lamindb 0.76.6__py3-none-any.whl → 0.76.8__py3-none-any.whl

lamindb/core/_track_environment.py

@@ -1,27 +1,27 @@
-from __future__ import annotations
-
-import subprocess
-from typing import TYPE_CHECKING
-
-import lamindb_setup as ln_setup
-from lamin_utils import logger
-
-if TYPE_CHECKING:
-    from lnschema_core.models import Run
-
-
-def track_environment(run: Run) -> None:
-    filepath = ln_setup.settings.storage.cache_dir / f"run_env_pip_{run.uid}.txt"
-    # create a requirements.txt
-    # we don't create a conda environment.yml mostly for its slowness
-    try:
-        with open(filepath, "w") as f:
-            result = subprocess.run(
-                ["pip", "freeze"],
-                stdout=f,
-            )
-    except OSError as e:
-        result = None
-        logger.warning(f"could not run pip freeze with error {e}")
-    if result is not None and result.returncode == 0:
-        logger.info(f"tracked pip freeze > {str(filepath)}")
+from __future__ import annotations
+
+import subprocess
+from typing import TYPE_CHECKING
+
+import lamindb_setup as ln_setup
+from lamin_utils import logger
+
+if TYPE_CHECKING:
+    from lnschema_core.models import Run
+
+
+def track_environment(run: Run) -> None:
+    filepath = ln_setup.settings.storage.cache_dir / f"run_env_pip_{run.uid}.txt"
+    # create a requirements.txt
+    # we don't create a conda environment.yml mostly for its slowness
+    try:
+        with open(filepath, "w") as f:
+            result = subprocess.run(
+                ["pip", "freeze"],
+                stdout=f,
+            )
+    except OSError as e:
+        result = None
+        logger.warning(f"could not run pip freeze with error {e}")
+    if result is not None and result.returncode == 0:
+        logger.info(f"tracked pip freeze > {str(filepath)}")

lamindb/core/datasets/__init__.py

@@ -1,59 +1,59 @@
-"""Test collections.
-
-.. autosummary::
-   :toctree: .
-
-   file_fcs
-   file_fcs_alpert19
-   file_tsv_rnaseq_nfcore_salmon_merged_gene_counts
-   file_jpg_paradisi05
-   file_tiff_suo22
-   file_fastq
-   file_bam
-   file_mini_csv
-   dir_scrnaseq_cellranger
-   dir_iris_images
-   df_iris
-   df_iris_in_meter
-   df_iris_in_meter_study1
-   df_iris_in_meter_study2
-   anndata_mouse_sc_lymph_node
-   anndata_human_immune_cells
-   anndata_pbmc68k_reduced
-   anndata_file_pbmc68k_test
-   anndata_pbmc3k_processed
-   anndata_with_obs
-   anndata_suo22_Visium10X
-   mudata_papalexi21_subset
-   schmidt22_crispra_gws_IFNG
-   schmidt22_perturbseq
-   fake_bio_notebook_titles
-"""
-
-from ._core import (
-    anndata_file_pbmc68k_test,
-    anndata_human_immune_cells,
-    anndata_mouse_sc_lymph_node,
-    anndata_pbmc3k_processed,
-    anndata_pbmc68k_reduced,
-    anndata_suo22_Visium10X,
-    anndata_with_obs,
-    df_iris,
-    df_iris_in_meter,
-    df_iris_in_meter_study1,
-    df_iris_in_meter_study2,
-    dir_iris_images,
-    dir_scrnaseq_cellranger,
-    file_bam,
-    file_fastq,
-    file_fcs,
-    file_fcs_alpert19,
-    file_jpg_paradisi05,
-    file_mini_csv,
-    file_tiff_suo22,
-    file_tsv_rnaseq_nfcore_salmon_merged_gene_counts,
-    mudata_papalexi21_subset,
-    schmidt22_crispra_gws_IFNG,
-    schmidt22_perturbseq,
-)
-from ._fake import fake_bio_notebook_titles
+"""Test collections.
+
+.. autosummary::
+   :toctree: .
+
+   file_fcs
+   file_fcs_alpert19
+   file_tsv_rnaseq_nfcore_salmon_merged_gene_counts
+   file_jpg_paradisi05
+   file_tiff_suo22
+   file_fastq
+   file_bam
+   file_mini_csv
+   dir_scrnaseq_cellranger
+   dir_iris_images
+   df_iris
+   df_iris_in_meter
+   df_iris_in_meter_study1
+   df_iris_in_meter_study2
+   anndata_mouse_sc_lymph_node
+   anndata_human_immune_cells
+   anndata_pbmc68k_reduced
+   anndata_file_pbmc68k_test
+   anndata_pbmc3k_processed
+   anndata_with_obs
+   anndata_suo22_Visium10X
+   mudata_papalexi21_subset
+   schmidt22_crispra_gws_IFNG
+   schmidt22_perturbseq
+   fake_bio_notebook_titles
+"""
+
+from ._core import (
+    anndata_file_pbmc68k_test,
+    anndata_human_immune_cells,
+    anndata_mouse_sc_lymph_node,
+    anndata_pbmc3k_processed,
+    anndata_pbmc68k_reduced,
+    anndata_suo22_Visium10X,
+    anndata_with_obs,
+    df_iris,
+    df_iris_in_meter,
+    df_iris_in_meter_study1,
+    df_iris_in_meter_study2,
+    dir_iris_images,
+    dir_scrnaseq_cellranger,
+    file_bam,
+    file_fastq,
+    file_fcs,
+    file_fcs_alpert19,
+    file_jpg_paradisi05,
+    file_mini_csv,
+    file_tiff_suo22,
+    file_tsv_rnaseq_nfcore_salmon_merged_gene_counts,
+    mudata_papalexi21_subset,
+    schmidt22_crispra_gws_IFNG,
+    schmidt22_perturbseq,
+)
+from ._fake import fake_bio_notebook_titles