@mapequation/infomap 1.7.3 → 2.0.1

package/CHANGELOG.md

@@ -2,6 +2,59 @@
 
 All notable changes to this project will be documented in this file. See [standard-version](https://github.com/conventional-changelog/standard-version) for commit guidelines.
 
+### [2.0.1](https://github.com/mapequation/infomap/compare/v2.0.0...v2.0.1) (2022-01-26)
+
+
+### Bug Fixes
+
+* Bug in write state network to json ([50f8de2](https://github.com/mapequation/infomap/commit/50f8de2008cf6422693a74279b347d043735200d)), closes [#262](https://github.com/mapequation/infomap/issues/262)
+* **js:** Broken parser due to duplicate variable name ([f437e13](https://github.com/mapequation/infomap/commit/f437e138f7b24140732831e63fac8c28e44e44bf))
+* Use min mass for dangling nodes when regularized ([f741d07](https://github.com/mapequation/infomap/commit/f741d079b04558102130cbbbd742a0ddc3c1c366))
+
+## [2.0.0](https://github.com/mapequation/infomap/compare/v1.9.0...v2.0.0) (2022-01-13)
+
+
+### ⚠ BREAKING CHANGES
+
+* Removes --input-format.
+* Removes --include-self-links.
+
+### Features
+
+* Entropy bias correction ([#258](https://github.com/mapequation/infomap/issues/258)) ([8ea235c](https://github.com/mapequation/infomap/commit/8ea235cf9159fc1a672a0470798ab7e443590fde))
+* Regularized map equation ([#181](https://github.com/mapequation/infomap/issues/181)) ([0673000](https://github.com/mapequation/infomap/commit/06730005329acb4ba781d647e7009d4ff2510ae7)), closes [#256](https://github.com/mapequation/infomap/issues/256)
+
+
+### Bug Fixes
+
+* Add new feature flags to python and js api ([48245a7](https://github.com/mapequation/infomap/commit/48245a795f87675b62b94b2f8bd8251b71e5f62e))
+* Include self links by default ([#255](https://github.com/mapequation/infomap/issues/255)) ([1f68940](https://github.com/mapequation/infomap/commit/1f68940a90633405f696efa93471ca8cbb25f14c))
+* **example:** Fix building c++ examples ([0d5c063](https://github.com/mapequation/infomap/commit/0d5c0639cb76b9b275388c1a45873496f675aeea)), closes [#252](https://github.com/mapequation/infomap/issues/252)
+
+
+* Remove superfluous --input-format flag ([2dd77c4](https://github.com/mapequation/infomap/commit/2dd77c4689c67485454478d739c22c8deb44eda0))
+
+## [1.9.0](https://github.com/mapequation/infomap/compare/v1.8.0...v1.9.0) (2021-11-17)
+
+
+### Features
+
+* **python:** Add API for intra/inter-layer links ([#245](https://github.com/mapequation/infomap/issues/245)) ([aa31ab2](https://github.com/mapequation/infomap/commit/aa31ab22ff8a706f7b1e5bbf75740d35ef5716bf)), closes [#244](https://github.com/mapequation/infomap/issues/244)
+
+
+### Bug Fixes
+
+* Incorrect one-level codelength for higher-order input ([5a6d1a1](https://github.com/mapequation/infomap/commit/5a6d1a10657c568f0fddf3afd6729a63e3543081)), closes [#182](https://github.com/mapequation/infomap/issues/182)
+* Write "directed", not "1", in cli output notice ([f0a9dc7](https://github.com/mapequation/infomap/commit/f0a9dc722f8e8d5b4ca7e9e30d201f129d210df4))
+
+## [1.8.0](https://github.com/mapequation/infomap/compare/v1.7.3...v1.8.0) (2021-11-05)
+
+
+### Features
+
+* **js:** Add clu and tree javascript parser ([f0c738c](https://github.com/mapequation/infomap/commit/f0c738c2ebbd4d1f43d14b75f82767b30dbfb02f))
+* Add modular centrality score ([31cdd7f](https://github.com/mapequation/infomap/commit/31cdd7fa7a12add63f5b8818e503fe81b3f48555))
+
 ### [1.7.3](https://github.com/mapequation/infomap/compare/v1.7.2...v1.7.3) (2021-10-26)
 
