Merge pull request #168 from genenetwork/staging

Staging

1 files changed, 19 insertions, 19 deletions

diff --git a/wqflask/base/species.py b/wqflask/base/species.py
index 52bd8297..79d867c8 100755
--- a/wqflask/base/species.py
+++ b/wqflask/base/species.py
@@ -24,21 +24,21 @@ class TheSpecies(object):
     #    for counter, genotype in enumerate(self.dataset.group.genotype):
     #        if len(genotype) > 1:
     #            chromosomes.append((genotype.name, counter))
-    #            
-    #    print("chromosomes is: ", pf(chromosomes))       
-    #            
+    #
+    #    print("chromosomes is: ", pf(chromosomes))
+    #
     #    return chromosomes
 
 class IndChromosome(object):
     def __init__(self, name, length):
         self.name = name
         self.length = length
-        
+
     @property
     def mb_length(self):
         """Chromosome length in megabases"""
         return self.length / 1000000
-    
+
     def set_cm_length(self, genofile_chr):
         self.cm_length = genofile_chr[-1].cM - genofile_chr[0].cM
 
@@ -61,19 +61,19 @@ class Chromosomes(object):
 
         for item in results:
             self.chromosomes[item.OrderId] = IndChromosome(item.Name, item.Length)
-        
+
         self.set_mb_graph_interval()
         #self.get_cm_length_list()
 
 
     def set_mb_graph_interval(self):
         """Empirical megabase interval"""
-        
+
         if self.chromosomes:
             self.mb_graph_interval = self.get_genome_mb_length()/(len(self.chromosomes)*12)
         else:
             self.mb_graph_interval = 1
-            
+
         #if self.chromosomes:
         #assert self.chromosomes, "Have to add some code back in apparently to set it to 1"
         #self.mb_graph_interval = self.get_genome_mb_length()/(len(self.chromosomes)*12)
@@ -94,30 +94,30 @@ class Chromosomes(object):
 
     def get_cm_length_list(self):
         """Chromosome length in centimorgans
-        
+
         Calculates the length in centimorgans by subtracting the centimorgan position
         of the last marker in a chromosome by the position of the first marker
-        
+
         """
-        
+
         self.dataset.group.read_genotype_file()
-        
+
         self.cm_length_list = []
-        
+
         for chromosome in self.dataset.group.genotype:
             self.cm_length_list.append(chromosome[-1].cM - chromosome[0].cM)
-            
+
         print("self.cm_length_list:", pf(self.cm_length_list))
-        
+
         assert len(self.cm_length_list) == len(self.chromosomes), "Uh-oh lengths should be equal!"
         for counter, chromosome in enumerate(self.chromosomes.values()):
             chromosome.cm_length = self.cm_length_list[counter]
             #self.chromosomes[counter].cm_length = item
-            
+
         for key, value in self.chromosomes.items():
             print("bread - %s: %s" % (key, pf(vars(value))))
-        
 
-# Testing                
-#if __name__ == '__main__':    
+
+# Testing
+#if __name__ == '__main__':
 #    foo = dict(bar=dict(length))
\ No newline at end of file