From a31ee58980e613c864891b2dd8b369b5ad776376 Mon Sep 17 00:00:00 2001 From: Nathan Keim Date: Fri, 7 Nov 2025 13:00:19 -0500 Subject: [PATCH 1/2] DOC: Update contributors --- .zenodo.json | 12 ++++++++++++ doc/introduction.rst | 14 +------------- 2 files changed, 13 insertions(+), 13 deletions(-) diff --git a/.zenodo.json b/.zenodo.json index 60ef0b42..b31255d9 100644 --- a/.zenodo.json +++ b/.zenodo.json @@ -10,9 +10,21 @@ "orcid": "0000-0003-4692-608X", "name": "Caswell, Thomas" }, + { + "orcid": "0000-0002-7398-1597", + "name": "Freeman, Sean W." + }, + { + "orcid": "0000-0003-0243-6046", + "name": "Horowitz, Viva R." + }, { "orcid": "0000-0003-0746-0547", "name": "Keim, Nathan C." + }, + { + "orcid": "0000-0003-2193-5369", + "name": "Lee, Antony" }, { "orcid": "0000-0002-0488-2237", diff --git a/doc/introduction.rst b/doc/introduction.rst index b9a09dc4..70e34b6a 100644 --- a/doc/introduction.rst +++ b/doc/introduction.rst @@ -114,18 +114,6 @@ Peter J Lu https://github.com/peterlu/PLuTARC_centerfind2D Thomas A Caswell https://github.com/tacaswell/tracking C++ ============================ =================================================== ========================= -Core Contributors -^^^^^^^^^^^^^^^^^ - - * **Casper van der Wel** anisotropic 3D feature-finding, plotting and analyses, framework - for least-squares refinement, combined linking and feature finding - * **Daniel Allan** feature-finding, uncertainty estimation, - motion characterization and discrimination, plotting tools, tests - * **Nathan Keim** alternative trajectory-linking implementations, major - speed-ups, prediction, adaptive search - * **Thomas Caswell** multiple implementations of sophisticated trajectory-linking, tests - - Support ^^^^^^^ @@ -146,6 +134,6 @@ Portions were also developed at the University of Pennsylvania, Philadelphia, USA, supported by NSF-MRSEC DMR-1120901. This package was developed in part by Casper van der Wel, as part of his -PhD thesis work in Daniela Kraft’s group at the Huygens-Kamerlingh-Onnes laboratory, +PhD thesis work in Daniela Kraft's group at the Huygens-Kamerlingh-Onnes laboratory, Institute of Physics, Leiden University, The Netherlands. This work was supported by the Netherlands Organisation for Scientific Research (NWO/OCW). From a84ddc9f4e2e799bd728ed06ef8b61fccf17551e Mon Sep 17 00:00:00 2001 From: Nathan Keim Date: Thu, 14 May 2026 12:38:26 -0400 Subject: [PATCH 2/2] DOC: Update funding info for contributors --- doc/introduction.rst | 48 +++++++++++++++++++++++++------------------- 1 file changed, 27 insertions(+), 21 deletions(-) diff --git a/doc/introduction.rst b/doc/introduction.rst index 70e34b6a..5f7392a2 100644 --- a/doc/introduction.rst +++ b/doc/introduction.rst @@ -59,7 +59,8 @@ Special Capabilities in a routine that combines linking and feature-finding. * Feature-finding and trajectory-linking works on **images with any number of dimensions**, making possible some creative applications. - * **Uncertainty is estimated** following a method `described in this paper `__ by Savin and Doyle. + * **Uncertainty is estimated** following a method `described in this paper `__ + by Savin and Doyle. * **High-performance** numba acceleration is used only if if available. Since these can be tricky to install on some machines, the code will automatically fall back on slower pure Python implementations @@ -117,23 +118,28 @@ Thomas A Caswell https://github.com/tacaswell/tracking Support ^^^^^^^ -This package was developed in part by Daniel Allan, as part of his -PhD thesis work on microrheology in Robert L. Leheny's group at Johns Hopkins -University in Baltimore, MD, USA. The work was supported by the National Science Foundation -under grant number CBET-1033985. Dan can be reached at dallan@pha.jhu.edu. - -This package was developed in part by Thomas A Caswell as part of his -PhD thesis work in Sidney R Nagel's and Margaret L Gardel's groups at -the University of Chicago, Chicago IL, USA. This work was supported in -part by NSF Grant DMR-1105145 and NSF-MRSEC DMR-0820054. Tom can be -reached at tcaswell@gmail.com. - -This package was developed in part by Nathan C. Keim at Cal Poly, -San Luis Obispo, California, USA and supported by NSF Grant DMR-1708870. -Portions were also developed at the University of Pennsylvania, -Philadelphia, USA, supported by NSF-MRSEC DMR-1120901. - -This package was developed in part by Casper van der Wel, as part of his -PhD thesis work in Daniela Kraft's group at the Huygens-Kamerlingh-Onnes laboratory, -Institute of Physics, Leiden University, The Netherlands. This work was -supported by the Netherlands Organisation for Scientific Research (NWO/OCW). +* Daniel Allan's work on this project was part of his PhD thesis work on + microrheology in Robert L. Leheny's group at Johns Hopkins University in + Baltimore, MD, USA. The work was supported by the National Science Foundation + under grant number CBET-1033985. +* Thomas A Caswell's work on this project was part of his PhD thesis work in + Sidney R Nagel's and Margaret L Gardel's groups at the University of Chicago, + Chicago IL, USA. This work was supported in part by NSF Grant DMR-1105145 and + NSF-MRSEC DMR-0820054. +* Sean Freeman's contributions were supported by INCUS, a NASA Earth Venture + Mission, funded by NASA's Science Mission Directorate and managed through the + Earth System Science Pathfinder Program Office under contract number + 80LARC22DA011. +* Viva R. Horowitz's contributions were supported by Hamilton College. +* Nathan C. Keim's work on this project was supported in part by NSF-MRSEC + DMR-1120901 (University of Pennsylvania, Philadelphia PA, USA), NSF Grant + DMR-1708870 (Cal Poly, San Luis Obispo CA, USA), and NSF Grant DMR-2346012 + (The Pennsylvania State University, University Park PA, USA). +* Antony Lee's work on the package took place, in part, during his post-doc in + Laurent Cognet's group at the Université de Bordeaux. This work was supported + by a post-doctoral fellowship from the Fondation ARC pour la Recherche sur le + Cancer. +* Casper van der Wel's work on this project was part of his PhD thesis work in + Daniela Kraft's group at the Huygens-Kamerlingh-Onnes laboratory, Institute of + Physics, Leiden University, The Netherlands. This work was supported by the + Netherlands Organisation for Scientific Research (NWO/OCW). \ No newline at end of file