deps: remove faer (224 transitive crates)
Spectral decomposition (eigenvalue computation) removed — it was only used by the spectral-save CLI command. The spectral embedding reader and query engine features remain (they load pre-computed embeddings from disk, no faer needed). Removes: faer, nano-gemm, private-gemm, and ~220 other transitive dependencies. Significant build time and artifact size reduction. Co-Authored-By: Kent Overstreet <kent.overstreet@linux.dev>
This commit is contained in:
Kent Overstreet
parent
c1a5638be5
commit
917960cb76
9 changed files with 5 additions and 900 deletions
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||||
name = "ipnet"
|
||||
version = "2.12.0"
|
||||
|
|
@ -2112,12 +1758,6 @@ version = "0.2.182"
|
|||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "6800badb6cb2082ffd7b6a67e6125bb39f18782f793520caee8cb8846be06112"
|
||||
|
||||
[[package]]
|
||||
name = "libm"
|
||||
version = "0.2.16"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "b6d2cec3eae94f9f509c767b45932f1ada8350c4bdb85af2fcab4a3c14807981"
|
||||
|
||||
[[package]]
|
||||
name = "libredox"
|
||||
version = "0.1.14"
|
||||
|
|
@ -2175,19 +1815,6 @@ version = "0.4.29"
|
|||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "5e5032e24019045c762d3c0f28f5b6b8bbf38563a65908389bf7978758920897"
|
||||
|
||||
[[package]]
|
||||
name = "loom"
|
||||
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|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "419e0dc8046cb947daa77eb95ae174acfbddb7673b4151f56d1eed8e93fbfaca"
|
||||
dependencies = [
|
||||
"cfg-if",
|
||||
"generator",
|
||||
"scoped-tls",
|
||||
"tracing",
|
||||
"tracing-subscriber",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "lru"
|
||||
version = "0.16.3"
|
||||
|
|
@ -2292,76 +1919,6 @@ dependencies = [
|
|||
"windows-sys 0.61.2",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "nano-gemm"
|
||||
version = "0.2.2"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "9e04345dc84b498ff89fe0d38543d1f170da9e43a2c2bcee73a0f9069f72d081"
|
||||
dependencies = [
|
||||
"equator 0.2.2",
|
||||
"nano-gemm-c32",
|
||||
"nano-gemm-c64",
|
||||
"nano-gemm-codegen",
|
||||
"nano-gemm-core",
|
||||
"nano-gemm-f32",
|
||||
"nano-gemm-f64",
|
||||
"num-complex",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "nano-gemm-c32"
|
||||
version = "0.2.1"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "0775b1e2520e64deee8fc78b7732e3091fb7585017c0b0f9f4b451757bbbc562"
|
||||
dependencies = [
|
||||
"nano-gemm-codegen",
|
||||
"nano-gemm-core",
|
||||
"num-complex",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "nano-gemm-c64"
|
||||
version = "0.2.1"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "9af49a20d58816e6b5ee65f64142e50edb5eba152678d4bb7377fcbf63f8437a"
|
||||
dependencies = [
|
||||
"nano-gemm-codegen",
|
||||
"nano-gemm-core",
|
||||
"num-complex",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "nano-gemm-codegen"
|
||||
version = "0.2.1"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "6cc8d495c791627779477a2cf5df60049f5b165342610eb0d76bee5ff5c5d74c"
|
||||
|
||||
[[package]]
|
||||
name = "nano-gemm-core"
|
||||
version = "0.2.1"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "d998dfa644de87a0f8660e5ea511d7cb5c33b5a2d9847b7af57a2565105089f0"
|
||||
|
||||
[[package]]
|
||||
name = "nano-gemm-f32"
|
||||
version = "0.2.1"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "879d962e79bc8952e4ad21ca4845a21132540ed3f5e01184b2ff7f720e666523"
|
||||
dependencies = [
|
||||
"nano-gemm-codegen",
|
||||
"nano-gemm-core",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "nano-gemm-f64"
|
||||
