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README
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README
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VisTrails
HOW TO INSTALL
--------------
Just drag the VisTrails folder to anywhere in your disk
(to your Applications folder, for example).
HOW TO RUN
----------
To run it, open the folder in finder and double-click on the VisTrails icon.
Please see the About Message for Licensing and Disclaimers.
Release Name: v2.1.4 build 269e4808eca3 from v2.1 branch
Bug fixes:
- Pinch gesture was broken (2d5494ed1d10)
- Ticket 893: "Create Version" button on the spreadsheet does not work (d3db65418fad)
- New Parameter Exploration was created for each execution (c324acad38f9)
- Could not load saved Parameter Explorations (c324acad38f9)
- Ticket 762: Package.import_override.is_sys_pkg logic incorrect (bf5e20c923f7)
- Usersguide: Fixed parameter exploration vtl links (79c3021a50b3)
- Forces the use of PyQt4 (avoid PySide) (2460948327cc)
- Guess whether to use su/sudo with pip (18698fa909b3)
From Release: v2.1.3 build 8262f078ed3b from v2.1 branch
Bug fixes:
- Fixes scripting examples (8dd634391b71)
- Fixes Map and Filter modules outputting Variant (d597dcd6027f)
- Makes StringFormat handle {!r} or {:.2f} correctly (5f99a90fdc87)
- Fixes a test on newer pytz versions (2b4ecb3bc9bb)
- Displays exactly what we are going to install (214f98f478be)
- Fixes issue with missing PyQt4 (fbfada66f67e)
- Hide splashscreen when asking for file association (069c52f90130)
From Release: v2.1.2 build 7d8a4ed2feeb from v2.1 branch
Enhancements:
- Ticket 846: File Selection Dialog (78e8d01bd7ab)
- Ticket 824: Workflow execution output in console (8ea1231e736f)
- Adds PromptIsOkay module (WIP) (a1bad0cc2d46)
- Adds a YesNoDialog module (b267d2bed5eb)
Bug fixes:
- Ticket 849: Autosave for existing vistrails not working (671eade8a9b8)
- Saving mashups to DB corrupts them (5be2ed41d33f)
- CLTools wizard does not show list type field (df8ef413aff4)
- Date error in workspace when using 8-bit characters (af83742a98ec)
- Ticket 850: Pipeline/history view scrollbars too sensitive (9e68064627c1)
- Ticket 686: Deleting a vistrail variable breaks workflows (1870f481103d)
- Ticket 830: Deleting a module does not delete vistrail variables connected to it (a197eba35396)
- Ticket 825: Vistrail Variables are not copied with modules (a197eba35396)
- Wrong view mode when switching between open vistrails (29bc0e1f47b7)
- Ticket 828: [Windows] Pinning a panel causes it to disappear (287e77ec7afd)
- Saving new vistrail caused view change (a95026c25968)
- Could not drop module in detached vistrail variables widget (63957fe80711)
- Vistrail Variables palette closed before it could be stickied (670f81d5eaff)
- Ticket 822: Exception if PyQt is installed but PyQt.QtOpenGL isn't (e4c1ded9d649)
- Ticket 783: Enabling packages automatically can make a different package fail (244084e837ec)
- Old-style imports did not work on vistrails server (eaded21310ee)
- Fixes adding a webservice through the context menu (d42e90689af2)
- Old mashuptrails were not deleted correctly in DB (5ada9ce79bcb)
- Mashups: Fixes alias copy bug (b5276f4c159e)
- SaveBundle did not copy mashups (ea12b6a1e2b3)
- Fixes date formatting in core.collection (1aaef5de72fb)
- Fixes major ImageViewerCell bug (d8ca797bf8b9)
From Release: v2.1.1 build 90975fc00211 from v2.1 branch
Bug fixes:
- Ticket 814: Parameter Exploration Broken (13da70d0b35f)
- Fixes early gui import in application_server (3b2f6186cea9)
- Ticket 816: Saved vistrail doesn't appear in 'my vistrails' (784414a617d2)
- Ticket Fix font issue for OS X 10.9. (22c0f0cca937)
From Release: v2.1 build 179c82045907 from v2.1 branch
Enhancements:
- Ticket 292: Add XSL support to RichTextCell (ae0126167aa8)
- Set file associations on Linux (579d702aaab9)
Bug fixes:
- Ticket 610: Exporting to the database should update locator (e6c3203a2710)
- Ticket 809: Suspending module attached to more than one sink kills workflow execution (3b791e47c453)
- Save button is not disabled when file is saved (d0dc3525f334)
- Items in workspace were sometimes shown incorrectly (d0dc3525f334)
- Context Menus in workspace were missing (d0dc3525f334)
- Read only string widget had multi-line button (9117e5bb367e)
- Opening configuration window with unsaved changes fails (fa3c1335580f)
- Infinite loop when changing string in Mashup App (2ee81b444300)
- Ticket 802: Can't exit VisTrails (da5c18a8b550)
- Ticket 796: [JobSubmssion] Issue when resuming job from unsaved vistrail after quitting (cc3d342688fb)
- Temporary files for untitled locators did not work correctly (3d9df4ab5ea2)
- Autosave prompts when vistrail is already open (cfc06bbc1c2c)
- Added LinuxMint as a supported Ubuntu variant (145c4c3c16ec)
- Ticket 581: Latex extension: clicking on a figure on the PDF file (on acrobat) gives an error (f1a581b11929)
- Publishing widget did not show unsaved vistrails correctly (0a4f49d7b081)
- Ticket 712: Useful messages when loading abstractions (07745fca0e99)
- Ticket 670: Traceback in configuration window (073b57d3bfca)
- Ticket 709: Recursing on abstractions tracebacks (5b850844b735)
- Ticket 776: 'Open in New Window' feature (71147be4b5ef)
- Ticket 794: Exits with 'cannot connect to X server' when starting core application (3c94ccc0ac9a)
- Fixed DBLocator equality method (e6c3203a2710)
- Ticket 771: Export to DB hangs if schema is not present (c102cb8f72c8)
- Ticket 787: Mac color chooser locks keyboard (628fb3e773fc)
- Ticket 740: Double-clicking a workflow in the workspace collapses the tree (3775961debd4)
- Ticket 738: Double-clicking a workflow in the workspace does not select it in the history view (3775961debd4)
- Ticket 723: Changing view fails on Fedora (ee7b4652e845)
- Ticket 722: Pipeline validation doesn't check for invalid functions (47d9c6de3e45)
- Ticket 277: Don't always receive "enable package" dialog (802fd0de0a7e)
- Ticket 415: Version tree refresh after API calls (0a2f6a59d6a7)
- Ticket 730: help() not available warning in Mac 2.1 binary (a946e4da59c1)
- Ticket 683: Packages should honor -S flag (9e5b83351d2f)
- Ticket 649: Batch mode doesn't allow a vt without a version (b5b65892aa10)
- Ticket 611: Mashups relational support missing (6bf5b2b02e48)
- Ticket 759: QLineEdit.setPlaceholderText does not exist in Qt 4.6.3 (a57fbba44e6e)
- Added progress reporting to Map module (0666e24d35f5)
- Cannot abort execution while a vtkAlgorithm is running (6b86705c0e59)
- Debian install script was used on Fedora (4acca49bcf74)
- Ticket 751: Display history view when opening vistrail with tagged versions (f2b053cee1aa)
- Spreadsheet history file path was set incorrectly (1789513a3afd)
- Fixes slot bug in PyQt 4.7.3 (17230667d58e)
From Release: v2.1 beta2 build 99faabb791a0 from v2.1 branch
Bug fixes:
- Ticket #735: Windows dulwich install via pip fails (14d362a695df)
- Ticket #718: persistence can't handle directories (2a668a6e9881)
- Fix issue with persistent paths in Windows (2a668a6e9881)
- Ticket #728: Upgrading vistrail with disabled package (b28c85b718ac)
- Fix issue with subworkflows using disabled packages (b28c85b718ac)
- Fix issue with staging persistent directories (6cddde545965)
- Fixed module upgrades not working with dynamic packages (bf997c6bb0c6)
- Fix issue with transfer function widget (11213143752c)
- Rewrites error-prone code for GitRepo#add_commit() (c1d2f60cc10d)
- Persistence sets up a Git username if none is set (f37129976ba5)
- Fixes default values on optional Boolean ports (34365eb22800)
- Ticket #705: zip.exe not found in Windows binary (69a16e3c5b84)
- Ticket #700: Upgrades with package identifier changes fail (32f934bef698)
