CHANGES.rdoc

Changes log for the T2 Ruby Gem¶ ↑

Version 1.3.0¶ ↑

• Fix time-based tests for timezone changes (again).

• Add the test-unit gem so that we can test in ruby 2.2.

• Tie down the webmock version number more carefully.

• Update Travis config to test against ruby 2.1.5.

• Update README with more precise version matching.

• Update to ratom version 0.9.

• Add ruby 2.2 to the Travis config.

• Update ruby testing info in README.

Version 1.2.0¶ ↑

• Test provenance collection on version 2.5.4 and up only.

• Only run tests against a live server if an address is supplied.

• Add a test case to test the connection factory.

• Set up mocking of Net::HTTP and mock creation of a run.

• Mock testing server run limits and deleting all runs.

• Add Coveralls integration to the tests.

• Add tests for the credentials classes.

• Add a simple check for parsing the server version.

• Test a full run of a workflow.

• Fix the parameters classes with initial parameters.

• Test custom CA connection parameters.

• Test a network timeout.

• Catch Net::HTTP::Persistent::Error internally.

• Net::HTTP::Persistent::Error is now wrapped internally.

• Remove the unused RunNotFoundError.

• Fix documentation for Run#upload_data.

• Set minimum ruby version to be 1.9.3 in the spec.

• Modernize the installation instructions.

• Remove the unused workflow upload XML fragment.

• Add XML generation methods for server messages.

• Programmatic generation of mkdir server message.

• Programmatic generation of the upload server message.

• Streamline XML node generation methods.

• Programmatically generate input server messages.

• Generate permissions server message fragment.

• Generate trusts server message fragment.

• Generate credentials server messages.

• Streamline the generation of hierarchical XML nodes.

• Setup tests for the XML messages sent to server.

• Factor out the common help and version CLI options.

• Factor out the different SSL config options for HTTPS connections.

• Neaten up the code to get a run’s resource links.

• Fix typo in Run#grant_permission.

• Add a parse method to the credentials objects.

• Found a way to better test the credentials objects.

• Fix up the test suite driver code.

• Update the public key of the secure remote services.

• Update the client certificate for secure remote services.

• Stop using a pre-cooked server reply for Run#status.

• Only download a range of bytes if requested for outputs.

• Streamline the OutputPort methods for getting data.

• Remove unused private method (path) from OutputPort.

• Factor out I/O Port processing.

• Cache a run’s finished state when it has finished.

• Fix the client authentication connection settings.

• Test InputPort and OutputPort.

Version 1.1.0¶ ↑

• Remove hirb as a runtime dependency.

• t2-server-admin: Minor fix for readability.

• Add a gem version badge from badge.fury.io.

• Use bundler and stop using jeweler.

• Update dependencies.

• Add travis configuration.

• Separate out the version code from the main include file.

• If in travis, don’t wait for a server address.

• Update note about SemVer in readme.

• Add travis badge and update ruby testing info.

• Refactor out rexml and nokogiri xml support.

• Setup rubygems and bundler in the main require file.

• t2-run-workflow: Fix baclava output option.

• Fix error in exception caused by chunked response.

• Add provenance capture and retrieval functionality.

• Can now toggle provenance generation on and off.

• Implement a comparable version class.

• Restrict provenance functionality to correct server versions.

• Remove Server#version_components from the docs.

• Tighten ratom version and move libxml-ruby to runtime list.

• Align baclava output method names with the prov ones.

Version 1.0.0¶ ↑

• Remove deprecated methods.

• Add read streaming capability to the underlying connection.

• Add a read method to stream data directly to a file.

• Stream zip data from server.

• Update t2-run-workflow so that debug is optional.

• Stream baclava data from server.

• Expose streaming capability to output ports.

• Bring port error handling inline with normal values.

• Tidy up usage of a mime-type for empty ports.

• Add methods to test for empty ports or port values.

• Add output port data streaming functionality.

• Stream output data directly to a file.

• Document the credentials classes.

• Add general stream-to-stream data downloads.

• Expose stream-to-stream methods in the Run class.

• Add upload streaming to the underlying connection.

• Stream uploads of workflows and data.

• Add streaming examples to the README.

• Make XPath searching robust to nodes not being found.

• Read interaction feed URI and query support with API.

• Read notifications from the interaction feed.

• Document the Interaction Service additions in the README.

• Add a bit more compatibility info to the Readme.

• Clean up run caching code in the Server class.

• Clean up variables and comments for run creation.

• Code clarity improvements.

