autogaita 1.5.5__py3-none-any.whl → 1.5.6__py3-none-any.whl

autogaita/group/group_3_PCA.py

@@ -2,11 +2,11 @@
 from autogaita.resources.utils import bin_num_to_percentages, write_issues_to_textfile
 from autogaita.group.group_utils import save_figures
 import os
+import sys
 import pandas as pd
 import numpy as np
 from sklearn.preprocessing import StandardScaler
 from sklearn.decomposition import PCA
-from skbio.stats.distance import DistanceMatrix, permanova
 from scipy.spatial.distance import pdist, squareform
 from statsmodels.stats.multitest import multipletests
 import openpyxl
@@ -14,6 +14,14 @@ import seaborn as sns
 import matplotlib.pyplot as plt
 from matplotlib.animation import FuncAnimation, FFMpegWriter
 
+# skbio throws some error on windows during build
+skbio_available = sys.platform == "darwin"
+if skbio_available:
+    try:
+        from skbio.stats.distance import DistanceMatrix, permanova
+    except ImportError:
+        skbio_available = False
+
 # %% constants
 from autogaita.resources.constants import (
     ID_COL,
@@ -50,8 +58,13 @@ def PCA_main(avg_dfs, folderinfo, cfg, plot_panel_instance):
     PCA_df, features = create_PCA_df(avg_dfs, folderinfo, cfg)
     # run the PCA
     PCA_df, PCA_info = run_PCA(PCA_df, features, folderinfo, cfg)
-    # run the PERMANOVA
-    run_PCA_PERMANOVA(PCA_df, folderinfo, cfg)
+    # run the PERMANOVA - only on mac
+    if skbio_available:
+        run_PCA_PERMANOVA(PCA_df, folderinfo, cfg)
+    else:
+        write_issues_to_textfile(
+            "\nSkipping PCA PERMANOVA (skbio is broken on Windows).", folderinfo
+        )
     # save PCA info to xlsx files
     PCA_info_to_xlsx(PCA_df, PCA_info, folderinfo, cfg)
     if PCA_info["number_of_PCs"] < 2:

{autogaita-1.5.5.dist-info → autogaita-1.5.6.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: autogaita
-Version: 1.5.5
+Version: 1.5.6
 Summary: Automated Gait (and more!) Analysis in Python
 Author-email: Mahan Hosseini <autogaita@fz-juelich.de>
 License-Expression: GPL-3.0-only
@@ -18,7 +18,7 @@ Requires-Dist: matplotlib>=3.7
 Requires-Dist: scikit-learn>=1.2
 Requires-Dist: pingouin>=0.5
 Requires-Dist: scipy>=1.11
-Requires-Dist: scikit-bio>=0.7.1
+Requires-Dist: scikit-bio>=0.7.1; sys_platform == "darwin"
 Requires-Dist: statsmodels>=0.14
 Requires-Dist: ffmpeg-python>=0.2
 Requires-Dist: openpyxl>=3.1

