Protobuf crate fails to build due to abseil issue - any way to fix?

[WillAyd]

I'm trying to make my way through the developer guide, but when I run pnpm run build it appears as if the build is failing due to an issue where abseil may be missing a stdlib import, and that in turn fails the build for the protobuf-src crate. Here's the full compilation log:

pnpm run build  WARN  Unsupported engine: wanted: {"node":">=16 <23"} (current: {"node":"v24.11.0","pnpm":"10.20.0"})

@3.8.0 build /home/will/clones/perspective
node tools/perspective-scripts/build.mjs

No .perspectiverc, running setup
? Focus NPM package(s)?
? Run debug build? Yes
? Use docker for build env? No
. |  WARN  Unsupported engine: wanted: {"node":">=16 <23"} (current: {"node":"v24.11.0","pnpm":"10.20.0"})
Scope: 29 of 30 workspace projects

@finos/[email protected] build /home/will/clones/perspective/rust/generate-metadata
node build.mjs

warning: Patch simd-adler32 v0.3.7 (https://github.com/mcountryman/simd-adler32.git?rev=140cde033e8b9a12d4de840648c65ccd5320bcc5#140cde03) was not used in the crate graph.
Check that the patched package version and available features are compatible
with the dependency requirements. If the patch has a different version from
what is locked in the Cargo.lock file, run cargo update to use the new
version. This may also occur with an optional dependency that is not enabled.
Compiling unicode-ident v1.0.12
Compiling proc-macro2 v1.0.94
Compiling serde v1.0.202
Compiling rustversion v1.0.17
Compiling log v0.4.21
Compiling cfg-if v1.0.0
Compiling itoa v1.0.11
Compiling ryu v1.0.18
Compiling once_cell v1.19.0
Compiling serde_json v1.0.117
Compiling wasm-bindgen-shared v0.2.100
Compiling autocfg v1.3.0
Compiling bumpalo v3.16.0
Compiling libc v0.2.169
Compiling wasm-bindgen v0.2.100
Compiling anyhow v1.0.86
Compiling syn v1.0.109
Compiling either v1.12.0
Compiling memchr v2.7.2
Compiling equivalent v1.0.1
Compiling thiserror v1.0.61
Compiling hashbrown v0.14.5
Compiling cc v1.0.98
Compiling regex-syntax v0.8.3
Compiling pin-project-lite v0.2.14
Compiling futures-core v0.3.30
Compiling futures-sink v0.3.30
Compiling version_check v0.9.4
Compiling prettyplease v0.2.20
Compiling futures-task v0.3.30
Compiling futures-io v0.3.30
Compiling futures-channel v0.3.30
Compiling itertools v0.12.1
Compiling pin-utils v0.1.0
Compiling rustix v0.38.34
Compiling linux-raw-sys v0.4.14
Compiling bytes v1.10.1
Compiling bitflags v2.5.0
Compiling fastrand v2.1.0
Compiling fixedbitset v0.4.2
Compiling getrandom v0.3.2
Compiling paste v1.0.15
Compiling multimap v0.10.0
Compiling heck v0.5.0
Compiling tracing-core v0.1.32
Compiling slab v0.4.9
Compiling num-traits v0.2.19
Compiling proc-macro2 v0.4.30
Compiling proc-macro-error-attr v1.0.4
Compiling aho-corasick v1.1.3
Compiling proc-macro-error v1.0.4
Compiling ppv-lite86 v0.2.17
Compiling predicates-core v1.0.6
Compiling quote v1.0.39
Compiling toml_datetime v0.6.6
Compiling indexmap v2.2.6
Compiling cmake v0.1.50
Compiling winnow v0.5.40
Compiling heck v0.4.1
Compiling syn v2.0.99
Compiling thiserror v2.0.12
Compiling lazy_static v1.4.0
Compiling unicode-xid v0.1.0
Compiling itertools v0.10.5
Compiling normalize-line-endings v0.3.0
Compiling ident_case v1.0.1
Compiling syn v0.15.44
Compiling strsim v0.11.1
Compiling difflib v0.4.0
Compiling termtree v0.4.1
Compiling termcolor v1.4.1
Compiling petgraph v0.6.5
Compiling percent-encoding v2.3.1
Compiling rand_core v0.9.3
Compiling smallvec v1.13.2
Compiling rand_chacha v0.9.0
Compiling fnv v1.0.7
Compiling form_urlencoded v1.2.1
Compiling float-cmp v0.9.0
Compiling predicates-tree v1.0.9
Compiling quote v0.6.13
Compiling camino v1.1.9
Compiling fragile v2.0.0
Compiling unicode-segmentation v1.11.0
Compiling event-listener v2.5.3