- Ticket #716: The new IPython console does not receive console output (96d65c1d0e80)
- Ticket #699: Base classes for parameter config widgets do not enforce defaults (6e1a5624b2ae)
- Fix BooleanWidget default handling (6e1a5624b2ae)
- Fixed tricky upgrade bug (1385b1d04f4b)
- Ticket #626: Passing parameters to single instance still opens second instance of VisTrails (334c743f3c33)
- Fix issue with package identifier changes and upgrades (32f934bef698)
- run.py/fix_paths was broken (16aeafb32399)
- Looping over a failing PythonSource caused logger to fail (2b5ff8105562)
- Fixes line-endings for TestUnzip (05a41335f050)
- Disables deleting from the persistence store (3c816e2734b8)
- Adds tests for type-checking, using PythonSources (3f0c602b003a)
- Disables type-checking for InputPort modules (4cdad5f113df)
- module_info now shows a module's id (0c504fe06615)
- Limits copy and paste in module_info (b99c674c8494)
- Detects cycles when computing pipeline signature (3a0fe0b5a880)
- Adds some more checks for persistent path type (846631436bd0)
- Raises a ModuleError if persisting an empty dir (d3d8b2193b5f)
- Makes type-checking optional (30659a8b6525)
- Fixes adding a directory to persistence (0c26c5b68ee6)
- While requires *or* ConditionPort or MaxIterations (bdcd04e3366c)
- Fixes a package_dependencies() crashing VisTrails (3263be2d2a52)
- Lets PythonSource use the default source (7684997bd888)
- PythonSource configuration dialog now uses default (3dff503ce8ce)
- Fixes StringWidget not showing default correctly (49d9dbd161f0)
- Restores read-only mode removed by previous merge (4bdf4705a669)
- Removes most of the persistence_exp package (90c70ee525e6)
- Fixes matplotlib not able to reuse cells (243ae02dd499)
- Makes UntitledLocator inherit CoreLocator (fc863650a893)
- Fixes looping modules (34d3029f3419)
- Minor changes to persistence code (96a605e0ca3f)
- Adds back PersistentPath#git_command() (295f9ade09cf)
- Fixes an issue with fix_dates() (3ad431172b47)
- More fixes to found_another_instance_running() (916cdeb23f6f)
- Makes fix_dates static in PersistentRefModel (56dec62ea2aa)
- Fixes persistence view (1bbb9bfb5f45)
- Adds tests for Unzip and UnzipDirectory (22c9d361b78b)
- Makes HTTPFile cacheable again (5bc3619d5cba)
- Fixes running the CLTools wizard standalone (77bf72286a8c)
- Fixes CLTools test on Windows releases (c503e4df5cf9)
- Fixes UnicodeDecodeErrors in DebugView (5ce4fd3515d7)
- Adds an UnzipDirectory module (634e6415a62e)
- Fixes Unzip code (10a2a3753185)
- Fixes runtestsuite.py ignoring *system* (b1210c5dc5c7)
- ImageMagick fixes (b0994f0e5684)
- Cleans disabled packages from cache (51a4cf021a31)
- Removes QPackagesWidget#erase_cache attribute (2919064fcce2)
- Don't expand the module palette on package load (890b6796e4a2)
- Re-enables type checking after all (ec6539366bbd)
- Fixes optional tabledata->spreadsheet dependency (511ab651ad93)
- Makes numpy arrays valid Lists (6425d8d7a286)
- Merge branch 'optimize-module' into 'master' (906a6edf8e73)
- Minor fixes to installers (ba9550bb44f2)
- Moves rgb2hsv and hsv2rgb out of paramexplore (f00a710f2424)
- PythonSource now sets unconnected output ports (75f4d085c57f)
- Adds a Delay port on the While module (07087da25339)
- Renames 'optimization.py' to 'looping.py' (b4b2183e3bab)
- Renames Optimize to While, inverts condition (0a07b43c7a2f)
- Adds state output/input ports (e6f57d0f4999)
- Adds the Optimize module to ControlFlow (ea4ebd43293c)
- ExecuteInOrder now uses the ControlFlow style (3d286c21a17d)
- Adds a Delay port on the While module (2b2648c08820)
- Makes log-related flags not fold-specific (954c984cca31)
From Release: v2.1 beta build 16ae99d82468 from v2.1 branch
Enhancements:
- Ticket #695: Parameter explorations should be migrated through upgrades if possible (29f072af3087)
- Start migrating parameter explorations through upgrades (29f072af3087)
- Ticket #690: PythonSource Port Type Completion Requires "Enter" (f19e8a6e222a)
- Display version id in version properties (6eb10d9e3bcf)
- Static mashup animations (d40c74b42abb)
- Animation support for Mashups (cc578f2009a7)
- pip should now work on all platforms where it is available (b90fdba57189)
- Added graphical sudo for OSX (b90fdba57189)
- Added IPython Console (57f54943a73d)
- Use PyQt API version 2 (5229204a2dce)
- Multi-line editor for String modules (ff7d78aa76e4)
- Progress Dialog for workflow execution (459f3d003393)
- Improve interaction between pipeline views and controller. (a3bcdf6cc7a2)
- Improve API (aa1dbcc5f34d)
- Add more robust tracking of untitled vistrails. (913ed56d9445)
- Add matplotlib upgrades and integrate new pkg with new identifier scehme. (79bcb5673781)
- Support package identifier changes. (f77b92758c07)
- Build up the API and refactor core application methods (de9cea46a623)
- More updates to matplotlib package (44dff52c4da2)
- Add port spec translation from schema 1.0.3 to 1.0.2 (616a1090bf4b)
- Incremental/Online Layout (80cb92674de6)
- Spreadsheet: "Find Version" and "Save Camera" now works for unsaved, closed, and "saved as" vistrails (24243fd207fc)
- DB support for Mashups (4e8da08d81b1)
- Support backward comaptibility for packages that have not been updated to use the "vistrails." prefix when importing. (6ca1d510a773)
- Updated persistence package to use dulwich, a pure python implementation of git (263b6f339e50)
- PROV document can now be exported using the command line (script) (5f0b04c049e5)
- Ticket #604: Add vistrail variable support to parameter exploration (04496edc9bfd)
- Added PROV entities for input and output data (ae52faaadfa9)
- Using Dublin Core metadata for PROV document (PROV exporter) (652099fe855d)
- New version of the PROV exporter (03a0a2785e89)
- First version of PROV exporter (9d32409c7118)
- Serializable mixin class for modules (895fab7db230)
- User does not need to create IPython controller manually anymore (ba7edbc30ca4)
- Added support for SSH IPython engines in parallel flow (1a56f69a18e6)
- IPython controller is stopped when closing VisTrails or disabling the package (704658297b0f)
- Ongoing work on the exporter for the PROV model (704658297b0f)
- IPython controller and engines are now started from VisTrails (4ec53425ca92)
- Added information about the machine from each IPython engine (8a361420a384)
- Map (parallel flow) can execute an outer subworkflow in IPython engines (949f9edb24df)
- First version of package 'parallel flow' (ac162d9e7ccb)
- Module / Group executions from the IPython engines are added to the provenance (518b3a4b1129)
- Added some modifications in the code to allow the execution of workflow in IPython engines (d89b7f9861ee)
- Forward error messages when connecting to other instance (0ad89de1cb2a)
- Add uniform method for building descriptor, port_spec strings (9633bb6c1365)
- Allow selected portions of the workflow to be relaid out (6f558cc3e697)
- Add option to nicely layout workflows automatically (15ff124c6652)
- runtestsuite now returns 0 for passed test runs (5d44f2879811)
- Ticket #606: Copy parameter explorations between workflows (b8a25bc9bac8)
- Updates to parameter explorations (696b83875d73)
- Ticket #603: Parameter Exploration from command line (d5f554fa40e0)
- Ticket #545: Make unset parameters accessible from the Parameter Exploration view (7b5cbe95bbf3)
- Ticket #547: Migrate parameter exploration persistence to schema and controller (7b5cbe95bbf3)
- Unset parameters can be used in parameter explorations (7b5cbe95bbf3)
- New schema for parameter explorations (7b5cbe95bbf3)
- Parameter explorations can be named (7b5cbe95bbf3)
- Parameter explorations are visible in the workspace (7b5cbe95bbf3)
