FIxed permission errors for modifying tuples

.jupyter/api_authentication/__init__.py

@@ -23,8 +23,6 @@ from api_authentication.api_client import ApiClient
 from api_authentication.configuration import Configuration
 # import models into sdk package
 from api_authentication.models.api_error_dto import ApiErrorDto
-from api_authentication.models.column_dto import ColumnDto
-from api_authentication.models.concept_dto import ConceptDto
 from api_authentication.models.container_dto import ContainerDto
 from api_authentication.models.database_dto import DatabaseDto
 from api_authentication.models.granted_authority_dto import GrantedAuthorityDto
@@ -36,7 +34,8 @@ from api_authentication.models.jwt_response_dto import JwtResponseDto
 from api_authentication.models.license_dto import LicenseDto
 from api_authentication.models.login_request_dto import LoginRequestDto
 from api_authentication.models.signup_request_dto import SignupRequestDto
-from api_authentication.models.table_dto import TableDto
+from api_authentication.models.table_brief_dto import TableBriefDto
+from api_authentication.models.user_brief_dto import UserBriefDto
 from api_authentication.models.user_dto import UserDto
 from api_authentication.models.user_email_dto import UserEmailDto
 from api_authentication.models.user_forgot_dto import UserForgotDto

.jupyter/api_authentication/models/__init__.py

@@ -15,8 +15,6 @@ from __future__ import absolute_import
 
 # import models into model package
 from api_authentication.models.api_error_dto import ApiErrorDto
-from api_authentication.models.column_dto import ColumnDto
-from api_authentication.models.concept_dto import ConceptDto
 from api_authentication.models.container_dto import ContainerDto
 from api_authentication.models.database_dto import DatabaseDto
 from api_authentication.models.granted_authority_dto import GrantedAuthorityDto
@@ -28,7 +26,8 @@ from api_authentication.models.jwt_response_dto import JwtResponseDto
 from api_authentication.models.license_dto import LicenseDto
 from api_authentication.models.login_request_dto import LoginRequestDto
 from api_authentication.models.signup_request_dto import SignupRequestDto
-from api_authentication.models.table_dto import TableDto
+from api_authentication.models.table_brief_dto import TableBriefDto
+from api_authentication.models.user_brief_dto import UserBriefDto
 from api_authentication.models.user_dto import UserDto
 from api_authentication.models.user_email_dto import UserEmailDto
 from api_authentication.models.user_forgot_dto import UserForgotDto

.jupyter/api_authentication/models/database_dto.py

@@ -38,7 +38,7 @@ class DatabaseDto(object):
         'description': 'str',
         'publisher': 'str',
         'contact': 'UserDto',
-        'tables': 'list[TableDto]',
+        'tables': 'list[TableBriefDto]',
         'image': 'ImageDto',
         'container': 'ContainerDto',
         'created': 'datetime',
@@ -352,7 +352,7 @@ class DatabaseDto(object):
 
 
         :return: The tables of this DatabaseDto.  # noqa: E501
-        :rtype: list[TableDto]
+        :rtype: list[TableBriefDto]
         """
         return self._tables
 
@@ -362,7 +362,7 @@ class DatabaseDto(object):
 
 
         :param tables: The tables of this DatabaseDto.  # noqa: E501
-        :type: list[TableDto]
+        :type: list[TableBriefDto]
         """
 
         self._tables = tables

.jupyter/api_container/__init__.py

@@ -22,8 +22,6 @@ from api_container.api_client import ApiClient
 from api_container.configuration import Configuration
 # import models into sdk package
 from api_container.models.api_error_dto import ApiErrorDto
-from api_container.models.column_dto import ColumnDto
-from api_container.models.concept_dto import ConceptDto
 from api_container.models.container_brief_dto import ContainerBriefDto
 from api_container.models.container_change_dto import ContainerChangeDto
 from api_container.models.container_create_request_dto import ContainerCreateRequestDto
@@ -37,6 +35,6 @@ from api_container.models.image_date_dto import ImageDateDto
 from api_container.models.image_dto import ImageDto
 from api_container.models.image_env_item_dto import ImageEnvItemDto
 from api_container.models.license_dto import LicenseDto
-from api_container.models.table_dto import TableDto
+from api_container.models.table_brief_dto import TableBriefDto
 from api_container.models.user_brief_dto import UserBriefDto
 from api_container.models.user_dto import UserDto

