esgvoc 0.1.2__py3-none-any.whl → 0.2.1__py3-none-any.whl

esgvoc/core/db/models/project.py

@@ -7,7 +7,6 @@ from sqlmodel import Column, Field, Relationship, SQLModel
 
 import esgvoc.core.db.connection as db
 from esgvoc.core.db.models.mixins import IdMixin, PkMixin, TermKind
-
 _LOGGER = logging.getLogger("project_db_creation")
 
 
@@ -34,13 +33,10 @@ class PTerm(SQLModel, PkMixin, IdMixin, table=True):
     kind: TermKind = Field(sa_column=Column(sa.Enum(TermKind)))
     collection_pk: int | None = Field(default=None, foreign_key="collections.pk")
     collection: Collection = Relationship(back_populates="terms")
+    __table_args__ = (sa.Index(
+             "drs_name_index", specs.sa_column["drs_name"]
 
-
-def create_drs_name_index():
-    PTerm.__table_args__ = sa.Index(
-        "drs_name_index", PTerm.__table__.c.specs["drs_name"]
-    )
-
+         ),)
 
 def project_create_db(db_file_path: Path):
     try:
@@ -53,7 +49,6 @@ def project_create_db(db_file_path: Path):
         tables_to_be_created = [SQLModel.metadata.tables['projects'],
                                 SQLModel.metadata.tables['collections'],
                                 SQLModel.metadata.tables['pterms']]
-        create_drs_name_index()
         SQLModel.metadata.create_all(connection.get_engine(), tables=tables_to_be_created)
     except Exception as e:
         msg = f'Unable to create tables in SQLite database at {db_file_path}. Abort.'

esgvoc/core/db/project_ingestion.py

@@ -11,6 +11,7 @@ from pydantic import BaseModel
 import esgvoc.core.db.connection as db
 from esgvoc.core.db.connection import read_json_file
 from esgvoc.core.db.models.project import Collection, Project, PTerm
+import  esgvoc.core.service as service
 
 
 _LOGGER = logging.getLogger("project_ingestion")
@@ -74,7 +75,9 @@ def ingest_collection(collection_dir_path: Path,
         if term_file_path.is_file() and term_file_path.suffix==".json": 
             try:
                 json_specs = DataMerger(data=JsonLdResource(uri =str(term_file_path)),
-                                        locally_available={"https://espri-mod.github.io/mip-cmor-tables":".cache/repos/mip-cmor-tables"}).merge_linked_json()[-1]
+                                        # locally_available={"https://espri-mod.github.io/mip-cmor-tables":".cache/repos/WCRP-universe"}).merge_linked_json()[-1]
+                                        locally_available={"https://espri-mod.github.io/mip-cmor-tables":service.service_settings.universe.local_path}).merge_linked_json()[-1]
+
                 term_kind = infer_term_kind(json_specs)
                 term_id = json_specs["id"]
 

esgvoc/core/db/universe_ingestion.py

@@ -11,6 +11,7 @@ from esgvoc.core.db.connection import read_json_file
 from esgvoc.core.db.models.mixins import TermKind
 from esgvoc.core.db.models.universe import DataDescriptor, UTerm, Universe
 from esgvoc.core.db.models.universe import universe_create_db
+import esgvoc.core.service as service
 
 _LOGGER = logging.getLogger(__name__)
 
@@ -32,7 +33,7 @@ def ingest_universe(universe_repo_dir_path: Path, universe_db_file_path: Path) -
         raise IOError(msg) from e
 
     for data_descriptor_dir_path in universe_repo_dir_path.iterdir(): 
-        if data_descriptor_dir_path.is_dir() and (data_descriptor_dir_path / "000_context.jsonld").exists(): # TODO maybe put that in setting  
+        if data_descriptor_dir_path.is_dir() and (data_descriptor_dir_path / "000_context.jsonld").exists(): # TODO maybe put that in setting
             try:
                 ingest_data_descriptor(data_descriptor_dir_path, connection)
             except Exception as e:
@@ -61,7 +62,6 @@ def ingest_data_descriptor(data_descriptor_path: Path,
         _LOGGER.warning(msg)
         return        
 
