minor update on format

Signed-off-by: Yiyu Ni <[email protected]>

.gitignore

@@ -139,6 +139,7 @@ dask-worker-space/
 
 # tmp directory
 tmp/
+dev/
 
 # Mac OS
 .DS_Store

.pre-commit-config.yaml

@@ -31,124 +31,3 @@ repos:
     rev: 23.7.0
     hooks:
     - id: black
-
-
-  # - repo: https://github.com/PyCQA/flake8
-  #   rev: 6.0.0
-  #   hooks:
-  #     - id: flake8
-  #       additional_dependencies:
-  #         - flake8-black
-  #       exclude: .git,__pycache__,build,dist
-# repos:
-
-#     # Compare the local template version to the latest remote template version
-#     # This hook should always pass. It will print a message if the local version
-#     # is out of date.
-#   - repo: https://github.com/lincc-frameworks/pre-commit-hooks
-#     rev: v0.1.1
-#     hooks:
-#       - id: check-lincc-frameworks-template-version
-#         name: Check template version
-#         description: Compare current template version against latest
-#         verbose: true
-
-#     # Clear output from jupyter notebooks so that only the input cells are committed.
-#   - repo: local
-#     hooks:
-#       - id: jupyter-nb-clear-output
-#         name: Clear output from Jupyter notebooks
-#         description: Clear output from Jupyter notebooks.
-#         files: \.ipynb$
-#         stages: [commit]
-#         language: system
-#         entry: jupyter nbconvert --clear-output
-
-#     # Prevents committing directly branches named 'main' and 'master'.
-#   - repo: https://github.com/pre-commit/pre-commit-hooks
-#     rev: v4.4.0
-#     hooks:
-#       - id: no-commit-to-branch
-#         name: Prevent main branch commits
-#         description: Prevent the user from committing directly to the primary branch.
-#       - id: check-added-large-files
-#         name: Check for large files
-#         description: Prevent the user from committing very large files.
-#         args: ['--maxkb=500']
-
-#     # Verify that pyproject.toml is well formed
-#   - repo: https://github.com/abravalheri/validate-pyproject
-#     rev: v0.12.1
-#     hooks:
-#       - id: validate-pyproject
-#         name: Validate pyproject.toml
-#         description: Verify that pyproject.toml adheres to the established schema.
-
-
-#     # Automatically sort the imports used in .py files
-#   - repo: https://github.com/pycqa/isort
-#     rev: 5.12.0
-#     hooks:
-#       - id: isort
-#         name: Run isort
-#         description: Sort and organize imports in .py and .pyi files.
-#         types_or: [python, pyi]
-
-
-
-#     # Analyze the code style and report code that doesn't adhere.
-#   - repo: https://github.com/psf/black
-#     rev: 23.7.0
-#     hooks:
-#       - id: black-jupyter
-#         name: Format code using black
-#         types_or: [python, pyi, jupyter]
-#         # It is recommended to specify the latest version of Python
-#         # supported by your project here, or alternatively use
-#         # pre-commit's default_language_version, see
-#         # https://pre-commit.com/#top_level-default_language_version
-#         language_version: python3.10
-
-
-
-
-#     # Run unit tests, verify that they pass. Note that coverage is run against
-#     # the ./src directory here because that is what will be committed. In the
-#     # github workflow script, the coverage is run against the installed package
-#     # and uploaded to Codecov by calling pytest like so:
-#     # `python -m pytest --cov=<package_name> --cov-report=xml`
-#   - repo: local
-#     hooks:
-#       - id: pytest-check
-#         name: Run unit tests
-#         description: Run unit tests with pytest.
-#         entry: bash -c "if python -m pytest --co -qq; then python -m pytest --cov=./src --cov-report=html; fi"
-#         language: system
-#         pass_filenames: false
-#         always_run: true
-#     # Make sure Sphinx can build the documentation while explicitly omitting
-#     # notebooks from the docs, so users don't have to wait through the execution
-#     # of each notebook or each commit. By default, these will be checked in the
-#     # GitHub workflows.
-#   - repo: local
-#     hooks:
-#       - id: sphinx-build
-#         name: Build documentation with Sphinx
-#         entry: sphinx-build
-#         language: system
-#         always_run: true
-#         exclude_types: [file, symlink]
-#         args:
-#           [
-#             "-M", # Run sphinx in make mode, so we can use -D flag later
-#                   # Note: -M requires next 3 args to be builder, source, output
-#             "html", # Specify builder
-#             "./docs", # Source directory of documents
-#             "./_readthedocs", # Output directory for rendered documents
-#             "-T", # Show full trace back on exception
-#             "-E", # Don't use saved env; always read all files
-#             "-d", # Flag for cached environment and doctrees
-#             "./docs/_build/doctrees", # Directory
-#             "-D", # Flag to override settings in conf.py
-#             "exclude_patterns=notebooks/*", # Exclude our notebooks from pre-commit
-#           ]

src/noisepy/seis/io/channelcatalog.py

@@ -188,10 +188,10 @@ def get_inventory(self, timespan: DateTimeRange, station: Station) -> obspy.Inve
                 station = inventory.Station(sta, lat, lon, elevation, channels=channels)
                 stations.append(station)
             nets.append(inventory.Network(net, stations))
-        return inventory.Inventory(nets)
+        return obspy.Inventory(nets)
 
 
-def sta_info_from_inv(inv: inventory.Inventory):
+def sta_info_from_inv(inv: obspy.Inventory):
     """
     this function outputs station info from the obspy inventory object
     (used in S0B)
@@ -225,7 +225,7 @@ def sta_info_from_inv(inv: inventory.Inventory):
     return sta, net, lon, lat, elv, location
 
 
-def stats2inv_staxml(stats, respdir: str) -> inventory.Inventory:
+def stats2inv_staxml(stats, respdir: str) -> obspy.Inventory:
     if not respdir:
         raise ValueError("Abort! staxml is selected but no directory is given to access the files")
     else:
@@ -248,7 +248,7 @@ def stats2inv_staxml(stats, respdir: str) -> inventory.Inventory:
 
 
 def stats2inv_sac(stats):
-    inv = inventory.Inventory(networks=[], source="homegrown")
+    inv = obspy.Inventory(networks=[], source="homegrown")
     net = inventory.Network(
         # This is the network code according to the SEED standard.
         code=stats.network,
@@ -292,8 +292,8 @@ def stats2inv_sac(stats):
     return inv
 
 
-def stats2inv_mseed(stats, locs: pd.DataFrame) -> inventory.Inventory:
-    inv = inventory.Inventory(networks=[], source="homegrown")
+def stats2inv_mseed(stats, locs: pd.DataFrame) -> obspy.Inventory:
+    inv = obspy.Inventory(networks=[], source="homegrown")
     ista = locs[locs["station"] == stats.station].index.values.astype("int64")[0]
 
     net = inventory.Network(