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tuple_index

Syntologyentry name in harvested coderead from the graph 2026-09-24

tuple_index appears in the code Syntology harvested for 12 papers, as 3 distinct code bodies found in 13 places (a place is one code body under one paper). At least one of them ran in 8 of the papers; 0 of the code bodies carry a behaviour fingerprint.

What this page is not. Routines are grouped here by the exact string of their function or class name. Nothing asserts that two samples named tuple_index do the same thing, share code, or are comparable; the name is a string, not an identity. Behaviour outputs (what a fingerprinted sample returned on the shared battery) are not in this export and are not shown here; the graph at syntology.ai holds them. "Ran" means executed on a synthesized fixture, not that the code is correct or reproduces a paper.

Samples Syntology

Syntology ran 2 of the 3 distinct code bodies named tuple_index; 1 is unverified. One tile per status, in the site's fixed vocabulary, each code body counted once:

0ran · honoured contract
0ran · violated contract
1ran · our draft was wrong
0ran · fixture could not drive it
1ran
1unverified
0fingerprinted

Licence is a property of each copy, so it is counted per place: 4 of the 13 places are pointer only (Syntology does not serve that copy's text). This site shows no code text for any sample; every row below links to the file in its repository where the record names one.

“Ran” means the sample executed on a synthesized input; it does not mean the output is correct. “Honoured” and “violated” refer to a contract Syntology drafted from the code itself; “our draft was wrong” and “fixture could not drive it” are failures of Syntology's instrument, not of the code, and those samples did run. The ran count above is every status except unverified, the same rule as each paper page.

Papers

12 papers shown of 12, newest first; 13 places in the table. A paper with no recorded date is placed by the month its arXiv id encodes, shown in the Date column as YYYY-MM (from id). One row per place: a paper whose repository defines the name more than once appears more than once, and the same code body held for several papers appears once under each, with the same status. Titles and dates are the archive's archive 2025-07-28 for papers in the archive, and the graph's for 5 papers added by Syntology. Status and fingerprint are Syntology's record of each code body; licence is recorded for each place. The File cell ends with the code body's code_sha256, Syntology's identity for that exact code: an agent fetches the stored sample with Syntology's MCP tool get_code(code_sha256="…") (how to connect); click an identity to copy that call.

PaperDateFileStatus SyntologyLicence
Contextualizing Biological Language Models across Modalities via Logit-Space Contrastive Alignment added by Syntology 2026-06 (from id) facebookresearch/esm/esm/inverse_folding/gvp_modules.py 38735f4bca7f8220 ran · our draft was wrong MIT (permissive)
A Triple-Modal Contrastive Learning Framework with Sequence, Graph, and 3D Features for Drug-Target Interaction Prediction added by Syntology 2026-05 (from id) klez1/TriMod-DTI/drugbank/gvp.py b42bb2ccfce4d19b ran MIT (permissive)
Structure-based RNA Design by Step-wise Optimization of Latent Diffusion Model added by Syntology 2026-01 (from id) ml4bio/RhoDesign/src/gvp_src/gvp_modules.py 38735f4bca7f8220 ran · our draft was wrong MIT (permissive)
Structure-based RNA Design by Step-wise Optimization of Latent Diffusion Model added by Syntology 2026-01 (from id) ml4bio/RiboDiffusion/models/GVP_diff.py de724c9930a6f2be unverified MIT (permissive)
Fast and Interpretable Protein Substructure Alignment via Optimal Transport added by Syntology 2025-10 (from id) ai4protein/VenusX/src/models/gvp/gvp_modules.py 38735f4bca7f8220 ran · our draft was wrong licence not identified · pointer only
VDW-GNNs: Vector diffusion wavelets for geometric graph neural networks added by Syntology 2025-10 (from id) chaitjo/geometric-gnn-dojo/models/layers/gvp_layer.py de724c9930a6f2be unverified MIT (permissive)
Multi-Scale Representation Learning for Protein Fitness Prediction 2 Dec 2024 deepgraphlearning/s3f/s3f/gvp_layer.py 38735f4bca7f8220 ran · our draft was wrong MIT (permissive)
Retrieval-Enhanced Mutation Mastery: Augmenting Zero-Shot Prediction of Protein Language Model 28 Oct 2024 tyang816/protrem/src/structure/encoder/layer.py 38735f4bca7f8220 ran · our draft was wrong no licence file found · pointer only
Using pretrained graph neural networks with token mixers as geometric featurizers for conformational dynamics 30 Sep 2024 dinner-group/geom2vec/src/geom2vec/nn/gvp.py de724c9930a6f2be unverified no licence file found · pointer only
ProteinGPT: Multimodal LLM for Protein Property Prediction and Structure Understanding 21 Aug 2024 ProteinGPT/ProteinGPT/src/esm/inverse_folding/gvp_modules.py 38735f4bca7f8220 ran · our draft was wrong MIT (permissive)
RiboDiffusion: Tertiary Structure-based RNA Inverse Folding with Generative Diffusion Models 17 Apr 2024 ml4bio/ribodiffusion/models/GVP_diff.py de724c9930a6f2be unverified MIT (permissive)
AtomSurf : Surface Representation for Learning on Protein Structures 28 Sep 2023 vincentx15/atom2d/atom2d/base_nets/gvp.py de724c9930a6f2be unverified no licence file found · pointer only
Equivariant Point Cloud Analysis via Learning Orientations for Message Passing 28 Mar 2022 luost26/equivariant-orientedmp/modules/gvp.py 38735f4bca7f8220 ran · our draft was wrong MIT (permissive)

This site shows no code text; each File cell links to the file on GitHub at the repository's current default branch, which may have changed since the harvest. "Pointer only" means Syntology does not serve that copy's text, for one of four reasons: no licence file was found; the licence was not identified; the licence is recorded as permissive but that copy's record is not marked cleared; or the licence is outside the permissive list Syntology serves text under (MIT, Apache-2.0, BSD and similar). Some licences outside that list permit redistribution, such as WTFPL, and GPL-3.0 under its conditions; they are simply not on the list. Hover a licence cell for the reason. Per-sample records for a paper are on its paper page under "Code Syntology ran".

Report a problem or propose a change · a person checks every report against the paper or source before anything changes; decisions are listed on /corrections