Compiling semver v1.0.23
Compiling rand v0.9.1
Compiling downcast v0.11.0
Compiling unicode-width v0.1.12
Compiling minimal-lexical v0.2.1
Compiling textwrap v0.11.0
Compiling async-lock v2.8.0
Compiling protobuf-src v2.0.1+26.1
Compiling link-cplusplus v1.0.9
Compiling http v0.2.12
Compiling atty v0.2.14
Compiling nom v7.1.3
Compiling heck v0.3.3
Compiling tokio v1.45.1
Compiling byteorder v1.5.0
Compiling strsim v0.8.0
Compiling ansi_term v0.12.1
Compiling regex-automata v0.4.6
Compiling rand-unique v0.2.2
Compiling tempfile v3.10.1
Compiling bitflags v1.3.2
Compiling base64 v0.13.1
Compiling overload v0.1.1
Compiling toml_edit v0.19.15
Compiling vec_map v0.8.2
Compiling num_cpus v1.16.0
Compiling clap v2.34.0
Compiling nu-ansi-term v0.46.0
Compiling rmp v0.8.14
Compiling is-terminal v0.4.13
Compiling tracing-log v0.2.0
Compiling sharded-slab v0.1.7
Compiling thread_local v1.1.8
Compiling macro_rules_attribute-proc_macro v0.2.0
Compiling iana-time-zone v0.1.60
Compiling glob v0.3.1
Compiling unsafe-libyaml v0.2.11
Compiling humantime v2.1.0
Compiling shlex v1.3.0
Compiling boolinator v2.4.0
Compiling adler v1.0.2
Compiling deunicode v1.6.0
Compiling tracing-subscriber v0.3.18
Compiling macro_rules_attribute v0.2.0
Compiling miniz_oxide v0.7.3
Compiling chrono v0.4.38
Compiling spdx v0.10.6
Compiling getrandom v0.2.15
Compiling crc32fast v1.4.2
Compiling home v0.5.9
Compiling slug v0.1.6
Compiling tokio-stream v0.1.15
Compiling proc-macro-crate v1.3.1
Compiling flate2 v1.0.30
Compiling regex v1.10.4
Compiling wasm-bindgen-backend v0.2.100
Compiling darling_core v0.20.9
Compiling predicates v2.1.5
Compiling wasm-bindgen-macro-support v0.2.100
Compiling env_logger v0.10.2
Compiling serde_derive v1.0.202
Compiling thiserror-impl v1.0.61
Compiling prost-derive v0.12.6
Compiling futures-macro v0.3.30
Compiling tracing-attributes v0.1.27
Compiling pin-project-internal v1.1.5
Compiling thiserror-impl v2.0.12
Compiling mockall_derive v0.11.4
Compiling ts-rs-macros v11.0.1
Compiling gloo-worker-macros v0.1.0
Compiling wasm-bindgen-derive-macro v0.3.0
Compiling structopt-derive v0.4.18
Compiling strum_macros v0.24.3
Compiling git-version-macro v0.3.9
Compiling darling_macro v0.20.9
Compiling wasm-bindgen-macro v0.2.100
Compiling implicit-clone-derive v0.1.1
Compiling derivative v2.2.0
Compiling yew-macro v0.21.0
Compiling futures-util v0.3.30
Compiling extend v1.2.0
Compiling darling v0.20.9
Compiling serde_with_macros v3.8.1
Compiling strum_macros v0.26.2
Compiling git-version v0.3.9
Compiling pin-project v1.1.5
Compiling tracing v0.1.40
Compiling js-intern-core v0.3.1
Compiling structopt v0.3.26
Compiling prost v0.12.6
Compiling js-intern-proc-macro v0.3.1
Compiling prost-types v0.12.6
Compiling strum v0.24.1
Compiling strum v0.26.2
Compiling prost-build v0.12.6
Compiling mockall v0.11.4
Compiling procss v0.1.17
Compiling futures-executor v0.3.30
Compiling futures v0.3.30
Compiling pinned v0.1.0
Compiling prokio v0.1.0
Compiling perspective-viewer v3.8.0 (/home/will/clones/perspective/rust/perspective-viewer)
Compiling serde_urlencoded v0.7.1
Compiling serde_spanned v0.6.8
Compiling bincode v1.3.3
Compiling serde_bytes v0.11.14
Compiling cargo-platform v0.1.8
Compiling rmp-serde v1.3.0
Compiling implicit-clone v0.4.9
Compiling serde_yaml v0.9.34+deprecated
Compiling serde_with v3.8.1
Compiling ts-rs v11.0.1
Compiling cargo_metadata v0.15.4
Compiling js-sys v0.3.77
Compiling console_error_panic_hook v0.1.7
Compiling js-intern v0.3.1
Compiling toml v0.7.8
Compiling cargo-bundle-licenses v2.0.0
Compiling web-sys v0.3.77
Compiling wasm-bindgen-futures v0.4.42
Compiling serde-wasm-bindgen v0.6.5
Compiling gloo-timers v0.3.0
Compiling wasm-bindgen-derive v0.3.0
error: failed to run custom build command for protobuf-src v2.0.1+26.1

