Mercurial > repos > earlhaminst > gstf_preparation

changeset 3:7e11a7f4bdba draft

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planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/gstf_preparation commit 77ed525b753e34d3e9dd4f07a239592ce764f7e6-dirty
author earlhaminst
date Fri, 24 Nov 2017 12:32:39 -0500
parents 19644996bc2a
children 284f64ad9d43
files gstf_preparation.py
diffstat 1 files changed, 3 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- a/gstf_preparation.py	Fri Mar 17 07:58:27 2017 -0400
+++ b/gstf_preparation.py	Fri Nov 24 12:32:39 2017 -0500
@@ -220,6 +220,9 @@
     cur = conn.cursor()
 
     for gene in gene_dict.values():
+        if gene is None:
+            # This can happen when loading a JSON file from Ensembl
+            continue
         gene_id = gene['id']
         cur.execute('INSERT INTO gene (gene_id, gene_symbol, species, gene_json) VALUES (?, ?, ?, ?)',
                     (gene_id, gene.get('display_name', None), gene['species'], json.dumps(gene)))