JNCS ageing reproducibility package: data, notebooks, and exported tables for "Testing one-state clock sufficiency in physical ageing: direct falsification and minimal route augmentation"

This archive contains the data, clean Zenodo-facing notebooks, helper code, and exported tables used for the manuscript: Testing one-state clock sufficiency in physical ageing: direct falsification and minimal route augmentation The package supports reproduction of both the main manuscript and the stand-alone Supplementary Information. Contents The archive includes: raw and processed inputs for the JCP 2019 glycerol example raw Roskilde repository datasets for JCP 2010 and JCP 2015 the external Nature Physics 2024 benchmark bundle used for the direct clock-sufficiency test clean generator notebooks for each dataset branch a lightweight helper package (src/hodophase) exported CSV and text files used directly by the manuscript and SI figures/tables Main outputs reproduced by this archive The archive reproduces the following manuscript-level outputs: Fig. 2 — falsification of one-state clock sufficiency on the Nat. Phys. BDS benchmark Table 2 / Fig. 3 — route-augmented closure statistics and leave-one-protocol-out reconstruction Fig. 4 — representative glycerol family collapse Table 3 / Fig. 5 — breadth summary across Roskilde datasets Supplementary outputs reproduced by this archive The archive also reproduces the supplementary materials, including: Nat. Phys. collapse-degeneracy and κ\kappaκ-sweep exports full bin-wise Nat. Phys. fit tables full leave-one-protocol-out protocol-wise exports Roskilde 2010 pairwise calibration and fallback-scan outputs Roskilde 2015 summary calibration outputs Roskilde window-sensitivity and QC summary tables Notebook structure The clean reproduction workflow is organized into the following notebooks: 09_jcp2019_glycerol_representative_zenodo.ipynb 10_natphys2024_benchmark_zenodo.ipynb 11_roskilde2010_raw_zenodo.ipynb 12_jcp2015_raw_zenodo.ipynb 13_paper_breadth_exports_zenodo.ipynb Notes on consistency The archive is intended as a raw-backed reproducibility package rather than a polished software release. Some files are retained for audit or provenance purposes, including legacy intermediate exports and zipped copies of recovered source data. The manuscript and SI should be regenerated from the final CSV exports documented in README.md and REPRODUCE.md.