`poetry install` with namespace packages has race condition leading to broken files

[StefanBRas]

Description

If multiple packages uses the same namespace and have files with the same name, they will overwrite each other. This is by design, as seen in this line.

However sometimes it seems to write to the file at the same time, leading to a file that is a mix of multiple files and often not valid python. My guess is that there needs to be a file lock here

Workarounds

Use a post install script to fix the files. But this is very manual

Poetry Installation Method

pip

Operating System

macOS 14.4

Poetry Version

1.8.2

Poetry Configuration

cache-dir = "/Users/sras/Library/Caches/pypoetry"
experimental.system-git-client = false
installer.max-workers = null
installer.modern-installation = true
installer.no-binary = null
installer.parallel = true
keyring.enabled = true
solver.lazy-wheel = true
virtualenvs.create = true
virtualenvs.in-project = true
virtualenvs.options.always-copy = false
virtualenvs.options.no-pip = false
virtualenvs.options.no-setuptools = false
virtualenvs.options.system-site-packages = false
virtualenvs.path = "{cache-dir}/virtualenvs"  # /Users/sras/Library/Caches/pypoetry/virtualenvs
virtualenvs.prefer-active-python = false
virtualenvs.prompt = "{proje

Python Sysconfig

Platform: "macosx-13-arm64"
Python version: "3.11"
Current installation scheme: "venv"

Paths: 
	data = "/Users/sras/dev/test_dbt_install/poetry_venv"
	include = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11/include/python3.11"
	platinclude = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11/include/python3.11"
	platlib = "/Users/sras/dev/test_dbt_install/poetry_venv/lib/python3.11/site-packages"
	platstdlib = "/Users/sras/dev/test_dbt_install/poetry_venv/lib/python3.11"
	purelib = "/Users/sras/dev/test_dbt_install/poetry_venv/lib/python3.11/site-packages"
	scripts = "/Users/sras/dev/test_dbt_install/poetry_venv/bin"
	stdlib = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11/lib/python3.11"

