[GEOPY-2029] fixup dependencies

- support for Python 3.12
- scikit-learn is a direct dependency
- update commented version for pypi repo upcoming versions
- no more empymod
- do not restrict ffspec nor mkl
- remove mention of panda from conda env, as no pip package is using it:
    it comes a an indirect dependency through other conda packages
- remove mention of  tbb and python-tzdata:
    not needed anymore to solve conflicts between python-tzdata

Author: sebhmg

environments/py-3.10-linux-64-dev.conda.lock.yml

@@ -1,6 +1,6 @@
 # Generated by conda-lock.
 # platform: linux-64
-# input_hash: 70ca38b7c7dbf2affc8b75ba0f1e07e95ff3ab4813a8da5c00eabec011825ad8
+# input_hash: 55ee19ff2c90ececdd9e48fb426c55b650d231137ad79c0457c83073863be3dc
 
 channels:
   - conda-forge
@@ -46,21 +46,20 @@ dependencies:
   - cytoolz=1.0.1=py310ha75aee5_0
   - dask-core=2024.6.2=pyhd8ed1ab_0
   - dataclasses=0.8=pyhc8e2a94_3
-  - debugpy=1.8.12=py310hf71b8c6_0
+  - debugpy=1.8.13=py310hf71b8c6_0
   - decorator=5.2.1=pyhd8ed1ab_0
   - defusedxml=0.7.1=pyhd8ed1ab_0
   - dill=0.3.9=pyhd8ed1ab_1
   - discretize=0.11.2=py310ha2bacc8_1
   - distributed=2024.6.2=pyhd8ed1ab_0
   - docutils=0.19=py310hff52083_1
-  - empymod=2.2.2=pyhd8ed1ab_0
   - exceptiongroup=1.2.2=pyhd8ed1ab_1
   - executing=2.1.0=pyhd8ed1ab_1
   - fasteners=0.19=pyhd8ed1ab_1
   - fonttools=4.56.0=py310h89163eb_0
   - fqdn=1.5.1=pyhd8ed1ab_1
   - freetype=2.12.1=h267a509_2
-  - fsspec=2022.11.0=pyhd8ed1ab_0
+  - fsspec=2025.2.0=pyhd8ed1ab_0
   - geoana=0.7.2=py310ha2bacc8_0
   - greenlet=3.1.1=py310hf71b8c6_1
   - h11=0.14.0=pyhd8ed1ab_1
@@ -128,11 +127,10 @@ dependencies:
   - libgcc-ng=14.2.0=h69a702a_2
   - libgfortran=14.2.0=h69a702a_2
   - libgfortran5=14.2.0=hf1ad2bd_2
-  - libhwloc=2.11.1=default_hecaa2ac_1000
+  - libhwloc=2.11.2=default_h0d58e46_1001
   - libiconv=1.18=h4ce23a2_1
   - libjpeg-turbo=3.0.0=hd590300_1
   - liblapack=3.9.0=31_hc41d3b0_mkl
-  - libllvm15=15.0.7=ha7bfdaf_5
   - liblzma=5.6.4=hb9d3cd8_0
   - libnghttp2=1.64.0=h161d5f1_0
