From fcbde7c689726480848ea95e5be16d4fef39eb0c Mon Sep 17 00:00:00 2001 From: A Charlwood Date: Mon, 9 Feb 2026 16:22:05 +0000 Subject: [PATCH] Restructured src to more logical heirachy --- {src/analysis => analysis}/CLAUDE.md | 0 {src/analysis => analysis}/__init__.py | 0 {src/analysis => analysis}/pathway_analyzer.py | 0 {src/analysis => analysis}/statistics.py | 0 {src/cli => cli}/CLAUDE.md | 0 {src/cli => cli}/__init__.py | 0 {src/cli => cli}/compute_trends.py | 0 {src/cli => cli}/refresh_pathways.py | 0 {src/config => config}/CLAUDE.md | 0 {src/config => config}/__init__.py | 0 {src/config => config}/snowflake.toml | 0 {src/core => core}/CLAUDE.md | 0 {src/core => core}/__init__.py | 0 {src/core => core}/config.py | 0 {src/core => core}/logging_config.py | 0 {src/core => core}/models.py | 0 {src/core => core}/resource_path.py | 0 {src/data_processing => data_processing}/CLAUDE.md | 0 {src/data_processing => data_processing}/__init__.py | 0 {src/data_processing => data_processing}/cache.py | 0 {src/data_processing => data_processing}/data_source.py | 0 {src/data_processing => data_processing}/database.py | 0 {src/data_processing => data_processing}/diagnosis_lookup.py | 0 {src/data_processing => data_processing}/loader.py | 0 {src/data_processing => data_processing}/migrate.py | 0 {src/data_processing => data_processing}/parsing.py | 0 {src/data_processing => data_processing}/pathway_pipeline.py | 0 {src/data_processing => data_processing}/pathway_queries.py | 0 {src/data_processing => data_processing}/reference_data.py | 0 {src/data_processing => data_processing}/schema.py | 0 {src/data_processing => data_processing}/snowflake_connector.py | 0 {src/data_processing => data_processing}/transforms.py | 0 {src/visualization => visualization}/CLAUDE.md | 0 {src/visualization => visualization}/__init__.py | 0 {src/visualization => visualization}/plotly_generator.py | 0 35 files changed, 0 insertions(+), 0 deletions(-) rename {src/analysis => analysis}/CLAUDE.md (100%) rename {src/analysis => analysis}/__init__.py (100%) rename {src/analysis => analysis}/pathway_analyzer.py (100%) rename {src/analysis => analysis}/statistics.py (100%) rename {src/cli => cli}/CLAUDE.md (100%) rename {src/cli => cli}/__init__.py (100%) rename {src/cli => cli}/compute_trends.py (100%) rename {src/cli => cli}/refresh_pathways.py (100%) rename {src/config => config}/CLAUDE.md (100%) rename {src/config => config}/__init__.py (100%) rename {src/config => config}/snowflake.toml (100%) rename {src/core => core}/CLAUDE.md (100%) rename {src/core => core}/__init__.py (100%) rename {src/core => core}/config.py (100%) rename {src/core => core}/logging_config.py (100%) rename {src/core => core}/models.py (100%) rename {src/core => core}/resource_path.py (100%) rename {src/data_processing => data_processing}/CLAUDE.md (100%) rename {src/data_processing => data_processing}/__init__.py (100%) rename {src/data_processing => data_processing}/cache.py (100%) rename {src/data_processing => data_processing}/data_source.py (100%) rename {src/data_processing => data_processing}/database.py (100%) rename {src/data_processing => data_processing}/diagnosis_lookup.py (100%) rename {src/data_processing => data_processing}/loader.py (100%) rename {src/data_processing => data_processing}/migrate.py (100%) rename {src/data_processing => data_processing}/parsing.py (100%) rename {src/data_processing => data_processing}/pathway_pipeline.py (100%) rename {src/data_processing => data_processing}/pathway_queries.py (100%) rename {src/data_processing => data_processing}/reference_data.py (100%) rename {src/data_processing => data_processing}/schema.py (100%) rename {src/data_processing => data_processing}/snowflake_connector.py (100%) rename {src/data_processing => data_processing}/transforms.py (100%) rename {src/visualization => visualization}/CLAUDE.md (100%) rename {src/visualization => visualization}/__init__.py (100%) rename {src/visualization => visualization}/plotly_generator.py (100%) diff --git a/src/analysis/CLAUDE.md b/analysis/CLAUDE.md similarity index 100% rename from src/analysis/CLAUDE.md rename to analysis/CLAUDE.md diff --git a/src/analysis/__init__.py b/analysis/__init__.py similarity index 100% rename from src/analysis/__init__.py rename to analysis/__init__.py diff --git a/src/analysis/pathway_analyzer.py b/analysis/pathway_analyzer.py similarity index 100% rename from src/analysis/pathway_analyzer.py rename to analysis/pathway_analyzer.py diff --git a/src/analysis/statistics.py b/analysis/statistics.py similarity index 100% rename from src/analysis/statistics.py rename to analysis/statistics.py diff --git a/src/cli/CLAUDE.md b/cli/CLAUDE.md similarity index 100% rename from src/cli/CLAUDE.md rename to cli/CLAUDE.md diff --git a/src/cli/__init__.py b/cli/__init__.py similarity index 100% rename from src/cli/__init__.py rename to cli/__init__.py diff --git