• Remove duplicated download/streaming code in Run.

• Remove duplicate URI stripping code from Server.

• Improve readability of the XML fragments.

• Add a global complied XPath cache and use for Server.

• Use global XPath cache for Run class.

• Add Ruby 2.0.0 as known to work in README.

• t2-delete-runs: Minor code clean-up.

• t2-delete-runs: Add a flag to only delete finished runs.

• t2-run-workflow: Minor code clean-up.

• t2-run-workflow: Add flag for service credentials.

• Server now returns 503 when at capacity.

• Server now has a limit on concurrently running runs.

• Test for max concurrently running runs.

• t2-run-workflow: Cope with hitting max running runs.

• t2-server-stress: Cope with hitting max running runs.

• Ensure all unit tests delete runs that they create.

• Mark deleted runs as such in their Run object.

• TAVSERV-308

  Run#permissions returns nil, instead of :none

• Add a function to download a single port as a zip file.

• Added ssl_version to connection parameters

• Put a guard in to check that the SSL version is sensible.

• Add SSL version support to the command line tools.

• Add a new example connection parameter class for SSL version 3.

• Describe the connection parameters in more detail.

• Add Run#error? to check all output ports for errors.

• UnexpectedServerResponse now provides more information.

• Remove the port value caching code.

• Simplify the HTTP methods and clean up error handling.

• Split up the CLI options code.

• Improve version string parsing.

• Handle server returning Accepted on run start.

• Get the run name from the server.

• t2-server-info: Display run names in list view.

• Set the run name on the server.

• t2-run-workflow: Set name of run on server.

• t2-get-output: Get name of run from server.

• OutputPort#zip now returns nil for singletons.

• Fix well-hidden HTTPS connection setup bug.

• Use a RunCache class instead of a Hash to store local run objects.

• t2-server-info: Configurable run detail in list view.

• TAVSERV-324

  Uninitialized connection parameters.

• Move interaction code out of Server, into Run.

• Simplifications for per-run feeds.

• Get different types of notifications for a Run.

• Expose the run notification/interaction locations.

• Add Run#log to get run logs.

• Add connection timeout parameters.

• Enable interaction reply publishing.

• Read the interaction serial number from the notification.

• Enable retrieval of an interaction’s input data.

Version 0.9.3¶ ↑

• Correctly handle missing values in output ports.

Version 0.9.2¶ ↑

• Cleanup of the README and some delete additions.

• Complete documentation coverage.

• Update the parsing of the server version.

• Optimize Server object creation.

• Add URI manipulating methods to T2Server::Util.

• Internal updates to use full URIs rather than relative paths.

• Updates to the administrator interface to use full URIs.

• URI code updates for secure workflow and permissions support.

• Remove (deprecate) Server#delete_run.

• Support direct PUT of data for newer versions of server.

• Update the documentation of the Connection classes.

• Minor updates to the top-level README.

• Cleanup of t2-server-info script.

• t2-run-workflow: Only print outputs if there are any.

Version 0.9.1¶ ↑

• Update unit test code for Ruby 1.9 compatibility.

• Major reductions in the time taken to instantiate a Run object.

• t2-server-info: Don’t list runs by default.

• Move to persistent HTTP connections.

• SSL certificate store changes.

Version 0.9.0¶ ↑

• t2-run-workflow: Add a switch to set the expiry date/time.

• Support version 2 of the Server API.

• Update example scripts to work with the new server API.

• Retire the T2Server::API_VERSION constant.

• Add a method to get expected inputs from the server.

• Make the baclava input/output calls more “ruby-like”

• Fix the Run#wait method to cope with finished runs.

• Changes to Run and Server to yield created objects.

• Add zip output facilities to the Run class.

• Scripts: Add switches for passing user credentials.

• t2-run-workflow: Exit if workflow is empty.

• Top-level documentation updates.

• Add server administrative interface infrastructure.

• Fix exception raised within exception code!

• Fix exception raised within exception code!

• Allow Run#expiry= to accept Time objects as input.

• Add a deprecation message when require ‘t2server’ is used.

• Add connection-parameters classes.

• Use supplied parameters to configure SSL connections.

• Connection parameters tests.

• Add use of connection parameters to the cli scripts.

• Fix Run#status to return state as symbols rather than text.

• Enable dynamic selection of XML implementation.

• Move URI monkeypatch code to new Util module.

• Move String monkeypatch code to Util module.

• Remove progress output from Run#wait.

• Change all references to UUIDs to ‘identifier’.

• Get run ownership from the server for each run.

