CHANGES.rst

3Di Results Analysis changelog

3.10.1 (unreleased)

• Allow LinestringZ input by using WKB instead of WKT as conversion format (#1040)
• Make "Use selected features" behaviour explicit (#1057)
• Added animation settings (#1046)

3.10.0 (2024-09-12)

• Add pump support to Result Aggregation tool
• Add preset "Total pumped volume" to Result Aggregation tool
• Add preset "Pumps: % of time at max capacity" to Result Aggregation tool
• Cross-sectional discharge algorithm: allow cross-section lines to have different crs than 3Di results, automatically reproject
• Watershed tool: 2D flowlines intersecting obstacles are no longer shown as 1D flowlines (#1034)
• Model selection dialog: fixed order bug when sorting.
• Bump threedi-mi-utils to 0.1.4
• Fixed attribute error when selecting substance in a model that contains pumps (#1044)
• Added Flow Summary Tool (#725)

3.9.3 (2024-08-14)

• Fix watershed tool by changing input paths for threedigrid_to_ogr to string values (#1032).

3.9.2 (2024-08-06)

• Removed max_capacity field from the Sufhyd import tool (#1030).
• Updated Github action to Docker Compose V2.

3.9.1 (2024-07-17)

• Bump threedigrid-builder to 1.14.4

3.9.0 (2024-06-21)

• Support sorting of simulation results by clicking table headers (#1010)
• Visualize substance concentrations on the map (#1013)
• Improvements in styling of results visualised on the map (#1021)

3.8.1 (2024-06-05)

• Bump threedi-modelchecker to 2.6.*
• Bump threedi-schema to 0.219.*
• Bump threedigrid-builder to 1.13.*
• Bump hydxlib to 1.5.2
• Refactor threedigrid_to_ogr to copy features from gridadmin.gpkg (#997)
• Watershed tool: Retrieve result sets from flowline & watersheds layers' catchment_id field when loading those layers from cache
• Watershed tool: Empty "Analysed nodes" layer closing the tool or switching to a different simulation result
• Watershed tool: Do not empty the result layers when closing the tool (and remove the result sets filter when closing the tool)
• Watershed tool: Do not empty the result layers when toggling "Smooth result watersheds"
• Watershed tool: Only show the relevant target node marker when browsing result sets
• Watershed tool: Do not smooth result watersheds of previous result sets; "smooth result watersheds" now only affects new result sets.
• Add substance concentrations to time series plotter (#1001)
• Fix processing algorithm Detect leaking obstacles in DEM by moving add_features_to_sink to Base class (#1004)
• Fix flowline result styling in QGIS 3.34 (#1005)

3.8 (2024-04-12)

• Update new tag.

3.5.4 (2024-04-12)

• Another release.

3.5.3 (2024-04-12)

• Bump threedidepth to 0.6.3.
• Bump threedidepth to 0.6.2.

3.5 (2024-03-14)

• Add model metadata to the layer menu when loading a computational grid (#980)
• Result aggregation: Fix units widget is not updated when switching Variable (#983)
• Water balance tool: Fix switching tabs resets the water balance terms checkboxes (#984)
• Water depth/level processing algorithm - Remove popups (#985)

3.4 (2024-01-16)

• Fixed issue that no netcdf could be loaded in Water Depth Algorithm (caused by h5py breaking change) (#966)
• Water depth algorithm: include days in time display (#661)
• Show warnings (capture log) when using processing algorithm "Computational grid from schematisation" (#944)
• Bumped threedi-modelchecker to 2.5.*

3.3 (2023-12-01)

• Bumped threedigrid to 2.2.*
• Moved handling of the 3Di working directory structure to threedi_mi_utils module.

3.2 (2023-11-01)

• Statistics: Add two water on street presets.
• General: added some layer loading feedback.
• Passed handling of the 3Di working directory structure to threedi_mi_utils package.

3.1.12 (2023-10-19)

• Cross-sectional discharge: minor bugfix to correctly set the attributes of the intersected flowlines
• Sideview: fix for pure 1D models (#931)
• Statistics: removed water_on_street preset

3.1.11 (2023-10-02)

• Bumped scipy to 1.10.1 (depending on qgis version)

3.1.10 (2023-09-29)

• Visualization: simplify getting result values.
• Result browser: fixed error when result folder of schematisation is missing.
• Sideview: directly retrieving waterlevels via threedigrid.