- Parameter explorations can be accessed without the gui (7b5cbe95bbf3)
- Improve exception message for invalid port specification (c01407d42d7c)
- Improve error messages during package loading (2ea29738dd9b)
- API: VisTrailsAPI.execute() now accepts the same parameters in core VistrailController.execute_current_workflow() (012a7e828338)
- LaTex Extension: Added support for relative .vtl links in pdf and relative filenames in .vtl files (2329f7e6eb10)
- AutoConnect: when dragging a new module into a workflow, try to connect it (5d6475919bb3)
- Allow port_and_port_spec_match to match two port specs (e068f2a835e2)
- Ticket #555: Move package-specific missing package handlers (42131938cd0f)
- Support enumerations for parameters (571a24363dda)
- Add gui support for different port shapes (9f7e54780c7b)
- Show when ports are set by darkening the port (9f7e54780c7b)
- Add visual cues for the number of connections set/needed/allowed (9f7e54780c7b)
- Added port docstrings to the VTK package (49aa19ba2ce3)
- Updated port documentation (befd489265d2)
- Add schema support for max/min connections for ports (befd489265d2)
- Native schema for Vistrail Variables (201b489e1c26)
- Add load_package method to API (abbc89ef42dc)
- Add load_workflow method to api (5786189661b2)
- Automatically install PyQt4 on Fedora Linux (b11e69aafe2e)
Bug fixes:
- Fixed spreadsheet capturing keys in other windows (aad252798fe6)
- Fix issues with completions in port tables (f19e8a6e222a)
- Ticket #692: Parameter exploration schema logic invalid (44a29f0422b8)
- Fix translation bugs between schema versions. (6643e4dd610d)
- Ticket #693: Issue with PortSpecItem ids (16413b49c806)
- Fix ids on PortSpecItems (16413b49c806)
- Ticket #691: Executing a parameter exploration without the spreadsheet fails (48ccd5a64f54)
- Ticket #689: Mashups preview broken (3ea331e01abc)
- Refactor get_pipeline_name calls and remove substring hacks (3d8a9c875288)
- Fix QChar issue with parameter exploration (e07da85567a6)
- Fixed invalid current_view causing setCurrentWidget to fail (c93061c00bcb)
- Job Monitor: Could not run more than one job job in the same vistrail (609f09df5ce4)
- Job Monitor: Could not delete job other than current pipeline (609f09df5ce4)
- Job Monitor: Job for current pipeline was not stored on shutdown (609f09df5ce4)
- Looping over a failing PythonSource caused logger to fail (3bdf9620dd00)
- Ticket #678: Relational DB support for schema v1.0.3 broken (d54eb24cba1f)
- Fix issues with PortSpecItem (d54eb24cba1f)
- Ticket #680: Package configuration broken (20ba5b110fae)
- Fix broken clipboard check for paste (a6d1cc7c840c)
- Use codepath when identifier is not enabled when warning for old style imports (6a7f4a99a0c7)
- Disabling a package did not select it in the Available Packages list (8f50dcf2d941)
- Fixed vistrails->crowdlabs in latex/example2.tex (a95605ef12ab)
- Module: controller was not set in default moduleInfo (7360a90e23cd)
- Ticket #675: save_from_gui() is broken (482624c80e2e)
- Fix issue with saving untitled vistrails (482624c80e2e)
- Fix typo in application's convert_version (1866ec46e5ec)
- Logging fails when Group executed by Map fails (fcb6d4b1b637)
- VisTrails Server: fixed generating a pdf from a vistrail tree (0a3d02e92b48)
- Ticket #668: Commit 6cf6920 broke API tests (76887e74224e)
- open_many_from_db should not be used with pre 1.0.2 schemas (e2b247f2c588)
- Updated latex example files to use crowdlabs instead of vistrails.org (0314ecf38606)
- Fixed generating an image of workflow graph from the command line (3f40090c5e12)
- Images in thumbnails are now sorted by cell location (498081d7cdc5)
- Errors in package dependencies method caused VisTrails to fail on startup (1adc3d25bf73)
- Fix issue with intermediate persistent files not being found in the store when a uuid is already assigned. (72c89f5aa6ca)
- Fix earlier noted issue with importing the registry in create_instance_of_type (78df1961b099)
- Fix some issues with Windows paths and locators. (2e2c35df7dcf)
- Ticket #662: VistrailController constructor does not set _current_full_graph (a3bcdf6cc7a2)
- Push controller constructor calls through set_vistrail (a3bcdf6cc7a2)
- Don't generate an error when a user attempts to drag a module into a non-pipeline view (f7abe1fd73b9)
- Ticket #664: Debug Message Fails with AssertionError (5008bf52a105)
- Ticket #661: Controller's current_version=-1 causes issues (c69b430e1701)
- Fix issue with inconsistencies when current_version=-1 (c69b430e1701)
- Ticket #590: Packages are not updated when userpackages dir is modified (88480456e2cf)
- Fixed bug in matplotlib cell resizing (bbe9a6078797)
- Vistrail Variable list was changing while being iterated over (99e60cf4dccf)
- Saving log to prevoius version failed (d56da92fa406)
- Fixed update_db script to work with master (04968e309d94)
- Allow reading different versions of subworkflows from DB (c5a33a0b8ead)
- Fixed loading wrong abstraction DB version (06a06be04889)
- Fixed trying to write empty workflow list to DB (06a06be04889)
- PipelineView: Execution exceptions were not caught which caused jobView to lock up execution (3b460bdb7c95)
- Mashups: controller_changed caused widget to be redrawn even when the controller did not change (801c3b8e58a8)
- Ticket #656: Control Flow Wizard is broken (95275d116c24)
- Fixed deleting mashup alias using Del/Backspace key (1d68ccf02f81)
- color picker widget gets orphaned in the alias inspector (1d68ccf02f81)
- Fixed bug on PROV exporter (f7675297ad23)
- Fix issue with Mac binary and the vistrails.py sys.path changes (09840f6c815b)
- Save log to xml action was not enabled in menu (dbc83ce34917)
- Ticket #641: PersistentInputFile not recognizing changes in the file contents (4f85d3d25ab9)
- Fix issue where file changes were not being recognized (4f85d3d25ab9)
- Ticket #639: Package details are not updated when a disabled package is selected in preferences panel (a251d6fe54a0)
- Execution of workflows in IPython engines (ba7edbc30ca4)
- Groups and Subworkflows can now have their execution log annotated (d89b7f9861ee)
- Ticket #635: Error translating from schema 1.0.2 to 1.0.3 (5fbdbe702dcb)
- Fix issue with whitespace between port spec items (816094bc7d64)
- Ticket #577: Publish window always shows grayed out snippet (fc9c5e5e11ce)
- Ticket #633: Automatic package download is not working on master (bce780145a5c)
- Ticket #626: Passing parameters to single instance still opens second instance of VisTrails (0ad89de1cb2a)
- CLTools: Modules were not reloaded after reloading scripts (283f8b57166b)
- CLTools: "env" option was not reset in wizard when loading other tool (283f8b57166b)
- Server mashup request need to use db user with write access (81c51908662c)
- MissingPackageVersion exceptions need to be tied to specific modules (5d13c3e8292b)
- Ticket #629: Issue with namespace (63a696d66c3b)
- Fixed issue with reloading packages with namespaces (63a696d66c3b)
- Allow only a single MissingPackage exception to be included in an InvalidPipeline container exception (a1401ec6afbb)
- Fixed typo with ghosted pen color (a0bdae3f8c4a)
- Ticket #627: Duplicate enable package messages (fb21c5c5e4b0)
- Fix errors in parameter exploration when viewing invalid pipelines (fb21c5c5e4b0)
- Do not emit errors from the query view when the selected version changes (9e1eb696ce67)
- Ticket #617: Hard import from the v1_0_0 schema in opm.py makes it fail with other schemas (1c7b21fab942)
- Fix OPM import (1c7b21fab942)
- Windows: Saving vistrail zip xml fails when zip.exe cannot be located (d80fbb746549)
- Ticket #624: unix /bin/ls check fails on fedora 17 (bcd044c4ff75)
