meshing panics with indeterminate data
Closed this issue · 12 comments
whiterabbit42k commented
I'm seeing this panic in 0.6.1:
panicked at 'Trying to evaluate cell data with indeterminate data!', /home/whiterabbit/.cargo/registry/src/github.com-1ecc6299db9ec823/splashsurf_lib-0.6.1/src/marching_cubes.rs:45:17
when trying to mesh a fluid from salva; i previously had no issues, so i'm not sure what happened here. It would be great if this didn't panic, but returned an error, so I could handle, and reuse an old mesh, etc. I could also try to help figure out why this panic is getting hit, but will need some help where to start.
whiterabbit42k commented
update: so salva 0.5/0.4 libsplashsurf_lib meshes fine. after some work i got libsplash_surf 0.5 and 0.6 working with salva 0.5 (by copying all the points to nalgebra24).
it has the indeterminate error in 0.5 and 0.6 (libsplashsurf), so i don't think this is a salva issue.
w1th0utnam3 commented
Thanks for reporting this issue!
Yes, an error would definitely be better here. Can you still send me your parameters and maybe try to dump the specific particle data that causes this error, e.g. with Serde? Or simply by writing the f32 vector components just as xyzxyz... into a binary file? Because this should not happen with fluid data.
One cause for this I can imagine right now is that you manually specify a bounding box (which overwrites the automatic bounding box computation in the library that would add some additional margin around the particles). Now, if a particle is close to this boundary, in particular closer than the kernel compact support radius, then the resulting mesh would probably have a hole in that area if the marching cubes implementation would support this. However, I implemented it under the assumption that the surface of the fluid is closed, and this error is usually an indicator for this not being the case.
So if it sounds like this might be the cause, then you can try to increase the bounding box by at least your compact support radius (maybe 1.5x just to be sure). If this fixes the problem, then I don't need your simulation data. However I still have to think about how to best return an error there and this should probably be documented.
EDIT: Btw. it would definitely be the right decision to provide your own domain instead of letting the library compute it if you know the fluid domain from your simulation. This way you save the computation time splashsurf would need to compute the bounding box of all particles and you can be sure that the grid nodes that are used to generate the mesh are always aligned over time and you don't get any temporal artifacts from the background grid moving.
w1th0utnam3 commented
Hm, looking at the code that evaluates the density level-set I'm not 100% if this can really be the cause of the issue as I'm filtering out particles that are too close to the boundary. Maybe the margin I use for this is not sufficient. But it would still be helpful I you tried out increasing your domain by the compact support radius to potentially rule this our as an issue.
whiterabbit42k commented
Attached are positions which were written just before calling match splashsurf_lib::reconstruct_surface_inplace::<i64, _>(positions, params, surface) with them, in json format:
#[derive(serde::Serialize)]
struct Data {
pub positions: Vec<nalgebra::Vector3<Real>>,
}parameters:
Parameters {
particle_radius: 0.5,
rest_density: 1000.0,
compact_support_radius: 2.0,
cube_size: 0.75,
iso_surface_threshold: 0.45,
domain_aabb: None,
enable_multi_threading: false,
spatial_decomposition: None,
}
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is another set which appears to cause issues:
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commented
so i was able to tweak my params to appear to avoid the panic:
Parameters {
particle_radius: 0.4,
rest_density: 1000.0,
compact_support_radius: 2.0,
cube_size: 0.6,
iso_surface_threshold: 0.45,
domain_aabb: None,
enable_multi_threading: false,
spatial_decomposition: None,
}
it doesn't look as good imho, but it seems to work for now. making the functions more panic safe would be great though :)
w1th0utnam3 commented
So for me your first particle set works when using the following parameters:
let params = Parameters {
particle_radius: 0.5,
rest_density: 1000.0,
compact_support_radius: 2.0,
cube_size: 0.75,
iso_surface_threshold: 0.45,
domain_aabb: Some(AxisAlignedBoundingBox3d::new(
Vector3::new(46.0, 0.0, -1.0),
Vector3::new(200.0, 100.0, 200.0),
)),
enable_multi_threading: false,
spatial_decomposition: None,
};
i.e. by specifiying a sufficiently large AABB. I would recommend using this if you know that your simulation domain cannot be larger than this over all timesteps. Of course this might not be possible for all applications. As mentioned before, not specifying this explictly but using the automatic computation over multiple timesteps might lead to temporal artificats due to the implicit cube grid moving between timesteps. To fix this, I would have to add an alternative option for e.g. an "anchor point" of the automatically computed grid/AABB. I'll put this onto my todo list.
