From a2290b78424b9ff9d1ce7117bbe0fff5df9a2549 Mon Sep 17 00:00:00 2001
From: Christoph Hafemeister <ch1421@nyu.edu>
Date: Wed, 26 Apr 2023 16:29:38 +0200
Subject: [PATCH] Bugfix: convert keys to list

Fixes "AttributeError: 'dict_keys' object has no attribute 'index'" that occurred when using iGenomes GRCh38
Line 92 already wraps exon.keys() in list() - this seems to have been forgotten in line 199.
---
 bin/gtf2bed.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/bin/gtf2bed.py b/bin/gtf2bed.py
index 5c1ae37..27cd2b0 100755
--- a/bin/gtf2bed.py
+++ b/bin/gtf2bed.py
@@ -196,7 +196,7 @@
                     cds[txIter - 1]['end'] = int(end)
 
     cdsRank = cds.keys()
-    exonRank = exon.keys()
+    exonRank = list(exon.keys())
 
     if len(cdsRank) == 0:
         if (curStrand == "+") :