TASK-5564 - Update data sources for CellBase 6.x #696
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… Expression Atlas, Gene Disease Annotation, gnomAD Constraints and GO Annotation downloaders, #TASK-5775, #TASK-5564
… log messages, #TASK-5564
Resolve Conflicts: cellbase-app/src/main/java/org/opencb/cellbase/app/cli/admin/AdminCliOptionsParser.java cellbase-app/src/main/java/org/opencb/cellbase/app/cli/admin/executors/DownloadCommandExecutor.java cellbase-app/src/main/java/org/opencb/cellbase/app/cli/admin/executors/LoadCommandExecutor.java cellbase-core/src/main/java/org/opencb/cellbase/core/config/DownloadProperties.java cellbase-core/src/main/resources/configuration.yml cellbase-lib/src/main/java/org/opencb/cellbase/lib/EtlCommons.java cellbase-lib/src/main/java/org/opencb/cellbase/lib/variant/annotation/VariantAnnotationCalculator.java and update to the new changes.
…he genome downloader, #TASK-5564
…from the class EtlCommand and improve log messages, #TASK-5564
…nd taking them from the configuration file; update JUnit test and improve log messages, #TASK-5564
…and taking them from the version files (i.e., URLs of the DataSource), improve log/exception messages, and fix sonnar issues, #TASK-5564
…checks and log messages, #TASK-5564
…llBaseBuilder to be used by other builders, #TASK-5564
… downloader to the protein builder, #TASK-5564
…,...) fails; and improve log messages, #TASK-5775, #TASK-5564
…wnloader to the regulation builder; and improve regulation builder by adding checks, log messages and fixing sonnar issues, #TASK-5776, #TASK-5564
…ology versions will be taken from the OBO files content, #TASK-5775, #TASK-5564
…rom the OBO files content; and improve log messages, #TASK-5775, #TASK-5564
…sion files before creating the ontology builder, #TASK-5576, #TASK-5564
…ding log messages and refactoring code, #TASK-5576, #TASK-5564
…PharmGKB files from the downloader to the PharmGKB builder and adding log messages, #TASK-5775, #TASK-5564
juanfeSanahuja
previously approved these changes
Jan 21, 2026
juanfeSanahuja
previously approved these changes
Jan 21, 2026
juanfeSanahuja
previously approved these changes
Jan 21, 2026
juanfeSanahuja
previously approved these changes
Jan 21, 2026
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dapregi
previously approved these changes
Jan 21, 2026
juanfeSanahuja
previously approved these changes
Jan 22, 2026
juanfeSanahuja
approved these changes
Jan 23, 2026
dapregi
approved these changes
Jan 23, 2026
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Update data sources for CellBase 6.x