From 9af52a2e446ac22d6e2b1a6074811b911d6f7fdc Mon Sep 17 00:00:00 2001 From: Lorin Gaertner Date: Tue, 24 Feb 2026 11:26:56 -0800 Subject: [PATCH 1/6] remove deprecated extension from recommendations --- .vscode/extensions.json | 1 - 1 file changed, 1 deletion(-) diff --git a/.vscode/extensions.json b/.vscode/extensions.json index 2985f635..e8a439ea 100644 --- a/.vscode/extensions.json +++ b/.vscode/extensions.json @@ -1,7 +1,6 @@ { "recommendations": [ "GitHub.copilot-chat", - "GitHub.copilot", "mhutchie.git-graph", "ms-azuretools.vscode-docker", "ms-python.autopep8", From 7490e65692e056dd35cefc00a0a634786a993ef7 Mon Sep 17 00:00:00 2001 From: Lorin Date: Fri, 13 Mar 2026 11:53:54 -0700 Subject: [PATCH 2/6] new script to fetch metadata from arcgis hub and populate our layer_definitions --- Workspaces/Vector-Prep.code-workspace | 12 +- packages/vector_prep/README.md | 15 + packages/vector_prep/__version__.py | 1 + packages/vector_prep/changelog.md | 5 + .../plan-addUniqueIdAndNameColumns.prompt.md | 20 + .../vector_prep/fetch_arcgis_metadata.py | 321 ++++++++++ .../vector_prep/layer_definitions.json | 64 ++ uv.lock | 591 +----------------- 8 files changed, 438 insertions(+), 591 deletions(-) create mode 100644 packages/vector_prep/__version__.py create mode 100644 packages/vector_prep/plan-addUniqueIdAndNameColumns.prompt.md create mode 100644 packages/vector_prep/vector_prep/fetch_arcgis_metadata.py create mode 100644 packages/vector_prep/vector_prep/layer_definitions.json diff --git a/Workspaces/Vector-Prep.code-workspace b/Workspaces/Vector-Prep.code-workspace index a94cf9bd..d496e472 100644 --- a/Workspaces/Vector-Prep.code-workspace +++ b/Workspaces/Vector-Prep.code-workspace @@ -22,6 +22,14 @@ } ], "settings": { + "json.schemas": [ + { + "fileMatch": [ + "**/layer_definitions.json" + ], + "url": "https://xml.riverscapes.net/riverscapes_metadata/schema/layer_definitions.schema.json" + } + ], "python.envFile": "${workspaceFolder}/.env", "terminal.integrated.defaultProfile.linux": "zsh", "[python]": { @@ -61,7 +69,7 @@ "**/.venv/**": true, "**/__pycache__/**": true }, - "python.defaultInterpreterPath": "${workspaceFolder:🏠 Git Root}/.venv/bin/python", + "python.defaultInterpreterPath": "${workspaceFolder:🏠 Git Root}/.venv/bin/python", "python.testing.autoTestDiscoverOnSaveEnabled": false } -} +} \ No newline at end of file diff --git a/packages/vector_prep/README.md b/packages/vector_prep/README.md index e69de29b..9866e380 100644 --- a/packages/vector_prep/README.md +++ b/packages/vector_prep/README.md @@ -0,0 +1,15 @@ +# Vector Prep Tool + +The purpose of the tool is to provide consistent and reproducible preparation of (usually public Government data) vector data for use in the Riverscapes ecosystem. + +Example preparation includes: + +* checking and fixing for geometry errors, null or invalid etc (TO BE BETTER DOCUMENTED) +* simplify as needed +* Documentation and Metadata enrichment - ingesting any existing metadata (eg. in an ISO xml format), source urls etc., making sure it is referenced/included and also translating it into the riverscapes metadata `.json` format, published at [xml.riverscapes.net](https://xml.riverscapes.net/riverscapes_metadata/schema/layer_definitions.schema.json) and documented on [docs.riverscapes.net](https://docs.riverscapes.net/standards/metadata) so it can be published to the central S3/Athena repository. + +Planned, not yet implemented: + +* Identify/Verify a primary key field that can be used for joins. Could be composite of existing fields. +* Identify/Verify a primary name field that can be used for labels. could be formulaic composite of multiple existing fields -- implemented in a view perhaps rather than materialized. +* Export to parquet in WGS84 for use in reporting diff --git a/packages/vector_prep/__version__.py b/packages/vector_prep/__version__.py new file mode 100644 index 00000000..3dc1f76b --- /dev/null +++ b/packages/vector_prep/__version__.py @@ -0,0 +1 @@ +__version__ = "0.1.0" diff --git a/packages/vector_prep/changelog.md b/packages/vector_prep/changelog.md index e69de29b..c777cf52 100644 --- a/packages/vector_prep/changelog.md +++ b/packages/vector_prep/changelog.md @@ -0,0 +1,5 @@ +# Vector Prep Changelog + +## 0.1.1 + +Beginning to make this a module that can help prepare data for use in reporting data platform (Athena), including enriching it with metadata. \ No newline at end of file diff --git a/packages/vector_prep/plan-addUniqueIdAndNameColumns.prompt.md b/packages/vector_prep/plan-addUniqueIdAndNameColumns.prompt.md new file mode 100644 index 00000000..cd460401 --- /dev/null +++ b/packages/vector_prep/plan-addUniqueIdAndNameColumns.prompt.md @@ -0,0 +1,20 @@ +## Plan: Add Unique ID and Name Columns to New Vector Layer + +The script will add `rs_reports_rowid` (UUID) and `rs_reports_rowname` (user-supplied/calculated) columns to a new layer in a GeoPackage. It will abort and report if any `rs_reports_rowname` values are not unique or exceed 150 characters. + +### Steps +1. Accept input: GeoPackage path, source layer, new layer name, rowname expression/columns. +2. Open the source layer using `geopandas`. +3. Prepare new schema with added columns. +4. For each feature: + - Generate UUID for `rs_reports_rowid`. + - Compute `rs_reports_rowname` using the provided expression/columns. +5. Collect and check all `rs_reports_rowname` values for uniqueness and length. +6. If violations exist, report details and abort. +7. If valid, write features to the new layer in the GeoPackage. + +### Further Considerations +1. Rowname expression option: + - Python string templates (e.g., "{STATE_NAME} {NAMELSAD}"). +2. Keep first version minimal. Report errors immediately rather than building in fallbacks. + diff --git a/packages/vector_prep/vector_prep/fetch_arcgis_metadata.py b/packages/vector_prep/vector_prep/fetch_arcgis_metadata.py new file mode 100644 index 00000000..24a1d767 --- /dev/null +++ b/packages/vector_prep/vector_prep/fetch_arcgis_metadata.py @@ -0,0 +1,321 @@ +""" +Fetch column (field) metadata from an ArcGIS Hub dataset page and produce a +``columns`` list conforming to the Riverscapes layer_definitions.json schema. + +Background +---------- +ArcGIS Hub pages (also called "Open Data" sites) are the public-facing +portals that organisations such as BLM publish data on. The human-friendly +URL looks like:: + + https://gbp-blm-egis.hub.arcgis.com/datasets/BLM-EGIS::blm-natl-grazing-allotment-polygons/about + +Behind every Hub page sits an ArcGIS Online (AGOL) *item* identified by a +stable GUID (the "item ID"). You can reach the AGOL Item Details page at:: + + https://www.arcgis.com/home/item.html?id= + +There is a button "Open in ArcGIS Online" on the Hub page that navigates to +the Item Details page, but there is **no guaranteed back-link** from the Item +page to the Hub page, because an organisation may have many Hub sites or none. + +This script uses the Hub URL as the starting point because it is the easier +URL for a human to find (the ``/about`` suffix shows "Full Details"; without +it the browser redirects to ``/explore?location=...`` which is hard to copy). + +Two data sources are combined to build a complete column definition: + +1. **Feature Service REST API** — provides the field *name*, *Esri field type* + (mapped to the schema ``dtype`` enum), and ``alias`` (used as + ``friendly_name``). Reachable at ``{serviceUrl}/{layerIndex}?f=json``. + +2. **FGDC metadata XML** — published alongside the AGOL item at + ``https://www.arcgis.com/sharing/rest/content/items/{itemId}/info/metadata/metadata.xml?format=default``. + Each ```` element under ``/`` contains + ```` (field name) and ```` (description). + +The Hub API (``https://hub.arcgis.com/api/v3/datasets?filter[slug]=...