Mercurial > repos > mheinzl > variant_analyzer2

diff read2mut.py @ 8:ced1a529e7cd 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, 04 Feb 2021 08:55:35 +0000
parents ded0dc6a20d3
children e18c5293aac7
line wrap: on
line diff
--- a/read2mut.py	Mon Jan 25 13:21:55 2021 +0000
+++ b/read2mut.py	Thu Feb 04 08:55:35 2021 +0000
@@ -132,7 +132,10 @@
         stop_pos = variant.start
         #chrom_stop_pos = str(chrom) + "#" + str(stop_pos)
         ref = variant.REF
-        alt = variant.ALT[0]
+        if len(variant.ALT) > 0:
+            alt = variant.ALT[0]
+        else:
+            alt = variant.ALT
         chrom_stop_pos = str(chrom) + "#" + str(stop_pos) + "#" + ref + "#" + alt
 
         if len(ref) == len(alt):