minor corrections

sorting imports adding notebooks for binder adding kwargs to shift_files correction of new warnings done
AntSimi · ludwigVonKoopa · May 16, 2021 · May 12, 2021 · May 12, 2021 · May 14, 2021
commit b3f66bcf5faf2379e62c72cdfb5e07a62ddbf56e
diff --git a/examples/16_network/pet_follow_particle.py b/examples/16_network/pet_follow_particle.py
@@ -8,16 +8,14 @@
 from matplotlib import colors
 from matplotlib import pyplot as plt
 from matplotlib.animation import FuncAnimation
-from numba import njit
-from numba import types as nb_types
-from numpy import arange, meshgrid, ones, unique, where, zeros
+from numpy import arange, meshgrid, ones, unique, zeros
 
 from py_eddy_tracker import start_logger
 from py_eddy_tracker.appli.gui import Anim
 from py_eddy_tracker.data import get_demo_path
 from py_eddy_tracker.dataset.grid import GridCollection
-from py_eddy_tracker.observations.network import NetworkObservations
 from py_eddy_tracker.observations.groups import particle_candidate
+from py_eddy_tracker.observations.network import NetworkObservations
 from py_eddy_tracker.poly import group_obs
 
 start_logger().setLevel("ERROR")

diff --git a/examples/16_network/pet_ioannou_2017_case.py b/examples/16_network/pet_ioannou_2017_case.py
@@ -14,14 +14,13 @@
 from matplotlib import pyplot as plt
 from matplotlib.animation import FuncAnimation
 from matplotlib.ticker import FuncFormatter
-from numpy import arange, where, array, pi
+from numpy import arange, array, pi, where
 
 from py_eddy_tracker.appli.gui import Anim
 from py_eddy_tracker.data import get_demo_path
+from py_eddy_tracker.generic import coordinates_to_local
 from py_eddy_tracker.gui import GUI_AXES
 from py_eddy_tracker.observations.network import NetworkObservations
-
-from py_eddy_tracker.generic import coordinates_to_local
 from py_eddy_tracker.poly import fit_ellipse
 