.jupyter/api_container/models/__init__.py

@@ -15,8 +15,6 @@ from __future__ import absolute_import
 
 # import models into model package
 from api_container.models.api_error_dto import ApiErrorDto
-from api_container.models.column_dto import ColumnDto
-from api_container.models.concept_dto import ConceptDto
 from api_container.models.container_brief_dto import ContainerBriefDto
 from api_container.models.container_change_dto import ContainerChangeDto
 from api_container.models.container_create_request_dto import ContainerCreateRequestDto
@@ -30,6 +28,6 @@ from api_container.models.image_date_dto import ImageDateDto
 from api_container.models.image_dto import ImageDto
 from api_container.models.image_env_item_dto import ImageEnvItemDto
 from api_container.models.license_dto import LicenseDto
-from api_container.models.table_dto import TableDto
+from api_container.models.table_brief_dto import TableBriefDto
 from api_container.models.user_brief_dto import UserBriefDto
 from api_container.models.user_dto import UserDto

.jupyter/api_container/models/database_dto.py

@@ -38,7 +38,7 @@ class DatabaseDto(object):
         'description': 'str',
         'publisher': 'str',
         'contact': 'UserDto',
-        'tables': 'list[TableDto]',
+        'tables': 'list[TableBriefDto]',
         'image': 'ImageDto',
         'container': 'ContainerDto',
         'created': 'datetime',
@@ -352,7 +352,7 @@ class DatabaseDto(object):
 
 
         :return: The tables of this DatabaseDto.  # noqa: E501
-        :rtype: list[TableDto]
+        :rtype: list[TableBriefDto]
         """
         return self._tables
 
@@ -362,7 +362,7 @@ class DatabaseDto(object):
 
 
         :param tables: The tables of this DatabaseDto.  # noqa: E501
-        :type: list[TableDto]
+        :type: list[TableBriefDto]
         """
 
         self._tables = tables

.jupyter/api_database/__init__.py

@@ -22,8 +22,6 @@ from api_database.api_client import ApiClient
 from api_database.configuration import Configuration
 # import models into sdk package
 from api_database.models.api_error_dto import ApiErrorDto
-from api_database.models.column_dto import ColumnDto
-from api_database.models.concept_dto import ConceptDto
 from api_database.models.container_brief_dto import ContainerBriefDto
 from api_database.models.container_dto import ContainerDto
 from api_database.models.database_brief_dto import DatabaseBriefDto
@@ -36,6 +34,6 @@ from api_database.models.image_date_dto import ImageDateDto
 from api_database.models.image_dto import ImageDto
 from api_database.models.image_env_item_dto import ImageEnvItemDto
 from api_database.models.license_dto import LicenseDto
-from api_database.models.table_dto import TableDto
+from api_database.models.table_brief_dto import TableBriefDto
 from api_database.models.user_brief_dto import UserBriefDto
 from api_database.models.user_dto import UserDto

.jupyter/api_database/models/__init__.py

@@ -15,8 +15,6 @@ from __future__ import absolute_import
 
 # import models into model package
 from api_database.models.api_error_dto import ApiErrorDto
-from api_database.models.column_dto import ColumnDto
-from api_database.models.concept_dto import ConceptDto
 from api_database.models.container_brief_dto import ContainerBriefDto
 from api_database.models.container_dto import ContainerDto
 from api_database.models.database_brief_dto import DatabaseBriefDto
@@ -29,6 +27,6 @@ from api_database.models.image_date_dto import ImageDateDto
 from api_database.models.image_dto import ImageDto
 from api_database.models.image_env_item_dto import ImageEnvItemDto
 from api_database.models.license_dto import LicenseDto
-from api_database.models.table_dto import TableDto
+from api_database.models.table_brief_dto import TableBriefDto
 from api_database.models.user_brief_dto import UserBriefDto
 from api_database.models.user_dto import UserDto

