comparison gstf_preparation.py @ 3:7e11a7f4bdba draft

planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/gstf_preparation commit 77ed525b753e34d3e9dd4f07a239592ce764f7e6-dirty

2:19644996bc2a

def write_gene_dict_to_db(conn, gene_dict):
    cur = conn.cursor()

    for gene in gene_dict.values():
        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)))

        if "Transcript" in gene:

3:7e11a7f4bdba

def write_gene_dict_to_db(conn, gene_dict):
    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)))

        if "Transcript" in gene: