| 1 | import "source-map-support/register";
|
| 2 | // TODO should I get rid of the lib above for production browser build?
|
| 3 | /* pvjson: "id" is a required property.
|
| 4 | * GPML2013a: GraphId is sometimes optional, e.g., for Groups or Anchors.
|
| 5 | * GPML2017: supposed to make GraphId required.
|
| 6 | *
|
| 7 | * When converting GPML2013a, we fill in any missing GraphIds so that any
|
| 8 | * element that MAY have a GraphId DOES have one.
|
| 9 | * If the GraphId is already specified, we don't change it.
|
| 10 | * If it is not specified, we want to generate one with these properties:
|
| 11 | * 1) Stability/Purity: you can convert the same GPML file any number of times
|
| 12 | * and always get the same pvjson output.
|
| 13 | * 2) Uniqueness: don't clobber an existing GraphId in the pathway.
|
| 14 | *
|
| 15 | * The PathVisio algorithm for GraphId generation is basically:
|
| 16 | *
|
| 17 | * GraphId = RandomValue + IncrementingValue
|
| 18 | *
|
| 19 | * where IncrementingValue is generated by starting with a hex value of
|
| 20 | * "0xa00" for the first GraphId and incrementing that value for each
|
| 21 | * subsequent GraphId:
|
| 22 | * https://github.com/PathVisio/pathvisio/blob/3cb194f120de550ef2e102877965bed3c54a6a75/modules/org.pathvisio.core/src/org/pathvisio/core/biopax/BiopaxElement.java#L245
|
| 23 | *
|
| 24 | * We want a stable output, so instead of using a random value, we use the
|
| 25 | * namespace "pvjsgeneratedid", and since that's a string, we must append
|
| 26 | * the IncrementingValue instead of adding it:
|
| 27 | *
|
| 28 | * GraphId = "pvjsgeneratedid" + IncrementingValue
|
| 29 | */
|
| 30 | export class GraphIdManager {
|
| 31 | constructor() {
|
| 32 | this.namespace = "pvjsgeneratedid";
|
| 33 | this.incrementingValueAsInt = parseInt("0xa00", 16);
|
| 34 | }
|
| 35 | generateAndRecord() {
|
| 36 | this.incrementingValueAsInt += 1;
|
| 37 | // NOTE: the namespace is not part of incrementingValueAsInt
|
| 38 | return this.namespace + this.incrementingValueAsInt.toString(16);
|
| 39 | }
|
| 40 | recordExisting(graphIdAsHex) {
|
| 41 | const { incrementingValueAsInt } = this;
|
| 42 | const graphIdAsInt = parseInt(graphIdAsHex, 16);
|
| 43 | // NOTE: this graphIdAsInt does not refer to exactly the same thing as PathVisio's
|
| 44 | // IncrementingValue, because it's the sum of RandomValue and IncrementingValue.
|
| 45 | if (graphIdAsInt > incrementingValueAsInt) {
|
| 46 | this.incrementingValueAsInt = graphIdAsInt;
|
| 47 | }
|
| 48 | }
|
| 49 | }
|
| 50 | //# sourceMappingURL=data:application/json;base64,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 |
| \ | No newline at end of file |