.jupyter/api_database/models/database_dto.py

@@ -38,7 +38,7 @@ class DatabaseDto(object):
         'description': 'str',
         'publisher': 'str',
         'contact': 'UserDto',
-        'tables': 'list[TableDto]',
+        'tables': 'list[TableBriefDto]',
         'image': 'ImageDto',
         'container': 'ContainerDto',
         'created': 'datetime',
@@ -352,7 +352,7 @@ class DatabaseDto(object):
 
 
         :return: The tables of this DatabaseDto.  # noqa: E501
-        :rtype: list[TableDto]
+        :rtype: list[TableBriefDto]
         """
         return self._tables
 
@@ -362,7 +362,7 @@ class DatabaseDto(object):
 
 
         :param tables: The tables of this DatabaseDto.  # noqa: E501
-        :type: list[TableDto]
+        :type: list[TableBriefDto]
         """
 
         self._tables = tables

.jupyter/api_identifier/__init__.py

@@ -22,8 +22,6 @@ from api_identifier.api_client import ApiClient
 from api_identifier.configuration import Configuration
 # import models into sdk package
 from api_identifier.models.api_error_dto import ApiErrorDto
-from api_identifier.models.column_dto import ColumnDto
-from api_identifier.models.concept_dto import ConceptDto
 from api_identifier.models.container_dto import ContainerDto
 from api_identifier.models.creator_create_dto import CreatorCreateDto
 from api_identifier.models.creator_dto import CreatorDto
@@ -38,5 +36,6 @@ from api_identifier.models.image_env_item_dto import ImageEnvItemDto
 from api_identifier.models.license_dto import LicenseDto
 from api_identifier.models.related_identifier_create_dto import RelatedIdentifierCreateDto
 from api_identifier.models.related_identifier_dto import RelatedIdentifierDto
-from api_identifier.models.table_dto import TableDto
+from api_identifier.models.table_brief_dto import TableBriefDto
+from api_identifier.models.user_brief_dto import UserBriefDto
 from api_identifier.models.user_dto import UserDto

.jupyter/api_identifier/models/__init__.py

@@ -15,8 +15,6 @@ from __future__ import absolute_import
 
 # import models into model package
 from api_identifier.models.api_error_dto import ApiErrorDto
-from api_identifier.models.column_dto import ColumnDto
-from api_identifier.models.concept_dto import ConceptDto
 from api_identifier.models.container_dto import ContainerDto
 from api_identifier.models.creator_create_dto import CreatorCreateDto
 from api_identifier.models.creator_dto import CreatorDto
@@ -31,5 +29,6 @@ from api_identifier.models.image_env_item_dto import ImageEnvItemDto
 from api_identifier.models.license_dto import LicenseDto
 from api_identifier.models.related_identifier_create_dto import RelatedIdentifierCreateDto
 from api_identifier.models.related_identifier_dto import RelatedIdentifierDto
-from api_identifier.models.table_dto import TableDto
+from api_identifier.models.table_brief_dto import TableBriefDto
+from api_identifier.models.user_brief_dto import UserBriefDto
 from api_identifier.models.user_dto import UserDto

.jupyter/api_query/__init__.py

@@ -25,8 +25,6 @@ from api_query.api_client import ApiClient
 from api_query.configuration import Configuration
 # import models into sdk package
 from api_query.models.api_error_dto import ApiErrorDto
-from api_query.models.column_dto import ColumnDto
-from api_query.models.concept_dto import ConceptDto
 from api_query.models.container_dto import ContainerDto
 from api_query.models.database_dto import DatabaseDto
 from api_query.models.execute_statement_dto import ExecuteStatementDto
@@ -39,8 +37,10 @@ from api_query.models.import_dto import ImportDto
 from api_query.models.license_dto import LicenseDto
 from api_query.models.query_dto import QueryDto
 from api_query.models.query_result_dto import QueryResultDto
+from api_query.models.table_brief_dto import TableBriefDto
 from api_query.models.table_csv_delete_dto import TableCsvDeleteDto
 from api_query.models.table_csv_dto import TableCsvDto
-from api_query.models.table_dto import TableDto
+from api_query.models.table_csv_update_dto import TableCsvUpdateDto
 from api_query.models.table_history_dto import TableHistoryDto
+from api_query.models.user_brief_dto import UserBriefDto
 from api_query.models.user_dto import UserDto