version = "0.2.1"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "b9a513473dce7dc00c7e7c318481ca4494034e76997218d8dad51bd9f007a815"
|
||||
dependencies = [
|
||||
"nano-gemm-codegen",
|
||||
"nano-gemm-core",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "nix"
|
||||
version = "0.29.0"
|
||||
|
|
@ -2394,17 +1951,6 @@ dependencies = [
|
|||
"memchr",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "npyz"
|
||||
version = "0.8.4"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "9f0e759e014e630f90af745101b614f761306ddc541681e546649068e25ec1b9"
|
||||
dependencies = [
|
||||
"byteorder",
|
||||
"num-bigint",
|
||||
"py_literal",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "nu-ansi-term"
|
||||
version = "0.50.3"
|
||||
|
|
@ -2414,27 +1960,6 @@ dependencies = [
|
|||
"windows-sys 0.61.2",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "num-bigint"
|
||||
version = "0.4.6"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "a5e44f723f1133c9deac646763579fdb3ac745e418f2a7af9cd0c431da1f20b9"
|
||||
dependencies = [
|
||||
"num-integer",
|
||||
"num-traits",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "num-complex"
|
||||
version = "0.4.6"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "73f88a1307638156682bada9d7604135552957b7818057dcef22705b4d509495"
|
||||
dependencies = [
|
||||
"bytemuck",
|
||||
"num-traits",
|
||||
"rand 0.8.5",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "num-conv"
|
||||
version = "0.2.0"
|
||||
|
|
@ -2452,15 +1977,6 @@ dependencies = [
|
|||
"syn 2.0.117",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "num-integer"
|
||||
version = "0.1.46"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "7969661fd2958a5cb096e56c8e1ad0444ac2bbcd0061bd28660485a44879858f"
|
||||
dependencies = [
|
||||
"num-traits",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "num-traits"
|
||||
version = "0.2.19"
|
||||
|
|
@ -2468,17 +1984,6 @@ source = "registry+https://github.com/rust-lang/crates.io-index"
|
|||
checksum = "071dfc062690e90b734c0b2273ce72ad0ffa95f0c74596bc250dcfd960262841"
|
||||
dependencies = [
|
||||
"autocfg",
|
||||
"libm",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "num_cpus"
|
||||
version = "1.17.0"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "91df4bbde75afed763b708b7eee1e8e7651e02d97f6d5dd763e89367e957b23b"
|
||||
dependencies = [
|
||||
"hermit-abi",
|
||||
"libc",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
|
|
@ -2790,7 +2295,6 @@ dependencies = [
|
|||
"clap",
|
||||
"crossterm",
|
||||
"dirs",
|
||||
"faer",
|
||||
"figment",
|
||||
"futures",
|
||||
"glob",
|
||||
|
|
@ -2874,22 +2378,6 @@ dependencies = [
|
|||
"syn 2.0.117",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "private-gemm-x86"
|
||||
version = "0.1.20"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "0af8c3e5087969c323f667ccb4b789fa0954f5aa650550e38e81cf9108be21b5"
|
||||
dependencies = [
|
||||
"crossbeam",
|
||||
"defer",
|
||||
"interpol",
|
||||
"num_cpus",
|
||||
"raw-cpuid",
|
||||
"rayon",
|
||||
"spindle",
|
||||
"sysctl",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "proc-macro-crate"
|
||||
version = "3.5.0"
|
||||
|
|
@ -3011,54 +2499,6 @@ version = "0.11.0"
|
|||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "007d8adb5ddab6f8e3f491ac63566a7d5002cc7ed73901f72057943fa71ae1ae"
|
||||
|
||||
[[package]]
|
||||
name = "pulp"
|
||||
version = "0.22.2"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "2e205bb30d5b916c55e584c22201771bcf2bad9aabd5d4127f38387140c38632"
|
||||
dependencies = [
|
||||
"bytemuck",
|
||||
"cfg-if",
|
||||
"libm",
|
||||
"num-complex",
|
||||
"paste",
|
||||
"pulp-wasm-simd-flag",
|
||||
"raw-cpuid",
|
||||
"reborrow",
|
||||
"version_check",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "pulp-wasm-simd-flag"
|
||||
version = "0.1.0"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "40e24eee682d89fb193496edf918a7f407d30175b2e785fe057e4392dfd182e0"
|
||||
|
||||
[[package]]
|
||||
name = "py_literal"
|
||||
version = "0.4.0"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "102df7a3d46db9d3891f178dcc826dc270a6746277a9ae6436f8d29fd490a8e1"
|
||||
dependencies = [
|
||||
"num-bigint",
|
||||
"num-complex",
|
||||
"num-traits",
|
||||
"pest",
|
||||
"pest_derive",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "qd"
|
||||
version = "0.8.0"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "15f1304a5aecdcfe9ee72fbba90aa37b3aa067a69d14cb7f3d9deada0be7c07c"
|
||||
dependencies = [
|
||||
"bytemuck",
|
||||
"libm",
|
||||
"num-traits",
|
||||
"pulp",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "quick-xml"
|
||||
version = "0.38.4"
|
||||
|
|
@ -3204,16 +2644,6 @@ dependencies = [
|
|||
"getrandom 0.3.4",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "rand_distr"
|
||||
version = "0.5.1"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "6a8615d50dcf34fa31f7ab52692afec947c4dd0ab803cc87cb3b0b4570ff7463"
|
||||
dependencies = [
|
||||
"num-traits",
|
||||
"rand 0.9.2",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "ratatui"
|
||||
version = "0.30.0"
|
||||
|
|
@ -3299,15 +2729,6 @@ dependencies = [
|
|||
"unicode-width",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "raw-cpuid"
|
||||
version = "11.6.0"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "498cd0dc59d73224351ee52a95fee0f1a617a2eae0e7d9d720cc622c73a54186"
|
||||
dependencies = [
|
||||
"bitflags 2.11.0",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "rayon"
|
||||
version = "1.11.0"
|
||||
|
|
@ -3328,12 +2749,6 @@ dependencies = [
|
|||
"crossbeam-utils",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "reborrow"
|
||||
version = "0.5.5"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "03251193000f4bd3b042892be858ee50e8b3719f2b08e5833ac4353724632430"
|
||||
|
||||
[[package]]
|
||||
name = "redb"
|
||||
version = "2.6.3"
|
||||
|
|
@ -3657,12 +3072,6 @@ dependencies = [
|
|||
"windows-sys 0.61.2",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "scoped-tls"
|
||||
version = "1.0.1"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "e1cf6437eb19a8f4a6cc0f7dca544973b0b78843adbfeb3683d1a94a0024a294"
|
||||
|
||||
[[package]]
|
||||
name = "scopeguard"
|
||||
version = "1.2.0"
|
||||
|
|
@ -3704,12 +3113,6 @@ version = "1.0.27"
|
|||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "d767eb0aabc880b29956c35734170f26ed551a859dbd361d140cdbeca61ab1e2"
|
||||
|
||||
[[package]]
|
||||
name = "seq-macro"
|
||||
version = "0.3.6"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "1bc711410fbe7399f390ca1c3b60ad0f53f80e95c5eb935e52268a0e2cd49acc"
|
||||
|
||||
[[package]]
|
||||
name = "serde"
|
||||
version = "1.0.228"
|
||||
|
|
@ -3875,19 +3278,6 @@ dependencies = [
|
|||
"windows-sys 0.60.2",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "spindle"
|
||||
version = "0.2.6"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "673aaca3d8aa5387a6eba861fbf984af5348d9df5d940c25c6366b19556fdf64"
|
||||
dependencies = [
|
||||
"atomic-wait",
|
||||
"crossbeam",
|
||||
"equator 0.4.2",
|
||||
"loom",
|
||||
"rayon",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "stable_deref_trait"
|
||||
version = "1.2.1"
|
||||
|
|
@ -3996,20 +3386,6 @@ dependencies = [
|
|||
"yaml-rust",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "sysctl"
|
||||