- runtestsuite.py should not care about empty string arguments (f417c703c364)
- Fixed typo in parse/update for parameter types introduced in recent commit (133102abe14f)
- #623 (133102abe14f)
- Fixed issue with connecting tuple ports in the API (5eddcc1a9e47)
- Ticket #621: Hidden ports that are used in connections are not set to visible (e40295454a40)
- Fixed visibility of a connected port in ports panel (e40295454a40)
- Fixed issue when connecting modules (2811ba5d4ff3)
- Fixed documentation file of CLTools that was causing a failure when building the pdf version of the usersguide (a0c19535e7d6)
- Ticket #618: Open Workflow from DB missing in file menu (61619a425285)
- Ticket #614: test_abtraction_create fails in test suite (6885385a769d)
- Preferences sometimes tried to set up a removed package (5d44f2879811)
- SplashScreen was never deleted (5d44f2879811)
- Ticket #613: triangle_area.vt fails on the map operator (ad4b579121c2)
- Fix bug with obtaining port spec signature (ad4b579121c2)
- Ticket #612: User-defined parameter exploration editor is problematic (7512a2d05434)
- Fix issue with modified group signatures (b542543e1332)
- is_running_gui missing in VistrailsServerSingleton (557586218e5a)
- Fixed issue where OPM export could not resolve ports in parent modules (d084c5742ffb)
- SUDSWebServices did not handle empty configurations correctly (0cfe904c59f4)
- Ticket #583: CLTools: sometimes a module called CLTools is displayed (f2d755b24f53)
- Empty packages could not be reloaded (f2d755b24f53)
- PortSpecItem schema did not work on MySQL (b7556465275b)
- Parameter Explorations were not being converted correctly from 1.0.2 (b7556465275b)
- Parameter Explorations were not being loaded from database correctly (b7556465275b)
- Saving a Vistrail failed when package manager was not available (b7556465275b)
- Ticket #601: Connection port compatibility should be checked at a lower-level (f984fd5087c0)
- Check port compatibility at controller level (f984fd5087c0)
- Ticket #602: core api does not work in console (1d965a2cf952)
- Add missing methods to GUI application (1d965a2cf952)
- Ticket #599: Missing defaults cause exception when adding a function (a98e0a7962c8)
- Ticket #594: Defaulted booleans added twice (ef684f869d62)
- Fix duplicate boolean values when using defaults (ef684f869d62)
- Update color of cached modules correctly and reset colors on re-execute (48981ae5cfbe)
- Do not set module color back to active after it has been run (4f55071bb133)
- Ticket #591: User-decorated modules do not change color during execution (86fe5d0ad9a1)
- Module status brushes are checked first when setting the color of a module (86fe5d0ad9a1)
- Ticket #592: Dragging a Group module into a pipeline causes an invalid pipeline error (bb2f60099e4c)
- Guard against empty group modules (bb2f60099e4c)
- Spreadsheet package: Checking if the GUI is running before trying to initialize the package. (c9d20070140c)
- Catch exceptions when selecting invalid modules (3c3a6755adfa)
- Ticket #586: Selecting an invalid module raises exceptions (cb6c5b161c57)
- enabling/disabling package did not invalidate pipeline (1a280b63a745)
- Ticket #585: Failed reloading of a package does not invalidate modules (057f031ee4c3)
- Fixed issue where modules were not marked as invalid before validation (057f031ee4c3)
- Ticket #584: Enabling a package adds it to the enabled package list even if there are errors (11125174c7ff)
- Fix issues with package list in preferences (11125174c7ff)
- Unselect port on mouseReleaseEvent (56f2d9aedf37)
- SUDSWebServices: Offline Mode by storing WSDL in .vt file was not portable (eba546527401)
- SUDSWebServices: Typo in handle_missing_module caused packages with wrong names (eba546527401)
- Ticket #575: Vistrail variables panel has an overdraw problem (52c864c3ddb2)
- Ticket #576: Analogies are only displayed if we change the focus out of VisTrails to another application and back (8c023062c639)
- Ticket #539: Standard Module Configuration Widget asks to save when two ports are enabled (c9d5d03962b2)
- Configuration widgets will prompt to save only when the current module change, making it easier to copy text from another application (c9d5d03962b2)
- Ticket #569: Connected icon in Module Information does not disappear after removing connection (11e93fd142cb)
- Loading an image from workflow graph or a version tree was not working in the command line (2329f7e6eb10)
- Workflow results that used a VTKCell were consisting of a black screen when running in batch mode (49adb4fd6b5d)
- Ticket #487: isosurface script version of terminator.vt causes vistrails to crash (76de9f741635)
- Ticket #540: Vistrail is not always marked as changed when containing a vistrail variable (49cb21769a83)
- Ticket #563: Temporary connection does not appear second time you create the same connection (3bd812f9cd6c)
- Fix issue with temporary connection disappearing (3bd812f9cd6c)
- Ticket #546: Selecting a version selects the text box instead of the version ellipse (a19863118684)
- Ticket #550: Workspace state_changed is slow (bd734eb57838)
- Ticket #553: Suspended module does not execute on second run even when notcacheable (8eb9f8d11575)
- Parameter Exploration only worked on parameters from the Basic Modules package (75cca6574d0e)
- Fixed minor issue with PortSpec shape and docstring attrs (aebf4f84b052)
- Ticket #418: The database schema should use larger data types (75c7c6c89fdf)
- Bug in translation from 1.0.3 to 1.0.2 (75c7c6c89fdf)
- Fix issue with configure item grabbing mouse. (479a29491abc)
- Removed capitalized methods from ports in VTK (49aa19ba2ce3)
- Parameter Exploration: Changed call to update the progress bar to be thread safe (b9942f416fe1)
- Mediawiki extension: fixed undefined variable (d3d68b1c53ab)
- WorkflowExecution.completed were set to False in the vis_log, it should be an int. (50a2a68e177a)
- DBVistrail.hash*Annotation() fails when annotation values are ints (3d7f1b9cc078)
- Fixed path_to_figures and get_wf_graph_ calls in application_server (6df2c53cc880)
- Do not import VTKCell unless we have the spreadsheet (a8b7c8345ee9)
- HTTP Package now respects alternate dotVistrails setting (88b53249d96d)
- The create analogy button is too small (65be8388e906)
- "Show raw pipeline" and "construct from root" commands should switch to the pipeline view (dc2deb9ed6e0)
- Fix command_line argv dependency (5786189661b2)
- Mashups: slider and numericstepper widgets are only displayed for numeric aliases (3b8c4f954bce)
- Mashups: Validating Min Max and Step edit boxes so they accept only numbers (3b8c4f954bce)
From release: v2.0.2 build 3813fdd2573b from v2.0 branch
Enhancements:
- Added animation support to matplotlib/pylab (38fb971b6305)
- Job Monitor Improvements (af8f43039c94)
- Job Monitoring Tool View (3c43a8c5b3b7)
- Add support for customizing which packages are (not) reloaded (91e18f8749a0)
- Testing: Validate Workflows by comparing old and new thumbnails (401588f3bfdb)
- Added saving/loading SubWorkflows to/from the DB as part of a vistrail bundle (0704f03b2011)
- Ticket #628: Set the path to the vistrails tmp dir (f07b3223d16d)
Bug fixes:
- Saving log to previous version failed (e66941c40e22)
- Opened vistrails were not selected (14415ac3c709)
- parallelflow: Do not deepcopy module dict (e66a6a3713ec)
- Fixed matplotlib spreadsheet cell resizing issue. (45f803f0763c)
- API: return result after execution (aec0ed019ac5)
- Job Monitor icons were set incorrectly (d5e332c4e410)
- Job Monitor did not delete job when vistrail was closed (d5e332c4e410)
- Workspace: Sometimes selecting an open vistrail does not select it (e1f57079d0fd)