To properly fix your problem, I still have to
- Check why the margin of the automatic AABB computation is not sufficient in this case
- Replace the panic with an error
Furthermore, I found another panic that should be replaced with an error. When you deliberatley pass in an AABB that is too small for all particles, the neighborhood search can crash. This is caused by particles outside of the domain not being explicitly filtered out in the beginning. Later they cannot be correctly located inside the AABB which leads to a panic.
whiterabbit42k commented
Hmm, i tried using a domain aabb which should smaller and larger than any of the attached position, but i'm still seeing the panic:
Parameters {
particle_radius: 0.5,
rest_density: 1000.0,
compact_support_radius: 2.0,
cube_size: 0.75,
iso_surface_threshold: 0.45,
domain_aabb: Some(
AxisAlignedBoundingBox { min: [-10.0000000, -10.0000000, -10.0000000], max: [210.0000000, 110.0000000, 210.0000000] },
),
enable_multi_threading: false,
spatial_decomposition: None,
}
{"positions":[[158.80353,29.653088,131.12979],[156.49847,29.48464,130.72267],[157.97023,29.500221,133.33952],[158.75528,29.712734,134.45831],[159.43091,29.702572,135.41794],[158.59912,30.366186,130.89786],[158.31448,30.821266,131.89442],[158.39333,30.8764,133.23872],[158.79137,30.573883,134.7547],[159.4229,30.64538,135.44809],[157.75726,31.749855,131.56218],[158.35136,31.749905,132.19568],[158.49353,31.71414,133.2391],[158.83691,31.852606,134.56932],[159.24124,31.642317,135.39131],[157.48033,32.568535,131.65637],[158.69238,33.028477,131.99512],[158.55763,32.93753,133.26659],[159.0332,32.569744,134.50768],[159.07579,32.64805,135.30394],[157.54507,33.692207,131.43414],[158.68631,33.73513,132.30559],[156.50899,33.726917,131.98593],[158.20586,33.927856,133.77898],[159.06229,33.751892,135.42978],[157.75188,30.38949,129.508],[156.9066,29.031578,131.4931],[157.42078,28.715755,131.65086],[157.35329,30.391077,133.50984],[160.09404,29.610209,135.63797],[160.02188,30.520048,130.68944],[159.1442,31.084026,131.03828],[158.90552,30.81909,133.28174],[159.78168,30.530987,134.83482],[160.1775,30.602213,135.71945],[158.52737,31.255272,130.97487],[159.27599,32.172348,131.53534],[159.27592,31.83924,133.13837],[159.2465,31.846283,134.73499],[159.919,31.617422,135.89377],[158.31448,32.85959,130.78267],[160.04071,32.844414,132.03197],[157.08725,32.899094,132.14748],[157.13313,32.920116,133.42743],[159.97743,32.82193,135.60214],[158.56192,34.368103,131.05093],[158.5113,33.885944,129.8644],[160.18361,33.966286,131.2508],[157.60173,33.91294,134.4811],[155.89565,33.75132,133.82825],[157.11964,29.49432,128.54036],[160.48341,29.015345,131.85187],[157.24881,30.975653,132.37389],[158.33853,29.750172,131.6216],[161.33699,29.339958,136.14505],[157.64424,32.20989,129.14102],[159.2364,31.002285,130.40578],[158.90535,31.030252,131.9429],[159.22212,30.25468,133.97203],[160.9458,30.774242,136.06688],[160.56013,30.625599,130.21872],[159.08101,32.27511,131.14696],[161.30872,31.940845,131.31587],[159.38187,31.669683,132.57504],[160.82678,31.814278,135.75404],[160.79489,33.1244,130.31056],[159.48212,33.553955