Variables: 
	ABIFLAGS = ""
	AC_APPLE_UNIVERSAL_BUILD = "0"
	AIX_BUILDDATE = "0"
	AIX_GENUINE_CPLUSPLUS = "0"
	ALIGNOF_LONG = "8"
	ALIGNOF_SIZE_T = "8"
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	AR = "/usr/bin/xcrun ar"
	ARFLAGS = "rcs"
	BASECFLAGS = "-Wsign-compare -Wunreachable-code -fno-common -dynamic"
	BASECPPFLAGS = ""
	BASEMODLIBS = ""
	BINDIR = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11/bin"
	BINLIBDEST = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11/lib/python3.11"
	BLDLIBRARY = ""
	BLDSHARED = "clang -bundle -undefined dynamic_lookup -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk"
	BOOTSTRAP_HEADERS = "\"
	BUILDEXE = ".exe"
	BUILDPYTHON = "python.exe"
	BUILD_GNU_TYPE = "aarch64-apple-darwin22.6.0"
	BYTESTR_DEPS = "\"
	CC = "clang"
	CCSHARED = ""
	CFLAGS = "-Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk"
	CFLAGSFORSHARED = ""
	CFLAGS_ALIASING = "-fno-strict-aliasing"
	CONFIGFILES = "configure configure.ac acconfig.h pyconfig.h.in Makefile.pre.in"
	CONFIGURE_CFLAGS = "-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk"
	CONFIGURE_CFLAGS_NODIST = "-I/opt/homebrew/include -flto -std=c11 -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wstrict-prototypes -Werror=implicit-function-declaration -fvisibility=hidden"
	CONFIGURE_CPPFLAGS = "-I/opt/homebrew/include"
	CONFIGURE_LDFLAGS = "-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk"
	CONFIGURE_LDFLAGS_NODIST = "-L/opt/homebrew/lib -Wl,-rpath,/opt/homebrew/lib -flto -Wl,-export_dynamic -g"
	CONFIGURE_LDFLAGS_NOLTO = "-flto=thin"
	CONFIG_ARGS = "'--prefix=/opt/homebrew/opt/[email protected]' '--enable-ipv6' '--datarootdir=/opt/homebrew/opt/[email protected]/share' '--datadir=/opt/homebrew/opt/[email protected]/share' '--without-ensurepip' '--enable-loadable-sqlite-extensions' '--with-openssl=/opt/homebrew/opt/openssl@3' '--enable-optimizations' '--with-system-expat' '--with-system-libmpdec' '--with-readline=editline' '--with-lto' '--enable-framework=/opt/homebrew/opt/[email protected]/Frameworks' '--with-dtrace' '--with-dbmliborder=ndbm' 'MACOSX_DEPLOYMENT_TARGET=13' 'CFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk' 'CFLAGS_NODIST=-I/opt/homebrew/include' 'LDFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk' 'LDFLAGS_NODIST=-L/opt/homebrew/lib -Wl,-rpath,/opt/homebrew/lib' 'CPPFLAGS=-I/opt/homebrew/include' 'py_cv_module__tkinter=disabled' 'PKG_CONFIG_PATH=/opt/homebrew/opt/openssl@3/lib/pkgconfig:/opt/homebrew/opt/readline/lib/pkgconfig:/opt/homebrew/opt/sqlite/lib/pkgconfig:/opt/homebrew/opt/xz/lib/pkgconfig' 'PKG_CONFIG_LIBDIR=/usr/lib/pkgconfig:/opt/homebrew/Homebrew/Library/Homebrew/os/mac/pkgconfig/13' 'CC=clang'"
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	CONFINCLUDEPY = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11/include/python3.11"
	COREPYTHONPATH = ""
	COVERAGE_INFO = "/private/tmp/pythonA3.11-20231102-5119-1b406mq/Python-3.11.6/coverage.info"
	COVERAGE_LCOV_OPTIONS = "--rc lcov_branch_coverage=1"
	COVERAGE_REPORT = "/private/tmp/pythonA3.11-20231102-5119-1b406mq/Python-3.11.6/lcov-report"
	COVERAGE_REPORT_OPTIONS = "--rc lcov_branch_coverage=1 --branch-coverage --title "CPython 3.11 LCOV report [commit $(shell )]""
	CPPFLAGS = "-I. -I./Include -I/opt/homebrew/include"
	CXX = "clang++"
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	DECIMAL_LDFLAGS = "-lmpdec"
	DEEPFREEZE_C = "Python/deepfreeze/deepfreeze.c"
	DEEPFREEZE_DEPS = "./Tools/scripts/deepfreeze.py _bootstrap_python ./Programs/_freeze_module.py \"
	DEEPFREEZE_OBJS = "Python/deepfreeze/deepfreeze.o"
	DESTDIRS = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11 /opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11/lib /opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11/lib/python3.11 /opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload"
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	DTRACE_DEPS = "\"
	DTRACE_HEADERS = "Include/pydtrace_probes.h"
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	EXT_SUFFIX = ".cpython-311-darwin.so"
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	FLOAT_WORDS_BIGENDIAN = "0"
	FREEZE_MODULE = "./_bootstrap_python ./Programs/_freeze_module.py"
	FREEZE_MODULE_BOOTSTRAP = "./Programs/_freeze_module"
	FREEZE_MODULE_BOOTSTRAP_DEPS = "Programs/_freeze_module"
	FREEZE_MODULE_DEPS = "_bootstrap_python ./Programs/_freeze_module.py"
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	PY_LDFLAGS_NODIST = "-L/opt/homebrew/lib -Wl,-rpath,/opt/homebrew/lib -flto -Wl,-export_dynamic -g"
