allow writing tbl files (#160)

pyproject.toml

@@ -32,7 +32,7 @@ dependencies = [
     "pandas",
     "scipy",
     "magicgui>=0.4.0",
-    "cryohub>=0.6.3",
+    "cryohub>=0.6.4",
     "cryotypes>=0.2.0",
     "einops",
     "morphosamplers>=0.0.10",

src/blik/napari.yaml

@@ -20,6 +20,9 @@ contributions:
     - id: blik.write_particles_relion_40
       python_name: blik.writer:write_particles_relion_40
       title: Save particles data with blik (relion 4.0)
+    - id: blik.write_particles_dynamo
+      python_name: blik.writer:write_particles_dynamo
+      title: Save particles data with blik (relion 4.0)
     - id: blik.write_surface_picks
       python_name: blik.writer:write_surface_picks
       title: Save surface picks data with blik
@@ -84,6 +87,10 @@ contributions:
       display_name: particles (relion 4.0)
       layer_types: ["points+", "vectors*"]
       filename_extensions: [".star"]
+    - command: blik.write_particles_dynamo
+      display_name: particles (dynamo tbl)
+      layer_types: ["points+", "vectors*"]
+      filename_extensions: [".tbl"]
     - command: blik.write_surface_picks
       display_name: surface picks
       layer_types: ["shapes"]

src/blik/writer.py

@@ -3,6 +3,7 @@
 from cryohub.utils.types import PoseSet
 from cryohub.writing.mrc import write_mrc
 from cryohub.writing.star import write_star
+from cryohub.writing.tbl import write_tbl
 from cryotypes.image import Image
 from scipy.spatial.transform import Rotation
 
@@ -25,7 +26,7 @@ def write_image(path, data, attributes):
     return [path]
 
 
-def _write_particles(path, layer_data, relion_version):
+def _generate_particle_set(layer_data):
     particles = []
     for data, attributes, layer_type in layer_data:
         if layer_type == "vectors":
@@ -62,21 +63,31 @@ def _write_particles(path, layer_data, relion_version):
             raise ValueError(
                 "cannot write a layer that does not have blik metadata. Add it to an experiment!"
             )
+    return particles
 
+
+def _write_particles_star(path, layer_data, relion_version):
+    particles = _generate_particle_set(layer_data)
     write_star(particles, path, overwrite=True, version=relion_version)
     return [path]
 
 
 def write_particles_relion_30(path, layer_data):
-    return _write_particles(path, layer_data, relion_version="3.0")
+    return _write_particles_star(path, layer_data, relion_version="3.0")
 
 
 def write_particles_relion_31(path, layer_data):
-    return _write_particles(path, layer_data, relion_version="3.1")
+    return _write_particles_star(path, layer_data, relion_version="3.1")
 
 
 def write_particles_relion_40(path, layer_data):
-    return _write_particles(path, layer_data, relion_version="4.0")
+    return _write_particles_star(path, layer_data, relion_version="4.0")
+
+
+def write_particles_dynamo(path, layer_data):
+    particles = _generate_particle_set(layer_data)
+    write_tbl(particles, path, overwrite=True)
+    return [path]
 
 
 def write_surface_picks(path, data, attributes):