``) +resolves the human-friendly slug to the item ID **and** the feature service +URL in a single call, so no manual ID wrangling is needed. + +Esri system fields (``OBJECTID``, ``GlobalID``, ``Shape__Area``, etc.) are +excluded by default since they are auto-generated and not meaningful for +downstream schema documentation. + +Usage +----- +As a CLI:: + + python fetch_arcgis_metadata.py \\ + "https://gbp-blm-egis.hub.arcgis.com/datasets/BLM-EGIS::blm-natl-grazing-allotment-polygons/about" + +This prints a JSON array of column objects to stdout. + +To write directly into an existing layer_definitions.json layer entry:: + + python fetch_arcgis_metadata.py \\ + "https://gbp-blm-egis.hub.arcgis.com/datasets/BLM-EGIS::blm-natl-grazing-allotment-polygons/about" \\ + --layer-definitions layer_definitions.json \\ + --layer-id blm_natl_grazing_allotments + +As a library:: + + from vector_prep.fetch_arcgis_metadata import fetch_columns_from_hub_url + columns = fetch_columns_from_hub_url( + "https://gbp-blm-egis.hub.arcgis.com/datasets/BLM-EGIS::blm-natl-grazing-allotment-polygons/about" + ) +""" + +import argparse +import json +import re +import sys +import xml.etree.ElementTree as ET +from urllib.parse import urlparse + +import requests + +# --------------------------------------------------------------------------- +# Esri field-type → layer_definitions.json dtype mapping +# --------------------------------------------------------------------------- +ESRI_TYPE_MAP: dict[str, str] = { + "esriFieldTypeString": "STRING", + "esriFieldTypeGUID": "STRING", + "esriFieldTypeGlobalID": "STRING", + "esriFieldTypeInteger": "INTEGER", + "esriFieldTypeSmallInteger": "INTEGER", + "esriFieldTypeOID": "INTEGER", + "esriFieldTypeDouble": "FLOAT", + "esriFieldTypeSingle": "FLOAT", + "esriFieldTypeDate": "DATETIME", + "esriFieldTypeGeometry": "GEOMETRY", +} + +# Esri-generated fields that are rarely useful for schema documentation. +SYSTEM_FIELDS: set[str] = { + "OBJECTID", + "FID", + "GlobalID", + "Original_GlobalID", + "Shape__Area", + "Shape__Length", + "Shape_Area", + "Shape_Length", + "SHAPE", + "created_user", + "created_date", + "last_edited_user", + "last_edited_date", +} + + +# --------------------------------------------------------------------------- +# Hub API helpers +# --------------------------------------------------------------------------- +def _extract_slug(hub_url: str) -> str: + """Extract the ``Org::dataset-slug`` from a Hub URL. + + Handles URLs like: + https://gbp-blm-egis.hub.arcgis.com/datasets/BLM-EGIS::blm-natl-grazing-allotment-polygons/about + https://gbp-blm-egis.hub.arcgis.com/datasets/BLM-EGIS::blm-natl-grazing-allotment-polygons + """ + path = urlparse(hub_url).path # /datasets/BLM-EGIS::slug/about + match = re.search(r"/datasets/([^/]+)", path) + if not match: + raise ValueError(f"Cannot extract dataset slug from URL: {hub_url}") + return match.group(1) + + +def _resolve_hub_slug(slug: str) -> tuple[str, str, int]: + """Call the Hub v3 API to resolve a slug to (item_id, service_url, layer_index). + + Returns: + item_id: The 32-char AGOL item GUID. + service_url: Full feature-service layer URL (includes layer index). + layer_index: Integer layer index within the service. + """ + api_url = "https://hub.arcgis.com/api/v3/datasets" + resp = requests.get(api_url, params={"filter[slug]": slug}, timeout=30) + resp.raise_for_status() + data = resp.json().get("data", []) + if not data: + raise LookupError(f"Hub API returned no results for slug: {slug}") + + record = data[0] + composite_id = record["id"] # e.g. "0882acf7eada4b3bafee4dd673fbe8a0_1" + service_url = record["attributes"]["url"] + + # composite_id = itemId_layerIndex + parts = composite_id.rsplit("_", 1) + item_id = parts[0] + layer_index = int(parts[1]) if len(parts) > 1 else 0 + + return item_id, service_url, layer_index + + +# --------------------------------------------------------------------------- +# Feature Service field fetch +# --------------------------------------------------------------------------- +def _fetch_service_fields(service_url: str) -> list[dict]: + """GET the feature service layer JSON and return the ``fields`` array.""" + resp = requests.get(service_url, params={"f": "json"}, timeout=30) + resp.raise_for_status() + payload = resp.json() + if "error" in payload: + raise RuntimeError(f"Feature service error: {payload['error']}") + return payload.get("fields", []) + + +# --------------------------------------------------------------------------- +# FGDC metadata XML fetch +# --------------------------------------------------------------------------- +def _fetch_fgdc_descriptions(item_id: str) -> dict[str, str]: + """Return {field_name: description} parsed from FGDC metadata XML. + + The XML is fetched