scout/commands/view/transcripts.py
def transcripts(context, build, hgnc_id, json):
    """Show all transcripts in the database"""
    LOG.info("Running scout view transcripts")
    adapter = context.obj['adapter']

    if not json:
        click.echo("Chromosome\tstart\tend\ttranscript_id\thgnc_id\trefseq\tis_primary")
    for tx_obj in adapter.transcripts(build=build, hgnc_id=hgnc_id):
        if json:
            pp(tx_obj)
            continue
        click.echo("{0}\t{1}\t{2}\t{3}\t{4}\t{5}\t{6}".format(
            tx_obj['chrom'],
            tx_obj['start'],
            tx_obj['end'],
            tx_obj['ensembl_transcript_id'],
            tx_obj['hgnc_id'],
            tx_obj.get('refseq_id', ''),
            tx_obj.get('is_primary') or '',
        ))
def transcripts(context, build, hgnc_id, json):
    """Show all transcripts in the database"""
    LOG.info("Running scout view transcripts")
    adapter = context.obj['adapter']

    if not json:
        click.echo("Chromosome\tstart\tend\ttranscript_id\thgnc_id\trefseq\tis_primary")
    for tx_obj in adapter.transcripts(build=build, hgnc_id=hgnc_id):
        if json:
            pp(tx_obj)
            continue
        click.echo("{0}\t{1}\t{2}\t{3}\t{4}\t{5}\t{6}".format(
            tx_obj['chrom'],
            tx_obj['start'],
            tx_obj['end'],
            tx_obj['ensembl_transcript_id'],
            tx_obj['hgnc_id'],
            tx_obj.get('refseq_id', ''),
            tx_obj.get('is_primary') or '',
        ))
Show all transcripts in the database