version = "0.6.0"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "01198a2debb237c62b6826ec7081082d951f46dbb64b0e8c7649a452230d1dfc"
|
||||
dependencies = [
|
||||
"bitflags 2.11.0",
|
||||
"byteorder",
|
||||
"enum-as-inner",
|
||||
"libc",
|
||||
"thiserror 1.0.69",
|
||||
"walkdir",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "tap"
|
||||
version = "1.0.1"
|
||||
|
|
@ -5011,21 +4387,6 @@ dependencies = [
|
|||
"windows-link",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "windows-sys"
|
||||
version = "0.42.0"
|
||||
source = "registry+https://github.com/rust-lang/crates.io-index"
|
||||
checksum = "5a3e1820f08b8513f676f7ab6c1f99ff312fb97b553d30ff4dd86f9f15728aa7"
|
||||
dependencies = [
|
||||
"windows_aarch64_gnullvm 0.42.2",
|
||||
"windows_aarch64_msvc 0.42.2",
|
||||
"windows_i686_gnu 0.42.2",
|
||||
"windows_i686_msvc 0.42.2",
|
||||
"windows_x86_64_gnu 0.42.2",
|
||||
"windows_x86_64_gnullvm 0.42.2",
|
||||
"windows_x86_64_msvc 0.42.2",
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "windows-sys"
|
||||
version = "0.45.0"
|
||||
|
|
|
|||
|
|
@ -29,7 +29,6 @@ regex = "1"
|
|||
chrono = "0.4"
|
||||
clap = { version = "4", features = ["derive"] }
|
||||
libc = "0.2"
|
||||
faer = "0.24.0"
|
||||
rkyv = { version = "0.7", features = ["validation", "std"] }
|
||||
memchr = "2"
|
||||
memmap2 = "0.9"
|
||||
|
|
|
|||
|
|
@ -15,6 +15,6 @@ serde = { version = "1", features = ["derive"] }
|
|||
tokio = { version = "1", features = ["full"] }
|
||||
tokio-rustls = "0.26"
|
||||
tokio-util = { version = "0.7", features = ["compat"] }
|
||||
tracing = "0.1"
|
||||
tracing = { version = "0.1", default-features = false }
|
||||
tracing-subscriber = { version = "0.3", features = ["env-filter"] }
|
||||
webpki-roots = "1"
|
||||
|
|
|
|||
|
|
@ -11,5 +11,5 @@ futures = "0.3"
|
|||
poc-memory = { path = "../.." }
|
||||
tokio = { version = "1", features = ["full"] }
|
||||
tokio-util = { version = "0.7", features = ["compat"] }
|
||||
tracing = "0.1"
|
||||
tracing = { version = "0.1", default-features = false }
|
||||
tracing-subscriber = { version = "0.3", features = ["env-filter"] }
|
||||
|
|
|
|||
|
|
@ -14,5 +14,5 @@ serde = { version = "1", features = ["derive"] }
|
|||
serde_json = "1"
|
||||
tokio = { version = "1", features = ["full"] }
|
||||
tokio-util = { version = "0.7", features = ["compat"] }
|
||||
tracing = "0.1"
|
||||
tracing = { version = "0.1", default-features = false }
|
||||
tracing-subscriber = { version = "0.3", features = ["env-filter"] }
|
||||
|
|
|
|||
|
|
@ -15,5 +15,5 @@ poc-memory = { path = "../.." }
|
|||
serde = { version = "1", features = ["derive"] }
|
||||
tokio = { version = "1", features = ["full"] }
|
||||
tokio-util = { version = "0.7", features = ["compat"] }
|
||||
tracing = "0.1"
|
||||
tracing = { version = "0.1", default-features = false }
|
||||
tracing-subscriber = { version = "0.3", features = ["env-filter"] }
|
||||
|
|
|
|||
130
src/cli/graph.rs
130
src/cli/graph.rs
|
|
@ -5,7 +5,7 @@
|
|||
// triangle-close, cap-degree, normalize-strengths, differentiate,
|
||||
// trace, spectral-*, organize, interference.
|
||||
|
||||
use crate::{store, graph, neuro, spectral};
|
||||
use crate::{store, graph, neuro};
|
||||
use crate::store::StoreView;
|
||||
|
||||
pub fn cmd_graph() -> Result<(), String> {
|
||||
|
|
@ -385,134 +385,6 @@ pub fn cmd_trace(key: &[String]) -> Result<(), String> {
|
|||
Ok(())
|
||||
}
|
||||
|
||||
pub fn cmd_spectral(k: usize) -> Result<(), String> {
|
||||
let store = store::Store::load()?;
|
||||
let g = graph::build_graph(&store);
|
||||
let result = spectral::decompose(&g, k);
|
||||
spectral::print_summary(&result, &g);
|
||||
Ok(())
