Heap Blog

When To Avoid JSONB In A PostgreSQL Schema

PostgreSQL introduced the JSONB type in 9.4 with considerable celebration. (Well, about as much as you can expect for a new data type in an RDBMS.) It’s a wonderful feature: a format that lets you store blobs in the lingua franca of modern web services, without requiring re-parsing whenever you want to access a field, and in a way that enables indexing for complicated predicates like containment of other JSON blobs. It meaningfully extends PostgreSQL and makes it a viable choice for a lot of document store workflows. And it fits nicely in a startup engineering context: just add a properties column to the end of your table for all the other attributes you might want to store down the road, and your schema is now officially Future Proof TM.

We lean on JSONB heavily at Heap, and it’s a natural fit, as we have APIs that allow customers to attach arbitrary properties to events we collect. Recently, I’ve gotten a few questions about the benefits and drawbacks of using JSONB to store the entirety of a table – why have anything but an id and a data blob?

The idea of not having to explicitly manage a schema appeals to a lot of people, so it shouldn’t be surprising to see JSONB used this way. But there are considerable performance costs to doing so, some of which aren’t immediately obvious. There is great material for deciding which of JSON, JSONB, or hstore is right for your project, but the correct choice is often “none of the above.” [1] Here are a few reasons why.

Hidden Cost #1: Slow Queries Due To Lack Of Statistics

For traditional data types, PostgreSQL stores statistics about the distribution of values in each column of each table, such as:

  • the number of distinct values seen
  • the most common values
  • the fraction of entries that are NULL
  • for ordered types, a histogram sketch of the distribution of values in the column

For a given query, the query planner uses these statistics to estimate which execution plan will be the fastest. For example, let’s make a table with 1 million “measurements” of three values, each chosen at uniform random from {0, 1}. Each measurement was taken by one of 10,000 scientists, and each scientist comes from one of three labs:

Let’s say we want to get the tick marks in which all three values were 0 — which should be about 1/8th of them — and see how many times each lab was represented amongst the corresponding scientists. Our query will look something like this:

And our query plan will look something like this: https://explain.depesz.com/s/H4oY

This is what we’d hope to see: the planner knows from our table statistics that about 1/8th of the rows in measurements will have value_1, value_2, and value_3 equal to 0, so about 125,000 of them will need to be joined with a scientist’s lab, and the database does so via a hash join. That is, load the contents of scientist_labs into a hash table keyed on scientist_id, scan through the matching rows from measurements, and look each one up in the hash table by its scientist_id value. The execution is fast — about 300 ms on my machine.

Let’s say we instead store our measurements as JSONB blobs, like this:

The analogous read query would look like this:

The performance is dramatically worse — a whopping 584 seconds on my laptop, about 2000x slower: https://explain.depesz.com/s/zJiT

The underlying reason is that PostgreSQL doesn’t know how to keep statistics on the values of fields within JSONB columns. It has no way of knowing, for example, that record ->> 'value_2' = 0 will be true about 50% of the time, so it relies on a hardcoded estimate of 0.1%. So, it estimates that 0.1% of 0.1% of 0.1% of the measurements table will be relevant (which it rounds up to ~1 row). As a result, it chooses a nested loop join: for each row in measurements that passes our filter, look up the corresponding lab_name in scientist_labs via the primary key of the latter table. But since there are ~125,000 such measurements, instead of ~1, this turns out to take an eternity. [2]

As always, accurate statistics are a critical ingredient to good database performance. In their absence, the planner can’t determine which join algorithms, join orders, or scan types will make your query fast. The result is that innocent queries will blow up on you. This is one of the hidden costs of JSONB: your data doesn’t have statistics, so the query planner is flying blind.

This is not an academic consideration. This caused production issues for us, and the only way to get around them was to disable nested loops entirely as a join option, with a global setting of enable_nestloop = off. Ordinarily, you should never do something like that.

This probably won’t bite you in a key-value / document-store workload, but it’s easy to run into this if you’re using JSONB along with analytical queries.

Hidden Cost #2: Larger Table Footprint

Under the hood, PostgreSQL’s JSON datatype stores your blobs as strings that it happens to know are valid JSON. The JSONB encoding has a bit more overhead, with the upside that you don’t need to parse the JSON to retrieve a particular field. In both cases, at the very least, the database stores each key and value in every row. PostgreSQL doesn’t do anything clever to deduplicate commonly occurring keys.

Using the above measurements table again, the initial non-JSONB version of our table takes up 79 mb of disk space, whereas the JSONB variant takes 164 mb — more than twice as much. That is, the majority of our table contents are the the strings value_1, value_2, value_3, and scientist_id, repeated over and over again. So, in this case, you would need to pay for twice as much disk, not to mention follow-on effects that make all sorts of operations slower or more expensive. The original schema will cache much better, or might fit entirely in memory. The smaller size means it will also require half as much i/o for large reads or maintenance operations.

For a less contrived anecdote, we found a disk space savings of about 30% by pulling 45 commonly used fields out of JSONB and into first-class columns. On a petabyte-scale dataset, that turns out to be a pretty big win.

As a rule of thumb, each column costs about 1 bit of overhead for each row in your table, regardless of whether the column’s value is null.[3] So, for example, if an optional field is going to have a ten-character key in your JSONB blobs, and thus cost at least 80 bits to store the key in each row in which it’s present, it will save space to give it a first-class column if it’s present in at least 1/80th of your rows.

For datasets with many optional values, it is often impractical or impossible to include each one as a table column. In cases like these, JSONB can be a great fit, both for simplicity and performance. But, for values that occur in most of your rows, it’s still a good idea to keep them separate.In practice, there is often additional context to inform how you organize your data, such as the engineering effort required to manage explicit schemas or the type safety and SQL readability benefits from doing so. But there is often an important performance penalty as well for unnecessarily JSONB-ing your data.

Know another innocuous change with big performance implications? Ping me @danlovesproofs.

We’re constantly evaluating alternative schemas and indexing strategies for serving ad hoc queries across hundreds of billions of events. Interested in working with us? Shoot us a note at jobs@heapanalytics.com.

[1] I recommend this post, for starters: https://www.citusdata.com/blog/2016/07/14/choosing-nosql-hstore-json-jsonb/
[2] As an aside, explain.depesz is a wonderful tool for finding problems like these in your queries. You can see in this example that the planner underestimated how many rows would be returned by this subquery by a factor of 124,616.
[3] This isn’t quite correct. PostgreSQL allocates one byte per row for the first 8 columns, and then 8 bytes / 64 columns at a time after that. So, for example, your first 8 columns are free, and the 9th costs 8 bytes per row in your table, and then the 10th through 72nd are free, and so forth. (H/t Michael Malis for the investigation into this.)

Dan Robinson

Your Header Sidebar area is currently empty. Hurry up and add some widgets.