.jupyter/api_query/api/query_endpoint_api.py

@@ -361,7 +361,7 @@ class QueryEndpointApi(object):
             ['*/*'])  # noqa: E501
 
         # Authentication setting
-        auth_settings = []  # noqa: E501
+        auth_settings = ['bearerAuth']  # noqa: E501
 
         return self.api_client.call_api(
             '/api/container/{id}/database/{databaseId}/query/{queryId}', 'PUT',

.jupyter/api_query/api/table_data_endpoint_api.py

@@ -636,3 +636,124 @@ class TableDataEndpointApi(object):
             _preload_content=params.get('_preload_content', True),
             _request_timeout=params.get('_request_timeout'),
             collection_formats=collection_formats)
+
+    def update(self, body, id, database_id, table_id, **kwargs):  # noqa: E501
+        """Update data  # noqa: E501
+
+        This method makes a synchronous HTTP request by default. To make an
+        asynchronous HTTP request, please pass async_req=True
+        >>> thread = api.update(body, id, database_id, table_id, async_req=True)
+        >>> result = thread.get()
+
+        :param async_req bool
+        :param TableCsvUpdateDto body: (required)
+        :param int id: (required)
+        :param int database_id: (required)
+        :param int table_id: (required)
+        :return: None
+                 If the method is called asynchronously,
+                 returns the request thread.
+        """
+        kwargs['_return_http_data_only'] = True
+        if kwargs.get('async_req'):
+            return self.update_with_http_info(body, id, database_id, table_id, **kwargs)  # noqa: E501
+        else:
+            (data) = self.update_with_http_info(body, id, database_id, table_id, **kwargs)  # noqa: E501
+            return data
+
+    def update_with_http_info(self, body, id, database_id, table_id, **kwargs):  # noqa: E501
+        """Update data  # noqa: E501
+
+        This method makes a synchronous HTTP request by default. To make an
+        asynchronous HTTP request, please pass async_req=True
+        >>> thread = api.update_with_http_info(body, id, database_id, table_id, async_req=True)
+        >>> result = thread.get()
+
+        :param async_req bool
+        :param TableCsvUpdateDto body: (required)
+        :param int id: (required)
+        :param int database_id: (required)
+        :param int table_id: (required)
+        :return: None
+                 If the method is called asynchronously,
+                 returns the request thread.
+        """
+
+        all_params = ['body', 'id', 'database_id', 'table_id']  # noqa: E501
+        all_params.append('async_req')
+        all_params.append('_return_http_data_only')
+        all_params.append('_preload_content')
+        all_params.append('_request_timeout')
+
+        params = locals()
+        for key, val in six.iteritems(params['kwargs']):
+            if key not in all_params:
+                raise TypeError(
+                    "Got an unexpected keyword argument '%s'"
+                    " to method update" % key
+                )
+            params[key] = val
+        del params['kwargs']
+        # verify the required parameter 'body' is set
+        if ('body' not in params or
+                params['body'] is None):
+            raise ValueError("Missing the required parameter `body` when calling `update`")  # noqa: E501
+        # verify the required parameter 'id' is set
+        if ('id' not in params or
+                params['id'] is None):
+            raise ValueError("Missing the required parameter `id` when calling `update`")  # noqa: E501
+        # verify the required parameter 'database_id' is set
+        if ('database_id' not in params or
+                params['database_id'] is None):
+            raise ValueError("Missing the required parameter `database_id` when calling `update`")  # noqa: E501
+        # verify the required parameter 'table_id' is set
+        if ('table_id' not in params or
+                params['table_id'] is None):
+            raise ValueError("Missing the required parameter `table_id` when calling `update`")  # noqa: E501
+
+        collection_formats = {}
+
+        path_params = {}
+        if 'id' in params:
+            path_params['id'] = params['id']  # noqa: E501
+        if 'database_id' in params:
+            path_params['databaseId'] = params['database_id']  # noqa: E501
+        if 'table_id' in params:
+            path_params['tableId'] = params['table_id']  # noqa: E501
+
+        query_params = []
+
+        header_params = {}
+
+        form_params = []
+        local_var_files = {}
+
+        body_params = None
+        if 'body' in params:
+            body_params = params['body']
+        # HTTP header `Accept`
+        header_params['Accept'] = self.api_client.select_header_accept(
+            ['*/*'])  # noqa: E501
+
+        # HTTP header `Content-Type`
+        header_params['Content-Type'] = self.api_client.select_header_content_type(  # noqa: E501
+            ['application/json'])  # noqa: E501
+
+        # Authentication setting
+        auth_settings = ['bearerAuth']  # noqa: E501
+
+        return self.api_client.call_api(
+            '/api/container/{id}/database/{databaseId}/table/{tableId}/data', 'PUT',
+            path_params,
+            query_params,
+            header_params,
+            body=body_params,
+            post_params=form_params,
+            files=local_var_files,
+            response_type=None,  # noqa: E501
+            auth_settings=auth_settings,
+            async_req=params.get('async_req'),
+            _return_http_data_only=params.get('_return_http_data_only'),
+            _preload_content=params.get('_preload_content', True),
+            _request_timeout=params.get('_request_timeout'),
+            collection_formats=collection_formats)