from the standard AGOL metadata endpoint. Field + descriptions live in ``eainfo/detailed/attr`` elements as:: + + + ALLOT_NO + The identifying number ... + + """ + url = ( + f"https://www.arcgis.com/sharing/rest/content/items/{item_id}" + "/info/metadata/metadata.xml?format=default" + ) + resp = requests.get(url, timeout=30) + resp.raise_for_status() + + root = ET.fromstring(resp.content) + descs: dict[str, str] = {} + + for attr_el in root.iter("attr"): + label_el = attr_el.find("attrlabl") + def_el = attr_el.find("attrdef") + if label_el is not None and label_el.text: + name = label_el.text.strip() + description = def_el.text.strip() if (def_el is not None and def_el.text) else "" + descs[name] = description + + return descs + + +# --------------------------------------------------------------------------- +# Core: merge into columns list +# --------------------------------------------------------------------------- +def fetch_columns_from_hub_url(hub_url: str, include_system_fields: bool = False) -> list[dict]: + """Fetch column definitions from an ArcGIS Hub dataset URL. + + Args: + hub_url: A Hub dataset page URL, e.g. + ``https://gbp-blm-egis.hub.arcgis.com/datasets/BLM-EGIS::blm-natl-grazing-allotment-polygons/about`` + include_system_fields: If True, include Esri system fields such as + ``OBJECTID``, ``GlobalID``, ``Shape__Area``, etc. + + Returns: + A list of column dicts ready to insert into a layer_definitions.json + ``columns`` array. + """ + slug = _extract_slug(hub_url) + item_id, service_url, _layer_index = _resolve_hub_slug(slug) + + service_fields = _fetch_service_fields(service_url) + fgdc_descs = _fetch_fgdc_descriptions(item_id) + + columns: list[dict] = [] + for field in service_fields: + name: str = field["name"] + esri_type: str = field.get("type", "") + + if not include_system_fields and name in SYSTEM_FIELDS: + continue + + dtype = ESRI_TYPE_MAP.get(esri_type) + if dtype is None: + # Skip geometry pseudo-fields or unknown types + continue + + col: dict = {"name": name} + + # friendly_name from service alias (only if it differs from the raw name) + alias = field.get("alias", "") + if alias and alias != name: + col["friendly_name"] = alias + + col["dtype"] = dtype + + # description from FGDC metadata + desc = fgdc_descs.get(name, "") + if desc: + col["description"] = desc + + columns.append(col) + + return columns + + +# --------------------------------------------------------------------------- +# Optional: patch an existing layer_definitions.json +# --------------------------------------------------------------------------- +def update_layer_definitions(path: str, layer_id: str, columns: list[dict]) -> None: + """Replace the ``columns`` array of a specific layer in a layer_definitions.json file.""" + with open(path, "r", encoding="utf-8") as fh: + doc = json.load(fh) + + for layer in doc.get("layers", []): + if layer.get("layer_id") == layer_id: + layer["columns"] = columns + break + else: + raise LookupError(f"layer_id '{layer_id}' not found in {path}") + + with open(path, "w", encoding="utf-8") as fh: + json.dump(doc, fh, indent=4, ensure_ascii=False) + fh.write("\n") + + +# --------------------------------------------------------------------------- +# CLI +# --------------------------------------------------------------------------- +def main(): + parser = argparse.ArgumentParser( + description="Fetch column metadata from an ArcGIS Hub dataset page." + ) + parser.add_argument( + "hub_url", + help="ArcGIS Hub dataset URL, e.g. https://gbp-blm-egis.hub.arcgis.com/datasets/BLM-EGIS::blm-natl-grazing-allotment-polygons/about", + ) + parser.add_argument( + "--layer-definitions", + help="Path to an existing layer_definitions.json to update in-place.", + default=None, + ) + parser.add_argument( + "--layer-id", + help="layer_id within the layer_definitions.json to update (required with --layer-definitions).", + default=None, + ) + parser.add_argument( + "--include-system-fields", + action="store_true", + default=False, + help="Include Esri system fields like OBJECTID, GlobalID, Shape__Area, etc.", + ) + args = parser.parse_args() + + if args.layer_definitions and not args.layer_id: + parser.error("--layer-id is required when --layer-definitions is specified.") + + columns = fetch_columns_from_hub_url(args.hub_url, include_system_fields=args.include_system_fields) + + if args.layer_definitions: + update_layer_definitions(args.layer_definitions, args.layer_id, columns) + print(f"Updated {args.layer_definitions} layer '{args.layer_id}' with {len(columns)} columns.", file=sys.stderr) + else: + json.dump(columns, sys.stdout, indent=4, ensure_ascii=False) + sys.stdout.write("\n") + + +if __name__ == "__main__": + main() diff --git a/packages/vector_prep/vector_prep/layer_definitions.json b/packages/vector_prep/vector_prep/layer_definitions.json new file mode 100644 index 00000000..da16d1a6 --- /dev/null +++ b/packages/vector_prep/vector_prep/layer_definitions.json @@ -0,0 +1,64 @@ +{ + "$schema": "https://xml.riverscapes.net/riverscapes_metadata/schema/layer_definitions.schema.json", + "tool_schema_name": "Riverscapes Vector Data Prep", + "tool_schema_version": "1.0.0", + "layers": [ + { + "layer_id": "blm_natl_grazing_allotments", + "layer_name": "BLM National Grazing Allotments", + "source_url": "https://gbp-blm-egis.hub.arcgis.com/datasets/BLM-EGIS::blm-natl-grazing-allotment-polygons/about", + "source_title": "US DOI Bureau of Land Management Geospatial Business Platform", + "theme": "Administrative Areas", + "columns": [ + { + "name": "ALLOT_NO", + "friendly_name": "Allotment Number", + "dtype": "STRING", + "description": "The number that identifies an Allotment which is unique within the BLM administrative state." + }, + { + "name": "ALLOT_NAME", + "friendly_name": "Allotment Name", + "dtype": "STRING", + "description": "The name by which the allotment is commonly known." + }, + { + "name": "GIS_ACRES", + "friendly_name": "GIS Acres", + "dtype": "FLOAT", + "description": "This is a calculated value of area in units of acres based on the area field created by default within the ESRI Polygon data structure." + }, + { + "name": "ADMIN_ST", + "friendly_name": "Administrative State Code", + "dtype": "STRING", + "description": "An administrative unit that identifies the state or geographic area which has administrative jurisdiction over lands, and cases." + }, + { + "name": "ADM_OFC_CD", + "friendly_name": "Administrative Office Code", + "dtype": "STRING", + "description": "BLM administrative office (which is subordinate to the state office) that has jurisdiction and/or management authority over lands within a geographic area." + }, + { + "name": "ADM_UNIT_CD", + "friendly_name": "Adminstrative Unit Code", + "dtype": "STRING", + "description": "The BLM administrative unit/office that is a combination of Administrative State Code and Administrative Office Code that fully identifies the geographic area which has jurisdiction over the lands." + }, + { + "name": "ST_ALLOT", + "friendly_name": "Managing State Allotment Number", + "dtype": "STRING", + "description": "This is a concatenation of two existing attributes but is not a substitute for having either of those two attributes. It is the existing unique code that allows identification of individual allotments throughout the entire United States." + }, + { + "name": "ACTIVE_DT", + "friendly_name": "Allotment Active Date", + "dtype": "DATETIME", + "description": "The calendar date on which the boundary of an allotment is established and becomes effective. The format for the date will be MM/DD/YYYY, and will be entered only once for that polygon." + } + ] + } + ] +} diff --git a/uv.lock b/uv.lock index 5b8ecb89..ad93d5dd 100644 --- a/uv.lock +++ b/uv.lock @@ -1,6 +1,6 @@ version = 1 -revision = 2 -requires-python = ">=3.12, <4" +revision = 3 +requires-python = "==3.12.