Code

Mica without Opal#4393

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meek0 merged 44 commits intomasterobiba/mica2:masterfrom no-opalobiba/mica2:no-opalCopy head branch name to clipboardFeb 1, 2023

+4,633-2,587

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Commits on Feb 1, 2023

• #4376 WIP. StudyTableSource interface added. New property sourceURN replaces opal project/table in dataset's study tables and variables. Requires ES index config update.

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• sourceURN property/getter/setter renamed to source

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• source package added, with unit tests

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• Excel table source added, reads excel from Mica's file system

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• Edit/create study tables with opal or file source. WIP.

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• File path can be copied. Study table's file source can be relative to the dataset's folder

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• Study table context added. Opal dtos (aggregations) are not exposed in the source plugin interface.

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• Deferred init of excel datasource. Less verbose log messages when study table source operation is not supported

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• SPI mica-source testing

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• Deferred attachment stream extraction

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• Handle disposable table sources

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• Mica source plugin could be an Initialisable

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• #4381 Variable taxonomies service added to support other taxonomies providers, in addition to the opal one

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• mica-source plugin type renamed to mica-tables. Ne plugin type: mica-taxonomies for loading taxonomies provider services.

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• Taxonomy of taxonomies is configurable. Added attribute to have a taxonomy declared but not visible.

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• Variable taxonomies can be read from local folder: MICA_HOME/conf/taxonomies/variable

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• AbstractTaxonomiesProviderService added

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• Caching of taxonomies refactored, not functional yet

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• Variable taxonomies are cached

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• Fix dataset taxonomy init

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• Opal taxonomies cache replaced by generic variable taxonomies cache. Variable taxonomies are decorated with variable attributes

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• Code cleaning: Opal service helper merged into opal service

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• classifications administration

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• make sure variable taxo title/description in the meta taxo matches the one of the original taxo

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• hide instead of remove a target vocabulary if type is disabled

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• Plugins REST API added

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• Plugin REST API added

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• Service Plugin REST API added

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• Update the search plugin in the upgrade procedure

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• ng-obiba-mica version

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• No server error when opal projects cannot be retrieved

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• Fix some wording and showVariableStatistics template setting added

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• Fix some wording and showVariableStatistics template setting added

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• Fix harmonized variable id encoding for url

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• Fix harmonized variable id encoding for url for reverse proxy

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• NoSuchTableSourceException added with their web service mapper

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• ng-obiba-mica latest release

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• prepare for upgrade to 5.2

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• StudyTableSource does not need to return the table name, this is implementation specific

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• Modifying the meta txonomy requires admin role

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• Plugin management requires admin role

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• Clean Opal projects web services

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• Helper class to read a taxonomy in YAML format from a stream

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• Other study table source handled in the admin

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