Activity for Raif Atef (Interdesigns)
-
Raif Atef (Interdesigns) committed [r626]
AOP-XML Import: Don't fail for missing evidence XML element. Consider it as unspecified confidence level.
-
IUCLID6 import: More robust handling of subdirs while extracting the ZIP format.
-
Added missing oauth state check to the recovery page.
-
Implemented single-sign on integration for recovery page and renamed it to index.php
-
Update Kotlin runtime to 1.2.0 (with IntelliJ 2017.3).
-
IUCLID6 import: Handle lists of complex types by table emulation through property descriptors.
-
AOP-XML import: Guard against nulls due to empty vs missing tags.
-
IUCLID6 import: Support importing both single and multiple datasets (i6z and i6zm).
-
AOP-XML import: Avoid creating duplicate identical links.
-
Support import of IUCLID6 multiple file format (only reference substances, test materials, and subsets of 2 types of endpoint records).
-
Fix wrong value of ObjectPropertyType.displayName in aop format.
-
Update Kotlin runtime to 1.1.60
-
IUCLID6 import: Undo commits accidentally pushed related to unfinished implementation.
-
WIP: Parsing manifest and added missing Test material information record.
-
WIP: Added JAXB generated classes for IUCLID6 schema subset we intend to support.
-
WIP: IUCLID6 import skeleton.
-
AOP-XML import: Eliminate unnecessary duplication of reference in description of KER and KE.
-
AOP-XML import: Set createLive = true on AopXmlDataSource to enable search index auto-update.
-
AOP-XML import: Fix NullPointerException during import due to missing index. Make AOP-Wiki-Id non-searchable.
-
AOP-XML import: Add AOP-Wiki-Id to aop, chemicals and effects if from AOP-Wiki.
-
AOP-XML import: Share key events across pathways and react to regressions.
-
AOP-XML import: Avoid unnecessarily calling bringToLive early on description sections.
-
AOP-XML import: Avoid unnecessarily duplicating Effect or Chemical objects.
-
AOP-XML import: Strip tags from references and convert them to reference items.
-
AOP-XML import: Do not import AOP-XML aop key event essentiality into Effect objects.
-
Update Kotlin runtime to 1.1.50: https://blog.jetbrains.com/kotlin/2017/09/kotlin-1-1-50-is-out/
-
Update Kotlin runtime to 1.1.4
-
Added missing kotlin runtime file.
-
AOP-XML: Update to schema v0.9.9-alpha
-
AOP-XML export: Implementation, refactor and updating kotlin runtime.
-
AOP-XML: Update schema to 0.9.8-alpha
-
Cleanup and convert all AOP-XML code to Kotlin and add Kotlin runtime libs.
-
AOP-XML import: Avoid creating links that will cause circular references (they will be ignored).
-
AOP-XML export: Renamed AopXmlImportDataSource to AopXmlDataSource. Renamed AopXmlImportFileFormat to AopXmlFileFormat. Groundwork for export.
-
AOP-XML import: React to schema changes (biological process and object become optional).
-
AOP-XML import: Reacting to minor changes in 0.9.7-alpha schema.
-
AOP-XML import: Rework how empty descriptionsection_structured are defined to avoid failures when saving.
-
AOP-XML import: Apply aop stressors as stressors of molecular initiating events (if present).
-
AOP-XML import: Better handling of applicability, override on property level key event essentiality with aop essentiality. Add references to first description section. Update schema.
-
AOP-XML import: Update schema, implement importing effect and link essentiality.
-
AOP-XML import: Fix missing call to "bringToLive" causing DescriptionSection instances to have an ID of zero.
-
AOP-XML import: Refactor: import all objects as part of AOP/Pathway.
-
AOP-XML import: Import event_components for key events.
-
Set imported description section format to HTML.
-
Fixed imported effects not recognized by UI (need to be Effect_DownstreamEffect).
-
WIP: Import AopXml format as of spec 0.9.2-alpha. Done: Chemicals. Problematic: Key Events.
-
php/.htaccess: Deny access to composer.json (ex...
-
php/sys/user_profiles.php and php/sys/user_prof...
-
Move composer infrastructure to php root to use...
-
Proxy xmldb.php urls instead of 301 redirect to...
-
api.php: Let script names with underscores thro...
-
Update compatibility .htaccess with SSL redirec...
-
Add a "UI link" to let users of the old version...
-
Backward compatibility proxy layer for old vers...
-
Add support for debug environment in Config exa...
-
Uncomment CentralizedDB thread start.
-
Implement an api download script. Use it when r...
-
api.php facade: allow html file extension.
-
sys/user_profiles.php and sys/user_profiles_opt...
-
user_profiles: use email instead of display nam...
-
user_profiles_opt: Use email instead of display...
-
Update more hard-coded paths. Add Methods_HPG.x...
-
php/rev: Add .htaccess to block execution of an...
-
Block remote file inclusion and parent dir acce...
-
Update notify/index.php and upload_response.php...
-
Update api facade to handle index scripts (eg: ...
-
Updating hard-coded paths to new locations.
-
Move chem images to app.effectopedia.org and up...
-
Updating baseURLs and WhiteList with new app URLs.
-
Minor fix to api facade.
-
Add support for multiple database configuration...
-
Single sign-on integration with Keycloak throug...
-
Create empty assets folder for storing non-sour...
1