3.1.9 (2023-09-22)

• Validator: now reparents an added result when a grid with same slug is already present in model.
• ThreediResult class now uses grid from parent node instead of relative (local) (#890)
• Sideview: X marker and red path remain when different maptool is selected (#891)
• Sideview: Water colors now different for each result (#891)
• Sideview: autoscale now takes culvert into account (#891)
• Sideview: minor changes in look&feel (#891, #900)
• Sideview: current route is now kept when maptool is deselected (#891)
• Graph: added batch delete option (#884)
• Graph: features with same id, but different layer should have different color (#895)
• Graph: fixed type column in table.
• Removed BaseDataSource abstract class
• Statistics: fix python error with "Bed level gradient" (#876)
• Statistics: assume has_interflow for older models (#889)
• Visualization: Remove legend subgroup hidden feature (#769)
• Visualization: fix TypeError for result without net cumulative discharge (#903)
• Water balance: enable selection of multipolygons (#885)
• Results: changed notification when working directory not set in settings (#899)
• Generated layers for watershed and statistics no longer contain (redundant) spatialite_id, node_type_description and z_coordinate (#862)
• Sideview: do not autoscale when toggling results plot (#915)
• Sideview, Statistics: include computational grid name in result selector comboboxes (#902)
• Removed plugin "Experimental" tag (#917)

3.1.8 (2023-09-04)

• Graph: added option to add multiple selected features at once (#888)

3.1.7 (2023-08-21)

• Statistics: fixed issue in making variables list dynamic based on model meta (#851)
• Statistics: Change style for water on street duration preset (#872)
• Waterbalance: Fixed bug in hover event processing. (#871)
• Statistics/Watershed: Attributes are now copied from computational grid layers (#862)
• About: changed title and content (#878)
• Waterbalance: Hide autorange and show labels (#877)
• Animation: fixed incorrect log warning (#879)
• Menu: changed label of toolbox item to "3Di Results Analysis"
• Result browser tab: add buttons are enabled again after addition of grid or result (#881)
• Animation: Legend subgroups (#769)
• Watershed: adding catchment result when animation styling is selected results no longer results in error (#883)
• Watershed: fixed bug when removing result
• Watershed: use markers instead of styling to denote analyzed nodes (#882)
• Animation tool: added experimental rule-based legend styling (#769)

3.1.6 (2023-07-20)

• Sideview: added dots at vertical line intersections with bottom level, cross-section top, exchange level and water level) (#838)
• Sideview: dots and vertical lines indicating nodes can now be toggled (#838)
• Graph: removed delete button (#839)
• Result Manager: UI is temporarily disabled when grid/result is being loaded (#860)
• Result Manager: hide dockwidget on startup (#816)
• Animation: fixed bug in changing parameters
• Animation: flowline arrows are now correctly disabled when zoomed out (#859)
• Waterbalance: Leave out irrelevant flows from barchart and graph (#857)
• Removed a lot of unused code
• Water Balance: updated Water Balance tool (#856, #868, #855)
• Statistics: added preset "Water on street duration" (#845)

3.1.5 (2023-06-21)

• Watershed: smoothing of result watershed polygon is fixed and configurable via checkbox (#668).
• Graph: user-defined label in legend is now set per plot instead of per feature (#840)
• Graph: Use "{grid name} | {result name} | ID {id}" as default label (#840)
• Graph: Added splitter so plots and legends can be resized (#840)
• Graph: Line pattern and color is now shown in legend (#840)
• Graph: Legend now only shows checkbox, line pattern/color and label. Other columns are hidden and can be shown via checkbox (#840)
• Statistics: Preliminary replacement of Statistics tool with new Custom Statistics tool (https://github.com/threedi/beta-plugins/tree/master/threedi_custom_stats) (#669)
• Statistics: Removed Custom Statistic test scripts as they are no longer functional/compatible with current version of code (unable to easily transfer in unit tests)
• Watershed: some proper handling when result group is deleted
• Result Manager: Added option for users to right-click on any item in the list and delete it via the context menu (#844)
• Removed Cache Clearer tool and Result Selection tool (#843)
• Bump threedidepth to 0.6.1
• Add algorithm for maximum waterdepth to processing toolbox.
• Make the plugin work with all QGis versions by making installed h5py version depend on QGis version.

2.5.3 (2023-06-16)

• Bump threedi-modelchecker to 2.2.*
• Bump threedi-schema to 0.217.*
• Bump hydxlib to 1.5.1
• Bump threedigrid-builder to at least 1.11.4

3.1.4 (2023-06-06)