|
||||
}
|
||||
|
||||
pub fn cmd_spectral_save(k: usize) -> Result<(), String> {
|
||||
let store = store::Store::load()?;
|
||||
let g = graph::build_graph(&store);
|
||||
let result = spectral::decompose(&g, k);
|
||||
let emb = spectral::to_embedding(&result);
|
||||
spectral::save_embedding(&emb)?;
|
||||
Ok(())
|
||||
}
|
||||
|
||||
pub fn cmd_spectral_neighbors(key: &str, n: usize) -> Result<(), String> {
|
||||
let emb = spectral::load_embedding()?;
|
||||
|
||||
let dims = spectral::dominant_dimensions(&emb, &[key]);
|
||||
println!("Node: {} (embedding: {} dims)", key, emb.dims);
|
||||
println!("Top spectral axes:");
|
||||
for &(d, loading) in dims.iter().take(5) {
|
||||
println!(" axis {:<2} (λ={:.4}): loading={:.5}", d, emb.eigenvalues[d], loading);
|
||||
}
|
||||
|
||||
println!("\nNearest neighbors in spectral space:");
|
||||
let neighbors = spectral::nearest_neighbors(&emb, key, n);
|
||||
for (i, (k, dist)) in neighbors.iter().enumerate() {
|
||||
println!(" {:>2}. {:.5} {}", i + 1, dist, k);
|
||||
}
|
||||
Ok(())
|
||||
}
|
||||
|
||||
pub fn cmd_spectral_positions(n: usize) -> Result<(), String> {
|
||||
let store = store::Store::load()?;
|
||||
let emb = spectral::load_embedding()?;
|
||||
|
||||
let g = store.build_graph();
|
||||
let communities = g.communities().clone();
|
||||
|
||||
let positions = spectral::analyze_positions(&emb, &communities);
|
||||
|
||||
println!("Spectral position analysis — {} nodes", positions.len());
|
||||
println!(" outlier: dist_to_center / median (>1 = unusual position)");
|
||||
println!(" bridge: dist_to_center / dist_to_nearest_other_community");
|
||||
println!();
|
||||
|
||||
let mut bridges: Vec<&spectral::SpectralPosition> = Vec::new();
|
||||
let mut outliers: Vec<&spectral::SpectralPosition> = Vec::new();
|
||||
|
||||
for pos in positions.iter().take(n) {
|
||||
match spectral::classify_position(pos) {
|
||||
"bridge" => bridges.push(pos),
|
||||
_ => outliers.push(pos),
|
||||
}
|
||||
}
|
||||
|
||||
if !bridges.is_empty() {
|
||||
println!("=== Bridges (between communities) ===");
|
||||
for pos in &bridges {
|
||||
println!(" [{:.2}/{:.2}] c{} → c{} {}",
|
||||
pos.outlier_score, pos.bridge_score,
|
||||
pos.community, pos.nearest_community, pos.key);
|
||||
}
|
||||
println!();
|
||||
}
|
||||
|
||||
println!("=== Top outliers (far from own community center) ===");
|
||||
for pos in positions.iter().take(n) {
|
||||
let class = spectral::classify_position(pos);
|
||||
println!(" {:>10} outlier={:.2} bridge={:.2} c{:<3} {}",
|
||||
class, pos.outlier_score, pos.bridge_score,
|
||||
pos.community, pos.key);
|
||||
}
|
||||
|
||||
Ok(())
|
||||
}
|
||||
|
||||
pub fn cmd_spectral_suggest(n: usize) -> Result<(), String> {
|
||||
let store = store::Store::load()?;
|
||||
let emb = spectral::load_embedding()?;
|
||||
let g = store.build_graph();
|
||||
let communities = g.communities();
|
||||
|
||||
let min_degree = 3;
|
||||
let well_connected: std::collections::HashSet<&str> = emb.coords.keys()
|
||||
.filter(|k| g.degree(k) >= min_degree)
|
||||
.map(|k| k.as_str())
|
||||
.collect();
|
||||
|
||||
let filtered_emb = spectral::SpectralEmbedding {
|
||||
dims: emb.dims,
|
||||
eigenvalues: emb.eigenvalues.clone(),
|
||||
coords: emb.coords.iter()
|
||||
.filter(|(k, _)| well_connected.contains(k.as_str()))
|
||||
.map(|(k, v)| (k.clone(), v.clone()))
|
||||
.collect(),
|
||||
};
|
||||
|
||||
let mut linked: std::collections::HashSet<(String, String)> =
|
||||
std::collections::HashSet::new();
|
||||
for rel in &store.relations {
|
||||
linked.insert((rel.source_key.clone(), rel.target_key.clone()));
|
||||
