flowtracks 1.6.2.dev3__py3-none-any.whl → 1.6.2.dev6__py3-none-any.whl

flowtracks/_version.py

@@ -18,7 +18,7 @@ version_tuple: tuple[int | str, ...]
 commit_id: str | None
 __commit_id__: str | None
 
-__version__ = version = '1.6.2.dev3'
-__version_tuple__ = version_tuple = (1, 6, 2, 'dev3')
+__version__ = version = '1.6.2.dev6'
+__version_tuple__ = version_tuple = (1, 6, 2, 'dev6')
 
-__commit_id__ = commit_id = 'g17f6da530'
+__commit_id__ = commit_id = 'g519243be4'

flowtracks/eulerian.py

@@ -150,6 +150,12 @@ def eulerian_grid(scene, grid_params, first, last, cycletime=None,
     caller-side frame selection (see :func:`flowtracks.phasing.bin_of_frame`);
     this gridder always tiles contiguously.
 
+    Input contract (NOT validated — the caller states it): positions in
+    METRES, velocities in METRES PER SECOND. The output dataset is labelled
+    ``m`` / ``m s-1`` (CF) on that basis. Per-frame velocities (no frame
+    rate known) average arithmetically fine, but the ``m s-1`` label is then
+    wrong — relabel to ``m frame-1`` downstream, or state the frame rate.
+
     smoothing_sigma (in grid cells, scalar or per-axis (sx, sy, sz)) applies
     Gaussian kernel smoothing to the velocity sums AND the counts before the
     division (Shepard/kernel estimate); min_count then acts on smoothed counts.

flowtracks/graphics.py

@@ -20,6 +20,8 @@ PyVista (VTK, GPU-rendered polylines -- the ``vtk`` extra), from the same
 PolyData the ``.vtp`` ParaView writer saves.
 """
 
+from pathlib import Path
+
 import matplotlib.pyplot as pl
 import numpy as np
 
@@ -249,7 +251,8 @@ def select_trajectories(source, by="length", n=10, min_points=20, min_extent=0.0
 
 def plot_trajectories_3d(source, trajids=None, scalars="speed", context=0,
                          plotter=None, cmap="plasma", clim=None, line_width=3,
-                         point_size=6, title=None, bar_title=None, show=True):
+                         point_size=6, title=None, bar_title=None, show=True,
+                         units=None):
     """Interactive 3D trajectory view (PyVista): polylines coloured by a point
     array (``speed``, ``time``, ``trajid``), points drawn as spheres so short
     tracks stay visible.
@@ -264,14 +267,30 @@ def plot_trajectories_3d(source, trajids=None, scalars="speed", context=0,
         with the same title into one shared colour range, so give each
         subplot its own title to keep its own range.
     show - call ``plotter.show()``; pass False to compose or screenshot.
+    units - ``{"pos": "m", "vel": "m s-1", "time": "frame"}`` for axis and
+        colour-bar titles (``x [m]``, ``speed [m s-1]``). When omitted and
+        ``source`` is a Zarr path, whatever the writer recorded is used;
+        otherwise titles stay bare rather than guessed.
 