*" [[package]] name = "affine" @@ -72,38 +72,6 @@ wheels = [ { url = "https://files.pythonhosted.org/packages/a8/ef/89297262b8092b312d29cdb2517cb1237e51db8ecef2e9af5edbe7b683b1/charset_normalizer-3.4.4-cp312-cp312-win32.whl", hash = "sha256:5833d2c39d8896e4e19b689ffc198f08ea58116bee26dea51e362ecc7cd3ed26", size = 99694, upload-time = "2025-10-14T04:41:09.23Z" }, { url = "https://files.pythonhosted.org/packages/3d/2d/1e5ed9dd3b3803994c155cd9aacb60c82c331bad84daf75bcb9c91b3295e/charset_normalizer-3.4.4-cp312-cp312-win_amd64.whl", hash = "sha256:a79cfe37875f822425b89a82333404539ae63dbdddf97f84dcbc3d339aae9525", size = 107131, upload-time = "2025-10-14T04:41:10.467Z" }, { url = "https://files.pythonhosted.org/packages/d0/d9/0ed4c7098a861482a7b6a95603edce4c0d9db2311af23da1fb2b75ec26fc/charset_normalizer-3.4.4-cp312-cp312-win_arm64.whl", hash = "sha256:376bec83a63b8021bb5c8ea75e21c4ccb86e7e45ca4eb81146091b56599b80c3", size = 100390, upload-time = "2025-10-14T04:41:11.915Z" }, - 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master + - dev + - vectorprep2026 + paths: + - "packages/vector_prep/**" + - ".github/workflows/metadata-catalog.yml" + pull_request: + branches: + - master + - dev + - vectorprep2026 + paths: + - "packages/vector_prep/**" + - ".github/workflows/metadata-catalog.yml" + workflow_dispatch: + +permissions: + contents: read + id-token: write # needed for OIDC role assumption + +concurrency: + group: metadata-catalog-${{ github.ref }} + cancel-in-progress: true + +env: + TABLE_NAME: layer_definitions + S3_BASE_PATH: s3://riverscapes-athena/riverscapes_metadata/layer_definitions_raw/0.8/ + ATHENA_DATABASE: default + ATHENA_RESULT_BUCKET: s3://riverscapes-athena-output/query-results/metadata # <-- ensure this exists + AWS_REGION: us-west-2 + +jobs: + validate: + runs-on: ubuntu-latest + steps: + - name: Checkout + uses: actions/checkout@v4 + + - name: Set up Python 3.12 + uses: actions/setup-python@v5 + with: + python-version: '3.12' + + - name: Install uv + run: | + python -m pip install --upgrade pip + pip install uv + + - name: Sync dependencies + run: | + uv sync --upgrade-package riverscapes-metadata + + - name: Generate partitioned Parquet metadata + id: generate-metadata + run: | + uv run export-layer-definitions-for-s3 --root . + echo "Index manifest:" + cat dist/index.json | jq . + echo "Partition files:" + jq -r '.partitions[].path' dist/index.json + + - name: Upload metadata artifact + uses: actions/upload-artifact@v4 + with: + name: metadata-dist + path: dist/ + retention-days: 1 + + build-and-publish: + needs: validate + if: github.ref == 'refs/heads/master' + runs-on: ubuntu-latest + steps: + - name: Checkout + uses: actions/checkout@v4 + + - name: Configure AWS credentials (OIDC) + uses: aws-actions/configure-aws-credentials@v4 + with: + role-to-assume: ${{ secrets.METADATA_PUBLISH_ROLE_ARN }} + # aws-access-key-id: ${{ secrets.AWS_ACCESS_KEY_ID }} + # aws-secret-access-key: ${{ secrets.AWS_SECRET_ACCESS_KEY }} + aws-region: ${{ env.AWS_REGION }} + + - name: Set up Python 3.12 + uses: actions/setup-python@v5 + with: + python-version: '3.12' + + - name: Install uv + run: | + python -m pip install --upgrade pip + pip install uv + + - name: Sync dependencies + run: | + uv sync --upgrade-package riverscapes-metadata + + - name: Download metadata artifact + uses: actions/download-artifact@v4 + with: + name: metadata-dist + path: dist/ + + - name: Upload and process metadata + run: | + uv run publish-metadata-to-s3 --root . + diff --git a/Workspaces/Vector-Prep.code-workspace b/Workspaces/Vector-Prep.code-workspace index d496e472..11a19b40 100644 --- a/Workspaces/Vector-Prep.code-workspace +++ b/Workspaces/Vector-Prep.code-workspace @@ -19,6 +19,9 @@ { "name": "🏠 Git Root", "path": ".." + }, + { + "path": "../../../../../mnt/c/nardata/localcode/data-exchange-scripts" } ], "settings": { diff --git a/packages/vector_prep/README.md b/packages/vector_prep/README.md index 9866e380..5173e666 100644 --- a/packages/vector_prep/README.md +++ b/packages/vector_prep/README.md @@ -8,6 +8,9 @@ Example preparation includes: * simplify as needed * Documentation and Metadata enrichment - ingesting any existing metadata (eg. in an ISO xml format), source urls etc., making sure it is referenced/included and also translating it into the riverscapes metadata `.json` format, published at [xml.riverscapes.net](https://xml.riverscapes.net/riverscapes_metadata/schema/layer_definitions.schema.json) and documented on [docs.riverscapes.net](https://docs.riverscapes.net/standards/metadata) so it can be published to the central S3/Athena repository. +Store run manifests (json files documenting