• Facilities for granting and revoking permissions on runs.

• Facilities for providing user/pass credentials for secure services.

• Add support for uploading trusts for peer verification.

• Facilities for providing keypair credentials for secure services.

• Secure workflow and Run permissions test cases.

• Update Readme with security info.

• Update the input port API.

• Update the output port API.

• t2-get-output: Change -E switch to -x.

• t2-get-output: Wire up the -r switch.

• t2-get-output: Add -T switch for returning output types.

• Remove support for Taverna Server versions < 2.3.

• Add Server#upload_data.

• Add Run#upload_data.

• Fake list inputs with baclava.

• More detailed documentation in the ReadMe file.

• Compatibily note added to the ReadMe file.

Version 0.6.1¶ ↑

• Store server addresses internally as URI objects.

• t2-run-workflow: Add a no-wait option.

• Fix input value escaping to allow XML in inputs.

Version 0.6.0¶ ↑

• Add a new API call Run#get_output_ports

• Remove Run#ls from the API.

• Refactor the code that builds output port lists.

• Update and streamline test suite.

• Parameterize the Rakefile for use in CI.

• Return dates as instances of class Time.

• Allow expiry dates to be specified in human readable formats.

• Workaround for CXF bug upon server start-up.

• t2-run-workflow: accept files as inputs.

• Tabulate run information.

Version 0.5.3¶ ↑

• Fix an issue with singleton value/empty list confusion for output ports.

Version 0.5.2¶ ↑

• Fix two issues with the retrieving of workflow outputs.

• Update tests to reflect changes to output code.

Version 0.5.1¶ ↑

• Fix horror typo in Server#set_run_input.

• Expand test coverage to include more diverse workflows.

• Reformat LICENCE and CHANGES as rdoc files.

Version 0.5.0¶ ↑

• Make the require file consistent with the gem name.

• Fix run_workflow –input switch for values containing colons.

• Require rubygems in all scripts.

• Updates to RDoc options.

• Rename executables with a consistant name pattern.

• Convert t2-delete-all-runs script to be more flexible.

• Change the Run#get_output method to correctly return a list.

• Stop t2-run-workflow from deleting runs automatically.

• Install the scripts as part of the gem.

• Fix inconsistencies in the Server API.

• Updates to the test suite to reflect recent library updates.

• Move to LibXML for parsing server responses.

Version 0.2.1¶ ↑

• Don’t pollute global namespace with REXML stuff.

Version 0.2.0¶ ↑

• Removed a test that seems to behave oddly.

• Add capabilities for https and basic auth.

• Use a single http connection per server.

Version 0.1.1¶ ↑

• Add baclava input functionality to run_workflow script.

• Add baclava output functionality to the Run API.

• Add baclava output functionality to run_workflow script.

• Document attributes in Server and Run classes.

Version 0.1.0¶ ↑

• Update the Run#mkdir method to cope with nested directories.

• Add code to the String class to operate on file paths.

• Use strip_path methods to sanitize inputs.

• Add exceptions for the Server class to raise and rescue.

• Add code to handle exceptions to the Server class.

• Add exceptions and handlers for the Run class.

• Add exception handling code to the example scripts.

• Consolidate all PUT operations into one method.

• Add top level test suite driver and first testcase.

• Move to a Rake based build system.

• Add a testcase for the Server.

• Add a testcase for the Run class.

• Rakefile rules to run rdoc over the source files.

• Add rdoc comments to the top-level module.

• Add rdoc comments to the exception classes.

• Add rdoc comments to the Run class.

• Add rdoc comments to the Server class.

Version 0.0.4¶ ↑

• Rationalize methods doing HTTP GETs into one.

• Add an example script to print server infomation.

• Cope with double slashes (//) in URI paths.

• Update documentation and version numbers.

Version 0.0.3¶ ↑

• Update the workflow wrapping fragment.

• Fix getting of output data in root working dir.

Version 0.0.2¶ ↑

• Server#runs now returns an array not a hash.

• Expose the newly added time attributes for runs.

• Add a method to return a run instance given a UUID.

• Update Run#ls to return separate lists of ‘dirs’ and ‘files’

Version 0.0.1¶ ↑

• Update project config boiler-plate

• First cut of T2 Server Ruby API.

• Added gemspec file to project.

• Add an example script to delete all runs on a server.

• Add an example script to run a workflow.

About this CHANGES file¶ ↑

This file is, at least in part, generated by the following command:

$ git log --pretty=format:"* %s" --reverse --no-merges <commit-hash>..