• Sideview feature-complete for multiple results and grids (#806, #811, #812, #670, #808, #789, #826)
• Result Manager: fixed bug when working dir contained a revision with number 0 (#822)
• Result Manager: grid and result id (uuid) are now saved in project file.
• Result Manager: updated flow of deletion signals (layers are unloaded after grid/results are removed from tools)
• Result Manager: fixed bug when pressing delete button with empty model.
• Result Manager: clear now immediately deletes nodes during depth-first post-order traversal
• Result Manager: clearing the QGIS project invalidates the tree view (#833)
• Result Manager: computational grid layers are now stored in separate subgroup (#835)
• Result Manager: checkboxes are now shown as opened or closed eye icons (#836)
• Graph tool: maptools are disabled when tabs are switched (#824)
• Graph tool: Fixed bug where deactivated plots were added again when parameter/units or absoluteness was changed (#825)
• Graph tool: default variable for pump should be 'discharge pump' (#819)
• Graph tool: plots can be deleted via context menu (#840)
• Graph tool: list of parameters in combobox is now union of parameterset of results (#819)
• Removed wiki related files (wiki has been disabled)
• Graph tool: pump can now only be added as line feature or node feature, but not both (#829)
• Graph tool: Only one of 2D Nodes and cells with same feature ID can be plotted (#829)
• Graph tool: change "Nodes" to "Nodes & cells" (#818)
• Result manager: fixed bug that result was not removed when other result was checked.
• Watershed tool is now feature complete (#668)
• Bump threedi-modelchecker to 2.2.0

3.1.3 (2023-03-21)

• Graph tool: improved feature selection (#787, #787, #792).
• Use ThreeDiGrid to retrieve model slug.
• Fixed Animation Tool for 1D (no cells) model (#788).
• Added unit tests for Results Analysis model and validation.
• Revision without results (but with gridadmin file) is now shown in result dialog (#791)
• Updated several dependencies, including SQLAlchemy (#793).
• Updated docker image to QGIS 3.28 (#716).

3.1.2 (2023-02-28)

• Initial work on Sideview refactor.
• New working directory dialog when opening files.
• Animation tool: time indicator now shown in Results Manager
• Minor changes to animation styling and class bound calculations (#784).
• Added support for special symbols in paths (#782).
• Make temporal controller visible when checking (visualizing) result (#768).

3.1.1 (2023-02-10)

• Renamed module name in code.

3.1 (2023-02-10)

• Fixed upload script.

3.0 (2023-02-10)

• Initial beta version of results analysis feature.

2.5.6 (unreleased)

• Nothing changed yet.

2.5.5 (2023-09-21)

• Bump threedigrid to 2.0.*
• Bump threedi-modelchecker to 2.4.*
• Bump threedigrid-builder to 1.12.*

2.5.4 (2023-07-20)

• Bump threedidepth to 0.6.1
• Add algorithm for maximum waterdepth to processing toolbox.
• Make the plugin work with all QGis versions by making installed h5py version depend on QGis version.

2.5.3 (2023-06-16)

• Bump threedi-modelchecker to 2.2.*
• Bump threedi-schema to 0.217.*
• Bump hydxlib to 1.5.1
• Bump threedigrid-builder to at least 1.11.4

2.5.2 (2023-04-26)

• Bump threedi-schema to at least 0.216.2
• Bump SQLAlchemy to 2.0.6
• Bump threedidepth to 0.5
• Bump hydxlib to 1.5.*

2.5.1 (2023-04-11)

• Temporary pinned threedi-schema on bugfix version to deal with dropped sqlalchemy 1.3 support.
• Fixed import issue with setuptools/importlib

2.5 (2023-02-06)

• Improved NetCDF validation (detect partial downloads). (#471)
• Initial version of Results Manager. (#662)
• Restructured folder structure in processing algorithm folder. (#724)
• Default inputs for "Computational grid from schematisation" processing algorithm no longer set. (#723)
• Several Commands have been converted to Processing Algorithm and/or removed. (#715)
• Added usage of threedi_schema package
• Replaced pygeos dependency with a Shapely
• Fixed raster checks
• Fixed database interface in sufhyd importer
• Removed Command Tool and converted commands to processing algorithms (#715)
• Bumped several dependencies (Alembic)
• Add processing algorithm Import Hydx (#730)
• Do not set default inputs for "Computational grid from schematisation" processing algorithm (#723)
• Computational grid from h5 file: use file as input instead of containing folder (#722)

2.4.1 (2022-12-08)

• Do not expect pipe_quality field in sufhyd import. (#728)
• Check schema version before sufhyd import. (#726)
• threedi-modelchecker dependency fix. (#729)

2.4 (2022-11-28)

• Removed separate raster checker tool
• Updating to the minimal schema version 208
• Fetch wheels for threedigrid-builder and pygeos on linux.
• Updating to the minimal schema version 209

2.3 (2022-08-15)

• Added results analysis algorithms

2.2 (2022-06-29)

• Improved dependency management
• Added some missing dependendies on Windows
• Added plugin icon
• Dependencies are now stored in plugins' deps folder.
• Watershed tool.

2.1 (2022-06-14)

• Removed the create_views routine, this is now done by the modelchecker (migration tool).
• Upgrade sqlites from 3 to 4.3 when possible (migration tool). Warn users that this is necessary if their file has version 3.
• Removed the 'pipe_quality' column from v2_pipe.

