Peter Bendel e73d681a0e Patch pgcopydb and fix another segfault (#10706)
## Problem

Found another pgcopydb segfault in error handling

```bash
2025-02-06 15:30:40.112 51299 ERROR  pgsql.c:2330              [TARGET -738302813] FATAL:  terminating connection due to administrator command
2025-02-06 15:30:40.112 51298 ERROR  pgsql.c:2330              [TARGET -1407749748] FATAL:  terminating connection due to administrator command
2025-02-06 15:30:40.112 51297 ERROR  pgsql.c:2330              [TARGET -2073308066] FATAL:  terminating connection due to administrator command
2025-02-06 15:30:40.112 51300 ERROR  pgsql.c:2330              [TARGET 1220908650] FATAL:  terminating connection due to administrator command
2025-02-06 15:30:40.432 51300 ERROR  pgsql.c:2536              [Postgres] FATAL:  terminating connection due to administrator command
2025-02-06 15:30:40.513 51290 ERROR  copydb.c:773              Sub-process 51300 exited with code 0 and signal Segmentation fault
2025-02-06 15:30:40.578 51299 ERROR  pgsql.c:2536              [Postgres] FATAL:  terminating connection due to administrator command
2025-02-06 15:30:40.613 51290 ERROR  copydb.c:773              Sub-process 51299 exited with code 0 and signal Segmentation fault
2025-02-06 15:30:41.253 51298 ERROR  pgsql.c:2536              [Postgres] FATAL:  terminating connection due to administrator command
2025-02-06 15:30:41.314 51290 ERROR  copydb.c:773              Sub-process 51298 exited with code 0 and signal Segmentation fault
2025-02-06 15:30:43.133 51297 ERROR  pgsql.c:2536              [Postgres] FATAL:  terminating connection due to administrator command
2025-02-06 15:30:43.215 51290 ERROR  copydb.c:773              Sub-process 51297 exited with code 0 and signal Segmentation fault
2025-02-06 15:30:43.215 51290 ERROR  indexes.c:123             Some INDEX worker process(es) have exited with error, see above for details
2025-02-06 15:30:43.215 51290 ERROR  indexes.c:59              Failed to create indexes, see above for details
2025-02-06 15:30:43.232 51271 ERROR  copydb.c:768              Sub-process 51290 exited with code 12
```

```bashadmin@ip-172-31-38-164:~/pgcopydb$ gdb /usr/local/pgsql/bin/pgcopydb core
GNU gdb (Debian 13.1-3) 13.1
Copyright (C) 2023 Free Software Foundation, Inc.
License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>
This is free software: you are free to change and redistribute it.
There is NO WARRANTY, to the extent permitted by law.
Type "show copying" and "show warranty" for details.
This GDB was configured as "aarch64-linux-gnu".
Type "show configuration" for configuration details.
For bug reporting instructions, please see:
<https://www.gnu.org/software/gdb/bugs/>.
Find the GDB manual and other documentation resources online at:
    <http://www.gnu.org/software/gdb/documentation/>.

For help, type "help".
Type "apropos word" to search for commands related to "word"...
Reading symbols from /usr/local/pgsql/bin/pgcopydb...
[New LWP 51297]
[Thread debugging using libthread_db enabled]
Using host libthread_db library "/lib/aarch64-linux-gnu/libthread_db.so.1".
