Interface edep-sim h5 output

pyproject.toml

@@ -12,6 +12,9 @@ dependencies = [
     "numpy",
     "scipy",
     "h5py",
+    # Registers the Blosc/LZ4 HDF5 filters.  Required to read JAXTPC seg/inst
+    # files (written with Blosc, filter 32001) and to write io.compression=lz4.
+    "hdf5plugin",
     "hydra-core>=1.3",
     "omegaconf>=2.3",
 ]
@@ -27,6 +30,18 @@ rapids = [
 numba = [
     "numba",
 ]
+# Required by pysupera.torchdata (training-data pipeline) only.
+torch = [
+    "torch",
+    # Per-process RSS, including DataLoader workers.  pysupera.profiling
+    # falls back to /proc without it, losing the worker figures.
+    "psutil",
+]
+# Weights & Biases logging of the training-data pipeline.  Optional:
+# pysupera.profiling.WandbLogger is a silent no-op when it is absent.
+wandb = [
+    "wandb",
+]
 dev = [
     "pytest",
     "jupyter",
@@ -38,8 +53,10 @@ app = [
 ]
 
 [project.scripts]
-run_pysupera  = "pysupera._run:main"
-pysupera-app  = "pysupera.app:main"
+run_pysupera        = "pysupera._run:main"
+pysupera-app        = "pysupera.app:main"
+pysupera-repack     = "pysupera.io:repack_cli"
+pysupera-hits-subset = "pysupera.hits_subset:main"
 
 [tool.setuptools.packages.find]
 where = ["."]

pysupera/__init__.py

@@ -1,5 +1,11 @@
 __version__ = "0.0.1"
 
-from .io import write_events, open_writer, read_events, EventStore, EventWriter
-from .config import build_checker, build_conditions, build_preprocessor, build_merge_processor, load_cfg, configure, check_particle_list
-from .utils import trace_ancestry
+from .data import Particle, FLOAT_UNSET
+from .io import (write_events, open_writer, read_events, EventStore, EventWriter,
+                 voxmap_path, write_voxmap, open_voxmap_writer, read_voxmap,
+                 VoxmapWriter, VoxmapStore)
+from .config import (build_checker, build_conditions, build_preprocessor,
+                     build_merge_processor, build_voxelizer, build_pipeline,
+                     load_cfg, configure, check_particle_list, Pipeline)
+from .utils import trace_ancestry, resolve_orphans
+from .merge import merge_em_showers