2.0 (2022-03-30)

• First go at updating dependencies for python 3.9 and the new 3.22 LTR on windows.
• Updated the dockerfile to work with the new 3.22 dependencies on linux. Also switched to the official qgis development base dockerfile.

1.34 (2022-03-22)

• Pinned geoalchemy2 to 0.10.2 instead of >0.10 due to a migration bug: geoalchemy/geoalchemy2#372. The one bundled with the previous version was 0.11.1.

1.33 (2022-03-17)

• Add processing algorithm to check rasters

1.32 (2022-02-15)

• Changes to the modelinterface builder: only threedi_models_and_simulations plugin is bundled, not anymore the threedi_qgis_api_client.

1.31 (2022-02-15)

• Changes to the modelinterface builder: the threedi_models_and_simulations plugin is now also bundled.

1.30 (2022-02-15)

• Fixed constructing the cells layer from new gridadmins (which contains NaN instead of -9999. for 1D nodes).
• DWF Calculator now takes the 'percentage' attribute of the impervious_surface_map into account + cleaner code
• DWF Calculator also works for v2_surface and use_0d_inflow from global settings determines its behaviour
• Updated threedi_modelchecker to 0.25.2.
• Schematisation checker compatible with threedi-modelchecker 0.25.2
• Include info and warning level messages in schematisation checker results csv
• Fix encoding error when reading gridadmin.h5
• Add processing algorithm to migrate sqlite to newest schema
• Add processing algorithm to check schematisation
• Update styling of result nodes and flowlines, mainly to also show flowlines with content_type = 'v2_added_c'

1.20 (2021-09-02)

• Update threedidepth algorithm with new functionalities: multiple timesteps and export as netcdf file.
• Added netCDF4 binary for windows. Also added cftime (netcdf4 dependency).
• Added new animation slider.
• Updated dependencies are un-imported (technically: removed from sys.modules) to prevent old versions from sticking around. In 1.18, you could get an error from the alembic dependency that complained about a too old sqlalchemy.
• Moved automatic tests from travis-ci to github actions.
• Fixed issue with broken sideview tool for qgis 3.16.6 and higher
• For internal test purposes only, fresh zips (for manual installation) are made of all pull requests and of master. See https://docs.3di.live/threeditoolbox-dev/ .
• Enhancements for the water depth/level calculation processing tool.

1.19 (2021-05-21)

• Update to modeler interface: qgis 3.16.7 and threedi-api-qgis-client 2.4.1. (No changes to ThreeDiToolBox itself!)

1.18 (2021-04-22)

• Adjusted dependencies for new threedi-modelchecker release.
• Installing bundled dependencies should no longer fetch newer releases from pypi, but stick to what we bundle in our external-dependencies directory.

1.17 (2021-04-01)

• Restricting pyqtgraph to <0.12 to prevent from PyQt5 import sip import errors.
• Fixed error in notifying of necessary qgis restart.

1.16.1 (2021-03-04)

• Bump metadata.txt version

1.16 (2021-03-04)

• Enable the 3Di processing provider with threedidepth processing script.
• Bump version of pyqtgraph, QGIS_VERSION and THREEDI_API_QGIS_CLIENT_VERSION
• Fix import sufhydx coordinates swapped on newer gdal versions.

1.15 (2021-02-16)

• Bump threedi-api-qgis-client to 2.2.0
• Bump QGIS version of the modeller interface to QGIS 3.10.14
• Add multiple stylings for the schematisation.
• Bump lizard-connector to version 0.7.3
• Add support for h5py with hdf5 1.10.5
• Added a extra processing provider for 3Di
• Added integration with threedidepth as a processing plugin
• Updated the threedi-modelchecker version to 0.11: https://github.com/nens/threedi-modelchecker/blob/master/CHANGES.rst#011-2021-01-26 # noqa
• Make RotateLabelAxisItem compatible with pyqtgraph 0.11

1.14.1 (2020-07-06)

• Bug fix: graphview trying to get pump variables on models where there are not pumps.
• Bug fix in the sufhyd-importer-tool: using the wrong material.

1.14 (2020-05-25)

• Added threedi-api-qgis-client to the modeller-interface. You can specify the version via the THREEDI_API_QGIS_CLIENT_VERION variable in the Makefile.
• Bumped threedi_modelchecker to 0.10.1.
• Bug fix pummplines: where the pumplines would use twice the same coordinates and thus be an invisible line.
• Bump threedigrid to 1.0.20.6.
• Bug fix vertical infiltation lines and pumplines not showing correctly.
• Set qgis installer version to final-3_10_4.
• Bug fix pumplines coords not using the projected coordinates.
• Graph-tool: only allow users to add graphs via the results-group, i.e. from the layers 'nodes', 'flowlines' and 'pumplines'.
• Graph-tool fix bug where pumpline-id was used to look up flowline variables and flowline-id for pumpline variables.
• Small fix in predict_calc_points command.
• Update v2_pumpstation action_type from 'set_capacity' to 'set_pump_capacity'.

