Extractors

"Extractors" have been added to the model. They allow the user to read particular results such as the equivalent Von-Mises stress at given positions in the mesh after the FE analysis. The values are displayed in the console at the end of the calculation (if only 1 node is concerned). They are also saved to disc

• in a .tsv (tab-separated values) file when fossils is used,
• or in a .ascii file when Metafor is used.

The input syntax is documented [here in the wiki].(https://gitlab.uliege.be/rboman/fossils/-/wikis/input-file-for-boneload-simulations#extractors).

Some extractors have been added to models/dolicorhynchops/dolicorhynchops_10k.py:

    p['extractors'] = [
        {
            'name': 'tooth1',
            'nodes': [-10.20362, -17.46838, -229.9061],
            'variables': [ 'sigvm' ]
        },
        {
            'name': 'tooth2',
            'nodes': [-11.92466, 26.3042, -229.5354],
            'variables': [ 'sigxx', 'sigyy', 'sigzz', 'sigvm' ]
        },
        {
            'name': 'Lmuscle',
            'nodes': f'{path}/Lmuscle.stl',
            'variables': [ 'x0', 'y0', 'z0', 'sigvm' ]
        }
    ]

The values are calculated at the classical extractor list:

extracting results...
        internal energy = 95.219 N.mm
        contact_pts_Fx = 17.915 N
        [...]
        tooth1_sigvm = 4.507 MPa
        tooth2_sigxx = -1.000 MPa
        tooth2_sigyy = -1.025 MPa
        tooth2_sigzz = -0.687 MPa
        tooth2_sigvm = 3.803 MPa
        Lmuscle_x0 = (95 values in "Lmuscle_x0.tsv")
        Lmuscle_y0 = (95 values in "Lmuscle_y0.tsv")
        Lmuscle_z0 = (95 values in "Lmuscle_z0.tsv")
        Lmuscle_sigvm = (95 values in "Lmuscle_sigvm.tsv")
Total Execution time: 2.2s

README.md

@@ -8,9 +8,9 @@ More information in the [fossils Wiki](https://gitlab.uliege.be/rboman/fossils/-
 
 ## References
 
-* Chatar, N., Boman, R., Fallon Gaudichon, V., MacLaren, J. A., & Fischer, V. (2023). *‘Fossils’: A new, fast and open-source protocol to simulate muscle-driven biomechanical loading of bone*. Methods in Ecology and Evolution, 14, 848–859. ([pdf](https://doi.org/10.1111/2041-210X.14051)) ([blog](https://methodsblog.com/2023/03/28/fossils-free-fast-and-open-source-biomechanical-modelling/))
-* Chatar, N. (2023). *Disparity, evolution, and convergence among felid and felid-like carnivorans*. PhD thesis, ULiège. ([pdf](https://orbi.uliege.be/handle/2268/306184))
-
+* Chatar N., Boman R., Fallon Gaudichon V., MacLaren J. A., & Fischer V. (2023). *‘Fossils’: A new, fast and open-source protocol to simulate muscle-driven biomechanical loading of bone*. Methods in Ecology and Evolution, 14, 848–859. ([pdf](https://doi.org/10.1111/2041-210X.14051)) ([blog](https://methodsblog.com/2023/03/28/fossils-free-fast-and-open-source-biomechanical-modelling/))
+* Chatar N. (2023). *Disparity, evolution, and convergence among felid and felid-like carnivorans*. PhD thesis, ULiège. ([pdf](https://orbi.uliege.be/handle/2268/306184))
+* Chatar N., Boman R., Fischer V., Segura V., Julémont C., Jack Tseng Z. (2024) *Growing sabers: Mandibular shape and biomechanical performance trajectories during the ontogeny of Smilodon fatalis*. The Anatomical Record ([pdf](https://doi.org/10.1002/ar.25504)) 
 
 ## Credits