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Correct propogation of peptide counts

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efischer
2022-02-19 22:33:38 -06:00
parent 5b2ed165d0
commit c4633da9eb
4 changed files with 22 additions and 22 deletions
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12
src/main/java/Simulator.java
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@@ -142,9 +142,9 @@ public class Simulator {
if(verbose){System.out.println("Over- and under-weight edges set to 0.0");}
Instant stop = Instant.now();
Duration time = Duration.between(start, stop);
return new GraphWithMapData(graph, numWells, lowThreshold, highThreshold, distCellsMapAlphaKey, allAlphas,
allBetas, plateVtoAMap, plateVtoBMap, plateAtoVMap, plateBtoVMap, alphaWellCounts, betaWellCounts,
time);
return new GraphWithMapData(graph, numWells, alphaCount, betaCount, lowThreshold, highThreshold,
distCellsMapAlphaKey, plateVtoAMap, plateVtoBMap, plateAtoVMap,
plateBtoVMap, alphaWellCounts, betaWellCounts, time);
}
//match CDR3s
@@ -154,15 +154,13 @@ public class Simulator {
int numWells = data.getNumWells();
Integer highThreshold = data.getHighThreshold();
Integer lowThreshold = data.getLowThreshold();
Integer alphaCount = data.getAlphaCount();
Integer betaCount = data.getBetaCount();
Map<Integer, Integer> distCellsMapAlphaKey = data.getDistCellsMapAlphaKey();
Map<Integer, Integer> plateVtoAMap = data.getPlateVtoAMap();
Map<Integer, Integer> plateVtoBMap = data.getPlateVtoBMap();
Map<Integer, Integer> allAlphas = data.getAllAlphas();
Map<Integer, Integer> allBetas = data.getAllBetas();
Map<Integer, Integer> alphaWellCounts = data.getAlphaWellCounts();
Map<Integer, Integer> betaWellCounts = data.getBetaWellCounts();
Integer alphaCount = allAlphas.size();
Integer betaCount = allBetas.size();
SimpleWeightedGraph<Integer, DefaultWeightedEdge> graph = data.getGraph();