{autogaita-1.5.5.dist-info → autogaita-1.5.6.dist-info}/RECORD

@@ -20,7 +20,7 @@ autogaita/dlc/dlc_main.py,sha256=ViApA3zSwrpR_v8Gec82M3v7YOHiFv8hSl85EF8_Xn0,354
 autogaita/group/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 autogaita/group/group_1_preparation.py,sha256=2YRfBFAq9crX2krF5VJ9MhqVOhpIUka6Xzj_NjYdico,15332
 autogaita/group/group_2_data_processing.py,sha256=aKnuq1b9Tcfpd5jrqGEqkolRj0mZ-4I8KaZGEDP5ayg,28839
-autogaita/group/group_3_PCA.py,sha256=aHc05wrTyuwB2V1LJzUbxncgtihqd_4n2g36p7UdQTY,24275
+autogaita/group/group_3_PCA.py,sha256=vFk5VTMsOqoeOQGwd1Jx1rZp1FjMdVrWGOKxEvQoDho,24650
 autogaita/group/group_4_stats.py,sha256=Gh4IkaMDBxgFV9LRwolhmvUMGZfBkAcTTfd0ewFr3vM,46212
 autogaita/group/group_5_plots.py,sha256=jwvgFztXkJXa4HEm7mqoGJHzlaApOwjPk3O-D7nTMM8,27205
 autogaita/group/group_constants.py,sha256=pypytW71syFZYYTk8Gi_xu_fB9RNUOV4nUtrv89s6R8,2090
@@ -65,7 +65,7 @@ autogaita/universal3D/universal3D_constants.py,sha256=r_bum9iHOoooVATZYXWPuv8a-V
 autogaita/universal3D/universal3D_datafile_preparation.py,sha256=rb1aaTVjM0fBH7cZb1zj_GZCtaizkCmIAk5UbBjNmCY,8409
 autogaita/universal3D/universal3D_main.py,sha256=V1SStyH3o8fOyYvFz-5tgHnnWg6AFkxVv_RW720K6M8,4613
 autogaita/universal3D/universal3D_utils.py,sha256=7HdqNrtWrSXRPnr7e3nUVH1OHC2SyZXqL1iphb-Q8ho,692
-autogaita-1.5.5.dist-info/licenses/LICENSE,sha256=YF6QR6Vjxcg5b_sYIyqkME7FZYau5TfEUGTG-0JeRK0,35129
+autogaita-1.5.6.dist-info/licenses/LICENSE,sha256=YF6QR6Vjxcg5b_sYIyqkME7FZYau5TfEUGTG-0JeRK0,35129
 autogaita_backup/backup_setup.py,sha256=ONw410juIytH0B4OUwoJ9I3-vdGMwsvlYSM-nNISMwA,1476
 autogaita_backup/common2D_run_and_done_gui.py,sha256=Uyd2aVUbEkER1W5UroEx5_8-BzcYQxDDi6jeXKaj0i8,15813
 autogaita_backup/dlc_1_preparation.py,sha256=_jkyeGqrl0CpK1cF-P7HUQfpHAyqJ33a66wIWZwrDVo,18845
@@ -74,8 +74,8 @@ autogaita_backup/dlc_gui.py,sha256=aV86NuyzaQcR2Q13vO8Ab3ybAAqDGUROSyHaeL91uX4,1
 autogaita_backup/sleap_1_preparation.py,sha256=5UHSMC-cG7C9pUW2W6oaJbGVnSCOAo6Isy1aeA5qDzo,12616
 autogaita_backup/sleap_2_sc_extraction.py,sha256=9Csf0UNDof3wNyeYOBsQRmBGvhhLohQqz-JK0N1LGY4,7394
 autogaita_backup/sleap_gui.py,sha256=bxi7_qC4jiRnwi-Cop-GkLwfyiU4q7up_cFRSxR_hyk,12592
-autogaita-1.5.5.dist-info/METADATA,sha256=51R_jHIRxPTbkiy4mINRtSvr77VKzcQW_VwmtjueJwI,12281
-autogaita-1.5.5.dist-info/WHEEL,sha256=wUyA8OaulRlbfwMtmQsvNngGrxQHAvkKcvRmdizlJi0,92
-autogaita-1.5.5.dist-info/entry_points.txt,sha256=IKvf_HCQ2RYkvfkSGFMT4ZFNcgRxw_EXkvXTuzCSyhU,61
-autogaita-1.5.5.dist-info/top_level.txt,sha256=WxScRyWN9Rg5YuMUN8oVTmzarKCzHoPPIDiaQYf9gEQ,27
-autogaita-1.5.5.dist-info/RECORD,,
+autogaita-1.5.6.dist-info/METADATA,sha256=KDmu5B04q_bSdEze4YWYGTEChoX6A3dm5aZPnd6i0uQ,12307
+autogaita-1.5.6.dist-info/WHEEL,sha256=wUyA8OaulRlbfwMtmQsvNngGrxQHAvkKcvRmdizlJi0,92
+autogaita-1.5.6.dist-info/entry_points.txt,sha256=IKvf_HCQ2RYkvfkSGFMT4ZFNcgRxw_EXkvXTuzCSyhU,61
+autogaita-1.5.6.dist-info/top_level.txt,sha256=WxScRyWN9Rg5YuMUN8oVTmzarKCzHoPPIDiaQYf9gEQ,27
+autogaita-1.5.6.dist-info/RECORD,,