.jupyter/api_query/models/__init__.py

@@ -15,8 +15,6 @@ from __future__ import absolute_import
 
 # import models into model package
 from api_query.models.api_error_dto import ApiErrorDto
-from api_query.models.column_dto import ColumnDto
-from api_query.models.concept_dto import ConceptDto
 from api_query.models.container_dto import ContainerDto
 from api_query.models.database_dto import DatabaseDto
 from api_query.models.execute_statement_dto import ExecuteStatementDto
@@ -29,8 +27,10 @@ from api_query.models.import_dto import ImportDto
 from api_query.models.license_dto import LicenseDto
 from api_query.models.query_dto import QueryDto
 from api_query.models.query_result_dto import QueryResultDto
+from api_query.models.table_brief_dto import TableBriefDto
 from api_query.models.table_csv_delete_dto import TableCsvDeleteDto
 from api_query.models.table_csv_dto import TableCsvDto
-from api_query.models.table_dto import TableDto
+from api_query.models.table_csv_update_dto import TableCsvUpdateDto
 from api_query.models.table_history_dto import TableHistoryDto
+from api_query.models.user_brief_dto import UserBriefDto
 from api_query.models.user_dto import UserDto

.jupyter/api_query/models/database_dto.py

@@ -38,7 +38,7 @@ class DatabaseDto(object):
         'description': 'str',
         'publisher': 'str',
         'contact': 'UserDto',
-        'tables': 'list[TableDto]',
+        'tables': 'list[TableBriefDto]',
         'image': 'ImageDto',
         'container': 'ContainerDto',
         'created': 'datetime',
@@ -352,7 +352,7 @@ class DatabaseDto(object):
 
 
         :return: The tables of this DatabaseDto.  # noqa: E501
-        :rtype: list[TableDto]
+        :rtype: list[TableBriefDto]
         """
         return self._tables
 
@@ -362,7 +362,7 @@ class DatabaseDto(object):
 
 
         :param tables: The tables of this DatabaseDto.  # noqa: E501
-        :type: list[TableDto]
+        :type: list[TableBriefDto]
         """
 
         self._tables = tables

.jupyter/load_test.py

@@ -4,6 +4,7 @@ import time
 import os
 import shutil
 import uuid
+from postgres import Postgres
 
 import api_query.rest
 from api_authentication.api.authentication_endpoint_api import AuthenticationEndpointApi
@@ -219,6 +220,27 @@ def delete_tuple(container_id, database_id, table_id, keys):
     return response
 