   - libnsl=2.0.1=hd590300_0
@@ -152,7 +150,6 @@ dependencies:
   - libzlib=1.3.1=hb9d3cd8_2
   - linkify-it-py=2.0.3=pyhd8ed1ab_1
   - llvm-openmp=19.1.7=h024ca30_0
-  - llvmlite=0.44.0=py310h1a6248f_0
   - locket=1.0.0=pyhd8ed1ab_0
   - markdown-it-py=2.2.0=pyhd8ed1ab_0
   - markupsafe=3.0.2=py310h89163eb_1
@@ -179,7 +176,6 @@ dependencies:
   - nest-asyncio=1.6.0=pyhd8ed1ab_1
   - notebook=7.3.2=pyhd8ed1ab_0
   - notebook-shim=0.2.4=pyhd8ed1ab_1
-  - numba=0.61.0=py310h699fe88_1
   - numcodecs=0.13.1=py310h5eaa309_0
   - numpy=1.26.4=py310hb13e2d6_0
   - openjpeg=2.5.3=h5fbd93e_0
@@ -223,7 +219,7 @@ dependencies:
   - python-fastjsonschema=2.21.1=pyhd8ed1ab_0
   - python-json-logger=2.0.7=pyhd8ed1ab_0
   - python-mumps=0.0.3=py310h6410a28_0
-  - python-tzdata=2023.4=pyhd8ed1ab_0
+  - python-tzdata=2025.1=pyhd8ed1ab_0
   - python_abi=3.10=5_cp310
   - pytz=2024.1=pyhd8ed1ab_0
   - pyyaml=6.0.2=py310h89163eb_2
@@ -264,7 +260,7 @@ dependencies:
   - sqlalchemy=2.0.38=py310ha75aee5_0
   - stack_data=0.6.3=pyhd8ed1ab_1
   - tabulate=0.9.0=pyhd8ed1ab_2
-  - tbb=2021.12.0=h84d6215_4
+  - tbb=2021.13.0=hceb3a55_1
   - tblib=3.0.0=pyhd8ed1ab_1
   - terminado=0.18.1=pyh0d859eb_0
   - threadpoolctl=3.5.0=pyhc1e730c_0
@@ -304,7 +300,7 @@ dependencies:
   - zstd=1.5.7=hb8e6e7a_1
   - pip:
       - geoapps-utils @ git+https://github.com/MiraGeoscience/geoapps-utils.git@6ba24321d5311bbaf7ab460261ce6730ed541131
-      - geoh5py @ git+https://github.com/MiraGeoscience/geoh5py.git@c5f762ae16395629d8a8e4e04dc7488a6c9c53f1
+      - geoh5py @ git+https://github.com/MiraGeoscience/geoh5py.git@57e666e69f78e2961fdb54c715bce14b8d25ce4f
       - mira-simpeg @ git+https://github.com/MiraGeoscience/simpeg.git@275985aa18af76d70d55311e45dcfed149e62089
       - octree-creation-app @ git+https://github.com/MiraGeoscience/octree-creation-app.git@3c479f5d098332ff1c6e0eca0d56be6cc01e0911
       - param-sweeps @ git+https://github.com/MiraGeoscience/param-sweeps.git@39de1da1495aff6d16641d408317619e23adbdb4