	PY_LDFLAGS_NOLTO = "-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -flto=thin"
	PY_SQLITE_ENABLE_LOAD_EXTENSION = "1"
	PY_SQLITE_HAVE_SERIALIZE = "1"
	PY_SSL_DEFAULT_CIPHERS = "1"
	PY_SSL_DEFAULT_CIPHER_STRING = "0"
	PY_STDMODULE_CFLAGS = "-Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -I/opt/homebrew/include -flto -std=c11 -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wstrict-prototypes -Werror=implicit-function-declaration -fvisibility=hidden -fprofile-instr-use=code.profclangd -I./Include/internal -I. -I./Include -I/opt/homebrew/include"
	PY_SUPPORT_TIER = "2"
	Py_DEBUG = "0"
	Py_ENABLE_SHARED = "0"
	Py_HASH_ALGORITHM = "0"
	Py_STATS = "0"
	Py_TRACE_REFS = "0"
	QUICKTESTOPTS = "-x test_subprocess test_io test_lib2to3 \"
	READELF = ":"
	RESSRCDIR = "Mac/Resources/framework"
	RETSIGTYPE = "void"
	RUNSHARED = "DYLD_FRAMEWORK_PATH=/private/tmp/pythonA3.11-20231102-5119-1b406mq/Python-3.11.6"
	SCRIPTDIR = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11/lib"
	SETPGRP_HAVE_ARG = "0"
	SHELL = "/bin/sh"
	SHLIBS = "-ldl  -framework CoreFoundation"
	SHLIB_SUFFIX = ".so"
	SIGNED_RIGHT_SHIFT_ZERO_FILLS = "0"
	SITEPATH = ""
	SIZEOF_DOUBLE = "8"
	SIZEOF_FLOAT = "4"
	SIZEOF_FPOS_T = "8"
	SIZEOF_INT = "4"
	SIZEOF_LONG = "8"
	SIZEOF_LONG_DOUBLE = "8"
	SIZEOF_LONG_LONG = "8"
	SIZEOF_OFF_T = "8"
	SIZEOF_PID_T = "4"
	SIZEOF_PTHREAD_KEY_T = "8"
	SIZEOF_PTHREAD_T = "8"
	SIZEOF_SHORT = "2"
	SIZEOF_SIZE_T = "8"
	SIZEOF_TIME_T = "8"
	SIZEOF_UINTPTR_T = "8"
	SIZEOF_VOID_P = "8"
	SIZEOF_WCHAR_T = "4"
	SIZEOF__BOOL = "1"
	SOABI = "cpython-311-darwin"
	SRCDIRS = "Modules   Modules/_blake2   Modules/_ctypes   Modules/_decimal   Modules/_decimal/libmpdec   Modules/_io   Modules/_multiprocessing   Modules/_sha3   Modules/_sqlite   Modules/_sre   Modules/_xxtestfuzz   Modules/cjkcodecs   Modules/expat   Objects   Parser   Programs   Python   Python/frozen_modules   Python/deepfreeze"
	SRC_GDB_HOOKS = "./Tools/gdb/libpython.py"
	STATIC_LIBPYTHON = "1"
	STDC_HEADERS = "1"
	STRICT_SYSV_CURSES = "/* Don't use ncurses extensions */"
	STRIPFLAG = "-s"
	SUBDIRS = ""
	SUBDIRSTOO = "Include Lib Misc"
	SYSLIBS = ""
	SYS_SELECT_WITH_SYS_TIME = "1"
	TESTOPTS = ""
	TESTPATH = ""
	TESTPYTHON = "DYLD_FRAMEWORK_PATH=/private/tmp/pythonA3.11-20231102-5119-1b406mq/Python-3.11.6 ./python.exe -E"
	TESTPYTHONOPTS = ""
	TESTRUNNER = "DYLD_FRAMEWORK_PATH=/private/tmp/pythonA3.11-20231102-5119-1b406mq/Python-3.11.6 ./python.exe -E ./Tools/scripts/run_tests.py"
	TESTSUBDIRS = "ctypes/test \"
	TESTTIMEOUT = "1200"
	TEST_MODULES = "yes"
	THREAD_STACK_SIZE = "0x1000000"
	TIMEMODULE_LIB = "0"
	TIME_WITH_SYS_TIME = "1"
	TM_IN_SYS_TIME = "0"
	TZPATH = "/usr/share/zoneinfo:/usr/lib/zoneinfo:/usr/share/lib/zoneinfo:/etc/zoneinfo"
	UNICODE_DEPS = "\"
	UNIVERSALSDK = ""
	UPDATE_FILE = "./Tools/scripts/update_file.py"
	USE_COMPUTED_GOTOS = "0"
	VERSION = "3.11"
	WASM_ASSETS_DIR = "./opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11"
	WASM_STDLIB = "./opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11/lib/python3.11/os.py"
	WHEEL_PKG_DIR = ""
	WINDOW_HAS_FLAGS = "1"
	WITH_DECIMAL_CONTEXTVAR = "1"
	WITH_DOC_STRINGS = "1"
	WITH_DTRACE = "1"
	WITH_DYLD = "1"
	WITH_EDITLINE = "1"
	WITH_FREELISTS = "1"
	WITH_LIBINTL = "0"
	WITH_NEXT_FRAMEWORK = "1"
	WITH_PYMALLOC = "1"
	WITH_VALGRIND = "0"
	X87_DOUBLE_ROUNDING = "0"
	XMLLIBSUBDIRS = "xml xml/dom xml/etree xml/parsers xml/sax"
	abiflags = ""
	abs_builddir = "/private/tmp/pythonA3.11-20231102-5119-1b406mq/Python-3.11.6"
	abs_srcdir = "/private/tmp/pythonA3.11-20231102-5119-1b406mq/Python-3.11.6"
	base = "/Users/sras/dev/test_dbt_install/poetry_venv"
	datarootdir = "/opt/homebrew/opt/[email protected]/share"
	exec_prefix = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11"
	installed_base = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11"
	installed_platbase = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11"
	platbase = "/Users/sras/dev/test_dbt_install/poetry_venv"
	platlibdir = "lib"
	prefix = "/opt/homebrew/opt/[email protected]/Frameworks/Python.framework/Versions/3.11"
	projectbase = "/opt/homebrew/opt/[email protected]/bin"
	py_version = "3.11.6"
	py_version_nodot = "311"
	py_version_nodot_plat = ""
	py_version_short = "3.11"
	srcdir = "/opt/homebrew/Cellar/[email protected]/3.11.6_1/Frameworks/Python.framework/Versions/3.11/lib/python3.11/config-3.11-darwin"
	userbase = "/Users/sras/Library/Python/3.11"

