From cc42e5ac4bd4ee72acadc22e8b2f7e979e8bcc46 Mon Sep 17 00:00:00 2001 From: Leo Singer Date: Thu, 11 Apr 2024 23:30:28 -0400 Subject: [PATCH] Use psycopg(3) for tests --- conftest.py | 4 +- healpix_alchemy/tests/benchmarks/conftest.py | 4 +- healpix_alchemy/tests/benchmarks/data.py | 40 ++-- poetry.lock | 188 ++++++++++--------- pyproject.toml | 4 +- 5 files changed, 129 insertions(+), 111 deletions(-) diff --git a/conftest.py b/conftest.py index edaf1f3..61d3c2e 100644 --- a/conftest.py +++ b/conftest.py @@ -7,7 +7,9 @@ @pytest.fixture def engine(postgresql): """Create an SQLAlchemy engine with a disposable PostgreSQL database.""" - return sa.create_engine('postgresql://', poolclass=sa.pool.StaticPool, + return sa.create_engine('postgresql+psycopg://', + poolclass=sa.pool.StaticPool, + pool_reset_on_return=None, creator=lambda: postgresql) diff --git a/healpix_alchemy/tests/benchmarks/conftest.py b/healpix_alchemy/tests/benchmarks/conftest.py index 8d683a6..36f8e38 100644 --- a/healpix_alchemy/tests/benchmarks/conftest.py +++ b/healpix_alchemy/tests/benchmarks/conftest.py @@ -8,7 +8,9 @@ @pytest.fixture def engine(postgresql): - return sa.create_engine('postgresql://', poolclass=sa.pool.StaticPool, + return sa.create_engine('postgresql+psycopg://', + poolclass=sa.pool.StaticPool, + pool_reset_on_return=None, creator=lambda: postgresql) diff --git a/healpix_alchemy/tests/benchmarks/data.py b/healpix_alchemy/tests/benchmarks/data.py index bc846c7..27efa3f 100644 --- a/healpix_alchemy/tests/benchmarks/data.py +++ b/healpix_alchemy/tests/benchmarks/data.py @@ -2,11 +2,9 @@ Notes ----- -We use the psycopg2 ``copy_from`` rather than SQLAlchemy for fast insertion. +We use the psycopg ``copy`` rather than SQLAlchemy for fast insertion. """ -import io - from astropy.coordinates import SkyCoord, uniform_spherical_random_surface from astropy import units as u from mocpy import MOC @@ -76,8 +74,8 @@ def get_random_galaxies(n, cursor): points = SkyCoord(get_random_points(n, RANDOM_GALAXIES_SEED)) hpx = HPX.skycoord_to_healpix(points) - f = io.StringIO('\n'.join(f'{i}' for i in hpx)) - cursor.copy_from(f, Galaxy.__tablename__, columns=('hpx',)) + with cursor.copy(f'COPY {Galaxy.__tablename__} (hpx) FROM STDIN') as copy: + copy.write('\n'.join(f'{i}' for i in hpx)) return points @@ -87,16 +85,16 @@ def get_random_fields(n, cursor): footprints = get_footprints_grid(*get_ztf_footprint_corners(), centers) mocs = [MOC.from_polygon_skycoord(footprint) for footprint in footprints] - f = io.StringIO('\n'.join(f'{i}' for i in range(len(mocs)))) - cursor.copy_from(f, Field.__tablename__) + with cursor.copy(f'COPY {Field.__tablename__} FROM STDIN') as copy: + copy.write('\n'.join(f'{i}' for i in range(len(mocs)))) - f = io.StringIO( - '\n'.join( - f'{i}\t{hpx}' - for i, moc in enumerate(mocs) for hpx in Tile.tiles_from(moc) + with cursor.copy(f'COPY {FieldTile.__tablename__} FROM STDIN') as copy: + copy.write( + '\n'.join( + f'{i}\t{hpx}' + for i, moc in enumerate(mocs) for hpx in Tile.tiles_from(moc) + ) ) - ) - cursor.copy_from(f, FieldTile.__tablename__) return mocs @@ -120,15 +118,15 @@ def get_random_sky_map(n, cursor): probdensity = rng.uniform(0, 1, size=len(tiles) - 1) probdensity /= np.sum(np.diff(tiles) * probdensity) * PIXEL_AREA - f = io.StringIO('1') - cursor.copy_from(f, Skymap.__tablename__) + with cursor.copy(f'COPY {Skymap.__tablename__} FROM STDIN') as copy: + copy.write('1') - f = io.StringIO( - '\n'.join( - f'1\t[{lo},{hi})\t{p}' - for lo, hi, p in zip(tiles[:-1], tiles[1:], probdensity) + with cursor.copy(f'COPY {SkymapTile.__tablename__} FROM STDIN') as copy: + copy.write( + '\n'.join( + f'1\t[{lo},{hi})\t{p}' + for lo, hi, p in zip(tiles[:-1], tiles[1:], probdensity) + ) ) - ) - cursor.copy_from(f, SkymapTile.__tablename__) return tiles, probdensity diff --git a/poetry.lock b/poetry.lock index ed9b23a..33e0fe1 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1394,84 +1394,101 @@ files = [ test = ["enum34", "ipaddress", "mock", "pywin32", "wmi"] [[package]] -name = "psycopg2-binary" -version = "2.9.9" -description = "psycopg2 - Python-PostgreSQL Database Adapter" +name = "psycopg" +version = "3.1.18" +description = "PostgreSQL database adapter for Python" optional = false python-versions = ">=3.7" files = [ - {file = "psycopg2-binary-2.9.9.tar.gz", hash = "sha256:7f01846810177d829c7692f1f5ada8096762d9172af1b1a28d4ab5b77c923c1c"}, - {file = "psycopg2_binary-2.9.9-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:c2470da5418b76232f02a2fcd2229537bb2d5a7096674ce61859c3229f2eb202"}, - {file = "psycopg2_binary-2.9.9-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:c6af2a6d4b7ee9615cbb162b0738f6e1fd1f5c3eda7e5da17861eacf4c717ea7"}, - {file = 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