- Ticket #651: Function remap upgrade operations performed in incorrect order (6aaa72017fa8)
- Fix ordering in function remap (6aaa72017fa8)
- Ticket #648: 'OutputPort' object has no attribute 'module_exec' (c9847fc14bb9)
- Ticket #647: ModuleSuspended does not work inside Groups (c9847fc14bb9)
- Ticket #645: Document py_import in dev guide (bf9a58708fa2)
- Ticket #646: Reloading packages fails in some cases (91e18f8749a0)
- Fix issues with package reloading (91e18f8749a0)
- Fixed broken mimetypes on Windows (9aa51dd35301)
- Ticket #643: cannot open workflow triangle_area.vt (67726aceba3b)
- Ticket #625: Improve crowdLabs upload interface (7389abac0902)
- Added DB version map 1.0.2->1.0.3 needed when downgrading the log (172301ad3858)
- Saving abstractions do DB was missing version translation (45ebc5afa303)
- Removed faulty import DBProvModel (6727b6ee2fe8)
- Ticket #619: Create Analogy does not work on spreadsheet (39df0813e11c)
- Fix issue with analogy api in the spreadsheet (39df0813e11c)
- Ticket #638: Re-execution of SubWorkflow is missing parameters (294574341168)
- Fix issue with subworkflow caching (294574341168)
- Ticket #634: Package Documentation says port sigstring can contain spaces (dfc9db1f4dc5)
From release: v2.0.1 build 5e35e2b83b90 from v2.0 branch
Enhancements:
- ALPS package: Updated to version 2.1.1 (4741aa04a9d7)
- Support import of schema v1.0.3 (94bb430fa0f0)
- CLTools: Preview command line arguments and module ports (6c737e297a60)
- CLTools: Reload modules from the wizard (6c737e297a60)
- CLTools: Add env port using wizard (6c737e297a60)
- CLTools: Extended documentation (6c737e297a60)
- CLTools: Ability to specify fixed environment variables for modules (6ece9152e511)
- CLTools: Write changes in environment variables to execution log (6ece9152e511)
- Added server function for seeing and enabling/disabling packages (1b7ad7717b31)
- CLTools: Ability to set working directory (cbf02c561ccd)
- CLTools: New arg type inputoutput that enables files be used as both input and output (692e3ce05961)
- CLTools: You can now specify file endings for output files using the suffix option (692e3ce05961)
- Ticket #582: CLTools: should support other types (c3b49457c3a5)
- Added single instance check as a configuration option and a command line option (4032ca504171)
- Improved exception message for invalid port specification (431802313d43)
- Improved error messages during package loading (4175f8c09b4d)
Bug fixes:
- Added the missing v1_0_3 directory for schema v1_0_3 support from master branch (916cf9162df8)
- FileHooks for DBVistrail types should be skipped (94bb430fa0f0)
- Check if package has been removed before setting package information (94bb430fa0f0)
- CLTools: Modules were not reloaded after reloading scripts (6c737e297a60)
- CLTools: "env" option was not reset in wizard when loading other tool (6c737e297a60)
- Server mashup request need to use db user with write access (af73f32d44c0)
- get_vt_graph_png was broken (af73f32d44c0)
- Ticket #617: Hard import from the v1_0_0 schema in opm.py makes it fail with other schemas (2fefff447711)
- Fix OPM import (2fefff447711)
- Windows: Saving vistrail zip xml fails when zip.exe cannot be located (32bd4aa03c3b)
- Ticket #624: unix /bin/ls check fails on fedora 17 (ee2cd7d1f6c3)
- Ticket #621: Hidden ports that are used in connections are not set to visible (4cb7b1758bac)
- Fixed visibility of a connected port in ports panel (4cb7b1758bac)
- Fixed documentation file of CLTools that was causing a failure when
building the pdf version of the usersguide (3899208009dd)
- is_running_gui missing in VistrailsServerSingleton (272006002712)
- Ticket #618: Open Workflow from DB missing in file menu (8e413fc8f504)
- Ticket #614: test_abtraction_create fails in test suite (2315d8e92026)
- Ticket #583: CLTools: sometimes a module called CLTools is displayed (11107c05a73a)
- Empty packages could not be reloaded (11107c05a73a)
- Ticket #612: User-defined parameter exploration editor is problematic (deab533c7302)
- Fix issue with modified group signatures (cd8e2467903b)
- Ticket #464: VTK Package does not support VTK 5.10 release (65462fd17800)
- Fixed issue where OPM export could not resolve ports in parent modules (cdc1a53bf496)
- Fixed issue where modifying a defaulted parameter caused a second copy of the parameter to be added (d6924b42d821)
- Ticket #602: core api does not work in console (ac85e1935819)
- Add missing methods to GUI application (ac85e1935819)
- Ticket #594: Defaulted booleans added twice (e90af069e58a) (d6924b42d821)
- Fix duplicate boolean values when using defaults (e90af069e58a)
- Update color of cached modules correctly and reset colors on re-execute (421ef3182f7b)
- Do not set module color back to active after it has been run (1f6ea4ff45e3)
- Ticket #591: User-decorated modules do not change color during execution (c53334a5e412)
- Module status brushes are checked first when setting the color of a module (c53334a5e412)
- Ticket #592: Dragging a Group module into a pipeline causes an invalid pipeline error (cd8b62b219a6)
- Guard against empty group modules (cd8b62b219a6)
- Spreadsheet package: Checking if the GUI is running before trying to initialize the package. (a71954b1639a)
- Ticket #586: Selecting an invalid module raises exceptions (225f057294dd)
- Catch exceptions when selecting invalid modules (225f057294dd)
- enabling/disabling package did not invalidate pipeline (a363ed3f0151)
- Ticket #585: Failed reloading of a package does not invalidate modules (46a6204cbab4)
- Fixed issue where modules were not marked as invalid before validation (46a6204cbab4)
- Ticket #584: Enabling a package adds it to the enabled package list even if there are errors (0593aad10533)
- Fix issues with package list in preferences (0593aad10533)
- SUDSWebServices: Offline Mode by storing WSDL in .vt file was not portable (6fa03241e9c6)
- SUDSWebServices: Typo in handle_missing_module caused packages with wrong names (6fa03241e9c6)
From Release: v2.0 build 240bcab5bbcd from v2.0 branch
Enhancements:
- Ticket #424: SUDSWebServices should store the WSDL spec in the .vt file to enable upgrades (88f616a741de)
- Packages can store files in .vt zip files (88f616a741de)
- .vt files using SUDS Web Services can now be edited offline (88f616a741de)
- CLTools: package menu option for reloading all scripts (3c83b7101bc0)
- CLTools: added Open Wizard to package menu (1f19d0a7339a)
- Added CLToolsWizard.command file to Mac Binary (99adfd823a2d)
- Ticket #430: use of absolute file names can be problematic in vtl files (2b731d8d5043)
- LaTex Extension: Added support for relative .vtl links in pdf and relative filenames
in .vtl files (2b731d8d5043)
- Package requirement for the job submission package (77f3f1761f92)
- Ticket #519: Executions in Version View that fail should change to pipeline (cea08c6e25d9)
- Switch to pipeline view if an execution fails (cea08c6e25d9)
- Ticket #557: Password dialog (f9739db121c4)
- Ticket #559: Persistent modules do not work in groups (4ef2b8639b6d)
- Allow modules in subpipelines to be cached (4ef2b8639b6d)
- Added alps package to VisTrails 64-bit Windows Binary (519d862a63f5)
Bug fixes:
- Ticket #575: Vistrail variables panel has an overdraw
problem (c4171c8aab63) (09815c35efb8) (7ca53292670a) (07fdeb8602a7) (45a4818a0b5c)
- Ticket #404: Overriding a port via add_*_port does not work (47e72744ede1)
- Ensure add_*_port can override ports in superclass port lists (47e72744ede1)
- Ticket #523: Default values for parameters not showing (e3f1b1a3253f)
- Add default support back in (e3f1b1a3253f)
- Fixed spelling in repository.py (6c2259e84214)
- SUDSWebServices: Wrong indentation caused vistrail save to fail (5497e50c727f)