Core was generated by `pgcopydb: create index ocr.ocr_pipeline_step_results_version_pkey             '.
Program terminated with signal SIGSEGV, Segmentation fault.
#0  0x0000aaaac3a4b030 in splitLines (lbuf=lbuf@entry=0xffffd8b86930, buffer=<optimized out>) at string_utils.c:630
630				*newLinePtr = '\0';
(gdb) bt
#0  0x0000aaaac3a4b030 in splitLines (lbuf=lbuf@entry=0xffffd8b86930, buffer=<optimized out>) at string_utils.c:630
#1  0x0000aaaac3a3a678 in pgsql_execute_log_error (pgsql=pgsql@entry=0xffffd8b87040, result=result@entry=0x0, 
    sql=sql@entry=0xffff81fe9be0 "CREATE UNIQUE INDEX IF NOT EXISTS ocr_pipeline_step_results_version_pkey ON ocr.ocr_pipeline_step_results_version USING btree (id, transaction_id);", 
    debugParameters=debugParameters@entry=0xaaaaec5f92f0, context=context@entry=0x0) at pgsql.c:2322
#2  0x0000aaaac3a3bbec in pgsql_execute_with_params (pgsql=pgsql@entry=0xffffd8b87040, 
    sql=0xffff81fe9be0 "CREATE UNIQUE INDEX IF NOT EXISTS ocr_pipeline_step_results_version_pkey ON ocr.ocr_pipeline_step_results_version USING btree (id, transaction_id);", paramCount=paramCount@entry=0, 
    paramTypes=paramTypes@entry=0x0, paramValues=paramValues@entry=0x0, context=context@entry=0x0, parseFun=parseFun@entry=0x0) at pgsql.c:1649
#3  0x0000aaaac3a3c468 in pgsql_execute (pgsql=pgsql@entry=0xffffd8b87040, sql=<optimized out>) at pgsql.c:1522
#4  0x0000aaaac3a245f4 in copydb_create_index (specs=specs@entry=0xffffd8b8ec98, dst=dst@entry=0xffffd8b87040, index=index@entry=0xffff81f71800, ifNotExists=<optimized out>) at indexes.c:846
#5  0x0000aaaac3a24ca8 in copydb_create_index_by_oid (specs=specs@entry=0xffffd8b8ec98, dst=dst@entry=0xffffd8b87040, indexOid=<optimized out>) at indexes.c:410
#6  0x0000aaaac3a25040 in copydb_index_worker (specs=specs@entry=0xffffd8b8ec98) at indexes.c:297
#7  0x0000aaaac3a25238 in copydb_start_index_workers (specs=specs@entry=0xffffd8b8ec98) at indexes.c:209
#8  0x0000aaaac3a252f4 in copydb_index_supervisor (specs=specs@entry=0xffffd8b8ec98) at indexes.c:112
#9  0x0000aaaac3a253f4 in copydb_start_index_supervisor (specs=0xffffd8b8ec98) at indexes.c:57
#10 copydb_start_index_supervisor (specs=specs@entry=0xffffd8b8ec98) at indexes.c:34
#11 0x0000aaaac3a51ff4 in copydb_process_table_data (specs=specs@entry=0xffffd8b8ec98) at table-data.c:146
#12 0x0000aaaac3a520dc in copydb_copy_all_table_data (specs=specs@entry=0xffffd8b8ec98) at table-data.c:69
#13 0x0000aaaac3a0ccd8 in cloneDB (copySpecs=copySpecs@entry=0xffffd8b8ec98) at cli_clone_follow.c:602
#14 0x0000aaaac3a0d2cc in start_clone_process (pid=0xffffd8b743d8, copySpecs=0xffffd8b8ec98) at cli_clone_follow.c:502
#15 start_clone_process (copySpecs=copySpecs@entry=0xffffd8b8ec98, pid=pid@entry=0xffffd8b89788) at cli_clone_follow.c:482
#16 0x0000aaaac3a0d52c in cli_clone (argc=<optimized out>, argv=<optimized out>) at cli_clone_follow.c:164
#17 0x0000aaaac3a53850 in commandline_run (command=command@entry=0xffffd8b9eb88, argc=0, argc@entry=22, argv=0xffffd8b9edf8, argv@entry=0xffffd8b9ed48) at /home/admin/pgcopydb/src/bin/pgcopydb/../lib/subcommands.c/commandline.c:71
#18 0x0000aaaac3a01464 in main (argc=22, argv=0xffffd8b9ed48) at main.c:140
(gdb) 