-
     with connection.create_session() as session:
         data_descriptor = DataDescriptor(id=data_descriptor_id,
                                          context=context,
@@ -74,7 +74,7 @@ def ingest_data_descriptor(data_descriptor_path: Path,
             if term_file_path.is_file() and term_file_path.suffix == ".json":
                 try:
                     json_specs=DataMerger(data=JsonLdResource(uri=str(term_file_path)),
-                                          locally_available={"https://espri-mod.github.io/mip-cmor-tables":".cache/repos/mip-cmor-tables"}).merge_linked_json()[-1]
+                                          locally_available={"https://espri-mod.github.io/mip-cmor-tables":service.service_settings.universe.local_path}).merge_linked_json()[-1]
                     term_kind = infer_term_kind(json_specs)
                     term_id = json_specs["id"]
 

esgvoc/core/service/settings.py

@@ -4,7 +4,7 @@ from pathlib import Path
 import toml
 
 
-SETTINGS_FILE = Path(__file__) / "settings.toml"
+SETTINGS_FILE = Path(__file__).parent / "settings.toml"
 
 class ProjectSettings(BaseModel):
     project_name: str
@@ -44,21 +44,30 @@ def load_settings() -> ServiceSettings:
     else:
         default_settings = ServiceSettings(
         universe=UniverseSettings(
-            github_repo="https://github.com/ESPRI-Mod/mip-cmor-tables",
-            branch="uni_proj_ld",
-            local_path=".cache/repos/mip-cmor-tables",
+            github_repo="https://github.com/WCRP-CMIP/WCRP-universe",
+            branch="esgvoc",
+            local_path=".cache/repos/WCRP-universe",
             db_path=".cache/dbs/universe.sqlite"
         ),
         projects={"cmip6plus":ProjectSettings(
                 project_name="CMIP6Plus_CVs",
-                github_repo="https://github.com/ESPRI-Mod/CMIP6Plus_CVs",
-                branch="uni_proj_ld",
+                github_repo="https://github.com/WCRP-CMIP/CMIP6Plus_CVs",
+                branch="esgvoc",
                 local_path=".cache/repos/CMIP6Plus_CVs",
                 db_path=".cache/dbs/cmip6plus.sqlite"
+                ),
+            
+            "cmip6":ProjectSettings(
+                project_name="CMIP6_CVs",
+                github_repo="https://github.com/WCRP-CMIP/CMIP6_CVs",
+                branch="esgvoc",
+                local_path=".cache/repos/CMIP6_CVs",
+                db_path=".cache/dbs/cmip6.sqlite"
                 )
             }
-        
-    )
+
+        )
+    
 
         default_settings.save_to_file(str(SETTINGS_FILE))
         return default_settings

esgvoc/core/service/settings.toml

@@ -1,12 +1,17 @@
 [[projects]]
+project_name = "cmip6"
+github_repo = "https://github.com/WCRP-CMIP/CMIP6_CVs"
+branch = "esgvoc"
+local_path = ".cache/repos/CMIP6_CVs"
+db_path = ".cache/dbs/cmip6.sqlite"
+[[projects]]
 project_name = "cmip6plus"
-github_repo = "https://github.com/ESPRI-Mod/CMIP6Plus_CVs"
-branch = "uni_proj_ld"
+github_repo = "https://github.com/WCRP-CMIP/CMIP6Plus_CVs"
+branch = "esgvoc"
 local_path = ".cache/repos/CMIP6Plus_CVs"
 db_path = ".cache/dbs/cmip6plus.sqlite"
-
 [universe]
-github_repo = "https://github.com/ESPRI-Mod/mip-cmor-tables"
-branch = "uni_proj_ld"
-local_path = ".cache/repos/mip-cmor-tables"
+github_repo = "https://github.com/WCRP-CMIP/WCRP-universe"
+branch = "esgvoc"
+local_path = ".cache/repos/WCRP-universe"
 db_path = ".cache/dbs/universe.sqlite"