Example pyproject.toml

[tool.poetry]
name = "test-dbt-install"
version = "0.1.0"
authors = []
description = ""
packages = [{include = "test_dbt_install", from = "src"}]

[tool.poetry.dependencies]
python = "^3.12"
dbt-core = "^1.7.10"
dbt-postgres = "^1.7.10"
dbt-duckdb = "^1.7.3"
dbt-snowflake = "^1.7.2"


[build-system]
requires = ["poetry-core"]
build-backend = "poetry.core.masonry.api"

If you keep running

rm -rf .venv; poetry install; poetry run python -c "import dbt; print(dbt)"

It will eventually fail.

Poetry Runtime Logs

...
  - Installing dbt-postgres (1.7.10): Pending...
  - Installing dbt-postgres (1.7.10): Installing...
  - Installing dbt-snowflake (1.7.2): Pending...
Installing /Users/sras/dev/test_dbt_install/.venv/lib/python3.12/site-packages/dbt/__init__.py over existing file
  - Installing dbt-snowflake (1.7.2): Installing...
  - Installing dbt-duckdb (1.7.3)
  - Installing dbt-postgres (1.7.10): Pending...
  - Installing dbt-postgres (1.7.10): Installing...
  - Installing dbt-postgres (1.7.10)
  - Installing dbt-snowflake (1.7.2): Pending...
  - Installing dbt-snowflake (1.7.2): Installing...
  - Installing dbt-snowflake (1.7.2)

Installing the current project: test-dbt-install (0.1.0)
  - Building package test-dbt-install in editable mode
  - Adding test_dbt_install.pth to /Users/sras/dev/test_dbt_install/.venv/lib/python3.12/site-packages for /Users/sras/dev/test_dbt_install
  - Adding the test_dbt_install-0.1.0.dist-info directory to /Users/sras/dev/test_dbt_install/.venv/lib/python3.12/site-packages
Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/Users/sras/dev/test_dbt_install/.venv/lib/python3.12/site-packages/dbt/__init__.py", line 4
    ectories on sys.path named after the package which effectively combines both modules into a single namespace (dbt.adapters)
             ^^
SyntaxError: invalid syntax

[dimbleby]

a file that is a mix of multiple files and often not valid python.

if you have two packages that are trying to install different files in the same place then this is doomed anyway: which even should win?

An approach that downloaded to a temporary file and then went os.replace(tmp_file, real_file) might be OK, suggest prototyping that and seeing whether or not it is horribly damaging to performance

[StefanBRas]

Since poetry gives a warning when it overwrites a file, I'd say that the expected behavior is that the last file "wins" - knowing that this is not optimal. Does it handle differently if the files are identical?

Ideally the files are the same yes - in my specific case they only differ in comments.

[dimbleby]

I'd say the meaning of the warning is roughly "this is surprising, if something goes wrong you'll know where to look". In modern namespace packaging the "duplicate" __init__.py should be omitted altogether, hard to believe at this point that people are really worrying about python 2.7.

Anyway I've suggested a fix that you might try: do that, and if it works out, submit a merge request!

[StefanBRas]

Would it not be the same if I just changed it to not overwrite but just ignore the file? Then it would be "first file wins" and since the order (seems) random that's effectively the same as "last file wins" but just with less of a hassle.

[dimbleby]

I reckon I would buy that

[andreineculau]

Thank you for raising this issue, Stefan. I understand from the PR discussions that a fix is not trivial.

Meanwhile does anyone know what would be the workaround? postinstall step is mentioned above, but how would that look?

I am considering setting parallel to false or modern installation to false, but I don't know if that would shortcircut the problematic vode path 🤔 Could someone confirm? Lower performance is better than undeterministic results

[andreineculau]

Update: skipping the modern installation works, though unclear when will it be removed #8987

[cemsbr]

Update: skipping the modern installation works, though unclear when will it be removed #8987

How to skip the modern installation?

Currently, my workaround is to retry. Usually, it works the second time.

[andreineculau]

https://python-poetry.org/docs/configuration/#installermodern-installation

Set it to false. Has worked 100% since activating it in May.

The strategy to try one more time on the other hand failed often in the CI.