environments/py-3.10-linux-64.conda.lock.yml

@@ -1,6 +1,6 @@
 # Generated by conda-lock.
 # platform: linux-64
-# input_hash: 70ca38b7c7dbf2affc8b75ba0f1e07e95ff3ab4813a8da5c00eabec011825ad8
+# input_hash: 55ee19ff2c90ececdd9e48fb426c55b650d231137ad79c0457c83073863be3dc
 
 channels:
   - conda-forge
@@ -30,11 +30,10 @@ dependencies:
   - dask-core=2024.6.2=pyhd8ed1ab_0
   - discretize=0.11.2=py310ha2bacc8_1
   - distributed=2024.6.2=pyhd8ed1ab_0
-  - empymod=2.2.2=pyhd8ed1ab_0
   - fasteners=0.19=pyhd8ed1ab_1
   - fonttools=4.56.0=py310h89163eb_0
   - freetype=2.12.1=h267a509_2
-  - fsspec=2022.11.0=pyhd8ed1ab_0
+  - fsspec=2025.2.0=pyhd8ed1ab_0
   - geoana=0.7.2=py310ha2bacc8_0
   - h2=4.2.0=pyhd8ed1ab_0
   - h5py=3.13.0=nompi_py310h60e0fe6_100
@@ -68,11 +67,10 @@ dependencies:
   - libgcc-ng=14.2.0=h69a702a_2
   - libgfortran=14.2.0=h69a702a_2
   - libgfortran5=14.2.0=hf1ad2bd_2
-  - libhwloc=2.11.1=default_hecaa2ac_1000
+  - libhwloc=2.11.2=default_h0d58e46_1001
   - libiconv=1.18=h4ce23a2_1
   - libjpeg-turbo=3.0.0=hd590300_1
   - liblapack=3.9.0=31_hc41d3b0_mkl
-  - libllvm15=15.0.7=ha7bfdaf_5
   - liblzma=5.6.4=hb9d3cd8_0
   - libnghttp2=1.64.0=h161d5f1_0
   - libnsl=2.0.1=hd590300_0
@@ -90,7 +88,6 @@ dependencies:
   - libxml2=2.13.6=h8d12d68_0
   - libzlib=1.3.1=hb9d3cd8_2
   - llvm-openmp=19.1.7=h024ca30_0
-  - llvmlite=0.44.0=py310h1a6248f_0
   - locket=1.0.0=pyhd8ed1ab_0
   - markupsafe=3.0.2=py310h89163eb_1
   - matplotlib-base=3.8.4=py310hef631a5_2
@@ -101,7 +98,6 @@ dependencies:
   - mumps-seq=5.7.3=h2064c95_7
   - munkres=1.1.4=pyh9f0ad1d_0
   - ncurses=6.5=h2d0b736_3
-  - numba=0.61.0=py310h699fe88_1
   - numcodecs=0.13.1=py310h5eaa309_0
   - numpy=1.26.4=py310hb13e2d6_0
   - openjpeg=2.5.3=h5fbd93e_0
@@ -123,7 +119,7 @@ dependencies:
   - python=3.10.16=he725a3c_1_cpython
   - python-dateutil=2.9.0.post0=pyhff2d567_1
   - python-mumps=0.0.3=py310h6410a28_0
-  - python-tzdata=2023.4=pyhd8ed1ab_0
+  - python-tzdata=2025.1=pyhd8ed1ab_0
   - python_abi=3.10=5_cp310
   - pytz=2024.1=pyhd8ed1ab_0
   - pyyaml=6.0.2=py310h89163eb_2
@@ -133,7 +129,7 @@ dependencies:
   - setuptools=75.8.2=pyhff2d567_0
   - six=1.17.0=pyhd8ed1ab_0
   - sortedcontainers=2.4.0=pyhd8ed1ab_1
-  - tbb=2021.12.0=h84d6215_4
+  - tbb=2021.13.0=hceb3a55_1
   - tblib=3.0.0=pyhd8ed1ab_1
   - threadpoolctl=3.5.0=pyhc1e730c_0
   - tk=8.6.13=noxft_h4845f30_101
@@ -157,7 +153,7 @@ dependencies:
   - zstd=1.5.7=hb8e6e7a_1
   - pip:
       - geoapps-utils @ git+https://github.com/MiraGeoscience/geoapps-utils.git@6ba24321d5311bbaf7ab460261ce6730ed541131
-      - geoh5py @ git+https://github.com/MiraGeoscience/geoh5py.git@c5f762ae16395629d8a8e4e04dc7488a6c9c53f1
+      - geoh5py @ git+https://github.com/MiraGeoscience/geoh5py.git@57e666e69f78e2961fdb54c715bce14b8d25ce4f
       - mira-simpeg @ git+https://github.com/MiraGeoscience/simpeg.git@275985aa18af76d70d55311e45dcfed149e62089
       - octree-creation-app @ git+https://github.com/MiraGeoscience/octree-creation-app.git@3c479f5d098332ff1c6e0eca0d56be6cc01e0911
       - param-sweeps @ git+https://github.com/MiraGeoscience/param-sweeps.git@39de1da1495aff6d16641d408317619e23adbdb4

environments/py-3.10-win-64-dev.conda.lock.yml

@@ -1,11 +1,12 @@
 # Generated by conda-lock.
 # platform: win-64
-# input_hash: 5b9b1265a46aad912e182524b6691d66e40b55b45e60a5abd2383bdab29f00b2
+# input_hash: 3794c887194656c944ad346c0ddbbb865b087a56239234bdbfbdad43ef25d0ad
 