esgvoc/core/service/settings_default.toml

@@ -1,20 +1,17 @@
-
-# [[projects]]
-# project_name = "TestProject"
-# github_repo = "XXX"
-# branch = "XXX"
-# local_path = "XXX"
-# db_path = "./cache/dbs/XXXX.sqlite"
-
+[[projects]]
+project_name = "cmip6"
+github_repo = "https://github.com/WCRP-CMIP/CMIP6_CVs"
+branch = "esgvoc"
+local_path = ".cache/repos/CMIP6_CVs"
+db_path = ".cache/dbs/cmip6.sqlite"
 [[projects]]
 project_name = "cmip6plus"
-github_repo = "https://github.com/ESPRI-Mod/CMIP6Plus_CVs"
-branch = "uni_proj_ld"
+github_repo = "https://github.com/WCRP-CMIP/CMIP6Plus_CVs"
+branch = "esgvoc"
 local_path = ".cache/repos/CMIP6Plus_CVs"
 db_path = ".cache/dbs/cmip6plus.sqlite"
-
 [universe]
-github_repo = "https://github.com/ESPRI-Mod/mip-cmor-tables"
-branch = "uni_proj_ld"
-local_path = ".cache/repos/mip-cmor-tables"
+github_repo = "https://github.com/WCRP-CMIP/WCRP-universe"
+branch = "esgvoc"
+local_path = ".cache/repos/WCRP-universe"
 db_path = ".cache/dbs/universe.sqlite"

esgvoc/core/service/state.py

@@ -89,6 +89,9 @@ class BaseState:
     def check_sync_status(self):
         self.fetch_versions()
         return {
+            "github" : self.github_version if self.github_version else None,
+            "local": self.local_version if self.local_version else None,
+            "db" : self.db_version if self.db_version else None,
             "github_local_sync": self.github_version == self.local_version if self.github_access and self.github_version and self.local_version else None,
             "local_db_sync": self.local_version == self.db_version if self.local_access and self.local_version and self.db_version else None,
 
@@ -108,7 +111,7 @@ class BaseState:
         from esgvoc.core.db.models.project import project_create_db
         from esgvoc.core.db.models.universe import universe_create_db 
         from esgvoc.core.db.universe_ingestion import ingest_universe
-
+        
         if self.db_path :
             if os.path.exists(self.db_path):
                 os.remove(self.db_path)
@@ -116,12 +119,16 @@ class BaseState:
                 os.makedirs(Path(self.db_path).parent,exist_ok=True)
 
             if self.db_sqlmodel == Universe: # Ugly 
+                print("Building Universe DB from ",self.local_path)
                 universe_create_db(Path(self.db_path))
                 ingest_metadata_universe(DBConnection(Path(self.db_path)),self.local_version)
+                print("Filling Universe DB")
                 ingest_universe(Path(self.local_path), Path(self.db_path))
 
             elif self.db_sqlmodel == Project:
+                print("Building Project DB from ", self.local_path)
                 project_create_db(Path(self.db_path))
+                print("Filling project DB")
                 ingest_project(Path(self.local_path),Path(self.db_path),self.local_version)
         self.fetch_version_db()
 
@@ -132,32 +139,32 @@ class BaseState:
 
     def sync(self):
         summary = self.check_sync_status()
+
         if self.github_access and summary["github_db_sync"] is None and summary["local_db_sync"]is None and summary["github_local_sync"] is None:
             self.clone_remote()
             self.build_db()
         elif self.github_access and not summary["github_db_sync"]:
+            
             if not summary["local_db_sync"] and summary["local_db_sync"] is not None:
                 self.clone_remote()
                 self.build_db()
+            elif not summary["github_local_sync"] and summary["github_local_sync"] is not None:
+                self.clone_remote()
+                self.build_db()
             else: # can be simply build in root and clone if neccessary
                 self.build_db()
         elif self.local_access:
-            if not summary["local_db_sync"] and summary is not None:
+            if not summary["local_db_sync"] and summary["local_db_sync"] is not None:
                 self.build_db()
+            else:
+                print("Cache db is uptodate from local repository")
         elif not self.db_access: # it can happen if the db is created but not filled
             self.build_db()
+        else:
+            print("Nothing to install, everything up to date")
+            print("Try 'esgvoc status' for more details")
         
