## Issue Addressed
Closes#1557
## Proposed Changes
Modify the pruning algorithm so that it mutates the head-tracker _before_ committing the database transaction to disk, and _only if_ all the heads to be removed are still present in the head-tracker (i.e. no concurrent mutations).
In the process of writing and testing this I also had to make a few other changes:
* Use internal mutability for all `BeaconChainHarness` functions (namely the RNG and the graffiti), in order to enable parallel calls (see testing section below).
* Disable logging in harness tests unless the `test_logger` feature is turned on
And chose to make some clean-ups:
* Delete the `NullMigrator`
* Remove type-based configuration for the migrator in favour of runtime config (simpler, less duplicated code)
* Use the non-blocking migrator unless the blocking migrator is required. In the store tests we need the blocking migrator because some tests make asserts about the state of the DB after the migration has run.
* Rename `validators_keypairs` -> `validator_keypairs` in the `BeaconChainHarness`
## Testing
To confirm that the fix worked, I wrote a test using [Hiatus](https://crates.io/crates/hiatus), which can be found here:
https://github.com/michaelsproul/lighthouse/tree/hiatus-issue-1557
That test can't be merged because it inserts random breakpoints everywhere, but if you check out that branch you can run the test with:
```
$ cd beacon_node/beacon_chain
$ cargo test --release --test parallel_tests --features test_logger
```
It should pass, and the log output should show:
```
WARN Pruning deferred because of a concurrent mutation, message: this is expected only very rarely!
```
## Additional Info
This is a backwards-compatible change with no impact on consensus.
## Issue Addressed
- Resolves#1706
## Proposed Changes
Updates dependencies across the workspace. Any crate that was not able to be brought to the latest version is listed in #1712.
## Additional Info
NA
- Resolves#1550
- Resolves#824
- Resolves#825
- Resolves#1131
- Resolves#1411
- Resolves#1256
- Resolve#1177
- Includes the `ShufflingId` struct initially defined in #1492. That PR is now closed and the changes are included here, with significant bug fixes.
- Implement the https://github.com/ethereum/eth2.0-APIs in a new `http_api` crate using `warp`. This replaces the `rest_api` crate.
- Add a new `common/eth2` crate which provides a wrapper around `reqwest`, providing the HTTP client that is used by the validator client and for testing. This replaces the `common/remote_beacon_node` crate.
- Create a `http_metrics` crate which is a dedicated server for Prometheus metrics (they are no longer served on the same port as the REST API). We now have flags for `--metrics`, `--metrics-address`, etc.
- Allow the `subnet_id` to be an optional parameter for `VerifiedUnaggregatedAttestation::verify`. This means it does not need to be provided unnecessarily by the validator client.
- Move `fn map_attestation_committee` in `mod beacon_chain::attestation_verification` to a new `fn with_committee_cache` on the `BeaconChain` so the same cache can be used for obtaining validator duties.
- Add some other helpers to `BeaconChain` to assist with common API duties (e.g., `block_root_at_slot`, `head_beacon_block_root`).
- Change the `NaiveAggregationPool` so it can index attestations by `hash_tree_root(attestation.data)`. This is a requirement of the API.
- Add functions to `BeaconChainHarness` to allow it to create slashings and exits.
- Allow for `eth1::Eth1NetworkId` to go to/from a `String`.
- Add functions to the `OperationPool` to allow getting all objects in the pool.
- Add function to `BeaconState` to check if a committee cache is initialized.
- Fix bug where `seconds_per_eth1_block` was not transferring over from `YamlConfig` to `ChainSpec`.
- Add the `deposit_contract_address` to `YamlConfig` and `ChainSpec`. We needed to be able to return it in an API response.
- Change some uses of serde `serialize_with` and `deserialize_with` to a single use of `with` (code quality).
- Impl `Display` and `FromStr` for several BLS fields.
- Check for clock discrepancy when VC polls BN for sync state (with +/- 1 slot tolerance). This is not intended to be comprehensive, it was just easy to do.
- See #1434 for a per-endpoint overview.
- Seeking clarity here: https://github.com/ethereum/eth2.0-APIs/issues/75
- [x] Add docs for prom port to close#1256
- [x] Follow up on this #1177
- [x] ~~Follow up with #1424~~ Will fix in future PR.
- [x] Follow up with #1411
- [x] ~~Follow up with #1260~~ Will fix in future PR.
- [x] Add quotes to all integers.
- [x] Remove `rest_types`
- [x] Address missing beacon block error. (#1629)
- [x] ~~Add tests for lighthouse/peers endpoints~~ Wontfix
- [x] ~~Follow up with validator status proposal~~ Tracked in #1434
- [x] Unify graffiti structs
- [x] ~~Start server when waiting for genesis?~~ Will fix in future PR.
- [x] TODO in http_api tests
- [x] Move lighthouse endpoints off /eth/v1
- [x] Update docs to link to standard
- ~~Blocked on #1586~~
Co-authored-by: Michael Sproul <michael@sigmaprime.io>