a/src/cli/compute_trends.py b/cli/compute_trends.py similarity index 100% rename from src/cli/compute_trends.py rename to cli/compute_trends.py diff --git a/src/cli/refresh_pathways.py b/cli/refresh_pathways.py similarity index 100% rename from src/cli/refresh_pathways.py rename to cli/refresh_pathways.py diff --git a/src/config/CLAUDE.md b/config/CLAUDE.md similarity index 100% rename from src/config/CLAUDE.md rename to config/CLAUDE.md diff --git a/src/config/__init__.py b/config/__init__.py similarity index 100% rename from src/config/__init__.py rename to config/__init__.py diff --git a/src/config/snowflake.toml b/config/snowflake.toml similarity index 100% rename from src/config/snowflake.toml rename to config/snowflake.toml diff --git a/src/core/CLAUDE.md b/core/CLAUDE.md similarity index 100% rename from src/core/CLAUDE.md rename to core/CLAUDE.md diff --git a/src/core/__init__.py b/core/__init__.py similarity index 100% rename from src/core/__init__.py rename to core/__init__.py diff --git a/src/core/config.py b/core/config.py similarity index 100% rename from src/core/config.py rename to core/config.py diff --git a/src/core/logging_config.py b/core/logging_config.py similarity index 100% rename from src/core/logging_config.py rename to core/logging_config.py diff --git a/src/core/models.py b/core/models.py similarity index 100% rename from src/core/models.py rename to core/models.py diff --git a/src/core/resource_path.py b/core/resource_path.py similarity index 100% rename from src/core/resource_path.py rename to core/resource_path.py diff --git a/src/data_processing/CLAUDE.md b/data_processing/CLAUDE.md similarity index 100% rename from src/data_processing/CLAUDE.md rename to data_processing/CLAUDE.md diff --git a/src/data_processing/__init__.py b/data_processing/__init__.py similarity index 100% rename from src/data_processing/__init__.py rename to data_processing/__init__.py diff --git a/src/data_processing/cache.py b/data_processing/cache.py similarity index 100% rename from src/data_processing/cache.py rename to data_processing/cache.py diff --git a/src/data_processing/data_source.py b/data_processing/data_source.py similarity index 100% rename from src/data_processing/data_source.py rename to data_processing/data_source.py diff --git a/src/data_processing/database.py b/data_processing/database.py similarity index 100% rename from src/data_processing/database.py rename to data_processing/database.py diff --git a/src/data_processing/diagnosis_lookup.py b/data_processing/diagnosis_lookup.py similarity index 100% rename from src/data_processing/diagnosis_lookup.py rename to data_processing/diagnosis_lookup.py diff --git a/src/data_processing/loader.py b/data_processing/loader.py similarity index 100% rename from src/data_processing/loader.py rename to data_processing/loader.py diff --git a/src/data_processing/migrate.py b/data_processing/migrate.py similarity index 100% rename from src/data_processing/migrate.py rename to data_processing/migrate.py diff --git a/src/data_processing/parsing.py b/data_processing/parsing.py similarity index 100% rename from src/data_processing/parsing.py rename to data_processing/parsing.py diff --git a/src/data_processing/pathway_pipeline.py b/data_processing/pathway_pipeline.py similarity index 100% rename from src/data_processing/pathway_pipeline.py rename to data_processing/pathway_pipeline.py diff --git a/src/data_processing/pathway_queries.py b/data_processing/pathway_queries.py similarity index 100% rename from src/data_processing/pathway_queries.py rename to data_processing/pathway_queries.py diff --git a/src/data_processing/reference_data.py b/data_processing/reference_data.py similarity index 100% rename from src/data_processing/reference_data.py rename to data_processing/reference_data.py diff --git a/src/data_processing/schema.py b/data_processing/schema.py similarity index 100% rename from src/data_processing/schema.py rename to data_processing/schema.py diff --git a/src/data_processing/snowflake_connector.py b/data_processing/snowflake_connector.py similarity index 100% rename from src/data_processing/snowflake_connector.py rename to data_processing/snowflake_connector.py diff --git a/src/data_processing/transforms.py b/data_processing/transforms.py similarity index 100% rename from src/data_processing/transforms.py rename to data_processing/transforms.py diff --git a/src/visualization/CLAUDE.md b/visualization/CLAUDE.md similarity index 100% rename from src/visualization/CLAUDE.md rename to visualization/CLAUDE.md diff --git a/src/visualization/__init__.py b/visualization/__init__.py similarity index 100% rename from src/visualization/__init__.py rename to visualization/__init__.py diff --git a/src/visualization/plotly_generator.py b/visualization/plotly_generator.py similarity index 100% rename from src/visualization/plotly_generator.py rename to visualization/plotly_generator.py