Minor treaks

KewinOgink · Feb 10, 2020 · 3e76b4c · 3e76b4c
1 parent bb96540
commit 3e76b4c
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Showing 3 changed files with 3 additions and 3 deletions.
diff --git a/clair/utils.py b/clair/utils.py
@@ -116,7 +116,7 @@ def variant_map_from(var_fn, tree, is_tree_empty):
 
     f = subprocess_popen(shlex.split("gzip -fdc %s" % (var_fn)))
     for row in f.stdout:
-        columns = row.split()
+        columns = row.split(maxsplit=2)
         ctg_name, position_str = columns[0], columns[1]
 
         if not (is_tree_empty or is_region_in(tree, ctg_name, int(position_str))):

diff --git a/dataPrepScripts/CreateTensor.py b/dataPrepScripts/CreateTensor.py
@@ -83,7 +83,7 @@ def candidate_position_generator_from(
     is_ctg_region_provided = ctg_start is not None and ctg_end is not None
 
     for row in candidate_file_path_output:
-        row = row.split()
+        row = row.split(maxsplit=2)
         position = int(row[1])  # 1-based position
 
         if is_ctg_region_provided and not (ctg_start <= position <= ctg_end):

diff --git a/dataPrepScripts/ExtractVariantCandidates.py b/dataPrepScripts/ExtractVariantCandidates.py
@@ -44,7 +44,7 @@ def variants_map_from(variant_file_path):
             break
 
         if row:
-            columns = row.split()
+            columns = row.split(maxsplit=2)
             ctg_name, position_str = columns[0], columns[1]
             key = ctg_name + ":" + position_str