-data -
>>> just use r3.null to replace no-data with 0.
>>>
>>> Let me know if it would be useful for me to run same thing in MacOSX 10.6 (I still don't have 10.8 machine quite ready),
>>> (see the slides 12 and 13 here for the isosurfaces at different levels, I have the isosurfaces colored by year - I don't think I gave you
>>> that raster, so your isosurfaces should be just a single color).
>>> http://skagit.meas.ncsu.edu/~helena/publwork/AGU2012lidar6.pptx
>>>
>>> Helena
>>>
>>>> Slices still crash because they still call gvl_align_data. As before, though initially displaying a slice works fine. It only crashes when I try to change something about the slice and it wants to redraw.
>>>>
>>>> Michael
>>>> ____________________
>>>> C. Michael Barton
>>>> Director, Center for Social Dynamics & Complexity
>>>> Professor of Anthropology, School of Human Evolution & Social Change
>>>> Arizona State University
>>>>
>>>> voice: 480-965-6262 (SHESC), 480-727-9746 (CSDC)
>>>> fax: 480-965-7671 (SHESC), 480-727-0709 (CSDC)
>>>> www: http://www.public.asu.edu/~cmbarton, http://csdc.asu.edu
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> On Jan 1, 2013, at 1:24 PM, Anna Kratochvílová <kratochanna at gmail.com>
>>>> wrote:
>>>>
>>>>> Hi Michael,
>>>>>
>>>>> On Tue, Jan 1, 2013 at 8:48 PM, Michael Barton <Michael.Barton at asu.edu> wrote:
>>>>>> Hi Anna,
>>>>>>
>>>>>> On the slim chance that you are online today, can you tell me where gvl_align_data in gvl_calc.c reside in either the source code or compiled code? I have a bit of down time and thought I'd see what I could find out about the volume display breaking. I don't know C but can selectively rem out some things and see what happens.
>>>>>
>>>>> It should be here
>>>>> http://trac.osgeo.org/grass/browser/grass/trunk/lib/ogsf/gvl_calc.c#L685
>>>>>
>>>>> Also, you could try debugging with QtCreator [1] (as an user-friendly
>>>>> interface to the debugger), it is quite easy, here [2] is some help
>>>>> for setting up the project. I don't know what method you would like to
>>>>> use but this is the easiest I know. I suppose it should work on Mac,
>>>>> too.
>>>>>
>>>>> Regards,
>>>>> Anna
>>>>>
>>>>> [1] http://qt-project.org/downloads
>>>>> [2] http://grasswiki.osgeo.org/wiki/Using_QtCreator_for_GRASS_C_development#Debugging
>>>>>
>>>>>
>>>>>>
>>>>>>
>>>>>> Thanks
>>>>>> Michael
>>>>>> ____________________
>>>>>> C. Michael Barton
>>>>>> Director, Center for Social Dynamics & Complexity
>>>>>> Professor of Anthropology, School of Human Evolution & Social Change
>>>>>> Arizona State University
>>>>>>
>>>>>> voice: 480-965-6262 (SHESC), 480-727-9746 (CSDC)
>>>>>> fax: 480-965-7671 (SHESC), 480-727-0709 (CSDC)
>>>>>> www: http://www.public.asu.edu/~cmbarton, http://csdc.asu.edu
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> On Dec 6, 2012, at 12:07 AM, Anna Kratochvílová <kratochanna at gmail.com> wrote:
>>>>>>
>>>>>>> Hi Michael,
>>>>>>>
>>>>>>> On Wed, Dec 5, 2012 at 11:02 PM, Michael Barton <michael.barton at asu.edu> wrote:
>>>>>>>> Any suggestions yet on where the crash I documented in
>>>>>>>> http://trac.osgeo.org/grass/ticket/1736 actually happens in the code so that
>>>>>>>> I can take a look at it and see if there is something fixable for the Mac? I
>>>>>>>> posted what I hope is the relevant debug output to help identify this.
>>>>>>>>
>>>>>>>> While we may need to think about wxPython 2.9, it seems best to first look
>>>>>>>> at what line is actually causing the crash and see if there is a fix or
>>>>>>>> workaround.
>>>>>>>
>>>>>>> The crash occurs probably in gvl_align_data in gvl_calc.c. The error
>>>>>>> message 'pointer being realloc'd was not allocated' is quite clear,
>>>>>>> however it's not clear why it happens on Mac only. Maybe someone with
>>>>>>> better knowledge of C could understand it more.
>>>>>>>
>>>>>>> Anna
>>>>>>>
>>>>>>>>
>>>>>>>> Michael
>>>>>>>> ____________________
>>>>>>>> C. Michael Barton
>>>>>>>> Director, Center for Social Dynamics & Complexity
>>>>>>>> Professor of Anthropology, School of Human Evolution & Social Change
>>>>>>>> Arizona State University
>>>>>>>>
>>>>>>>> voice: 480-965-6262 (SHESC), 480-727-9746 (CSDC)
>>>>>>>> fax: 480-965-7671 (SHESC), 480-727-0709 (CSDC)
>>>>>>>> www: http://www.public.asu.edu/~cmbarton, http://csdc.asu.edu
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>
>>>>
>>>
>>
>
More information about the grass-dev
mailing list