- Ticket #576: Analogies are only displayed if we change the focus out of VisTrails to
another application and back (d782197a1cab)
- Fix issue with redrawing the tree after analogies (d782197a1cab)
- Running instance was not accepting parameters from another instance (63b58b8416d0)
- Ticket #464: VTK Package does not support VTK 5.10 release (3e3700900ad0)
- Ticket #445: mashup previews is not always shown in the main window (9111971ce8c6)
- Now persistent cache works after one execution (87e8ff129b88)
- Ticket #573: Opened vistrail fail when reloading dependent package (b1ff731d904a)
- SUDSWebServices: Failed Web Services could not be removed (b1ff731d904a)
- Execution button may hang when execution fails (b1ff731d904a)
- Ticket #571: Vistrail variables cannot be used in more than one workflow (02f2acee1727)
- Fix issue when setting a vistrail variable on multiple modules (02f2acee1727)
- Ticket #574: Cannot add variable to empty detached Vistrail Variables window (4ae4f3d9c582)
- Fixed issue with creating vistrail variables in an undocked panel (4ae4f3d9c582)
- Ticket #539: Standard Module Configuration Widget asks to save when two ports are
enabled (154525da1047)
- Ticket #521: Annoying PythonSource behavior (154525da1047)
- Configuration widgets will prompt to save only when the current
module change, making it easier to copy text from another application (154525da1047)
- QVistrailsWindow.get_current_view() was returning the wrong view sometimes (154525da1047)
- CLTools: IOErrors when executing process (d810075f00a6)
- Fix issue with analogies that also require upgrades (215ceae6ef1f)
- Fix typo (50da981b6938)
- Fix issue with remove vistrail variable modules and connections (c3183771c5ea)
- Ticket #569: Connected icon in Module Information does not disappear after removing
connection (9a68ec624c9d)
- Fix issue with connected indicator for ports (9a68ec624c9d)
- Eliminate duplicate warnings (f6020fa412bb)
- Use lil_matrix for analogies (f6020fa412bb)
- Modify logic of analogy usage to use current selected version (f6020fa412bb)
- Ticket #419: Analogies fail on new terminator.vt (83c7735b0d28)
- Change analogies to use a suitable default alpha value (83c7735b0d28)
- Ticket #567: CLTools has issues reading man pages on Mac OS X (cdb5368df6fc)
- Ticket #370: dataDirectory setting not used (73fe930b49ff)
- Loading an image from workflow graph or a version tree was not
working in the command line (2b731d8d5043)
- Workflow results that used a VTKCell were consisting of a black
screen when running in batch mode (80d55defb140)
- Ticket #551: Cannot access messages window when preferences window is open (cc8fa8e6ad8a)
- Ticket #487: isosurface script version of terminator.vt causes vistrails to
crash (02caf56e6c0e)
- Ticket #564: Invalid view warning (3b2062c17cb0)
- Ticket #552: No visual clue when ubuntu package finishes installing (2f78b1b1d749)
- Ticket #540: Vistrail is not always marked as changed when containing a vistrail
variable (7acddff31ff1)
- Ticket #566: QPixmap scaled error message (c6842a9fa320)
- Fixed QPixmap scaled issue (c6842a9fa320)
- Ticket #517: Undo menu item not working (a7b574defe31)
- Fix undo/redo in pipeline view (a7b574defe31)
- Fix issue with executions of untagged versions (36c1a73a46ae)
- Ticket #560: Workspace has very inefficient updates (51a4e7982bb7)
- Workspace: made loading mashups more efficient (51a4e7982bb7)
- Ticket #562: "Save as" replaces items from workspace (d8fa58ccd9c0)
- Ticket #560: Workspace has very inefficient updates (3dfac92ab688)
- Partial fix to make workspace more efficient (3dfac92ab688)
- Ticket #565: Version labels in query results are not gray (22e9920d1ea0)
- Fix colors in query results view (22e9920d1ea0)
- Ticket #504: The Query's refine option doesn't do anything (1fce254de2c5)
- Reenable refined version tree in the query view (1fce254de2c5)
- Ticket #532: Edit Package Abstraction Error (7c03b6999125)
- Fixed issue with error message for editing package subworkflows (7c03b6999125)
- Ticket #541: Crash when detaching ModuleInformation dockwidget on Mac (72c7afc3a95e)
- Fix crash on undocking module info palette on Mac OS X (72c7afc3a95e)
- Ticket #546: Selecting a version selects the text box instead of the version
ellipse (5a7df50dd899)
- Make version tree selection more intuitive (5a7df50dd899)
- Ticket #538: Pipeline Connection Drawing? (ed11bdfffa54)
- Fix connection drawing issue on Mac (ed11bdfffa54)
- Ticket #558: Group signatures cannot be based only on interface (4ef2b8639b6d)
- Fix issue with caching group modules (4ef2b8639b6d)
- Fix initial layout of matplotlib cells (3a8d5c7c3d62)
- Decreased level of debug message when removing elements from Thumbnails cache (18531d5fb280)
- Ticket #534: Mashups hang with auto-update on (1472b6ba7f32)
- Ticket #550: Workspace state_changed is slow (1ed823ecbb96) (b75607ea9271)
- Ticket #556: Path to zip.exe not set correctly (d0389bec6df6)
- Fix logic in identifier checks in package manager (1882ed36cd76)
- Ticket #554: Port labels not displayed (a9454abc238a)
- Add missing port labels to ports panel (a9454abc238a)
- Ticket #553: Suspended module does not execute on second run even when
notcacheable (3e22759385d3)
- Ticket #549: update_db.py script does not work (fb5ad0eb480a)
- Parameter Exploration only worked on parameters from the Basic Modules
package (99969b93ece2)
- Autoloading a SUDS Web Service no longer produce error messages (c079bd9c52db)
- Ticket #513: Add detachHistoryView back (08bec17e40e6)
- Ticket #543: Changes to persistence module configuration doesn't work (d03382c67e1d)
- Fix issue where reconfiguring persistent modules caused unexpected behavior. (d03382c67e1d)
- Show error message when trying to open a vistrail with a newer schema version (32f47804b6c7)
- db_log_filename was not unset correctly for db cache (8fccb74ecab3)
- Ticket #531: Export To Stable Version menu does not work (1b742a9f70cc)
- Export to DB did not work (1b742a9f70cc)
- Reloading a vistrail from the database gave it the name "None" (1b742a9f70cc)
From Release: v2.0-beta build 2d428fbd26cc from v2.0 branch
Enhancements:
- Mashup View: Added float slider (b5d481049666)
- New module execution state suspended added (cb47d3fc66b7)
Bug fixes:
- Parameter Exploration: Changed call to update the progress bar to be
thread safe (716501f8b2fd)
- Fixed bug in iceCream.vt example (929ddcaa504a)
- MySQLdb was not being shipped correctly in Mac binary (e50f1c91b3e8)
- Mashup View: integer slider did not set step size correctly (b5d481049666)
- Cached interpreter failed when handling wrong input type (b5d481049666)
- Mashup View: failure when handling errors in execution that does not use the spreadsheet (b5d481049666)
- Fixed qt.conf problem in installer script files on Windows. (a01fabd12456)
- Fixed arguments of get_wf_graph_png rpc call (7cc451bdb606)
- updateUpstream* failed when modules did not contain the suspended attribute (256f4b4dd8a5)
- Mediawiki extension: fixed undefined variable (334083cc69e1)
- WorkflowExecution.completed were set to False in the vis_log, it should be an int. (cb47d3fc66b7)
From Release: v2.0-beta build 10836452c19a from v2.0 branch
Bug fixes:
- Fix issue with deleting modules and connections (10836452c19a)
- VTK package: fix problem when upgrading vtkCellArray.InsertNextCell input port (e29a873af4a1)
- Ticket #525: The create analogy button is too small (bf61e06b0a50)
- Ticket #526: "Show raw pipeline" and "construct from root" commands should switch to the pipeline view (3ada5972d872)
From Release: v2.0-beta build b074d3a4eb44 from v2.0 branch
Enhancements:
- Added VisTrails Server documentation (611f2082f98d)