 
+def update_user(user_id):
+    response = user.update({
+        "firstname": "Josiah",
+        "lastname": "Carberry",
+        "affiliation": "Wesleyan University",
+        "orcid": "0000-0002-1825-0097",
+        "titles_after": "PhD"
+    }, user_id)
+    print("updated user with id %d" % user_id)
+
+
+def update_theme(user_id):
+    response = user.update_theme({
+        "theme_dark": True
+    }, user_id)
+    print("updated theme user with id %d" % user_id)
+
+def verify_user(user_id):
+    db = Postgres("dbname=fda user=postgres password=postgres")
+    token = db.one("SELECT ")
+
 if __name__ == '__main__':
     #
     # create 1 user and 3 containers (public, private, public)
@@ -310,3 +332,10 @@ if __name__ == '__main__':
     tname = find_table(1, 1, 1).internal_name
     qid = create_query(1, 1, "select `id` from `" + tname + "`").id
     create_identifier(1, 1, qid)
+    #
+    # create 1 user and modify information
+    #
+    uid = create_user("test3").id
+    auth_user("test3")
+    update_user(uid)
+    update_theme(uid)

.jupyter/requirements.txt

 requests>=2.28.0
 pandas>=1.4.3
+postgres>=4.0
\ No newline at end of file

fda-metadata-db/api/src/main/java/at/tuwien/api/database/DatabaseDto.java

@@ -2,8 +2,10 @@ package at.tuwien.api.database;
 
 import at.tuwien.api.container.ContainerDto;
 import at.tuwien.api.container.image.ImageDto;
+import at.tuwien.api.database.table.TableBriefDto;
 import at.tuwien.api.database.table.TableDto;
 import at.tuwien.api.identifier.CreatorDto;
+import at.tuwien.api.user.UserBriefDto;
 import at.tuwien.api.user.UserDto;
 import com.fasterxml.jackson.annotation.JsonFormat;
 import com.fasterxml.jackson.annotation.JsonProperty;
@@ -37,7 +39,7 @@ public class DatabaseDto {
 
     @NotNull
     @Parameter(name = "database creator")
-    private UserDto creator;
+    private UserBriefDto creator;
 
     @NotBlank
     @JsonProperty("internal_name")
@@ -67,7 +69,7 @@ public class DatabaseDto {
     private String publication;
 
     @Parameter(name = "tables")
-    private List<TableDto> tables;
+    private List<TableBriefDto> tables;
 
     @JsonProperty("is_public")
     @Parameter(name = "database public")

fda-metadata-db/api/src/main/java/at/tuwien/api/database/table/TableDto.java

 package at.tuwien.api.database.table;
 
 import at.tuwien.api.database.table.columns.ColumnDto;
+import at.tuwien.api.user.UserBriefDto;
 import at.tuwien.api.user.UserDto;
 import com.fasterxml.jackson.annotation.JsonFormat;
 import com.fasterxml.jackson.annotation.JsonProperty;
@@ -10,6 +11,7 @@ import lombok.*;
 import javax.validation.constraints.NotBlank;
 import javax.validation.constraints.NotNull;
 import java.time.Instant;
+import java.util.List;
 
 @Getter
 @Setter
@@ -32,6 +34,10 @@ public class TableDto {
     @Parameter(name = "table internal name", example = "weather_australia")
     private String internalName;
 
+    @NotNull
+    @Parameter(name = "database creator")
+    private UserBriefDto creator;
+
     @NotBlank
     @Parameter(name = "topic name", example = "fda.c1.d1.t1")
     private String topic;
@@ -46,6 +52,6 @@ public class TableDto {
 
     @NotNull
     @Parameter(name = "table columns")
-    private ColumnDto[] columns;
+    private List<ColumnDto> columns;
 
 }