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34be8cc
Update `requirements-dev.txt`
brandynlucca Nov 8, 2024
84d616c
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Nov 8, 2024
f87c582
Add `jupyter-book` tests to `tox`
brandynlucca Nov 8, 2024
f8cdfa3
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Nov 8, 2024
8b1e97f
Merge branch 'OSOceanAcoustics:main' into main
brandynlucca Nov 8, 2024
19d2c87
Updates to report generation test file
brandynlucca Nov 13, 2024
52f23af
Merge branch 'OSOceanAcoustics:main' into main
brandynlucca Nov 13, 2024
aab0757
Merge branch 'main' of https://github.com/brandynlucca/echopop into r…
brandynlucca Nov 13, 2024
80387f1
General updates
brandynlucca Nov 15, 2024
f1e3c31
Report generation functionality
brandynlucca Nov 16, 2024
5500ef5
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Nov 16, 2024
2c1f5a1
Fix dependency issue
brandynlucca Nov 16, 2024
fc3f1e6
Merge branch 'report_generation' of https://github.com/brandynlucca/e…
brandynlucca Nov 16, 2024
82a5d04
Minor adjustment for pre-commit
brandynlucca Nov 16, 2024
f937336
Move notebook to `/example_workbooks`
brandynlucca Nov 20, 2024
38008cc
Add helper staticmethod for showing acceptable report-types
brandynlucca Nov 20, 2024
b1ea895
Console message indicating unexpected report-types
brandynlucca Nov 20, 2024
519155c
Amendment to method-collector that also pulls unexpected report-types
brandynlucca Nov 20, 2024
98cf2ed
Add new type-hinting imports
brandynlucca Nov 20, 2024
6cc8a48
Fix documentation typo
brandynlucca Nov 20, 2024
7c8c8ce
Change to staticmethod and removal of `self` param reference
brandynlucca Nov 20, 2024
3085fc9
Change module name from `FEATReport` to `feat_report`
brandynlucca Nov 20, 2024
abfc01c
Add `Survey` method patcher from `/extensions`
brandynlucca Nov 20, 2024
2640dca
Hotfix to patcher
brandynlucca Nov 20, 2024
1e7f169
Simplify dataset and filepath construction
brandynlucca Nov 20, 2024
53166e0
Add `report_path` key to configuration
brandynlucca Nov 20, 2024
526d324
Update pydantic validator
brandynlucca Nov 20, 2024
2270e3f
Add additional check for `save_directory` argument
brandynlucca Nov 20, 2024
49b898e
Update to `preprocessing_data.md` RTD page for `report_path` entry
brandynlucca Nov 20, 2024
42fd5e6
Update to `_toc.yml`
brandynlucca Nov 21, 2024
e9dc244
Update to example notebook documentation
brandynlucca Nov 21, 2024
9cc96b0
Remove bold from `example_echopop_workflow.ipynb` header
brandynlucca Nov 21, 2024
794006f
pre-commit fixes
brandynlucca Nov 21, 2024
3fce8eb
Adjustment to pytest handling for `report_path` in configuration
brandynlucca Nov 21, 2024
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6 changes: 6 additions & 0 deletions config_files/survey_year_2019_config.yml
Original file line number Diff line number Diff line change
Expand Up @@ -13,6 +13,12 @@ species:
number_code: 22500 # target species for the survey year -- numeric code
CAN_haul_offset: 200 # The value to be added to the Canadian's haul number

##############################################################################
# Report generation
###################
# Where the reports are saved
report_path: C:/Users/Brandyn/Documents/GitHub/EchoPro_data/Data/reports

##############################################################################
# Directory path that contains all input data needed

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3 changes: 2 additions & 1 deletion docs/_toc.yml
Original file line number Diff line number Diff line change
Expand Up @@ -12,7 +12,8 @@ parts:
- file: example_notebooks
title: Example workflows and analyses
sections:
- file: example_notebooks/example_echopop_workflow.ipynb
- file: example_notebooks/example_echopop_workflow
- file: example_notebooks/report_generation
- file: theory
title: Underlying theory
sections:
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4 changes: 2 additions & 2 deletions docs/example_notebooks/example_echopop_workflow.ipynb
Original file line number Diff line number Diff line change
Expand Up @@ -4,7 +4,7 @@
"cell_type": "markdown",
"metadata": {},
"source": [
"# **Example overview of the `echopop` dataflow**"
"# Example overview of the `echopop` dataflow"
]
},
{
Expand Down Expand Up @@ -2773,7 +2773,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.9.18"
"version": "3.12.2"
}
},
"nbformat": 4,
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