- Add more functionality to core.api (26c775f0a7bb)
- Ticket #518: Need to fix VTK ports with no parameters (9a985c40f6a2)
- Add separate workflow and log xml schemas (04cb36cc5305)
- Added support to hardcode necessary packages on startup (834e28f7cfa4)
- CLTools: Added enviroment variable and default directory support (5a6e1b0daba3) (7c9a113040c2)
- Add operation ids to messages about illegal operations (087b235e32de)
- Remove most PyQt4/gui dependencies in core functionality (e6ada340cc15)
- Ticket #55: Spreadsheet should have more shortcut icons (5f4db41dc8f2) (127037be178f)
- Ticket #284: Capturing Module Errors (60c055eff8f5)
- Display module toolTip errors in module stack trace dialog (60c055eff8f5)
- Wizard for CLTools - gui for wrapper creation (a7a1db436fd0)
- Added support for html and mediawiki extensions to
access a remote vistrails server (dd7456507ab4)
Bug fixes:
- Mashups: editing an alias' values list had no effect (c485a7433dde)
- Mashups: slider and numericstepper widgets are only displayed for
numeric aliases (c485a7433dde)
- Mashups: Validating Min Max and Step edit boxes so they accept only
numbers (c485a7433dde)
- Accessing Module Annotate from context menu did not work (ac100b566d84)
- Fixed problem where unrequested vistrail temporary files were being created during test suite (445e2b68d9e6) (1a539cad8a9a)
- Fix issue with alternate .vistrails directory and its subdirectories (7d26c36ef77a)
- Fixed MissingRequirement path and ubuntu detection (11dd911b66a3)
- Ticket #528: Install bundle fails with the new core_no_gui changes (87f9e83772ea)
- Rendering version and workflow view in server failed because of new gui in 2.0 (e149aa955dd5)
- save_many_to_db failed when list of objects were empty (ed257eb2d523)
- Vistrail server need to initialize theme after core_no_gui changes (c4d2809d9a09)
- Fixed server mode after merge with core_no_gui (4c2cad40c30f)
- Ticket #522: remove_connection failure (cc038a500e3c)
- Fix for remove_connection issues (cc038a500e3c)
- Fixed issues with tabbing in the python editor (c046c86bf0af)
- Fixed issue with vtkInteractionHandler which was not updated when the Save/Revert changes were made to source widgets (8abbfb8a51e9)
- Allow zero-parameter functions to be set from ports panel (9a985c40f6a2)
- Fixed issue with forced versions on modules (4ae602caa09e)
- Fix issue with merging thumbnails (5bcaa7e75c6d)
- Fixed typo in core.application's register_notification (42c7ae6b0e25)
- Argument error caused gui/vistrail_controller test to fail (e447e02b37ca)
- CHEBI wsdl changed (a7f1ab43159d) (6e00beb17ce6)
- Removed matplotlib backend selection warning (23a6e3a89001)
- Dragging a version directly on a spreadsheet cell was not executing
the workflow (3395a01a2139) (66d49a064e59)
- Fixed unable to display jpeg images in the spreadsheet
due to a wrong Qt plugins configuration (a6a1950024a7) (333456765278)
- Display more meaningful error when persistent inputs do not exist in a repository (1c905da96eb1)
- Fix issue in ModuleDescriptor.expand_descriptor_string (7b973b4a4aeb) (35f1feb4d853)
- Add icons to CLTools so that they not only work on X11 (a6a08bc1dd4e) (69110931c4e3)
- SourceConfigurationWidget silently fails when code contains
non-ascii characters (0c020878edf3) (768fc8ed4df5)
- MultiHeads configuration was not working on 2.0 (669957620bdc) (07e9672e6186)
- Ticket #513: Add detachHistoryView back (f238870a17fe) (38a3b95d1b5d)
- Added back detachHistoryView option (f238870a17fe) (38a3b95d1b5d)
- Removed configuration options that are only used in non-interactive mode
from Expert Configuration (bb0046fe6f49)
- Ticket #515: opening a specific version from the command line does
not work (20ab44a5a4ce) (468fe95d351f)
- Fixed opening a specific version from the command line (20ab44a5a4ce) (468fe95d351f)
- Ticket #512: Add how to create alias to users guide (83e49a3d487b)
(d56e02d30133) (a6249193e674) (f5b881191441)
- Ticket #421: db version import error handling (a6eb8ae65052) (6ac6c0abec6e)
- Detect between when a db version is missing and when it contains
an error (a6eb8ae65052) (6ac6c0abec6e)
- Ticket #391: Module colors in Visual Diff are wrong after upgrades (6b16033351a9) (c28166f2110b)
- diff view did not use correct brush for non-upgraded modules (6b16033351a9) (c28166f2110b)
- autosave feature caused "new file" action to fail (9b19a0fc5193) (6c49e4329b8a)
- Ticket #511: "export workflow as xml" adds extension as "..xml" (two dots) if
not explicitly specified (39d605e721e5) (fb2061eec506)
- get_save_file_locator_from_gui was adding two dots (39d605e721e5) (fb2061eec506)
- SpreadSheet: prompt the user to save unsaved vistrails before trying
to save a spreadsheet (d296dae6e508) (5e29113d0694)
- Ubuntu Unity did not restore menu bar after being closed (3d702340c1fa) (719ad4dd22b5)
- Param Exploration User-defined function did not work because of new python
editor interface (8354a9340944) (0f62ec4023c7)
- Ticket #510: The Spreadsheet can't open/save spreadsheets (9259d3b8d619) (ae73b7e48971)
- Ticket #194: Copy and paste duplicates aliases (7419092665c4) (27ee5e68a7e3)
- Ticket #480: Executions button doesn't work (c6a9a6ac15cf)
- Ticket #500: Double-clicking the Execute button causes VisTrails to Hang (e024a352c6ce)
- Double clicking execute button no longer hangs vistrails (e024a352c6ce)
- Ticket #508: Add port documentation back to ports panel (01f189a1a184)
- Ticket #505: Version notes are not always visible after an upgrade (d16b3c834c47)
- Issue correct version_selected signal after upgrades (d16b3c834c47)
- Ticket #502: change_selected_version causes key error in adjacency_list (25104a599816)
- Ticket #472: parameters in parameter exploration are reset if not executed (d07bcbd5104b)
- Parameter exploration with Color Constant was not working (b0e0da8cc61b)
- Ticket #462: Ungrab mouse error after editing subworkflow (2ffac0767f88)
- Ticket #432: Problem with labeling groups (2ffac0767f88)
- Allowing opening vistrail files that contain mashups. Mashups will be ignored (7d568fec386f)
- Ticket #454: Can't interact with TransferFunction widget using Qt 4.7.* (f897a8e68285)
- Fixed header placement in xml files that were causing tests to fail (a76060081c31)
From Release: v2.0-alpha build c4e3600b6481 from v2.0 branch
Enhancements:
- Wizard for CLTools - gui for wrapper creation (de5fbcd6144a)
Bug fixes:
- Ticket #508: Add port documentation back to ports panel (d83b2637f5b5)
- Ticket #502: change_selected_version causes key error in adjacency_list (815d38ff608a)
- Ticket #472: parameters in parameter exploration are reset if not executed (829303e1efeb)
- Parameter exploration with Color Constant was not working (ecfbedcd4406)
From Release: v2.0-alpha build 1b88c3949efd from v2.0 branch
Enhancements:
- VisTrails now requires Python 2.7.*, Qt 4.7.*, sip 4.12.2 and PyQt4 4.8.4 to run
- Reworked VisTrails interface. Added Workspace palette where user's vistrails
are kept. Users can open multiple pipelines in different tabs that are
detachable.
- In addition to Pipeline, History, Query and Exploration Views, new views were
added, including Provenance and Mashup views. The Provenance view displays the
execution logs of a vistrail. The Mashup view allows creating simple
applications based on workflows by exposing only the relevant parameters.
See the VisTrails manual for detailed instructions.
- Merged the "Methods" and the "Set Methods" panel into an improved
"Module Information" Palette. Now port visibility, connectedness, and
parameters are shown in a single display. Thus, for module types without
special configuration widgets, there is no need for a separate configuration
window.
