rebasing

.gitignore

@@ -2,3 +2,4 @@ Homo_sapiens_3prime_UTR.fa
 Homo_sapiens_3prime_UTR.fa.fai
 MLM_mammals_species_aware_5000_weights
 Scer_half_life.csv
+**/__pycache__/

encoding_utils/sequence_operations.py

@@ -431,7 +431,7 @@ def motif_mask_encoding(seq,motifs,seq_len=300,total_len=303,masker=np.zeros(5))
     return x_batch, y_masked_batch, y_batch, mask_batch, motif_mask_batch
 
 
-    #create test set with sequences that include motifs only
+#create test set with sequences that include motifs only
 
 
 def compute_target_seq(seq, motifs, seq_len = 300, total_len = 305):
@@ -529,4 +529,4 @@ def batched_transform(batch, mask_rate=0.1, max_len=300):
     x = torch.from_numpy(x.transpose(0,2,1)).float()
     y = torch.from_numpy(y).long()
 
-    return x, y, mask, []
+    return x, y, mask, []

helpers/metrics.py

@@ -38,4 +38,4 @@ def compute(self):
         """
         if self.total != 0:
             return self.correct.float() / self.total
-        return torch.tensor(0) # if we gotta divide by 0
+        return torch.tensor(0) # if we gotta divide by 0