 # %%

diff --git a/notebooks/python_module/01_general_things/pet_storage.ipynb b/notebooks/python_module/01_general_things/pet_storage.ipynb
@@ -230,7 +230,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.9.2"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/02_eddy_identification/pet_contour_circle.ipynb b/notebooks/python_module/02_eddy_identification/pet_contour_circle.ipynb
@@ -82,7 +82,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/02_eddy_identification/pet_display_id.ipynb b/notebooks/python_module/02_eddy_identification/pet_display_id.ipynb
@@ -129,7 +129,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/02_eddy_identification/pet_eddy_detection.ipynb b/notebooks/python_module/02_eddy_identification/pet_eddy_detection.ipynb
@@ -291,7 +291,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/02_eddy_identification/pet_eddy_detection_ACC.ipynb b/notebooks/python_module/02_eddy_identification/pet_eddy_detection_ACC.ipynb
@@ -161,7 +161,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/02_eddy_identification/pet_eddy_detection_gulf_stream.ipynb b/notebooks/python_module/02_eddy_identification/pet_eddy_detection_gulf_stream.ipynb
@@ -273,7 +273,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/02_eddy_identification/pet_filter_and_detection.ipynb b/notebooks/python_module/02_eddy_identification/pet_filter_and_detection.ipynb
@@ -176,7 +176,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/02_eddy_identification/pet_interp_grid_on_dataset.ipynb b/notebooks/python_module/02_eddy_identification/pet_interp_grid_on_dataset.ipynb
@@ -111,7 +111,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/02_eddy_identification/pet_radius_vs_area.ipynb b/notebooks/python_module/02_eddy_identification/pet_radius_vs_area.ipynb
@@ -107,7 +107,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/02_eddy_identification/pet_shape_gallery.ipynb b/notebooks/python_module/02_eddy_identification/pet_shape_gallery.ipynb
@@ -100,7 +100,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/02_eddy_identification/pet_sla_and_adt.ipynb b/notebooks/python_module/02_eddy_identification/pet_sla_and_adt.ipynb
@@ -223,7 +223,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/06_grid_manipulation/pet_advect.ipynb b/notebooks/python_module/06_grid_manipulation/pet_advect.ipynb
@@ -262,7 +262,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.9.2"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/06_grid_manipulation/pet_filter.ipynb b/notebooks/python_module/06_grid_manipulation/pet_filter.ipynb
@@ -215,7 +215,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/06_grid_manipulation/pet_hide_pixel_out_eddies.ipynb b/notebooks/python_module/06_grid_manipulation/pet_hide_pixel_out_eddies.ipynb
@@ -111,7 +111,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/06_grid_manipulation/pet_lavd.ipynb b/notebooks/python_module/06_grid_manipulation/pet_lavd.ipynb
@@ -201,7 +201,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.9.2"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/06_grid_manipulation/pet_okubo_weiss.ipynb b/notebooks/python_module/06_grid_manipulation/pet_okubo_weiss.ipynb
@@ -201,7 +201,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/07_cube_manipulation/pet_cube.ipynb b/notebooks/python_module/07_cube_manipulation/pet_cube.ipynb
@@ -158,7 +158,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.9.2"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/07_cube_manipulation/pet_fsle_med.ipynb b/notebooks/python_module/07_cube_manipulation/pet_fsle_med.ipynb
@@ -33,7 +33,7 @@
       "cell_type": "markdown",
       "metadata": {},
       "source": [
-        "## ADT in med\n:py:meth:`~py_eddy_tracker.dataset.grid.GridCollection.from_netcdf_cube` method is\nmade for data stores in time cube, you could use also \n:py:meth:`~py_eddy_tracker.dataset.grid.GridCollection.from_netcdf_list` method to\nload data-cube from multiple file.\n\n"
+        "## ADT in med\n:py:meth:`~py_eddy_tracker.dataset.grid.GridCollection.from_netcdf_cube` method is\nmade for data stores in time cube, you could use also\n:py:meth:`~py_eddy_tracker.dataset.grid.GridCollection.from_netcdf_list` method to\nload data-cube from multiple file.\n\n"
       ]
     },
     {
@@ -172,7 +172,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.9.2"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/07_cube_manipulation/pet_lavd_detection.ipynb b/notebooks/python_module/07_cube_manipulation/pet_lavd_detection.ipynb
@@ -194,7 +194,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.9.2"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/08_tracking_manipulation/pet_display_field.ipynb b/notebooks/python_module/08_tracking_manipulation/pet_display_field.ipynb
@@ -82,7 +82,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/08_tracking_manipulation/pet_display_track.ipynb b/notebooks/python_module/08_tracking_manipulation/pet_display_track.ipynb
@@ -118,7 +118,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/08_tracking_manipulation/pet_one_track.ipynb b/notebooks/python_module/08_tracking_manipulation/pet_one_track.ipynb
@@ -93,7 +93,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/08_tracking_manipulation/pet_run_a_tracking.ipynb b/notebooks/python_module/08_tracking_manipulation/pet_run_a_tracking.ipynb
@@ -154,7 +154,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/08_tracking_manipulation/pet_select_track_across_area.ipynb b/notebooks/python_module/08_tracking_manipulation/pet_select_track_across_area.ipynb
@@ -100,7 +100,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/08_tracking_manipulation/pet_track_anim.ipynb b/notebooks/python_module/08_tracking_manipulation/pet_track_anim.ipynb
@@ -82,7 +82,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/08_tracking_manipulation/pet_track_anim_matplotlib_animation.ipynb b/notebooks/python_module/08_tracking_manipulation/pet_track_anim_matplotlib_animation.ipynb
@@ -93,7 +93,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/10_tracking_diagnostics/pet_birth_and_death.ipynb b/notebooks/python_module/10_tracking_diagnostics/pet_birth_and_death.ipynb
@@ -144,7 +144,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/10_tracking_diagnostics/pet_center_count.ipynb b/notebooks/python_module/10_tracking_diagnostics/pet_center_count.ipynb
@@ -118,7 +118,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/10_tracking_diagnostics/pet_geographic_stats.ipynb b/notebooks/python_module/10_tracking_diagnostics/pet_geographic_stats.ipynb
@@ -118,7 +118,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/10_tracking_diagnostics/pet_groups.ipynb b/notebooks/python_module/10_tracking_diagnostics/pet_groups.ipynb
@@ -136,7 +136,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/10_tracking_diagnostics/pet_histo.ipynb b/notebooks/python_module/10_tracking_diagnostics/pet_histo.ipynb
@@ -82,7 +82,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/10_tracking_diagnostics/pet_lifetime.ipynb b/notebooks/python_module/10_tracking_diagnostics/pet_lifetime.ipynb
@@ -82,7 +82,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/10_tracking_diagnostics/pet_normalised_lifetime.ipynb b/notebooks/python_module/10_tracking_diagnostics/pet_normalised_lifetime.ipynb
@@ -111,7 +111,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/10_tracking_diagnostics/pet_pixel_used.ipynb b/notebooks/python_module/10_tracking_diagnostics/pet_pixel_used.ipynb
@@ -118,7 +118,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/10_tracking_diagnostics/pet_propagation.ipynb b/notebooks/python_module/10_tracking_diagnostics/pet_propagation.ipynb
@@ -118,7 +118,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/12_external_data/pet_SST_collocation.ipynb b/notebooks/python_module/12_external_data/pet_SST_collocation.ipynb
@@ -226,7 +226,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/14_generic_tools/pet_fit_contour.ipynb b/notebooks/python_module/14_generic_tools/pet_fit_contour.ipynb
@@ -100,7 +100,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.9.2"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/14_generic_tools/pet_visvalingam.ipynb b/notebooks/python_module/14_generic_tools/pet_visvalingam.ipynb
@@ -75,7 +75,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.7.7"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,

diff --git a/notebooks/python_module/16_network/pet_atlas.ipynb b/notebooks/python_module/16_network/pet_atlas.ipynb
@@ -363,7 +363,7 @@
       "name": "python",
       "nbconvert_exporter": "python",
       "pygments_lexer": "ipython3",
-      "version": "3.9.2"
+      "version": "3.7.9"
     }
   },
   "nbformat": 4,