 
-        """
-        if self.github_version and self.github_version != self.local_version:
-            owner, repo = self.github_repo.lstrip("https://github.com/").split("/")
-            self.rf.clone_repository(owner, repo, self.branch)
-            #self.fetch_versions()
-
-        if self.local_version != self.db_version:
-            # delete and redo the DB? 
-            pass
-        """
 class StateUniverse(BaseState):
     def __init__(self, settings: UniverseSettings):
         super().__init__(**settings.model_dump())

esgvoc-0.2.1.dist-info/METADATA

@@ -0,0 +1,58 @@
+Metadata-Version: 2.3
+Name: esgvoc
+Version: 0.2.1
+Summary: python library and CLI to interact with WCRP CVs
+Project-URL: Repository, https://github.com/ESGF/esgf-vocab
+Author-email: Sébastien Gardoll <sebastien@gardoll.fr>, Guillaume Levavasseur <guillaume.levavasseur@ipsl.fr>, Laurent Troussellier <laurent.troussellier@ipsl.fr>
+License: CECILL-2.1
+Requires-Python: <3.13,>=3.12
+Requires-Dist: idna>=3.10
+Requires-Dist: pydantic>=2.9.2
+Requires-Dist: pyld>=2.0.4
+Requires-Dist: requests>=2.32.3
+Requires-Dist: sphinx-copybutton>=0.5.2
+Requires-Dist: sphinx-tabs>=3.4.7
+Requires-Dist: sqlalchemy>=2.0.36
+Requires-Dist: sqlmodel>=0.0.22
+Requires-Dist: toml>=0.10.2
+Requires-Dist: typer>=0.15.0
+Description-Content-Type: text/markdown
+
+# ESGVOC Library
+
+ESGVOC is a Python library designed to simplify interaction with controlled vocabularies (CVs) used in WCRP climate data projects. It supports querying, caching, and validating terms across various CV repositories like the [universe](https://github.com/WCRP-CMIP/WCRP-universe/tree/esgvoc) and project-specific repositories (e.g., [CMIP6Plus](https://github.com/WCRP-CMIP/CMIP6Plus_CVs/tree/esgvoc), [CMIP6](https://github.com/WCRP-CMIP/CMIP6_CVs/tree/esgvoc), etc.).
+
+Full documentation is available at [https://esgf.github.io/esgf-vocab/](https://esgf.github.io/esgf-vocab/).
+
+---
+
+## Features
+
+- **Query controlled vocabularies**:
+  - Retrieve terms, collections, or descriptors.
+  - Perform cross-validation and search operations.
+  - Supports case-sensitive, wildcard, and approximate matching.
+
+- **Caching**:
+  - Download CVs to a local database for offline use.
+  - Keep the local cache up-to-date.
+
+- **Validation**:
+  - Validate strings against CV terms and templates.
+
+---
+
+## Installation
+
+ESGVOC is available on PyPI. Install it with pip:
+
+```bash
+pip install esgvoc
+```
+
+Following this command to install or update the latest CVs.
+
+
+```bash
+esgvoc install
+```

