Mercurial > repos > mheinzl > variant_analyzer2

changeset 51:26e53b5b8bcb draft

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planemo upload for repository https://github.com/Single-Molecule-Genetics/VariantAnalyzerGalaxy/tree/master/tools/variant_analyzer commit ee4a8e6cf290e6c8a4d55f9cd2839d60ab3b11c8
author mheinzl
date Thu, 11 Mar 2021 14:58:29 +0000
parents b32c973fe8ab
children 49ecab32c83f
files read2mut.py
diffstat 1 files changed, 5 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/read2mut.py	Thu Mar 11 11:04:05 2021 +0000
+++ b/read2mut.py	Thu Mar 11 14:58:29 2021 +0000
@@ -324,8 +324,8 @@
             whole_array = pure_tags_dict_short[key1].keys()
 
             tier_dict[key1] = {}
-            values_tier_dict = [("tier 1.1", 0), ("tier 1.2", 0), ("tier 2.1", 0), ("tier 2.2", 0), ("tier 2.3", 0), ("tier 2.4", 0), ("tier 3.1", 0),
-                                ("tier 3.2", 0), ("tier 2.5", 0), ("tier 4", 0), ("tier 5.1", 0), ("tier 5.2", 0), ("tier 5.3", 0), ("tier 5.4", 0), ("tier 5.5", 0),
+            values_tier_dict = [("tier 1.1", 0), ("tier 1.2", 0), ("tier 2.1", 0), ("tier 2.2", 0), ("tier 2.3", 0), ("tier 2.4", 0),("tier 2.5", 0),
+                                ("tier 3.1", 0), ("tier 3.2", 0), ("tier 4", 0), ("tier 5.1", 0), ("tier 5.2", 0), ("tier 5.3", 0), ("tier 5.4", 0), ("tier 5.5", 0),
                                 ("tier 6", 0), ("tier 7", 0)]
             for k, v in values_tier_dict:
                 tier_dict[key1][k] = v
@@ -1071,7 +1071,9 @@
                 chimera_dict[key1] = (chimeric_dcs, chimeric_dcs_high_tiers)
 
             # move tier 4 counts to tier 2.5 if there other mutations with tier <= 2.4
-            sum_highTiers = sum([tier_dict[key1][ij] for ij in tier_dict[key1].keys()[:6]])
+            print(list(tier_dict[key1].keys())[:6])
+            sum_highTiers = sum([tier_dict[key1][ij] for ij in list(tier_dict[key1].keys())[:6]])
+            print(sum_highTiers)
             if tier_dict[key1]["tier 4"] > 0 and sum_highTiers > 0:
                 tier_dict[key1]["tier 2.5"] = tier_dict[key1]["tier 4"]
                 tier_dict[key1]["tier 4"] = 0