```

The problem is most likely that the following call returned a message in
a read-only memory segment where we cannot replace \n with \0 in
string_utils.c splitLines() function
```C
char *message = PQerrorMessage(pgsql->connection);
```

## Summary of changes

modified the patch to also address this problem
2025-02-06 20:21:18 +00:00
2025-01-20 17:33:07 +00:00
2025-02-06 19:21:38 +00:00
2025-02-06 05:42:14 +00:00
2025-02-06 17:28:27 +00:00
2021-05-27 15:33:08 +03:00
2025-01-24 14:55:48 +00:00
2025-01-24 14:55:48 +00:00
2022-10-04 14:53:01 +03:00

Neon

Neon

Neon is a serverless open-source alternative to AWS Aurora Postgres. It separates storage and compute and substitutes the PostgreSQL storage layer by redistributing data across a cluster of nodes.

Quick start

Try the Neon Free Tier to create a serverless Postgres instance. Then connect to it with your preferred Postgres client (psql, dbeaver, etc) or use the online SQL Editor. See Connect from any application for connection instructions.

Alternatively, compile and run the project locally.

Architecture overview

A Neon installation consists of compute nodes and the Neon storage engine. Compute nodes are stateless PostgreSQL nodes backed by the Neon storage engine.

The Neon storage engine consists of two major components:

  • Pageserver: Scalable storage backend for the compute nodes.
  • Safekeepers: The safekeepers form a redundant WAL service that received WAL from the compute node, and stores it durably until it has been processed by the pageserver and uploaded to cloud storage.

See developer documentation in SUMMARY.md for more information.

Running a local development environment

Neon can be run on a workstation for small experiments and to test code changes, by following these instructions.

Installing dependencies on Linux

  1. Install build dependencies and other applicable packages
  • On Ubuntu or Debian, this set of packages should be sufficient to build the code:
apt install build-essential libtool libreadline-dev zlib1g-dev flex bison libseccomp-dev \
libssl-dev clang pkg-config libpq-dev cmake postgresql-client protobuf-compiler \
libprotobuf-dev libcurl4-openssl-dev openssl python3-poetry lsof libicu-dev
  • On Fedora, these packages are needed:
dnf install flex bison readline-devel zlib-devel openssl-devel \
  libseccomp-devel perl clang cmake postgresql postgresql-contrib protobuf-compiler \
  protobuf-devel libcurl-devel openssl poetry lsof libicu-devel libpq-devel python3-devel \
  libffi-devel
  • On Arch based systems, these packages are needed:
pacman -S base-devel readline zlib libseccomp openssl clang \
postgresql-libs cmake postgresql protobuf curl lsof

Building Neon requires 3.15+ version of protoc (protobuf-compiler). If your distribution provides an older version, you can install a newer version from here.

  1. Install Rust
# recommended approach from https://www.rust-lang.org/tools/install
curl --proto '=https' --tlsv1.2 -sSf https://sh.rustup.rs | sh

Installing dependencies on macOS (12.3.1)

  1. Install XCode and dependencies
xcode-select --install
brew install protobuf openssl flex bison icu4c pkg-config m4

# add openssl to PATH, required for ed25519 keys generation in neon_local
echo 'export PATH="$(brew --prefix openssl)/bin:$PATH"' >> ~/.zshrc

If you get errors about missing m4 you may have to install it manually:

brew install m4
brew link --force m4
  1. Install Rust
# recommended approach from https://www.rust-lang.org/tools/install
curl --proto '=https' --tlsv1.2 -sSf https://sh.rustup.rs | sh
  1. Install PostgreSQL Client
# from https://stackoverflow.com/questions/44654216/correct-way-to-install-psql-without-full-postgres-on-macos
brew install libpq
brew link --force libpq

Rustc version

The project uses rust toolchain file to define the version it's built with in CI for testing and local builds.