1.13 (2019-12-02)

• Added installer build script for 3Di Modeller interface to makefile.
• Added Click as external dependency, which is currently required for the threedi-modelchecker.
• Improve raster_checker's 'extreme raster values' check: not rely on meta data, but check actual data. Also include number of warnings in pop-up when finished.
• Added custom h5py binaries for windows in external dependencies. Build for windows with python3.7. This h5py is able to read in results from the new threedi-api and the old (v2) results.
• Added a pip uninstall command before trying to install an external dependency to make sure our external packages get cleaned up.
• Bumped threedigrid to 1.0.16
• Automatically add a spatialite connection to the qgis-browser when a user loads a 3Di model via the result-selection-tool.
• Updated layer_styles of the schematisation. Attributes forms for all schematisation layers are configured. These layers are now grouped and ordered, and many widget types are configured.
• Added missing columns to the manhole_view layer.
• Added 'v2_cross_section_location_view' and 'v2_simple_infiltration' layers to the schematisation group.
• Administrative change: releases to https://plugins.lizard.net are now made by the automatic test server.

1.12.2 (2019-09-12)

• Pinned h5py version to 2.9.

1.12.1 (2019-07-12)

• Bumped threedi-modelchecker to 0.5 (no longer raise MigrationTooHighError).

1.12 (2019-07-08)

• Fixed dependency installation on windows 7.
• Added developer documentation.
• Modelchecker user interface improvements.
• Running pip with --upgrade so that old packages actually get updated.
• Fixed bug where widget of control_structures wouldn't show up due to garbage collection.
• Bumped threedi-modelchecker to 0.3.
• Fix tool_commands/control_structures missing 's' for 'set_discharge_coefficient'.

1.11.1 (2019-06-17)

• Made automated tests on travis-ci.org run much faster (from 8 down to 3 minutes).
• Added better logging. In qgis, our messages are now visible in the console log. Also, a logfile is written (threedi-qgis-log.txt), which can be used to investigate problems. There's also a new button to open the logfile so that you can email it.
• Integrated threedi-modelchecker in the plugin as a tool_command.
• Improved dependency management of the plugin.
• Refactored structure of the plugin of the plugin: the tools are more clearly separated.
• Refactoring of many variables/classes/functions/methods to be more clear and consistent in the whole plugin.

1.10 (2019-03-28)

• Cleaned up old docker-files (now only QGIS3.4.5) and pinned GeoAlchemy2 and updated docker readme.rst
• Fixed waterbalance tool rubberbands for 1d2d flow
• Grouped the 4 animation layers
• Fixed views model schematisation and statistics tool
• Fix guess_indicator postgres fields username and password

1.9 (2019-03-04)

• Fixed sideview bug point no geometry

1.8 (2019-02-28)

• Updated external h5py library (build h5py lib against hdf5 1.10.4-1 (instead of hdf5 1.8.11-2)

1.7 (2019-02-28)

• Updated ThreediToolbox to Qgis3 (python3 and qt5).
• Display pumplines without connection_node_end just for 5 meters
• QGIS3 can only handle netcdf-groundwater results (created after March 2018)
• Added a new tool: raster checker (added to commands.tools.step1)
• Waterbalance tool now correctly checks whether rain has been aplied to simulation
• Get rid of NetCDF4 lib
• Add v2_culvert to layer_tree_manager
• Added surface sources and sinks (q_sss) to the datasource for the graph-tool and animation-tool.
• Added surface sources and sinks to the waterbalance.
• Bumped threedigrid to 1.0.10.
• ResultSelectionWidget now correctly downloads the selected result.
• Removed matplotlib dependency used by the waterbalance barchart. The waterbalance barchart now uses pyqtgraph.
• Fixed bug reading in numpy.bytes as utf-8 strings.
• Fixed bug in netcdf_groundwater not reading in correctly the aggregate variable.
• Changed UI of several popup-windows to make them better displayable.

1.6 (2018-11-28)

• Enable ThreeDiToolbox besides NETCDF4 also for NETCDF3_CLASSIC (old results)

1.5 (2018-11-26)

• Add v2_culvert_view to layer_tree_manager

1.4 (2018-11-26)