{esgvoc-0.1.2.dist-info → esgvoc-0.2.1.dist-info}/RECORD

@@ -1,14 +1,16 @@
 esgvoc/__init__.py,sha256=kPejgt5LFlzacS1O0vGN5JC7AlpRpWCmGIHUcBr_6-M,35
-esgvoc/api/__init__.py,sha256=yjrmVpHAR5_OChzzWziebIeUYh_6qyXBJx3VUimaFkE,2933
+esgvoc/api/__init__.py,sha256=eGYIcKbz0y4mmgEJtHf3EYAtp-iKaoTKDzHQCnILd9s,3327
 esgvoc/api/_utils.py,sha256=eIVP7d3jbr7u_LNliLoM2Up3Zl5rcxIw_hjqLdfaxUA,1390
-esgvoc/api/projects.py,sha256=JZuqDTeAv7GcJ4IclyHU1bKWrGdqGafvxQAJ8fgux-8,38629
-esgvoc/api/report.py,sha256=MFMN9oVG9WWRvPtBeQj4o7XDahPu-Fq302Qy2G8Qt2Q,2875
-esgvoc/api/search.py,sha256=JYTegv0ebdm8AqK8V6DccPR88K2vWVtHXnstJmG07xE,3501
-esgvoc/api/universe.py,sha256=YGphsws7iSQZKYfRx4XfiZOuBylc0HYFG2KItsjyVjM,9609
-esgvoc/api/data_descriptors/__init__.py,sha256=K-qzokgt3bdiwSJcnBzAub4Duw87cHTX9VdF-RU-pQ8,2910
+esgvoc/api/project_specs.py,sha256=uX1zqvTC8Dj5bOegZQVMAqU1VOle01s_8ncPXvtp0J4,2328
+esgvoc/api/projects.py,sha256=n6zXTjEJ8yXJEFri6YZ4RdhvPOtdxTSOOKMz7pdPCnM,40605
+esgvoc/api/report.py,sha256=F6hs1cNnlH4OodQiko-jWO0Pu1ji0TrLFN_eFSADgyI,3341
+esgvoc/api/search.py,sha256=XE7kAfDA9gAb_wYUm5viA0lT4-_L3P0hclerpU42Q1U,4097
+esgvoc/api/universe.py,sha256=W9liJW2NPF7vYxgoOIute2o4aNNhYrtgd90l4iB3OY4,9643
+esgvoc/api/data_descriptors/__init__.py,sha256=9XGHmSDsRmQPvu9WxtJy_lNxe-iabAfV6UxhfiPr3aA,3085
 esgvoc/api/data_descriptors/activity.py,sha256=o-RlmAFJkIb9TkUZIjEJaHi9dnQ70GHH5-5bKACRwMI,1371
 esgvoc/api/data_descriptors/consortium.py,sha256=fhAaEqxBpBDSmO7rIya1nnEz9aRyhQQFnIBExcyQxQM,1467
 esgvoc/api/data_descriptors/date.py,sha256=q4YXqaEryrcXO3ndk4SwyKwn56iGuBiJbHs8JSUpXJU,781
+esgvoc/api/data_descriptors/directory_date.py,sha256=uX89W68SqrX8iC52K1Voth6VI9T8UV5O13SrAWDRoiY,906
 esgvoc/api/data_descriptors/experiment.py,sha256=DCPYhgGWgD7LKgheqreXKGd5_0pQ6a1GnJ17IDt5WXY,1838
 esgvoc/api/data_descriptors/forcing_index.py,sha256=m2SBobNTN8P_TFS-uIwMyqbJ9d6CNr21bzW7qT3MVe0,796
 esgvoc/api/data_descriptors/frequency.py,sha256=XIu1v5NIcaNKj-9K3WNa4jH_Lds5XO5CP4M79nNVuVE,842
@@ -31,15 +33,19 @@ esgvoc/api/data_descriptors/table.py,sha256=bhh-bSx7UYAAETmMAGNOIfwkyvywIhX0HlJh
 esgvoc/api/data_descriptors/time_range.py,sha256=bBVRwmc7NEeGacV-UA0vadQXsyrlwBjyjVoYTw26rYA,630
 esgvoc/api/data_descriptors/variable.py,sha256=2Y6MfDzRvLF3FR5bhhJ6jTmPc2NTZVsoGF1Y2SEGeLU,2145
 esgvoc/api/data_descriptors/variant_label.py,sha256=ExP68t3v1xtjFEjOgVr2NFEOkQVGmf9GzStRlSPmNMU,931
-esgvoc/apps/drs/__init__.py,sha256=uNkxKa7wbUAHlldtrCxTZraJJ2Y9NQEdpWTy-lLrGAY,562