 

package/arguments.d.ts

@@ -2,11 +2,10 @@ declare type OutputFormats = "clu" | "tree" | "ftree" | "newick" | "json" | "csv
 export interface Arguments extends Partial<{
     clusterData: string;
     noInfomap: boolean;
-    inputFormat: "pajek" | "link-list" | "bipartite" | "multilayer" | "states";
     skipAdjustBipartiteFlow: boolean;
     bipartiteTeleportation: boolean;
     weightThreshold: number;
-    includeSelfLinks: boolean;
+    noSelfLinks: boolean;
     nodeLimit: number;
     assignToNeighbouringModule: boolean;
     metaData: string;
@@ -28,6 +27,10 @@ export interface Arguments extends Partial<{
     useNodeWeightsAsFlow: boolean;
     toNodes: boolean;
     teleportationProbability: number;
+    regularized: boolean;
+    regularizationStrength: number;
+    entropyCorrected: boolean;
+    entropyCorrectionStrength: number;
     markovTime: number;
     preferredNumberOfModules: number;
     multilayerRelaxRate: number;

package/filetypes.d.ts

@@ -1,23 +1,26 @@
-export declare type CluNode<T extends string = "moduleId"> = {
-    [key in T]: number;
-} & {
+export declare type NodeBase = {
     id: number;
     flow?: number;
 };
+declare type StateNodeBase = {
+    stateId: number;
+    layerId?: number;
+};
+export declare type CluNode<T extends string = "moduleId"> = {
+    [key in T]: number;
+} & NodeBase;
+export declare type CluStateNode = CluNode & StateNodeBase;
 export declare type Clu = CluNode[];
 export declare type MetaClu = CluNode<"meta">[];
-export interface TreeNode {
+export declare type TreeNode = {
     path: number[];
     modules?: number[];
-    flow?: number;
+    modularCentrality?: number;
     name?: string;
-    id: number;
-}
-export interface TreeStateNode extends TreeNode {
-    stateId: number;
-    layerId?: number;
-}
+} & NodeBase;
+export declare type TreeStateNode = TreeNode & StateNodeBase;
 export declare type Tree = TreeNode[];
 export declare type StateTree = TreeStateNode[];
 export declare type FileTypes = Clu | MetaClu | Tree | StateTree;
 export default function fileToString(file: FileTypes): string;
+export {};

package/index.d.ts

@@ -32,7 +32,7 @@ export interface RequiredParameter extends Parameter<true> {
 }
 declare const changelog: Changelog[];
 declare const parameters: (Parameter | RequiredParameter)[];
-declare type Module = {
+export declare type Module = {
     path: number[];
     enterFlow: number;
     exitFlow: number;
@@ -44,7 +44,7 @@ declare type Module = {
         flow: number;
     }[];
 };
-export interface Tree<NodeType = Required<Node>> {
+export interface Header {
     version: string;
     args: string;
     startedAt: string;
@@ -55,9 +55,12 @@ export interface Tree<NodeType = Required<Node>> {
     relativeCodelengthSavings: number;
     directed: boolean;
     bipartiteStartId?: number;
+}
+export declare type Tree<NodeType = Required<Node>> = Header & {
     nodes: NodeType[];
     modules: Module[];
-}
+};
+export declare type StateTree = Tree<Required<StateNode>>;
 export interface Result {
     clu?: string;
     clu_states?: string;
@@ -68,7 +71,7 @@ export interface Result {
     newick?: string;
     newick_states?: string;
     json?: Tree;
-    json_states?: Tree<Required<StateNode>>;
+    json_states?: StateTree;
     csv?: string;
     csv_states?: string;
     net?: string;