     Returns the plotter.
     """
     import pyvista as pv
 
-    from flowtracks.writers import _trajectory_arrays, trajectory_polydata
-
-    poly = trajectory_polydata(source, trajids)
+    from flowtracks.writers import (
+        _trajectory_arrays,
+        trajectory_polydata,
+        trajectory_units,
+    )
+
+    if units is None and isinstance(source, (str, Path)):
+        units = trajectory_units(source)
+    units = units or {}
+    pos_u = f" [{units['pos']}]" if units.get("pos") else ""
+    scalar_u = f" [{units['vel']}]" if scalars in ("speed", "velocity") and units.get("vel") else ""
+    if not scalar_u and scalars == "time" and units.get("time"):
+        scalar_u = f" [{units['time']}]"
+
+    poly = trajectory_polydata(source, trajids, units=units or None)
     if plotter is None:
         plotter = pv.Plotter()
     if context:
@@ -280,14 +299,15 @@ def plot_trajectories_3d(source, trajids=None, scalars="speed", context=0,
         plotter.add_points(pos[pick], color="grey", opacity=0.15, point_size=2,
                            name="context")
     if poly.n_points:
-        bar = {"title": bar_title or scalars}
+        bar = {"title": (bar_title or scalars) + scalar_u}
         plotter.add_mesh(poly, scalars=scalars, cmap=cmap, clim=clim, line_width=line_width,
                          render_lines_as_tubes=True, scalar_bar_args=bar, name="tracks")
         plotter.add_mesh(poly.extract_points(np.arange(poly.n_points), adjacent_cells=False),
                          scalars=scalars, cmap=cmap, clim=clim, point_size=point_size,
                          render_points_as_spheres=True, style="points",
                          show_scalar_bar=False, name="points")
-    plotter.show_grid(xtitle="x", ytitle="y", ztitle="z", fmt="%.3g",
+    plotter.show_grid(xtitle=f"x{pos_u}", ytitle=f"y{pos_u}", ztitle=f"z{pos_u}",
+                       fmt="%.3g",
                       n_xlabels=3, n_ylabels=3, n_zlabels=3)
     plotter.add_axes()
     if title:

flowtracks/io.py

@@ -1226,7 +1226,8 @@ def read_zarr_trajectories(zarr_path, first=None, last=None, group="trajectories
     return []
 
 
-def save_zarr_trajectories(trajects, zarr_path, group="trajectories", overwrite=True):
+def save_zarr_trajectories(trajects, zarr_path, group="trajectories", overwrite=True,
+                           units=None):
     """
     Save a list of Trajectory objects into a Zarr directory store.
 
@@ -1235,6 +1236,11 @@ def save_zarr_trajectories(trajects, zarr_path, group="trajectories", overwrite=
     zarr_path - path to the target .zarr directory.
     group - sub-group name inside the Zarr store.
     overwrite - if True, overwrite existing arrays in the group.
+    units - dict of per-array units recorded on the group, e.g.
+        {"pos": "m", "vel": "m s-1", "accel": "m s-2", "time": "frame"}.
+        The writer never guesses: omit it only when the caller truly does
+        not know, in which case no unit claim is stored. Honest rule: no
+        frame rate means per-frame velocity units ("m frame-1"), never "m s-1".
     """
     import zarr
 
@@ -1275,4 +1281,7 @@ def save_zarr_trajectories(trajects, zarr_path, group="trajectories", overwrite=
         accel_arr = np.concatenate(all_accel, axis=0)
         target_group.create_array("accel", data=accel_arr, overwrite=overwrite)
 
+    if units:
+        target_group.attrs.update({f"{k}_units": v for k, v in units.items()})
+
 

flowtracks/writers.py

@@ -69,17 +69,43 @@ def _trajectory_arrays(source):
     raise TypeError(f"Unsupported trajectory source: {type(source)!r}")
 
 
-def trajectory_polydata(source, trajids=None):
+def trajectory_units(source) -> dict:
+    """Units recorded on a trajectories store ({pos, vel, time, ...} units).
+
+    Zarr paths report what the writer recorded; anything else reports {} --
+    the caller then labels without units rather than guessing.
+    """
+    if isinstance(source, (str, Path)):
+        try:
+            import zarr
+
+            group = zarr.open_group(str(source), mode="r")
+            target = group["trajectories"] if "trajectories" in group else group
+            return {
+                k[:-6]: v
+                for k, v in dict(target.attrs).items()
+                if k.endswith("_units")
+            }
+        except Exception:
+            pass
+    return {}
+
+
+def trajectory_polydata(source, trajids=None, units=None):
     """Lagrangian trajectories as VTK PolyData: points + one polyline per trajid.
 