-esgvoc/apps/drs/models.py,sha256=ZWTXkgMKTCvMkmOB2c-l_npl_9ph0qXewa0e5J02mAI,937
-esgvoc/apps/drs/parser.py,sha256=DlCnVn0cguu5_I-gKinw_Hd_gomfET90AqMlZlawVz8,734
-esgvoc/cli/config.py,sha256=JCUppLaMPO6Xa3pZ-RL-meWy4wwTw1hr_IJM3LL1vac,2877
-esgvoc/cli/get.py,sha256=60W-MSrIUvQkAmGB2HXr2qGKYbel-_IKDL5N_uEIr8Y,5122
+esgvoc/apps/__init__.py,sha256=k_IDucNtxAJsP1RkDCwEkqTHZqMRhALBVCdD0J9qUbY,300
+esgvoc/apps/drs/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
+esgvoc/apps/drs/constants.py,sha256=kZxFo7Aa8DNy3WBq2j0FuZVEqOyxG53ZAkkjQaObE8s,95
+esgvoc/apps/drs/generator.py,sha256=BB-qHkpPNkZiLKOLC4DYB-os_1UlfVapB5EPmQezugI,22724
+esgvoc/apps/drs/report.py,sha256=37ETMcnx56B30NQqGPVGKc4jDdfpAToh3W6UId9nd-Q,13720
+esgvoc/apps/drs/validator.py,sha256=HlDKKS9Xfxr0vlA_-6NC6JTnqPpKnbd-dhjiBhCaMfM,14803
+esgvoc/cli/config.py,sha256=BCRshQ8kdeTMv4b2uN4qaZoFrEi7k43mKJT79vitrP4,2951
+esgvoc/cli/drs.py,sha256=C0TsBvcoK7C6dEhHpEcq9HpKSYFsqxDlUai_5e1NycI,8672
+esgvoc/cli/get.py,sha256=dz_BsegIg9hSD1s11DREQiQq3DbXyneO4Kjs3dUPMgg,5134
 esgvoc/cli/install.py,sha256=tJl9Z9UoBbRXK8dMAehTTHfH9aT6fAqtEX7tt5Wl0F8,236
-esgvoc/cli/main.py,sha256=jXJ9rNzI276cYJaZ8LxKBsblxHLw51_OK0_OyAGPe8A,490
-esgvoc/cli/status.py,sha256=_6Wx3bGzsoxv_Hv0ENO-NcFJzzzUpLTlsUlQH-E3d-o,465
-esgvoc/cli/valid.py,sha256=C_z1nrAP7mD3Iws0esVJsXpbiwjWZBtgXmikJruRRtY,7057
+esgvoc/cli/main.py,sha256=Yx5hWVl11GEu44vug_udmia-lr8j0AzZjtZOesKdNIY,557
+esgvoc/cli/status.py,sha256=-IG41NorXwE2C6YD3RHFKNBLsCqpcVBovKyLJ9MXgSM,1312
+esgvoc/cli/valid.py,sha256=QO2RJhBDFUKNL9PCBt6CrLp2FBNwnQ2yRlAWBgcjOtI,6909
 esgvoc/core/constants.py,sha256=b9GoM3pTICki95gMCnUZbg4_mMiywKhJX5ME01pgwMs,431
 esgvoc/core/convert.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 esgvoc/core/data_handler.py,sha256=BmcD_dSvX5fCkUEGAQnadPTeuKA7IvgMmQtesMXKh5g,5004
@@ -48,19 +54,20 @@ esgvoc/core/logging_handler.py,sha256=NhqKX2nFYVi01EhZPysFZ4UWBWJwgxafC_pWtd28Yl
 esgvoc/core/repo_fetcher.py,sha256=m0Qh2kBAa-ij2ZJ7uEYYW-CakoLs5deFHl7zniLgW5Y,9738
 esgvoc/core/db/__init__.py,sha256=gjAT_lUJtPqxsc8WnwbG_sxDqSIFAlG8vEKxdGyH82w,150
 esgvoc/core/db/connection.py,sha256=dhnCy1mwytUUvt149WHk7eYW0KSP64IaF3kMvKOQSJE,877
-esgvoc/core/db/project_ingestion.py,sha256=Sx63UhHjZ_2b5hkObDci2X7VB9f3DfU7-uKtqgl12Rk,6114
-esgvoc/core/db/universe_ingestion.py,sha256=weF8f4AUF20NHiDoUe8paQmxOpuNUe8QSTslEtOfKGA,5148
-esgvoc/core/db/models/mixins.py,sha256=M4gP42fydNcrZO9Z9wfKVU_1tK__fc2NosWumpU9lc0,291
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