linked.insert((rel.target_key.clone(), rel.source_key.clone()));
|
||||
}
|
||||
|
||||
eprintln!("Searching {} well-connected nodes (degree >= {})...",
|
||||
filtered_emb.coords.len(), min_degree);
|
||||
let pairs = spectral::unlinked_neighbors(&filtered_emb, &linked, n);
|
||||
|
||||
println!("{} closest unlinked pairs (candidates for extractor agents):", pairs.len());
|
||||
for (i, (k1, k2, dist)) in pairs.iter().enumerate() {
|
||||
let c1 = communities.get(k1)
|
||||
.map(|c| format!("c{}", c))
|
||||
.unwrap_or_else(|| "?".into());
|
||||
let c2 = communities.get(k2)
|
||||
.map(|c| format!("c{}", c))
|
||||
.unwrap_or_else(|| "?".into());
|
||||
let cross = if c1 != c2 { " [cross-community]" } else { "" };
|
||||
println!(" {:>2}. dist={:.4} {} ({}) ↔ {} ({}){}",
|
||||
i + 1, dist, k1, c1, k2, c2, cross);
|
||||
}
|
||||
|
||||
Ok(())
|
||||
}
|
||||
|
||||
pub fn cmd_organize(term: &str, threshold: f32, key_only: bool, create_anchor: bool) -> Result<(), String> {
|
||||
let mut store = store::Store::load()?;
|
||||
|
||||
|
|
|
|||
|
|
@ -16,7 +16,6 @@
|
|||
|
||||
use crate::graph::Graph;
|
||||
|
||||
use faer::Mat;
|
||||
use serde::{Deserialize, Serialize};
|
||||
use std::collections::{HashMap, HashSet};
|
||||
use std::path::PathBuf;
|
||||
|
|
@ -52,91 +51,6 @@ pub fn embedding_path() -> PathBuf {
|
|||
/// normalized Laplacian L_sym = I - D^{-1/2} A D^{-1/2}.
|
||||
///
|
||||
/// We compute the full decomposition (it's only 2000×2000, takes <1s)
|
||||
/// and return the bottom k.
|
||||
pub fn decompose(graph: &Graph, k: usize) -> SpectralResult {
|
||||
// Only include nodes with edges (filter isolates)
|
||||
let mut keys: Vec<String> = graph.nodes().iter()
|
||||
.filter(|k| graph.degree(k) > 0)
|
||||
.cloned()
|
||||
.collect();
|
||||
keys.sort();
|
||||
let n = keys.len();
|
||||
let isolates = graph.nodes().len() - n;
|
||||
if isolates > 0 {
|
||||
eprintln!("note: filtered {} isolated nodes, decomposing {} connected nodes", isolates, n);
|
||||
}
|
||||
|
||||
let key_to_idx: HashMap<&str, usize> = keys.iter()
|
||||
.enumerate()
|
||||
.map(|(i, k)| (k.as_str(), i))
|
||||
.collect();
|
||||
|
||||
// Build weighted degree vector and adjacency
|
||||
let mut degree = vec![0.0f64; n];
|
||||
let mut adj_entries: Vec<(usize, usize, f64)> = Vec::new();
|
||||
|
||||
for (i, key) in keys.iter().enumerate() {
|
||||
for (neighbor, strength) in graph.neighbors(key) {
|
||||
if let Some(&j) = key_to_idx.get(neighbor.as_str())
|
||||
&& j > i { // each edge once
|
||||
let w = strength as f64;
|
||||
adj_entries.push((i, j, w));
|
||||
degree[i] += w;
|
||||
degree[j] += w;
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
// Build normalized Laplacian: L_sym = I - D^{-1/2} A D^{-1/2}
|
||||
let mut laplacian = Mat::<f64>::zeros(n, n);
|
||||
|
||||
// Diagonal = 1 for nodes with edges, 0 for isolates
|
||||
for i in 0..n {
|
||||
if degree[i] > 0.0 {
|
||||
laplacian[(i, i)] = 1.0;
|
||||
}
|
||||
}
|
||||
|
||||
// Off-diagonal: -w / sqrt(d_i * d_j)
|
||||
for &(i, j, w) in &adj_entries {
|
||||
if degree[i] > 0.0 && degree[j] > 0.0 {
|
||||
let val = -w / (degree[i] * degree[j]).sqrt();
|
||||
laplacian[(i, j)] = val;
|
||||
laplacian[(j, i)] = val;
|
||||
}
|
||||
}
|
||||
|
||||
// Eigendecompose
|
||||
let eig = laplacian.self_adjoint_eigen(faer::Side::Lower)
|
||||
.expect("eigendecomposition failed");
|
||||
let s = eig.S();
|
||||
let u = eig.U();
|
||||
|
||||
let mut eigenvalues = Vec::with_capacity(k);
|
||||
let mut eigvecs = Vec::with_capacity(k);
|
||||
|
||||
let s_col = s.column_vector();
|
||||
|
||||
// Skip trivial eigenvalues (near-zero = null space from disconnected components).
