# HG changeset patch
# User fubar
# Date 1709167905 0
# Node ID 7adde511daa1c02604c98b8c3ab880f004faf028
# Parent  5f39f745682f8794ade14041ffea481168064e3c
planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 80b849766a962bac4bd0bb8cb69c118cc42699cd-dirty

diff -r 5f39f745682f -r 7adde511daa1 jbrowse2.py
--- a/jbrowse2.py	Thu Feb 29 00:47:58 2024 +0000
+++ b/jbrowse2.py	Thu Feb 29 00:51:45 2024 +0000
@@ -1137,9 +1137,7 @@
                     outputTrackConfig,
                 )
             elif dataset_ext == "bam":
-                real_indexes = track["conf"]["options"]["bam"]["bam_indices"][
-                    "bam_index"
-                ]
+                real_indexes = track["conf"]["options"]["bam"]["bam_index"]
                 if not isinstance(real_indexes, list):
                     real_indexes = [real_indexes]
 
@@ -1150,7 +1148,7 @@
                     bam_index=real_indexes[i],
                 )
             elif dataset_ext == "cram":
-                real_indexes = track["conf"]["options"]["cram"]["cram_indices"][
+                real_indexes = track["conf"]["options"]["cram"]["cram_index"][
                     "cram_index"
                 ]
                 if not isinstance(real_indexes, list):