what was done/changed) in processed_data +If we move to more automated & frequent data processing we'll revisit this - the logs will probably in s3, AWS glue will help etc. + Planned, not yet implemented: * Identify/Verify a primary key field that can be used for joins. Could be composite of existing fields. diff --git a/pyproject.toml b/pyproject.toml index cee3ec7a..a838cbfa 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -31,6 +31,7 @@ dependencies = [ "python-dateutil>=2.9.0.post0", "rasterio>=1.3.9", "requests>=2.32.5", + "riverscapes-metadata @ git+https://github.com/Riverscapes/RiverscapesXML.git@master#subdirectory=riverscapes_metadata", "Rtree>=1.2.0", "scikit-fuzzy>=0.4.2", "scikit-image>=0.24,<0.25", From bb21bdc66f373f64ac778cc225646bae9a64874b Mon Sep 17 00:00:00 2001 From: Lorin Date: Fri, 13 Mar 2026 13:31:40 -0700 Subject: [PATCH 4/6] increment version and add objectid to layerdef --- packages/vector_prep/__version__.py | 2 +- packages/vector_prep/vector_prep/layer_definitions.json | 1 + 2 files changed, 2 insertions(+), 1 deletion(-) diff --git a/packages/vector_prep/__version__.py b/packages/vector_prep/__version__.py index 3dc1f76b..485f44ac 100644 --- a/packages/vector_prep/__version__.py +++ b/packages/vector_prep/__version__.py @@ -1 +1 @@ -__version__ = "0.1.0" +__version__ = "0.1.1" diff --git a/packages/vector_prep/vector_prep/layer_definitions.json b/packages/vector_prep/vector_prep/layer_definitions.json index da16d1a6..3d679448 100644 --- a/packages/vector_prep/vector_prep/layer_definitions.json +++ b/packages/vector_prep/vector_prep/layer_definitions.json @@ -10,6 +10,7 @@ "source_title": "US DOI Bureau of Land Management Geospatial Business Platform", "theme": "Administrative Areas", "columns": [ + {"name": "objectid"}, { "name": "ALLOT_NO", "friendly_name": "Allotment Number", From 25884c6df33b8dc5c41c04d7b0e4e5ae126b7277 Mon Sep 17 00:00:00 2001 From: Lorin Date: Fri, 13 Mar 2026 15:46:03 -0700 Subject: [PATCH 5/6] clean up of uv depencency group, code-workspace, yml comments --- .github/workflows/metadata-catalog.yml | 14 +- README.md | 14 +- Workspaces/Vector-Prep.code-workspace | 3 - pyproject.toml | 4 +- uv.lock | 192 +++++++++++++++++++++++++ 5 files changed, 212 insertions(+), 15 deletions(-) diff --git a/.github/workflows/metadata-catalog.yml b/.github/workflows/metadata-catalog.yml index 299fbf20..856e2747 100755 --- a/.github/workflows/metadata-catalog.yml +++ b/.github/workflows/metadata-catalog.yml @@ -1,11 +1,14 @@ name: Publish Metadata Catalog - +# TWO PARTS - validate (always run) and build and publish (only on Master branch) +# The Python CODE EXECUTED comes from riverscapes-metadata which, as defined in pyproject.toml comes from RiverscapesXML repository +# Validate searches for the layer_definitions.json and makes sure they are compliant with the current standard +# Build and publish makes parquet files and uploads them to S3 path for consumption by Athena +# Only triggered on changes with specific paths. Once other tools are on board we can loosen up or remove the `paths` limitation below on: push: branches: - master - dev - - vectorprep2026 paths: - "packages/vector_prep/**" - ".github/workflows/metadata-catalog.yml" @@ -13,7 +16,6 @@ on: branches: - master - dev - - vectorprep2026 paths: - "packages/vector_prep/**" - ".github/workflows/metadata-catalog.yml" @@ -53,7 +55,7 @@ jobs: - name: Sync dependencies run: | - uv sync --upgrade-package riverscapes-metadata + uv sync --no-dev --group catalog --upgrade-package riverscapes-metadata - name: Generate partitioned Parquet metadata id: generate-metadata @@ -82,7 +84,7 @@ jobs: - name: Configure AWS credentials (OIDC) uses: aws-actions/configure-aws-credentials@v4 with: - role-to-assume: ${{ secrets.METADATA_PUBLISH_ROLE_ARN }} + role-to-assume: ${{ secrets.ATHENA_S3_ACCESS_ROLE_ARN }} # aws-access-key-id: ${{ secrets.AWS_ACCESS_KEY_ID }} # aws-secret-access-key: ${{ secrets.AWS_SECRET_ACCESS_KEY }} aws-region: ${{ env.AWS_REGION }} @@ -99,7 +101,7 @@ jobs: - name: Sync dependencies run: | - uv sync --upgrade-package riverscapes-metadata + uv sync --no-dev --group catalog --upgrade-package riverscapes-metadata - name: Download metadata artifact uses: actions/download-artifact@v4 diff --git a/README.md b/README.md index 326e6ad1..6d87014b 100644 --- a/README.md +++ b/README.md @@ -22,7 +22,7 @@ - [Method 2: Using QGIS Python Environment](#method-2-using-qgis-python-environment) -This is a monorepo housing the python open-source GIS tools for Riverscapes, and the documentation site tools.riverscapes.net. Packages include: +This is a monorepo housing the python open-source GIS tools for Riverscapes, and the documentation site [`tools.riverscapes.net`](https://tools.riverscapes.net). Packages include: * [Riverscapes Context](./packages/rscontext) * [BRAT](./packages/brat) @@ -98,7 +98,7 @@ Make sure you use the folder name that matches what this tool expects for the pr ## Documentation Site -The documentation site is built with [Docusaurus](https://docusaurus.io/) and published from the **`docs` branch** to [tools.riverscapes.net](https://tools.riverscapes.net). +The documentation site is built with [Docusaurus](https://docusaurus.io/) and published from the **`docs` branch** to [tools.riverscapes.net](https://tools.riverscapes.net). ## Editing & preview changes using VS Code @@ -110,16 +110,20 @@ yarn install yarn start ``` - ------------------------------------ +-------------------------------------- ## Using UV for Environment Management This project uses [uv](https://github.com/astral-sh/uv) to manage Python virtual environments and dependencies. `uv` is an alternative to tools like `pipenv` and `poetry`. - ## Environment Setup +The UV *dependency groups* are for packages required only for local/CI use. These are not part of the package, so when users (or Cybercastor) run `pip install riverscapes-tools`, they won't get these extra libraries. + +When you run `uv sync` for development, you get the development group by default. Any other groups will only be installed if explicitly called for with `uv sync --group catalog`. + +Confusingly, in addition to these 'development dependencies' called groups, UV has 'optional dependencies', called extras ([reference](https://docs.astral.sh/uv/concepts/projects/dependencies/)). We aren't currently using optional dependencies in this repo. + ### Prerequisites 1. Install `uv` by following the [installation instructions](https://github.com/astral-sh/uv#installation) for your operating system. diff --git a/Workspaces/Vector-Prep.code-workspace b/Workspaces/Vector-Prep.code-workspace index 11a19b40..d496e472 100644 --- a/Workspaces/Vector-Prep.code-workspace +++ b/Workspaces/Vector-Prep.code-workspace @@ -19,9 +19,6 @@ { "name": "🏠 Git Root", "path": ".." - }, - { - "path": "../../../../../mnt/c/nardata/localcode/data-exchange-scripts" } ], "settings": { diff --git a/pyproject.toml b/pyproject.toml index a838cbfa..94c2bf07 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -31,7 +31,6 @@ dependencies = [ "python-dateutil>=2.9.0.post0", "rasterio>=1.3.9", "requests>=2.32.5", - "riverscapes-metadata @ git+https://github.com/Riverscapes/RiverscapesXML.git@master#subdirectory=riverscapes_metadata", "Rtree>=1.2.0", "scikit-fuzzy>=0.4.2", "scikit-image>=0.24,<0.25", @@ -52,6 +51,9 @@ dev = [ "psutil>=7.0.0", "pylint>=3.2", ] +catalog = [ + 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[uv](https://github.com/astral-sh/uv) to manage Python virtual The UV *dependency groups* are for packages required only for local/CI use. These are not part of the package, so when users (or Cybercastor) run `pip install riverscapes-tools`, they won't get these extra libraries. -When you run `uv sync` for development, you get the development group by default. Any other groups will only be installed if explicitly called for with `uv sync --group catalog`. +When you run `uv sync` for development, you get the development group by default. Any other groups will only be installed if explicitly called for, e.g. with `uv sync --group catalog`. Confusingly, in addition to these 'development dependencies' called groups, UV has 'optional dependencies', called extras ([reference](https://docs.astral.sh/uv/concepts/projects/dependencies/)). We aren't currently using optional dependencies in this repo.