This issue has been fixed on Sequelize 3.0.1, the primary key of the included models must be excluded with
attributes: []
and the aggregation must be done on the main model (infos in this github issue).
Thus for my use case, the code is the following
models.contracts.findAll({
attributes: ['id', [models.sequelize.fn('sum', models.sequelize.col('payments.payment_amount')), 'total_cost']],
include: [
{
model: models.payments,
attributes: []
}
],
group: ['contracts.id']
})