     ``source`` as for :func:`write_trajectories_vtp`. ``trajids`` optionally
     keeps only those trajectories. Point data: ``trajid``, ``time``,
-    ``velocity``, ``speed``. Shared by the ``.vtp`` writer and
-    :func:`flowtracks.graphics.plot_trajectories_3d`.
+    ``velocity``, ``speed``. ``units`` (e.g. ``{"pos": "m"}``) is stored as
+    field data (``units:<name>``); when omitted and ``source`` is a Zarr path,
+    whatever the writer recorded is carried over. Shared by the ``.vtp``
+    writer and :func:`flowtracks.graphics.plot_trajectories_3d`.
     """
     import pyvista as pv
 
     pos, vel, time, trajid = _trajectory_arrays(source)
+    if units is None and isinstance(source, (str, Path)):
+        units = trajectory_units(source)
     if trajids is not None:
         keep = np.isin(trajid, np.asarray(trajids))
         pos, vel, time, trajid = pos[keep], vel[keep], time[keep], trajid[keep]
@@ -104,6 +130,8 @@ def trajectory_polydata(source, trajids=None):
     poly.point_data["time"] = time
     poly.point_data["velocity"] = vel
     poly.point_data["speed"] = np.linalg.norm(vel, axis=1)
+    for k, val in (units or {}).items():
+        poly.field_data[f"units:{k}"] = np.array([str(val)])
     return poly
 
 
@@ -134,13 +162,20 @@ def _clean(values: np.ndarray) -> np.ndarray:
 
 
 def write_eulerian_series(ds: xr.Dataset, out_dir: Path, prefix: str = "phase",
-                          time_dim: str = "phase", dt: float = 1.0) -> Path:
+                           time_dim: str = "phase", dt: float = 1.0,
+                           units: dict | None = None) -> Path:
     """Write one Eulerian grid file per ``time_dim`` step plus a ``.pvd`` series.
 
     Grid type is chosen from axis spacing: ``vtkImageData`` (``.vti``) when x,
     y and z are each uniformly spaced, ``vtkRectilinearGrid`` (``.vtr``)
     otherwise. Vector fields named by ``VEL_VARS`` are combined into a single
     "velocity" array; every other data variable is written as a scalar.
+
+    ``units`` maps array name to unit string (e.g. ``{"velocity": "m s-1"}``)
+    and is stored as grid field data (``units:<name>``); when omitted, the
+    dataset's own ``units`` attrs are carried over where present. VTK has no
+    unit system, so this is annotation, not enforcement — but the reader no
+    longer has to guess.
     """
     import pyvista as pv
 
@@ -179,6 +214,17 @@ def write_eulerian_series(ds: xr.Dataset, out_dir: Path, prefix: str = "phase",
                 # skip rather than silently reshape/truncate them.
                 continue
             grid.point_data[name] = _clean(da.values).ravel(order="F")
+        fields = dict(units) if units else {}
+        for name, da in snap.data_vars.items():
+            if name not in fields and da.attrs.get("units"):
+                fields[name] = da.attrs["units"]
+        if "velocity" in grid.point_data:
+            for v in VEL_VARS:
+                if v in fields:
+                    fields["velocity"] = fields.pop(v)
+                    break
+        for k, val in fields.items():
+            grid.field_data[f"units:{k}"] = np.array([str(val)])
         path = out_dir / f"{prefix}_{i:04d}.{ext}"
         grid.save(str(path))
         entries.append((i * dt, path))

{flowtracks-1.6.2.dev3.dist-info → flowtracks-1.6.2.dev6.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: flowtracks
-Version: 1.6.2.dev3
+Version: 1.6.2.dev6
 Summary: Library for handling 3D PTV trajectory databases and Lagrangian/Eulerian turbulence post-processing.
 Author-email: Yosef Meller <yosefm@gmail.com>
 License-Expression: GPL-3.0-only AND BSD-3-Clause