This file is automatically picked up by rustup that installs (if absent) and uses the toolchain version pinned in the file.

rustup users who want to build with another toolchain can use the rustup override command to set a specific toolchain for the project's directory.

non-rustup users most probably are not getting the same toolchain automatically from the file, so are responsible to manually verify that their toolchain matches the version in the file. Newer rustc versions most probably will work fine, yet older ones might not be supported due to some new features used by the project or the crates.

Building on Linux

  1. Build neon and patched postgres
# Note: The path to the neon sources can not contain a space.

git clone --recursive https://github.com/neondatabase/neon.git
cd neon

# The preferred and default is to make a debug build. This will create a
# demonstrably slower build than a release build. For a release build,
# use "BUILD_TYPE=release make -j`nproc` -s"
# Remove -s for the verbose build log

make -j`nproc` -s

Building on OSX

  1. Build neon and patched postgres
# Note: The path to the neon sources can not contain a space.

git clone --recursive https://github.com/neondatabase/neon.git
cd neon

# The preferred and default is to make a debug build. This will create a
# demonstrably slower build than a release build. For a release build,
# use "BUILD_TYPE=release make -j`sysctl -n hw.logicalcpu` -s"
# Remove -s for the verbose build log

make -j`sysctl -n hw.logicalcpu` -s

Dependency installation notes

To run the psql client, install the postgresql-client package or modify PATH and LD_LIBRARY_PATH to include pg_install/bin and pg_install/lib, respectively.

To run the integration tests or Python scripts (not required to use the code), install Python (3.11 or higher), and install the python3 packages using ./scripts/pysync (requires poetry>=1.8) in the project directory.

Running neon database

  1. Start pageserver and postgres on top of it (should be called from repo root):
# Create repository in .neon with proper paths to binaries and data
# Later that would be responsibility of a package install script
> cargo neon init
Initializing pageserver node 1 at '127.0.0.1:64000' in ".neon"

# start pageserver, safekeeper, and broker for their intercommunication
> cargo neon start
Starting neon broker at 127.0.0.1:50051.
storage_broker started, pid: 2918372
Starting pageserver node 1 at '127.0.0.1:64000' in ".neon".
pageserver started, pid: 2918386
Starting safekeeper at '127.0.0.1:5454' in '.neon/safekeepers/sk1'.
safekeeper 1 started, pid: 2918437

# create initial tenant and use it as a default for every future neon_local invocation
> cargo neon tenant create --set-default
tenant 9ef87a5bf0d92544f6fafeeb3239695c successfully created on the pageserver
Created an initial timeline 'de200bd42b49cc1814412c7e592dd6e9' at Lsn 0/16B5A50 for tenant: 9ef87a5bf0d92544f6fafeeb3239695c
Setting tenant 9ef87a5bf0d92544f6fafeeb3239695c as a default one

# create postgres compute node
> cargo neon endpoint create main

# start postgres compute node
> cargo neon endpoint start main
Starting new endpoint main (PostgreSQL v14) on timeline de200bd42b49cc1814412c7e592dd6e9 ...
Starting postgres at 'postgresql://cloud_admin@127.0.0.1:55432/postgres'

# check list of running postgres instances
> cargo neon endpoint list
 ENDPOINT  ADDRESS          TIMELINE                          BRANCH NAME  LSN        STATUS
 main      127.0.0.1:55432  de200bd42b49cc1814412c7e592dd6e9  main         0/16B5BA8  running
  1. Now, it is possible to connect to postgres and run some queries:
> psql -p 55432 -h 127.0.0.1 -U cloud_admin postgres
postgres=# CREATE TABLE t(key int primary key, value text);
CREATE TABLE
postgres=# insert into t values(1,1);
INSERT 0 1
postgres=# select * from t;
 key | value
-----+-------
   1 | 1
(1 row)
  1. And create branches and run postgres on them:
# create branch named migration_check
> cargo neon timeline branch --branch-name migration_check
Created timeline 'b3b863fa45fa9e57e615f9f2d944e601' at Lsn 0/16F9A00 for tenant: 9ef87a5bf0d92544f6fafeeb3239695c. Ancestor timeline: 'main'

