Bumped NeuroTS and diameter-synthesis versions

requirements/base.pip

@@ -1,9 +1,9 @@
 atlas_analysis>0.0.1
 bluepy>=2.3,<3
 bluepymm
-bluepyparallel
+bluepyparallel>=0.0.7
 brainbuilder>=0.14
-diameter_synthesis>=0.2.5,<1
+diameter_synthesis>=0.4.1,<1
 gitpython
 jinja2
 joblib
@@ -17,10 +17,10 @@ neurom>=3,<4
 pandas
 placement_algorithm>=2.2.0
 PyYAML
-region_grower>=0.2.2
+region_grower>=0.3.1
 scipy
 seaborn
 tmd
-neurots>=3,<4
+neurots>=3.1,<4
 tqdm
 voxcell>=3,<4

src/synthesis_workflow/vacuum_synthesis.py

@@ -1,6 +1,4 @@
 """Functions for synthesis in vacuum to be used by luigi tasks."""
-from functools import partial
-
 import matplotlib.pyplot as plt
 import numpy as np
 import pandas as pd
@@ -77,17 +75,13 @@ def grow_vacuum_morphologies(
     otherwise 'M1-M5' from TNS are allowed.
     """
     global_gid = 0
-    # vacuum_synth_morphs_df = pd.DataFrame()
     rows = []
     for mtype in tqdm(mtypes):
         tmd_parameters[mtype]["diameter_params"]["method"] = diametrizer
         tmd_distributions["mtypes"][mtype]["diameter"]["method"] = diametrizer
 
         if diametrizer == "external":
-            external_diametrizer = partial(
-                _external_diametrizer,
-                diameter_params=tmd_parameters[mtype]["diameter_params"],
-            )
+            external_diametrizer = build_diameters.build
         else:
             external_diametrizer = None
 

tests/data/in_small_O1/out/synthesis/apical_points.yaml

@@ -2,49 +2,49 @@
 216363698b529b4a97b750923ceb3ffd: null
 4462ebfc5f915ef09cfbac6e7687a66e: null
 48f165d57b00c7f4781ef86f5c8cc1ab:
-- -15.582808494567871
-- 195.38494873046875
-- 11.951404571533203
+- -0.4680538475513458
+- 198.25662231445312
+- -8.388245582580566
 4dad2986ce8349606a06e9ab85a0bcc1:
-- 13.810442924499512
-- 178.62054443359375
-- 1.2194585800170898
+- -4.403373718261719
+- 136.6024627685547
+- -7.630804061889648
 5bc8fbbcbde5c0994164d8399f767c45: null
 6018366cf658f7a75ed34fe53a096533: null
 6513270e269e0d37f2a74de452e6b438: null
 72e63ac7a95383221f70d5dc2e675fc7:
-- 16.279451370239258
-- 192.1238250732422
-- 10.410905838012695
+- -2.708533525466919
+- 199.09312438964844
+- -7.201815605163574
 7b89296c6dcbac5008577eb1924770d3:
-- 9.738882064819336
-- 194.98228454589844
-- 1.6471529006958008
+- -15.83535099029541
+- 196.03489685058594
+- 1.0543631315231323
 8575062102fbcd4f357fbc5af71a1bfc:
-- 7.897195816040039
-- 137.59075927734375
-- -9.309407234191895
+- -4.238313674926758
+- 139.07034301757812
+- -6.794010162353516
 87751d4ca8501e2c44dcda6a797d76de:
-- 4.92702054977417
-- 137.34397888183594
-- -5.687285423278809
+- 12.631799697875977
+- 135.9075469970703
+- -4.667287826538086
 b8a1abcd1a6916c74da4f9fc3c6da5d7: null
 c15521b1b3dca50a9daa37e51b591d75:
-- 19.743297576904297
-- 136.77197265625
-- 1.860912561416626
+- 14.715275764465332
+- 132.83018493652344
+- -13.455227851867676
 cd613e30d8f16adf91b7584a2265b1f5: null
 d95bafc8f2a4d27bdcf4bb99f4bea973: null
 db5b5fab8f4d3e27dda1494c73cf256d:
-- 27.901477813720703
-- 193.4676513671875
-- -4.444892406463623
+- -5.762476921081543
+- 196.08946228027344
+- -0.19906087219715118
 e3e70682c2094cac629f6fbed82c07cd: null
 e539a78bc8eff3460b12ae6ead581e57:
-- -14.492266654968262
-- 136.18557739257812
-- 17.23952865600586
+- 0.6656373739242554
+- 137.11642456054688
+- -0.09093667566776276
 e8d79f49af6d114c4a6f188a424e617b:
-- -6.783214092254639
-- 139.7744598388672
-- 4.914680480957031
+- -4.303969860076904
+- 139.21133422851562
+- 2.201572895050049