NEWS

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ExperimentHub 2.13.0

BUG FIXES

• (2.13.1) merged @votti PR for not checking connection if localhub is selected

ExperimentHub 2.11.0

USER VISIBLE MODIFICATIONS

• (2.11.2) Update to only install package if interactive and approved by user

BUG FIXES

• (2.11.3) Herve's fix. No more call to .get_ExperimentHub() in createHubAccessors() itself, only in the accessor functions that it creates

ExperimentHub 2.9.0

DOCUMENTATION

• (2.9.1) Document access behind a proxy

ExperimentHub 2.7.1

DEPRECATE

• (2.7.1) Deprecate display in favor of BiocHubsShiny

ExperimentHub 2.3.0

USER VISIBLE MODIFICATIONS

• (2.3.5) Update documentaion for shared hub across multiple users

ExperimentHub 2.1.0

MAJOR UPDATES

• (2.1.1) In accordance with the deprecated caching location, upgraded to error/defunct from warning/deprecated in preparaion for removal of dependency next release

ExperimentHub 1.99.0

MAJOR UPDATES

• (1.99.0) The default caching location has changed. Instead of rappdirs::user_cache_dir using tools::R_user_dir. To avoid conflicting caches, a user will have to manage an old cache location before proceeding. Information for handling an old cache location is provided in the vignette.
• (1.99.0) Another major change, a default caching location is automatically created in a non interactive session instead of using a temporary location. In an interactive session, a user is still prompted for permission.

ExperimentHub 1.17.0

• (1.17.1) Removed vignette for creating annotation hub package. Reference and refer to single vignette in AnnotationHub

ExperimentHub 1.15.0

BUG FIXES

• (1.15.2) Proxy message formatting

USER-VISIBLE CHANGES

• (1.15.4) less stringent internet check
• (1.15.3) Add link for github issue reporting
• (1.15.1) Add [email protected] email for help

ExperimentHub 1.13.0

NEW FEATURES

• (1.13.5) New function removeResources for removing locally downloaded cached resources. Nicer interface than using cache. Improved documentation on use of setting a cache to NULL to also remove resources.
• (1.13.4) Adds option ask to constructor. Default: True. Ask will ask user to create default ExperimentHub location and if in an non interactive session utilize a temporary directory. If False, the default directory is created and utilized without prompting.

BUG FIXES

• (1.13.8) Updated has_internet to nslookup. Certain locations block has_internet from running (block google dns). switched so can query the hub directly
• (1.13.7) Fixed messages to be more informative
• (1.13.2) Aaron's corrections to setExperimentHubOptions.

USER-VISIBLE CHANGES

• (1.13.1) Match ERROR message when resource not found in database. Instead of a generic "unknown key" give more detailed information. This is consistent with AnnotationHub/Hub-classes. If resource hasn't been completely removed from database, gives when the resource was removed. If the resource is available but after the snapshot date being utilized, specialized message.

ExperimentHub 1.11.0

NEW FEATURES

• (1.11.2) system environment variable to control localHub option for creating hub based only on previously downloaded resources
• (1.11.5) With change in AnnotationHub. All force redownload of Hub sqlite file with refreshHub

BUG FIXES

• (1.11.2) Fix localHub when no internet connection. The internal use of isDevel was preventing Hub creation when no internet connection. Fixed by checking connection. This code pretained to orgDb filters

ExperimentHub 1.9.0

SIGNIFICANT USER-VISIBLE CHANGES

• (1.9.2) The Hubs have been updated to use BiocFileCache as a backend utility for managing and downloading resources. This allows for file specific caching mechanism. This change is a significant user change as it changed the default directories for the Hubs (AnnotationHub/ExperimentHub) as well as the base directory no longer being hidden.

ExperimentHub 1.4.0

NEW FEATURES

• ExperimentHub will now work offline utilizing argument 'localHub'; will also use this option automatically if no internet connection is detected.
• Add new vignette for creating ExperimentHub packages

MODIFICATIONS

• Update AnnotationHub dependency; new resource class RDSResource
• move listResources and loadResources from AnnotationHub to here

BUG FIXES

• Fix typo in createHubAccessors with hard coded value

ExperimentHub 1.0.0

NEW FEATURES

• Package added to release BioC 3.4