# check branches tree
> cargo neon timeline list
(L) main [de200bd42b49cc1814412c7e592dd6e9]
(L) ┗━ @0/16F9A00: migration_check [b3b863fa45fa9e57e615f9f2d944e601]

# create postgres on that branch
> cargo neon endpoint create migration_check --branch-name migration_check

# start postgres on that branch
> cargo neon endpoint start migration_check
Starting new endpoint migration_check (PostgreSQL v14) on timeline b3b863fa45fa9e57e615f9f2d944e601 ...
Starting postgres at 'postgresql://cloud_admin@127.0.0.1:55434/postgres'

# check the new list of running postgres instances
> cargo neon endpoint list
 ENDPOINT         ADDRESS          TIMELINE                          BRANCH NAME      LSN        STATUS
 main             127.0.0.1:55432  de200bd42b49cc1814412c7e592dd6e9  main             0/16F9A38  running
 migration_check  127.0.0.1:55434  b3b863fa45fa9e57e615f9f2d944e601  migration_check  0/16F9A70  running

# this new postgres instance will have all the data from 'main' postgres,
# but all modifications would not affect data in original postgres
> psql -p 55434 -h 127.0.0.1 -U cloud_admin postgres
postgres=# select * from t;
 key | value
-----+-------
   1 | 1
(1 row)

postgres=# insert into t values(2,2);
INSERT 0 1

# check that the new change doesn't affect the 'main' postgres
> psql -p 55432 -h 127.0.0.1 -U cloud_admin postgres
postgres=# select * from t;
 key | value
-----+-------
   1 | 1
(1 row)
  1. If you want to run tests afterwards (see below), you must stop all the running pageserver, safekeeper, and postgres instances you have just started. You can terminate them all with one command:
> cargo neon stop

More advanced usages can be found at Local Development Control Plane (neon_local)).

Handling build failures

If you encounter errors during setting up the initial tenant, it's best to stop everything (cargo neon stop) and remove the .neon directory. Then fix the problems, and start the setup again.

Running tests

Rust unit tests

We are using cargo-nextest to run the tests in Github Workflows. Some crates do not support running plain cargo test anymore, prefer cargo nextest run instead. You can install cargo-nextest with cargo install cargo-nextest.

Integration tests

Ensure your dependencies are installed as described here.

git clone --recursive https://github.com/neondatabase/neon.git

CARGO_BUILD_FLAGS="--features=testing" make

./scripts/pytest

By default, this runs both debug and release modes, and all supported postgres versions. When testing locally, it is convenient to run just one set of permutations, like this:

DEFAULT_PG_VERSION=16 BUILD_TYPE=release ./scripts/pytest

Flamegraphs

You may find yourself in need of flamegraphs for software in this repository. You can use flamegraph-rs or the original flamegraph.pl. Your choice!

Important

If you're using lld or mold, you need the --no-rosegment linker argument. It's a general thing with Rust / lld / mold, not specific to this repository. See this PR for further instructions.

Cleanup

For cleaning up the source tree from build artifacts, run make clean in the source directory.

For removing every artifact from build and configure steps, run make distclean, and also consider removing the cargo binaries in the target directory, as well as the database in the .neon directory. Note that removing the .neon directory will remove your database, with all data in it. You have been warned!

Documentation

docs Contains a top-level overview of all available markdown documentation.

To view your rustdoc documentation in a browser, try running cargo doc --no-deps --open

See also README files in some source directories, and rustdoc style documentation comments.

Other resources:

Postgres-specific terms

Due to Neon's very close relation with PostgreSQL internals, numerous specific terms are used. The same applies to certain spelling: i.e. we use MB to denote 1024 * 1024 bytes, while MiB would be technically more correct, it's inconsistent with what PostgreSQL code and its documentation use.

To get more familiar with this aspect, refer to:

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Neon: Serverless Postgres. We separated storage and compute to offer autoscaling, code-like database branching, and scale to zero.
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