- CLTools - package for wrapping command line tools (3ac68958d3db)
- Expand search results to include all open vistrails (b2a069e38956)
- Opening exported mashups using Open menu will execute them automatically (48cefab0a019)
- Added support for exporting a mashup to a .vtl file. To export a mashup, just
click the "Export" button in the mashups inspector. Double-clicking the .vtl
file will execute the mashup in VisTrails (09203c1e12b8)
- Show parameters for invalid modules (7078566f7b89)
- Changed "Keep" button to "Tag" in the Mashups View (5ed3637c2d6f)
- Open subworkflow from module palette (c48a11df430f)
- Executions in provenance view are now given names based on the
"tagname + n" naming scheme (31a4a94cf967)
- Update executions in workspace when they are created (8b7b85229c64)
- Make pipeline current when selected in provenance explorer (49e93f5f789d)
- Remove gui dependencies for core.modules widgets (1b8487908620)
- Improved default query support (b9fed84af41a)
- Added color difference support for queries (b9fed84af41a)
- Mashups: made keeping the camera across updates as an option (1642d3573f62)
- Add extensible query support (0df170d3335d) (5d776c28b7e2)
- Workspace now updates Workflows and Mashups as they are created (429ceb313408)
- Expand Workflows/Mashups items by default (429ceb313408)
- Ticket #479: Dropdown boxes have white text (677a0b750762)
- Added support for html and mediawiki extensions to access a
remote vistrails server (2eba04217a99)
- Displaying mashups in workspace. Double-clicking a mashup will show
version tree, select corresponding version and execute the mashup. (3df2af8d8cb2)
- Added support for multiple PythonSource configuration windows. Read-only
windows can be detached from the main module onfiguration window. (372c0143f6b6)
- Remove workspace entry when selected file has been deleted (8bdd77c78fe2)
- Workspace can show workflows in a tree view (c715b4a84a38)
- Added a Control Flow Assistant (f05f014bc778)
- Added Vistrail Variables support, so that modules deriving from Constant can
be used to create re-usable variables (a83402e0c218)
- Added support for cross-vistrail diffs (c300063531e8)
- Perform visual diff from workspace by dragging pipelines together (dd83c3f08cea)
- Simplify visual diff and improve parameter changes display (65849c433682)
- Search results show up in workspace window (f3a763972866)
- Improve query handling (e4b0722b1d70)
- Added support for opening a vistrail in a separate window (f502431ae11b)
- Added Expand All and Collapse All buttons to Module Palette (264410835b7)
- Added annotations to WorkflowExec in v1.0.2 schema (0ade1076517b)
- Provenance browser now shows status icon in list (fc112c4c1079)
- Autosort module palette (de80a5b0fb1c)
- Added merge by dragging vistrail to vistrail (6bb73281842a)
- Executable paper editing (3a96ea787a82)
- PythonSource editor will now indent newline to previous line (e221d10351d1)
- Improved PythonEditor class using QScintilla2 (d737455457db)
- PythonSource editor will now indent newline to previous line (d1e5d63bd715)
- Enhanced query capabilities (0e5f60ce0d91)
- Added support for interpreter to execute a pipeline with an extra list
of parameter values. Updating VistrailController calls to also accept
the new list (db6e4611305)
- persistence package now hides file references instead of deleting them (ae3d19282ef4)
- Added versioning for SUDS Web Services using content hash (47279d4246bf)
- Improved PythonEditor class using QScintilla2 (5ed5953f57b9)
- ParaView package: Added ScalarBarWidgetRepresentation to Rendering
namespace in modules list. (7429a1be15cf)
- Add better provenance information for persistent entities (22964cfeb53b)
- New manager for persistent store (f0dafc611fd0)
- Improved efficiency of vtk workflow upgrades (3736cc9ef269)
- LaTex extension: Added an example for embedding local files (be50aeab59ca)
- Group SQL statements to enable faster DB communication (b520f1c847c8)
- ParaView package: Added server configuration window options to
package configuration and loading initial values from there. Also added
option to start paraview server when the package is initialized. (9023c13aa76b)
- Ticket #408: Allow opening multiple PythonSource Editors (73e72b8419a8)
- Ticket #411: Support temporary directories in the FilePool (7eb29d2ba0fb)
- Initial version of a GIS package that uses QGIS (4cd7cc6df8db)
Bug fixes:
- VTK Package: Call to ResetCamera() in vtkRenderer was producing wrong
results (d5789e5a560b)
- Ticket #499: Issue with BaseView.layout (9dc74870fde7)
- Fix issue where 'layout' was an overloaded field name (9dc74870fde7)
- Ticket #494: Tuple configuration is confusing and causes configuration errors (30bc134d5cdb)
- Ticket #498: Need to update code to show parameters for invalid modules (8da733c07199)
- Enable showing invalid function and show parameters in separate fields (8da733c07199)
- Updated version of suds python library on both Windows and Mac binary.
- Ticket #488: configuring webservices breaks vistrails (090a45a95f19)
- Ticket #456: Cannot copy/paste in detached pipelines/vistrails (970ec4ecfb42)
- Ignoring action updates when the view does not have the actions (970ec4ecfb42)
- Make provenance view read-only (9774b9e2928e)
- .vtl files marked to be executed when opening were not executed (09203c1e12b8)
- Ticket #496: Showing/hiding module ports resets module position (c073ff4bf200)
- Keep module position when changing visibility of ports (c073ff4bf200)
- Ticket #488: configuring webservices breaks vistrails (b8a935d8bbae)
- Ticket #495: vtkCellArray won't allow multiple points through
InsertCellPoint (0dcbf136aeb8)
- Fixed issue with ports that may have multiple functions associated with
them (e.g. in the vtk package) (0dcbf136aeb8)
- Ticket 481: Optional Output Ports collapse to non-Optional ones (7463f214023b)
- Fixed the issue of being unable to activate windows under Mac OS X
Lion. (7463f214023b)
- Mashups: Fixed bug introduced when removing gui
dependencies for core.modules widgets (76a998022666)
- Ticket #492: Upgrade error: signatures differ (5a70996965f8)
- Add upgrade for PythonSource to fix issue with 'self' port (5a70996965f8)
- Fixed messages during upgrades so that upgrade info is not flagged as
a warning (8714561fed05)
- Mashups: creating aliases in mashup view was not updating the alias
table (770f755d089d)
- Ticket #491: Opening a .vtl will always create a new file (3a25858be1ac)
- Opening vtl files: igonring showSpreadsheetOnly if execute is false (3a25858be1ac)
- Starting VisTrails by double-clicking a vistrail file was
not zooming the current pipeline view (3a25858be1ac)
- Can now delete from workspace using backspace key (d3f7af2868b0)
- Remove vistrail from workspace if removed from disk (044a841b97e9)
- view.is_abstraction logic fixed (044a841b97e9)
- sql package was not using new gui.modules.source_configure (1714703fb145)
- Updated VTK, Persistence and Matplolib packages to use
gui.modules import (f953ce4d25e4)
- get_current_view bug caused double-clicking a vistrail to fail (00b264c0920b)
- Ticket #489: VisTrails 2.0 can't open .vtl files anymore (2d450422c25b)
- opening .vtl files fails (2d450422c25b)
- Ticket #460: Subworkflow port naming errors after editing (687becdff050)
- Fixed issue where subworkflow edits could result in one-to-many
port mappings. (687becdff050)
- Fixed issues with multiple versions of subworkflows appearing in the
module palette (186d5c06a788)
- Do not store subworkflows in "recent files" or "My Vistrails" (17aebdbd32fa)
- workspace.item_selected had invalid setSelected call (3effd7a1385b)
- Fixed 2 detach view bugs (3f5159f5b49f)
- Ticket #468: Diff tab should have all modes except pipeline
disabled (4f691ba6ed23) (139ec1d18b22)
- Fixed an issue when loading a vistrail that references different versions
of a subworkflow that share common ancestors (4b34089abb09)
- Ticket #486: query execution and parameter problems (323f12916d09)
(0262b0410051) (d9fbb412a9b5)
- Added ability to open workflows from query results (323f12916d09)
- Ticket #484: subworkflow save causes window to change (bc100442dfe4)
- Fixed issues with executing queries (0262b0410051)
- Fixed issue where numeric comparisons were being done as
string compares (d9fbb412a9b5)
- Fixed issue where substring queries were backward (d9fbb412a9b5)
- Fix an issue with copy/paste to query view (b9fed84af41a)
- Fix issue with package subworkflows and namespaces (87c7c61f1c9e)
- Ticket #476: numeric stepper has wrong default value, in some cases
(1642d3573f62) (a08e8dc0f9c2)
- Ticket #485: Random Mashups Window (917b1d8b83c5)
- Allow return to original query in interface (0df170d3335d)
- Allow parameters to be set in queries (0df170d3335d)
- Allow return to original query in interface (5d776c28b7e2)
- Allow parameters to be set in queries (5d776c28b7e2)
- Ticket #478: Mashups updating issues (e5913008d81c)
- Mashups: Display Widget section was not updated when
switching aliases (e5913008d81c)
- Mashups: Mashup inspector was not updated when switching
vistrails using the workspace in Mashups View (e5913008d81c)
- Mashups: Mashup Pipeline Palette was not being updated when
switching mashups using the Mashup List Panel (e5913008d81c)
- Ticket #483: Index error when recovering a vistrail (8589b301ba13)
- Fixed issues with upgraded subworkflows (9c4dfcbef423)
- Ticket #475: Changing the background color fails in Mashup mode (31670c3e66f2)
- Ticket #477: opening mashup from workspace doesn't show exposed
parameters (429ceb313408)
- Sometimes closing a vistrail while closing VisTrails fails (429ceb313408)
- Double clicking a vistrail in file browser fails because of
_first_view bug (263f1947cf2c)
- vtkhandler did not handle new PythonEditor correctly (aa3511259f10)
- Ticket #443: ports are not added through Module Configuration
and annoying confirmation (01ed7a6566b3)
- Ticket #473: Cannot execute from history view immediately after
opening vistrail (e0ba2e97d058)
- Ticket #472: parameters in parameter exploration are reset if
not executed (63c55f11f03d)