• Enable intercepted_volume through aggregation NetCDF
• Upgrade threedigrid from 0.2.6 to 1.0.7 (current latest version)
• Add '(de)activate all layers' buttons in Waterbalancetool
• Remove old fashioned statistics (pop-up "do you want to calculate stats?")
• Improve NetCDF result selection (disabled selection aggregation NetCDF)
• Disable stacking of volume difference lines in the WaterBalance tool
• Gracefully handle HTTPError thrown by ResultsWorker thread.
• Added QSortFilterProxyModel to the result_selection to enable sorting and filtering of downloaded results.
• WaterbalanceTool account for flow directions (1d2d, 1d, 2d and groundwater)
• Enable leakage and simple infiltration through aggregation NetCDF
• WaterBalanceTool translate terms Dutch to English
• WaterBalanceTool get rid of "error" term
• WaterBalanceTool get rid of non-natural options
• WaterBalanceTool now only works with aggregation NetCDF and only with certain set of aggregation flow variables and aggregation methods
• not able to start StatisticsTool and WaterBalanceTool before select sqlite and NetCDf
• Include water balance tool (DeltaresTdiToolbox) in plugin.
• Add fix for None values in WeirStats calculation (caused by np.nan casting to None)
• Disable auto SI prefix on the vertical axis.
• Update schematisation layer style (add a lot of non_geom tables)
• Updated styling of waterbalance chart.

1.3 (2018-06-19)

• Use progress bar during loading ThreeDiStatistics (+ dutch to english names)
• Display 2d_vertical_infiltration in graph (not in animation)
• Include ThreeDiStatistics tool in plugin.
• Fix unmasked arrays in get_timeseries methods.
• Rename NetcdfDataSourceGroundwater to NetcdfGroundwaterDataSource.
• Add some data source tests.
• Add mock dep.
• Add new Lizard result types for downloading groundwater results.

1.2 (2018-05-24)

• Fix the aggregate find function for realz.

1.1 (2018-05-24)

• Update new aggregate result name.

1.0 (2018-05-24)

• pumplines exporter now also ignores first element
• Fix some nasty bugs in temp_get_value_by_timestep_nr_impl: some variables (like qp) only have a 1D or 2D component, and the previous implementation only returned that component. However, this will cause indexing errors, so the behavior is changed such that the method now always returns a masked array that is 2D+1D long if no index is passed as argument. Furthermore, np.zeros is changed to np.ma.zeros in the if block when an index is passed, which I think also might have caused bugs.
• let netcdf_groundwater get_timeseries return NaN istead of -9999
• improve feedback to user in case of graph tool with v2_pumpstation_view
• Close result selection window when the Escape key is pressed.
• Fix leakage name.
• Implement get_timeseries for pumplines using the newest threedigrid.
• Fix SetFID error caused by int32.
• try to show more often the object_name in graph widget (instead of 'N/A')
• use gridadmin has_pumpstations in functions get_or_create_pumpline_layer and available_subgrid_map_vars
• Progressbar exporting to gridadmin.sqlite starts now at 0%
• Add support for aggregate netcdf in NetcdfDataSourceGroundwater.
• add leakage to subgrid_map variables
• Add support for aggregate netcdf in NetcdfDataSourceGroundwater.
• add leakage to subgrid_map variables
• Update available vars methods using threedigrid for NetcdfDataSourceGroundwater.
• Implement available_aggregation_vars using threedigrid.
• Bump threedigrid to 0.2.2.
• Enable threedigrid get_timeseries for result and schematization layers
• Disable the "Calculate statistics?" prompt if there are already csv files available.
• Add caching of netcdf data in get_values_by_timestemp_nr.
• Enable PEP8 check in build process; fix remaining PEP8 errors.
• Move icons to icons folder.
• Wrap layer generation code in transactions to improve performance (it was very slow on Windows, this improves it considerably so it's possible that it autocommited on every statement, see: http://gdal.org/drv_sqlite.html)
• Update groundwater flowlines overlapping order.
• Title of sideview dockwidget does not overlap with button anymore
• Remask masked arrays in get_values_by_timestemp_nr for NetcdfDataSourceGroundwater.
• Change the geometry column name of gridadmin.sqlite from GEOM to the_geom so that it behaves similarly to the old subgrid_map.sqlite1. This required the use of the Spatialite connector (subclasses QGIS db_plugin) because GDAL versions lower than 2.0 do not support renaming of geometry columns.
• Make disable_sqlite_synchronous re-entrant (i.e.: it works expectedly when multiple functions that are decorated with it call each other)
• Add netcdf version (netcdf or netcdf-groundwater) detection to make plugin more robust
• Pinned threedigrid to working version (0.1.3)
• Animation tool: split nodes and lines into node_results, line_results, node_results_groundwater, line_results_groundwater (all with own styling)
• Add module base.netcdf_groundwater (relocated from base.DummyDataSourse)
• Fix find_h5_file
• Add (temporary) ad-hoc implementations of get_timeseries and get_values_by_timestemp_nr.
• Fix QGIS plugin updater problem on Windows with files being unable to be deleted because they're held open by QGIS.
• Fix cache clearer for groundwater.
• Fix incorrect 'q_lat' name.
• Set root logger level to make logging to QGIS work.
• Reproject gridadmin.sqlite to wgs84 (EPSG:4326): this fixes the side view tool that expects the generated layers to be in that projection.
• Add groundwater categories to styling.
• Combine nodes, flowlines and pumplines in one gridadmin.sqlite file.
• Add pumplines exporter.
• Add layer generation for netcdf-groundwater results.
• Add BaseDataSource abstract interface.
• Add h5py 2.7.0 to external libs for Windows. The files were acquired by installing h5py using OSGeo4W on Windows 7, and copying the installed files to the external folder.
• Add detection method to determine whether .h5 or id_mappping.json is present (this determines if the netcdf is old (no groundwater) or new (groundwater)