,130.05826],[161.20111,33.029266,131.23627],[159.70198,33.068214,132.41222],[158.72656,32.68203,135.69145],[160.63069,34.93365,131.04996],[157.45479,34.052563,130.08138],[158.49586,34.39145,132.61302],[157.85861,34.994877,131.2869],[157.46144,33.912586,135.83891],[162.31516,29.527967,129.95833],[159.31366,29.803345,129.88002],[157.71466,28.377062,130.08728],[157.03418,29.019152,132.25041],[157.49641,28.548655,133.92354],[161.94164,30.813242,130.18686],[158.60742,31.448334,129.40593],[160.25891,31.297565,130.86592],[160.64478,30.1442,132.1987],[160.3668,31.429773,135.00555],[154.9756,30.541649,130.15952],[158.5036,31.998848,129.5844],[159.10284,32.69271,129.77077],[158.69357,32.324116,131.1839],[158.67522,31.503801,136.75938],[155.01317,33.113457,129.95638],[162.19765,32.97756,131.50467],[158.83803,32.685993,130.02263],[158.63316,32.5622,132.24545],[158.67722,33.421078,136.75229],[154.84653,35.465904,130.76035],[162.68942,33.877724,131.62354],[162.49829,34.157906,131.79317],[161.95168,34.368904,131.49219],[157.50499,34.245407,133.68677],[164.13231,29.347942,130.46242],[158.6581,28.648994,128.63608],[159.15332,28.699114,128.89018],[158.6987,29.97141,131.11748],[158.03801,29.540203,132.32712],[163.7454,30.885513,129.33295],[160.95105,30.97818,129.50124],[159.43896,30.547253,132.00703],[157.53246,30.435358,132.32213],[160.13394,29.650892,134.37036],[156.73044,31.667141,130.9136],[160.26361,31.929098,128.9026],[160.50352,31.75374,129.75168],[159.602,32.017506,130.54283],[158.09337,31.784245,133.14569],[156.99629,32.74391,131.00879],[163.68765,32.62551,132.22147],[160.84714,32.38678,130.11415],[158.84825,32.547688,134.43996],[157.66757,32.858322,133.41154],[156.4662,34.143238,130.94165],[163.65309,33.71715,131.95851],[164.5175,33.84594,132.47034],[158.84236,35.300537,131.33473],[158.44725,34.891098,132.71939]]}w1th0utnam3 commented
Thanks for the feedback! That was a bit surprising to me. I think I didn't notice this issue before because I'm often using much smaller particle radii and larger surface thresholds. Anyway, I think the cause of the issue should be fixed on master for now. Can you try changing your explicit version dependency of the lib to the current master and try it out before I publish a new version?
I still have to add some errors instead of panics though.
whiterabbit42k commented
yes, this appears to fix the issue (or at least i can't reproduce it anymore!) this is great, thanks! so if i tweak the some of the param values will the panic manifest again, or has the general underlying issue likely been fixed?
w1th0utnam3 commented
This specific error should not appear anymore. It should now be similiar to the situation before the version that introduced this panic. In any case, thanks for reporting this. Your data really helped debugging this.
I'll leave this open until I added some errors instead of panics at places related to this.
whiterabbit42k commented
great, and thanks for fixing so quickly! let me know if you need anything else
w1th0utnam3 commented
Ok, closing this now as I started to return some more errors, e.g. when the triangulation fails (6fd48cd).