 channels:
   - conda-forge
   - nodefaults
 dependencies:
+  - _openmp_mutex=4.5=2_gnu
   - accessible-pygments=0.0.5=pyhd8ed1ab_1
   - alabaster=0.7.16=pyhd8ed1ab_0
   - annotated-types=0.7.0=pyhd8ed1ab_1
@@ -44,21 +45,20 @@ dependencies:
   - cytoolz=1.0.1=py310ha8f682b_0
   - dask-core=2024.6.2=pyhd8ed1ab_0
   - dataclasses=0.8=pyhc8e2a94_3
-  - debugpy=1.8.12=py310h9e98ed7_0
+  - debugpy=1.8.13=py310h9e98ed7_0
   - decorator=5.2.1=pyhd8ed1ab_0
   - defusedxml=0.7.1=pyhd8ed1ab_0
   - dill=0.3.9=pyhd8ed1ab_1
   - discretize=0.11.2=py310h3e8ed56_1
   - distributed=2024.6.2=pyhd8ed1ab_0
   - docutils=0.19=py310h5588dad_1
-  - empymod=2.2.2=pyhd8ed1ab_0
   - exceptiongroup=1.2.2=pyhd8ed1ab_1
   - executing=2.1.0=pyhd8ed1ab_1
   - fasteners=0.19=pyhd8ed1ab_1
   - fonttools=4.56.0=py310h38315fa_0
   - fqdn=1.5.1=pyhd8ed1ab_1
   - freetype=2.12.1=hdaf720e_2
-  - fsspec=2022.11.0=pyhd8ed1ab_0
+  - fsspec=2025.2.0=pyhd8ed1ab_0
   - geoana=0.7.2=py310h3e8ed56_0
   - greenlet=3.1.1=py310h9e98ed7_1
   - h11=0.14.0=pyhd8ed1ab_1
@@ -118,7 +118,9 @@ dependencies:
   - libdeflate=1.23=h9062f6e_0
   - libdlf=0.3.0=pyhd8ed1ab_1
   - libffi=3.4.6=h537db12_0
-  - libhwloc=2.11.1=default_h8125262_1000
+  - libgcc=14.2.0=h1383e82_2
+  - libgomp=14.2.0=h1383e82_2
+  - libhwloc=2.11.2=default_ha69328c_1001
   - libiconv=1.18=h135ad9c_1
   - libjpeg-turbo=3.0.0=hcfcfb64_1
   - liblapack=3.9.0=31_h1aa476e_mkl
@@ -129,18 +131,13 @@ dependencies:
   - libssh2=1.11.1=he619c9f_0
   - libtiff=4.7.0=h797046b_3
   - libwebp-base=1.5.0=h3b0e114_0
-  - libxcb=1.16=h013a479_1
+  - libwinpthread=12.0.0.r4.gg4f2fc60ca=h57928b3_9
+  - libxcb=1.17.0=h0e4246c_0
   - libxml2=2.13.6=he286e8c_0
   - libzlib=1.3.1=h2466b09_2
   - linkify-it-py=2.0.3=pyhd8ed1ab_1
   - llvm-openmp=19.1.7=h30eaf37_0
-  - llvmlite=0.44.0=py310h0288bfe_0
   - locket=1.0.0=pyhd8ed1ab_0
-  - m2w64-gcc-libgfortran=5.3.0=6
-  - m2w64-gcc-libs=5.3.0=7
-  - m2w64-gcc-libs-core=5.3.0=7
-  - m2w64-gmp=6.1.0=2
-  - m2w64-libwinpthread-git=5.0.0.4634.697f757=2
   - markdown-it-py=2.2.0=pyhd8ed1ab_0
   - markupsafe=3.0.2=py310h38315fa_1
   - matplotlib-base=3.8.4=py310hadb10a8_2
@@ -151,7 +148,6 @@ dependencies:
   - mistune=3.1.2=pyhd8ed1ab_0
   - mkl=2024.2.2=h66d3029_15
   - msgpack-python=1.1.0=py310hc19bc0b_0
-  - msys2-conda-epoch=20160418=1
   - mumps-seq=5.7.3=h9576071_7
   - munkres=1.1.4=pyh9f0ad1d_0
   - myst-nb=1.2.0=pyh29332c3_0
@@ -164,7 +160,6 @@ dependencies:
   - nest-asyncio=1.6.0=pyhd8ed1ab_1
   - notebook=7.3.2=pyhd8ed1ab_0
   - notebook-shim=0.2.4=pyhd8ed1ab_1
-  - numba=0.61.0=py310h7793332_1
   - numcodecs=0.13.1=py310hb4db72f_0
   - numpy=1.26.4=py310hf667824_0