Caused by:
process didn't exit successfully: /home/will/clones/perspective/rust/target/debug/build/protobuf-src-1d972bf5ee283aa7/build-script-build (exit status: 101)
--- stdout
CMAKE_TOOLCHAIN_FILE_x86_64-unknown-linux-gnu = None
CMAKE_TOOLCHAIN_FILE_x86_64_unknown_linux_gnu = None
HOST_CMAKE_TOOLCHAIN_FILE = None
CMAKE_TOOLCHAIN_FILE = None
CMAKE_GENERATOR_x86_64-unknown-linux-gnu = None
CMAKE_GENERATOR_x86_64_unknown_linux_gnu = None
HOST_CMAKE_GENERATOR = None
CMAKE_GENERATOR = None
CMAKE_PREFIX_PATH_x86_64-unknown-linux-gnu = None
CMAKE_PREFIX_PATH_x86_64_unknown_linux_gnu = None
HOST_CMAKE_PREFIX_PATH = None
CMAKE_PREFIX_PATH = None
CMAKE_x86_64-unknown-linux-gnu = None
CMAKE_x86_64_unknown_linux_gnu = None
HOST_CMAKE = None
CMAKE = None
running: cd "/home/will/clones/perspective/rust/target/debug/build/protobuf-src-ed67ee683c076903/out/build" && CMAKE_PREFIX_PATH="" "cmake" "/home/will/.cargo/registry/src/index.crates.io-1949cf8c6b5b557f/protobuf-src-2.0.1+26.1/protobuf" "-DABSL_PROPAGATE_CXX_STD=ON" "-Dprotobuf_BUILD_TESTS=OFF" "-Dprotobuf_DEBUG_POSTFIX=" "-DCMAKE_CXX_STANDARD=14" "-DCMAKE_INSTALL_LIBDIR=lib" "-DCMAKE_INSTALL_PREFIX=/home/will/clones/perspective/rust/target/debug/build/protobuf-src-ed67ee683c076903/out" "-DCMAKE_C_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_C_COMPILER=/usr/bin/cc" "-DCMAKE_CXX_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_CXX_COMPILER=/usr/bin/c++" "-DCMAKE_ASM_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_ASM_COMPILER=/usr/bin/cc" "-DCMAKE_BUILD_TYPE=Debug"
-- The C compiler identification is GNU 15.2.0
-- The CXX compiler identification is GNU 15.2.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done

-- 26.1.0
-- Performing Test protobuf_HAVE_LD_VERSION_SCRIPT
-- Performing Test protobuf_HAVE_LD_VERSION_SCRIPT - Success
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE
-- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.1")
-- Performing Test protobuf_HAVE_BUILTIN_ATOMICS
-- Performing Test protobuf_HAVE_BUILTIN_ATOMICS - Success
-- Performing Test ABSL_INTERNAL_AT_LEAST_CXX17
-- Performing Test ABSL_INTERNAL_AT_LEAST_CXX17 - Failed
-- Performing Test ABSL_INTERNAL_AT_LEAST_CXX20
-- Performing Test ABSL_INTERNAL_AT_LEAST_CXX20 - Failed
-- Configuring done (1.5s)
-- Generating done (0.3s)
-- Build files have been written to: /home/will/clones/perspective/rust/target/debug/build/protobuf-src-ed67ee683c076903/out/build
running: cd "/home/will/clones/perspective/rust/target/debug/build/protobuf-src-ed67ee683c076903/out/build" && MAKEFLAGS="-j --jobserver-fds=8,9 --jobserver-auth=8,9" "cmake" "--build" "." "--target" "install" "--config" "Debug"
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[ 49%] Built target status