{flowtracks-1.6.2.dev3.dist-info → flowtracks-1.6.2.dev6.dist-info}/RECORD

@@ -1,15 +1,15 @@
 flowtracks/__init__.py,sha256=iCexskmRtpNJ0fNZWRFkQAqrku7csbKy5NtL2YQNYeo,1532
-flowtracks/_version.py,sha256=ioGLROz7BQPlJdI-WwRRXLPAhGzUpsK8HZGSNQ17PCs,541
+flowtracks/_version.py,sha256=-2KICqAEdPWLo6oH9F7DHgtleuBtdR0ws16EQh2o6wM,541
 flowtracks/an_scene.py,sha256=QV_gtzp-5h1CqAW1Y6ieGco9BxXQDE4f_7-fcy3fluI,7361
 flowtracks/analysis.py,sha256=nob5-pKxjPzB34_oQsxmxYALz4Q_s1BTpC5_VgXX3ss,6320
 flowtracks/combine.py,sha256=-UQtbTH4vjQS88_92h5UZlS60OfQofTWEV6SL1prXgI,4455
-flowtracks/eulerian.py,sha256=b6otBh_fjwfMPGKsitBMmM-zhcp8qq7SiWyx-cnGaGU,41495
+flowtracks/eulerian.py,sha256=PMt0_TtjrFwRPEvSEKm_wn8YZdClSux4yXEuxiB2EjM,41872
 flowtracks/flux.py,sha256=w4K_jjDWTBIOj4BkoeNoKjIRcvg_6stCqNF8iivxF-A,15137
 flowtracks/format_docstrings.py,sha256=iJVJmtTUYEDEcmF5XSRZ08zpvlVc9lU66CZeqSpEKic,1987
 flowtracks/future_idea_xarray_dask_zarr.py,sha256=4ZS6QuZ2s_sUaiCW0XBo74GrP5fw_clVyhWNjT5gbds,6101
-flowtracks/graphics.py,sha256=Pror0OmWXmlZz5yyEY2qKKQM5t_BMtKeYIAw26I0JeQ,13043
+flowtracks/graphics.py,sha256=ulMTpPRGzQanAjna480XLMMQJL92Q4Wdtky8inqnwtE,13909
 flowtracks/interpolation.py,sha256=njuB-bvWK5M2tc2Ibm6ZWNg6Tm6H-PTn0a63IldlJaA,39414
-flowtracks/io.py,sha256=muNcht-yBDQM7vJaNHl9l6ag9iO0OTzWU12_etx_QEU,47869
+flowtracks/io.py,sha256=sujLgtY8WIymMZugDv2jlQeL9QR_hZn-MaZPPKsAPvA,48366
 flowtracks/nhist.py,sha256=3xdrfSTSpTojXJcyhwBgagHBmKrm0U_AEsP3BjP9H1o,4089
 flowtracks/pairs.py,sha256=ehYDDTmjeRuzkSAMpdlwnwwAZOPNLKGF_e5HmcKw-2g,4034
 flowtracks/particle.py,sha256=sVng1X8Xp3V9_wgJK2EGsDEx1OFQjd3L63Fzn--MWkM,671
@@ -25,29 +25,29 @@ flowtracks/stitching.py,sha256=HFsIRdAfqyhmES1OwIFslyWTF9U7kPJ5OKtjBl4YWqA,16895
 flowtracks/trajectory.py,sha256=uL4-byZ2tycdrAwGoET4AfLHuKaWRnc8VHLO5zv9MOg,11831
 flowtracks/vortex.py,sha256=4lG3QkvvnWhAHy4tl1pJrBGFLdrlP4pxNdhCZI1VZ4Q,2529
 flowtracks/wall_shear.py,sha256=k9Q5FEchIO9J_onXPOw4PNJQfmsrSyVVvX4RdW-rQlE,6788
-flowtracks/writers.py,sha256=QzZ7gKqRGNti6caPHcwCr_4VUCjzzDxMA2CBS5-pq84,8391
+flowtracks/writers.py,sha256=0LnRiuqmyhcw8Ju3v9vCOERymNmxHG7cXKy6r8uLOTo,10358
 flowtracks/zarr_scene.py,sha256=PKCtiTT1t0Hj74Q572ra5DM3uM8lQK1A6DzzfUxvIzI,10468
-flowtracks-1.6.2.dev3.data/data/flowtracks-examples/batch_Lagrangian_to_Eulerian.py,sha256=e7mQFqyqvCeAHRKiN1IaxdNJi0e2FU84c7QNrx0L-m0,2296
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