   - openjpeg=2.5.3=h4d64b90_0
@@ -185,8 +180,7 @@ dependencies:
   - prometheus_client=0.21.1=pyhd8ed1ab_0
   - prompt-toolkit=3.0.50=pyha770c72_0
   - psutil=7.0.0=py310ha8f682b_0
-  - pthread-stubs=0.4=hcd874cb_1001
-  - pthreads-win32=2.9.1=h2466b09_4
+  - pthread-stubs=0.4=h0e40799_1002
   - pure_eval=0.2.3=pyhd8ed1ab_1
   - pybtex=0.24.0=pyhd8ed1ab_3
   - pybtex-docutils=1.0.3=py310h5588dad_2
@@ -207,7 +201,7 @@ dependencies:
   - python-fastjsonschema=2.21.1=pyhd8ed1ab_0
   - python-json-logger=2.0.7=pyhd8ed1ab_0
   - python-mumps=0.0.3=py310hb64895d_0
-  - python-tzdata=2023.4=pyhd8ed1ab_0
+  - python-tzdata=2025.1=pyhd8ed1ab_0
   - python_abi=3.10=5_cp310
   - pytz=2024.1=pyhd8ed1ab_0
   - pywin32=307=py310h9e98ed7_3
@@ -249,7 +243,7 @@ dependencies:
   - sqlalchemy=2.0.38=py310ha8f682b_0
   - stack_data=0.6.3=pyhd8ed1ab_1
   - tabulate=0.9.0=pyhd8ed1ab_2
-  - tbb=2021.12.0=hc790b64_4
+  - tbb=2021.13.0=h62715c5_1
   - tblib=3.0.0=pyhd8ed1ab_1
   - terminado=0.18.1=pyh5737063_0
   - threadpoolctl=3.5.0=pyhc1e730c_0
@@ -272,9 +266,9 @@ dependencies:
   - unicodedata2=16.0.0=py310ha8f682b_0
   - uri-template=1.3.0=pyhd8ed1ab_1
   - urllib3=2.3.0=pyhd8ed1ab_0
-  - vc=14.3=h5fd82a7_24
-  - vc14_runtime=14.42.34433=h6356254_24
-  - vs2015_runtime=14.42.34433=hfef2bbc_24
+  - vc=14.3=hbf610ac_24
+  - vc14_runtime=14.42.34438=hfd919c2_24
+  - vs2015_runtime=14.42.34438=h7142326_24
   - wcwidth=0.2.13=pyhd8ed1ab_1
   - webcolors=24.11.1=pyhd8ed1ab_0
   - webencodings=0.5.1=pyhd8ed1ab_3
@@ -283,8 +277,8 @@ dependencies:
   - widgetsnbextension=3.6.10=pyhd8ed1ab_0
   - win_inet_pton=1.1.0=pyh7428d3b_8
   - winpty=0.4.3=4
-  - xorg-libxau=1.0.11=hcd874cb_0
-  - xorg-libxdmcp=1.1.3=hcd874cb_0
+  - xorg-libxau=1.0.12=h0e40799_0
+  - xorg-libxdmcp=1.1.5=h0e40799_0
   - xyzservices=2025.1.0=pyhd8ed1ab_0
   - yaml=0.2.5=h8ffe710_2
   - zarr=2.14.2=pyhd8ed1ab_0
@@ -295,7 +289,7 @@ dependencies:
   - zstd=1.5.7=hbeecb71_1
   - pip:
       - geoapps-utils @ git+https://github.com/MiraGeoscience/geoapps-utils.git@6ba24321d5311bbaf7ab460261ce6730ed541131
-      - geoh5py @ git+https://github.com/MiraGeoscience/geoh5py.git@c5f762ae16395629d8a8e4e04dc7488a6c9c53f1
+      - geoh5py @ git+https://github.com/MiraGeoscience/geoh5py.git@57e666e69f78e2961fdb54c715bce14b8d25ce4f
       - mira-simpeg @ git+https://github.com/MiraGeoscience/simpeg.git@275985aa18af76d70d55311e45dcfed149e62089
       - octree-creation-app @ git+https://github.com/MiraGeoscience/octree-creation-app.git@3c479f5d098332ff1c6e0eca0d56be6cc01e0911
       - param-sweeps @ git+https://github.com/MiraGeoscience/param-sweeps.git@39de1da1495aff6d16641d408317619e23adbdb4