0.15 (2018-02-07)

• Update lizard-connector, which contains a fix for mitigating problems with the future library that is used by QGIS.

0.14 (2017-11-14)

• Fix bugs in the control structures.

0.13 (2017-10-23)

• Update lizard-connector to 0.5 to fix the limit of 1000 results.
• Add tool "control structures".
• Remove unused code.

0.12 (2017-08-09)

• Default maximum for QSpinBox is 99, so setValue is limited to 99. That's why the spinbox_search_distance maximum and spinbox_levee_distance are set to 5000.
• Add v2_orifice to the flowlines styling.
• Add v2_numerical_settings to the layer tree manager.
• Fix csv_join import in statistic scripts.
• Fix invalid characters in directory name in the scenario downloader.
• Fix bug in method that sets column sizes due to overwritten attribute.
• Fix bug with logout not stopping the thread and keep pulling in results.
• Add Lizard scenario result download functionality to the ThreeDiResultSelection tool. Some remarks about this feature:
  • To connect with the Lizard API, lizard-connector is used. Downloading the data happens in a worker thread because there can be many resuls. After logging in the user will be presented with the newest results immediately (this is synchronous). Progressively older results will be downloaded by the thread and dynamically added to the table view.
  • Chunked downloading (using append mode) is used because of the large files, which we do not want to keep in memory.
• Add tool "create breach locations".
• Automatically remove old entries from both the connected point and the calculation points table when the tool predict_calc_points is being re-run.
• Add a second connected point to the template for calculation points of type "double connected".
• [toolbox] rename 'toolbox_tools' to 'Tools', use english for toolbox sub-directories, remove 'Instellingen' tab, remove 'auto update logboek' checkbox.
• Fix guess_indicators.py tool.
• Fix clearing cache in Windows.
• Update documentation for stats module.

0.11.1 (2017-07-04)

• Fix release that didn't include depencencies.
• Introduce hack in Makefile to fix missing depencencies.

0.11 (2017-07-03)

• Remove checked in source code for SQLAlchemy, SpatialAlchemy (a.k.a. GeoAlchemy2), and PyQtGraph. These packages will now be installed with pip using a requirements.txt.
• Add class diagram documentation for ThreediDatabase.

0.10 (2017-06-20)

• Fix E501 (line too long) violations manually because AutoPEP8 can't fix those.
• Add pycodestyle checking to Travis.
• AutoPEP8 everything.
• Include model result files in repo + add more tests.
• Remove deprecated/unused code.
• Add QGIS as dependency to Travis; make nosetests work on Travis for all tests.
• Add a new tool (CacheClearer) to clear the model cache.
• Add an About tool class so that the about QAction can be added in the same way as the other tools.
• Add setup.cfg with coverage options (needs coverage); exclude the external and importer source files from tests.

0.9.3 (2017-04-10)

• Changed array shape for lines array in Netcdf. This was done due to a bug in the calculationcore netcdf library.
• Add option to make graphs absolute to the graph tool.
• Bugfix predict calcualtion points: For endpoints always enumerate the last_seq_id by one.
• Added QML styling for 2d schematisation.

0.9.2 (2017-02-14)

• Adopted the column names for the predict_calc_points command to the newest 3Di migrations.

0.9.1 (2016-12-12)

• Fix Travis build.
• Bugfix import sufhyd.
• Fix assertion in netCDF datasource and update QML styling.

0.9 (2016-11-28)

