first pass cleanup of cistematic/genomes; change bamPreprocessing

[erange.git] / findall.py

diff --git a/findall.py b/findall.py
index f8907a66c2db6d3b36a4ac9a13872554c1f1d9ca..827ee503ba7956b37143481beabae171a35f7619 100755 (executable)
--- a/findall.py
+++ b/findall.py
@@ -927,6 +927,7 @@ def setMultireadPercentage(region, sampleBAM, hitRDSsize, currentTotalWeight, cu
 def regionAndPeakPass(regionFinder, region, regionLength, peakScore, plusRatio):
     regionPasses = False
     if regionPassesCriteria(regionFinder, region.numReads, region.foldRatio, regionLength):
+        #TODO: here is where the test dataset is failing
         if peakScore >= regionFinder.minPeak and regionFinder.minPlusRatio <= plusRatio <= regionFinder.maxPlusRatio:
             regionPasses = True
 
@@ -1008,4 +1009,4 @@ def getBestShiftInDict(shiftDict):
 
 
 if __name__ == "__main__":
-    main(sys.argv)
+    main(sys.argv)
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