--- stderr
CMake Deprecation Warning at third_party/utf8_range/CMakeLists.txt:1 (cmake_minimum_required):
Compatibility with CMake < 3.10 will be removed from a future version of
CMake.

Update the VERSION argument <min> value.  Or, use the <min>...<max> syntax
to tell CMake that the project requires at least <min> but has been updated
to work with policies introduced by <max> or earlier.

CMake Warning:
Manually-specified variables were not used by the project:

  CMAKE_ASM_COMPILER
  CMAKE_ASM_FLAGS

In file included from /usr/include/c++/15/cassert:46,
from /home/will/.cargo/registry/src/index.crates.io-1949cf8c6b5b557f/protobuf-src-2.0.1+26.1/protobuf/third_party/abseil-cpp/absl/container/internal/container_memory.h:18,
from /home/will/.cargo/registry/src/index.crates.io-1949cf8c6b5b557f/protobuf-src-2.0.1+26.1/protobuf/third_party/abseil-cpp/absl/container/flat_hash_map.h:40,
from /home/will/.cargo/registry/src/index.crates.io-1949cf8c6b5b557f/protobuf-src-2.0.1+26.1/protobuf/third_party/abseil-cpp/absl/flags/reflection.h:29,
from /home/will/.cargo/registry/src/index.crates.io-1949cf8c6b5b557f/protobuf-src-2.0.1+26.1/protobuf/third_party/abseil-cpp/absl/flags/reflection.cc:16:
/home/will/.cargo/registry/src/index.crates.io-1949cf8c6b5b557f/protobuf-src-2.0.1+26.1/protobuf/third_party/abseil-cpp/absl/container/internal/container_memory.h: In function ‘void* absl::lts_20240116::container_internal::Allocate(Alloc*, size_t)’:
/home/will/.cargo/registry/src/index.crates.io-1949cf8c6b5b557f/protobuf-src-2.0.1+26.1/protobuf/third_party/abseil-cpp/absl/container/internal/container_memory.h:66:27: error: ‘uintptr_t’ does not name a type [-Wtemplate-body]
66 | assert(reinterpret_cast<uintptr_t>(p) % Alignment == 0 &&
| ^~~~~~~~~
/home/will/.cargo/registry/src/index.crates.io-1949cf8c6b5b557f/protobuf-src-2.0.1+26.1/protobuf/third_party/abseil-cpp/absl/container/internal/container_memory.h:31:1: note: ‘uintptr_t’ is defined in header ‘’; this is probably fixable by adding ‘#include ’
30 | #include "absl/utility/utility.h"
+++ |+#include
31 |
gmake[2]: *** [third_party/abseil-cpp/absl/flags/CMakeFiles/flags_reflection.dir/build.make:79: third_party/abseil-cpp/absl/flags/CMakeFiles/flags_reflection.dir/reflection.cc.o] Error 1
gmake[1]: *** [CMakeFiles/Makefile2:3277: third_party/abseil-cpp/absl/flags/CMakeFiles/flags_reflection.dir/all] Error 2
gmake[1]: *** Waiting for unfinished jobs....
gmake: *** [Makefile:136: all] Error 2

thread 'main' panicked at /home/will/.cargo/registry/src/index.crates.io-1949cf8c6b5b557f/cmake-0.1.50/src/lib.rs:1098:5:

command did not execute successfully, got: exit status: 2

build script failed, must exit now
note: run with RUST_BACKTRACE=1 environment variable to display a backtrace
warning: build failed, waiting for other jobs to finish...
node:internal/errors:985
const err = new Error(message);
^