|
||||
// The number of zero eigenvalues equals the number of connected components.
|
||||
let mut start = 0;
|
||||
while start < n && s_col[start].abs() < 1e-8 {
|
||||
start += 1;
|
||||
}
|
||||
|
||||
let k = k.min(n.saturating_sub(start));
|
||||
for col in start..start + k {
|
||||
eigenvalues.push(s_col[col]);
|
||||
let mut vec = Vec::with_capacity(n);
|
||||
for row in 0..n {
|
||||
vec.push(u[(row, col)]);
|
||||
}
|
||||
eigvecs.push(vec);
|
||||
}
|
||||
|
||||
SpectralResult { keys, eigenvalues, eigvecs }
|
||||
}
|
||||
|
||||
/// Print the spectral summary: eigenvalue spectrum, then each axis with
|
||||
/// its extreme nodes (what the axis "means").
|
||||
pub fn print_summary(result: &SpectralResult, graph: &Graph) {
|
||||
|
|
|
|||
41
src/main.rs
41
src/main.rs
|
|
@ -423,42 +423,6 @@ enum GraphCmd {
|
|||
},
|
||||
/// Show graph structure overview
|
||||
Overview,
|
||||
/// Spectral decomposition of the memory graph
|
||||
Spectral {
|
||||
/// Number of eigenvectors (default: 30)
|
||||
#[arg(default_value_t = 30)]
|
||||
k: usize,
|
||||
},
|
||||
/// Compute and save spectral embedding
|
||||
#[command(name = "spectral-save")]
|
||||
SpectralSave {
|
||||
/// Number of eigenvectors (default: 20)
|
||||
#[arg(default_value_t = 20)]
|
||||
k: usize,
|
||||
},
|
||||
/// Find spectrally nearest nodes
|
||||
#[command(name = "spectral-neighbors")]
|
||||
SpectralNeighbors {
|
||||
/// Node key
|
||||
key: String,
|
||||
/// Number of neighbors (default: 15)
|
||||
#[arg(default_value_t = 15)]
|
||||
n: usize,
|
||||
},
|
||||
/// Show nodes ranked by outlier/bridge score
|
||||
#[command(name = "spectral-positions")]
|
||||
SpectralPositions {
|
||||
/// Number of nodes to show (default: 30)
|
||||
#[arg(default_value_t = 30)]
|
||||
n: usize,
|
||||
},
|
||||
/// Find spectrally close but unlinked pairs
|
||||
#[command(name = "spectral-suggest")]
|
||||
SpectralSuggest {
|
||||
/// Number of pairs (default: 20)
|
||||
#[arg(default_value_t = 20)]
|
||||
n: usize,
|
||||
},
|
||||
/// Diagnose duplicate/overlapping nodes for a topic cluster
|
||||
Organize {
|
||||
/// Search term (matches node keys; also content unless --key-only)
|
||||
|
|
@ -864,11 +828,6 @@ impl Run for GraphCmd {
|
|||
Self::Interference { threshold } => cli::graph::cmd_interference(threshold),
|
||||
Self::Communities { top_n, min_size } => cli::graph::cmd_communities(top_n, min_size),
|
||||
Self::Overview => cli::graph::cmd_graph(),
|
||||
Self::Spectral { k } => cli::graph::cmd_spectral(k),
|
||||
Self::SpectralSave { k } => cli::graph::cmd_spectral_save(k),
|
||||
Self::SpectralNeighbors { key, n } => cli::graph::cmd_spectral_neighbors(&key, n),
|
||||
Self::SpectralPositions { n } => cli::graph::cmd_spectral_positions(n),
|
||||
Self::SpectralSuggest { n } => cli::graph::cmd_spectral_suggest(n),
|
||||
Self::Organize { term, threshold, key_only, anchor }
|
||||
=> cli::graph::cmd_organize(&term, threshold, key_only, anchor),
|
||||
}
|
||||
|
|
|
|||
Loading…
Add table
Add a link
Reference in a new issue