[CLEANUP] Move config/ into seagliderOG1/

.github/workflows/docs.yml

@@ -41,7 +41,7 @@ jobs:
         shell: bash -l {0}
         run: |
           set -e
-          micromamba run -n TEST jupyter nbconvert --to notebook --execute notebooks/demo.ipynb --output=demo-output.ipynb --ExecutePreprocessor.allow_errors=True
+          micromamba run -n TEST jupyter nbconvert --to notebook --execute notebooks/demo.ipynb --output=demo-output.ipynb --ExecutePreprocessor.allow_errors=False
           mv notebooks/*output.ipynb docs/source/
           pushd docs
           micromamba run -n TEST make clean html

.github/workflows/docs_deploy.yml

@@ -40,7 +40,7 @@ jobs:
         shell: bash -l {0}
         run: |
           set -e
-          micromamba run -n TEST jupyter nbconvert --to notebook --execute notebooks/demo.ipynb --output=demo-output.ipynb --ExecutePreprocessor.allow_errors=True
+          micromamba run -n TEST jupyter nbconvert --to notebook --execute notebooks/demo.ipynb --output=demo-output.ipynb --ExecutePreprocessor.allow_errors=False
           mv notebooks/*output.ipynb docs/source/
           pushd docs
           micromamba run -n TEST make clean html

README.md

@@ -63,7 +63,7 @@ Scripts within the `seagliderOG1` package are organized by functionality:
 
 ## Configuration
 
-The `config/` directory contains YAML files that define OG1 format specifications:
+The `seagliderOG1/config/` directory contains YAML files that define OG1 format specifications:
 
 - `OG1_global_attrs.yaml` - Global attributes for OG1 format
 - `OG1_var_names.yaml` - Variable name mappings

docs/source/conventions.md

@@ -278,7 +278,7 @@ Use clear, descriptive commit messages:
 - Use consistent indentation (2 spaces)
 - Include comments for complex configurations
 - Validate YAML syntax
-- Follow the existing structure in `config/` directory
+- Follow the existing structure in `seagliderOG1/config/` directory
 
 ## Dependencies
 

docs/source/demo-output.ipynb

@@ -60,8 +60,7 @@
     "\n",
     "import xarray as xr\n",
     "import os\n",
-    "import pooch\n",
-    "from seagliderOG1 import readers, writers, plotters, tools\n",
+    "from seagliderOG1 import readers, writers, plotters\n",
     "from seagliderOG1 import convertOG1, vocabularies\n"
    ]
   },
@@ -3376,7 +3375,7 @@
     "# The solution is to convert them to strings, which may be undesired behaviour\n",
     "output_file = os.path.join(data_path, 'demo_test.nc')\n",
     "if os.path.exists(output_file):\n",
-    "    os.remove(output_file) \n",
+    "    os.remove(output_file)\n",
     "\n",
     "writers.save_dataset(ds_OG1, output_file);"
    ]
@@ -3642,7 +3641,7 @@
     "    #\"https://www.ncei.noaa.gov/data/oceans/glider/seaglider/uw/016/20090605/\", # done\n",
     "    #\"https://www.ncei.noaa.gov/data/oceans/glider/seaglider/uw/016/20071113/\", # done\n",
     "    #\"https://www.ncei.noaa.gov/data/oceans/glider/seaglider/uw/016/20080607/\",  # done\n",
-    "    #\"https://www.ncei.noaa.gov/data/oceans/glider/seaglider/uw/033/20100518/\", # done  \n",
+    "    #\"https://www.ncei.noaa.gov/data/oceans/glider/seaglider/uw/033/20100518/\", # done\n",
     "    #\"https://www.ncei.noaa.gov/data/oceans/glider/seaglider/uw/033/20100903/\", # done\n",
     "    #\"https://www.ncei.noaa.gov/data/oceans/glider/seaglider/uw/101/20081108/\",     # done\n",
     "    #\"https://www.ncei.noaa.gov/data/oceans/glider/seaglider/uw/101/20061112/\",    # done\n",