Error: Command failed: PSP_ROOT_DIR=../.. cargo run --target=x86_64-unknown-linux-gnu
at genericNodeError (node:internal/errors:985:15)
at wrappedFn (node:internal/errors:539:14)
at checkExecSyncError (node:child_process:925:11)
at execSync (node:child_process:997:15)
at file:///home/will/clones/perspective/rust/generate-metadata/build.mjs:24:1
at ModuleJob.run (node:internal/modules/esm/module_job:377:25)
at async onImport.tracePromise.proto (node:internal/modules/esm/loader:691:26)
at async asyncRunEntryPointWithESMLoader (node:internal/modules/run_main:101:5) {
status: 101,
signal: null,
output: [ null, null, null ],
pid: 130323,
stdout: null,
stderr: null
}

Node.js v24.11.0
/home/will/clones/perspective/rust/generate-metadata:
 ERR_PNPM_RECURSIVE_RUN_FIRST_FAIL  @finos/[email protected] build: node build.mjs
Exit status 1
 WARN  Local package.json exists, but node_modules missing, did you mean to install?

@finos/[email protected] build /home/will/clones/perspective/rust/perspective
node build.mjs

Uncaught Exception Command failed: pnpm run --sequential --recursive --filter perspective-docs --if-present --filter blocks --if-present --filter esbuild-example --if-present --filter esbuild-remote --if-present --filter python-aiohttp --if-present --filter python-starlette --if-present --filter python-tornado --if-present --filter python-tornado-streaming --if-present --filter react-example --if-present --filter rust-axum --if-present --filter vite-example --if-present --filter webpack-example --if-present --filter perspective-cli --if-present --filter perspective-jupyterlab --if-present --filter perspective-react --if-present --filter perspective-viewer-d3fc --if-present --filter perspective-viewer-datagrid --if-present --filter perspective-viewer-openlayers --if-present --filter perspective-workspace --if-present --filter perspective-metadata --if-present --filter perspective-rs --if-present --filter perspective --if-present --filter perspective-python --if-present --filter perspective-server --if-present --filter perspective-viewer --if-present --filter perspective-bench --if-present --filter perspective-esbuild-plugin --if-present --filter perspective-scripts --if-present --filter perspective-test --if-present build

Error: Command failed: pnpm run --sequential --recursive --filter perspective-docs --if-present --filter blocks --if-present --filter esbuild-example --if-present --filter esbuild-remote --if-present --filter python-aiohttp --if-present --filter python-starlette --if-present --filter python-tornado --if-present --filter python-tornado-streaming --if-present --filter react-example --if-present --filter rust-axum --if-present --filter vite-example --if-present --filter webpack-example --if-present --filter perspective-cli --if-present --filter perspective-jupyterlab --if-present --filter perspective-react --if-present --filter perspective-viewer-d3fc --if-present --filter perspective-viewer-datagrid --if-present --filter perspective-viewer-openlayers --if-present --filter perspective-workspace --if-present --filter perspective-metadata --if-present --filter perspective-rs --if-present --filter perspective --if-present --filter perspective-python --if-present --filter perspective-server --if-present --filter perspective-viewer --if-present --filter perspective-bench --if-present --filter perspective-esbuild-plugin --if-present --filter perspective-scripts --if-present --filter perspective-test --if-present build
at genericNodeError (node:internal/errors:985:15)
at wrappedFn (node:internal/errors:539:14)
at checkExecSyncError (node:child_process:925:11)
at execSync (node:child_process:997:15)
at run_recursive (file:///home/will/clones/perspective/tools/perspective-scripts/sh_perspective.mjs:127:5)
at file:///home/will/clones/perspective/tools/perspective-scripts/build.mjs:24:25
at ModuleJob.run (node:internal/modules/esm/module_job:377:25)
at async onImport.tracePromise.proto (node:internal/modules/esm/loader:691:26)
at async asyncRunEntryPointWithESMLoader (node:internal/modules/run_main:101:5)

Unhandled Rejection Error: Command failed: node tools/perspective-scripts/build.mjs

Are there any known ways to work around this?

[texodus]

What is your OS? Which Perspective build target are you running (Emscripten, Python, etc)?

You likely have a system absl that is clobbering the vendored one. #3083 fixes this for OSX 14+ targets but our CI shows no issues on GitHub's ubuntu-latest.

[WillAyd]

This is on Ubuntu 25.10 and attempting the Python build. Thanks for the info - I'll take a deeper look

[timbess]

@WillAyd This is the fix for your issue. It seems that the old version of abseil used by protobuf 26.1 is incompatible with GCC 15. You may want to try another toolchain until that dependency gets upgraded.