• Update cumulative aggregation methods.
• The user_ref field now has the following format: <content>.code#<content>.id#<table_name>#calc_pnt_nr
• Uniform usage of spatialite instead of sqlite as db_type variable string throughout the ThreediToolBox.
• Auto populate the levee_id column of the v2_connected_pnt table when a new point is being added or the location of an existing point is being changed.
• Auto populate the connected_pnt table from the computed calculation points that have a calculation type greater than 1.
• Sufhyd import: - logfile has same name and location as sufhyd, whith '.log' extended - added extra logging about used file, date adn number of objects - the multiple connection number (num_mvb) is added to connection codes - automatically add boundary when structures are not connected to end node - moved automatically added boundaries 1 meter
• Set required qgis version to 2.14
• Sideview: - bugfix: support of profiles without height (used for weirs) - correct relative heights for profiles which does not start at 0 height
• Bugfix: impervious surface, changed 'half_open' to 'open_paved'
• Bugfix: graph legend hover shows correct location when using 'result' layers
• support 'dry' cell values (without showing -9999 in graph)
• improved 1d modellayer styling
• Bug fix: Explicitly check for None on the return value of the calc_type_dict because a return value of 0 is also falsy. Also make sure the dist_calc_points attribute is always available for objects with a geometry
• Executing a select statement on an empty table using sqalchemy causes problems becasue it does not allow to cosume the active cursor. The cursor explictly has to be closed, or references to it dropped. Otherwise the cursor and thus the connection will be alive, and the database will be locked.
• Using the sqalchemy engine instead of the QtSql.QSqlQuery object to retrieve data from postgres or spatialite databases to make sure the geos extension is available (this doesn't always seem to be the case for windows installtions).
• Bugfix: Removed os.path.join to generate the db_name variable because this produced a '/' instead of a '' for windows OS.
• Auto populate the connected_pnt table from the computed calculation points that have a calculation type greater than 1.
• Added the tool predict_calc_points. It computes the threedicore calcualtion points and their calculation type.

0.8.2 (2016-09-22)

• Bugfix: layers not present in the styled_layers dict were added without stats, but should be added with stats.
• Sufhyd import: Fix for outlet constraints.
• Sufhyd import: Set autoincrement to max id number to prevent id errors (when id's are manually set)
• Slight improvement to the previous bugfix. The exact problem was with the pump layers which were not cloned. Now we clone them explicitly, so the previous bugfix isn't necessary anymore.
• Bugfix for segmentation fault when deleting the root layer group. The possible reason for the segfault is adding the same layer from the TimeseriesDatasourceModel to the QGIS map registry multiple times. The fix is to clone the layers so we don't get the same layers added multiple times.
• Updated the styler so that it doesn't apply styles to layers without the right statistic fields. If the layer doesn't have the right statistics, just show the layer without any styling.
• Bugfix relative path exception.

0.8.1 (2016-09-13)

• Fixes sufhyd import.

0.8 (2016-09-13)

• Added pump statistics.
• Connected python logging handler to qgis logging
• Import of sufhyd files with logging
• Made reading netCDF properties more robust.
• Reuse previously generated csv stats files.
• Added auto statistic generation via layer tree manager.
• Refactored statistic generation (put logic in separate modules).
• Refactored timeseries methods of NetcdfDataSource, more consistent get_values_of methods.
• Made get_timeseries only accept one netCDF variable name.
• Add Layer Manager, which loads the model and result layers.
• Add map animator for showing results on the map (first version, work in progress).
• Made the parameter config variable for the Graph and Map animator tools. Add parameters so almost all results from netCDF and result netCDF can be displayed.
• Optimizations in getting the time array from netCDF.
• Refactored NetcdfDataSource and included support for getting all variables from both regular and aggregation netCDF including getting the timeseries.
• Removed support for spatialite datasource with results.
• Changed id behavior for netcdf datasources and requesting tools. Now the netcdf_id or spatialite id is used (so no magic with -1, etc.)
• Added water op straat statistic to manhole statistics; refactored NcStats a bit.
• Updated some method names.
• Updated NetcdfDataSource so that it keeps some netCDF attributes in memory.
• Stores selected model and results in Qgs project file (*.qgs).
• Cache generated model layers in spatialite.
• Add point markers to selected sideview points.
• Show marker of current location when hovering over graph.

0.7.1 (2016-07-25)

• Support of interflow results in graphs
• Bug fix: after closing sideview and reopening, errors were generated
• Bug fix: support of square profiles by sideview
• Bug fix: support of pure 2d models
• Bug fix: support sideview with pipes and openwater in one sideview
• Bug fix: calculation of length of openwater channels

0.7 (2016-06-09)

• Bug fix highlight graph location on table hover

0.6 (2016-06-02)

• Bug fix stat layer joining in Windows.
• Add multiple clicks in sideview tool.
• Add channels to the sideviews.

0.5 (2016-05-20)

• Bugfix transformation clicked coordinate in RouteTool.
• Statistic scripts performance improved.
• Various bug fixes (e.g. sideview)
• Side view clicking improvements.
• Pumplines.

0.4 (2016-05-10)

• Several new features were added (side view, netCDF network generation, etc.), plus improvements in existing features.

0.3 (2016-04-13)

• Add tool version number to about box.
• Add support of multiple result files.
• Warn user on adding to many locations to graph.
• Only new locations will be added to graph.
• Improved color selections for timeseries after the first 20.

0.2 (2016-04-12)

• Another test release.

0.1 (2016-04-11)

• Test release.