Introduction of a pipeline task to allow comparison of emission in DBS chop positions, !mkDbsReference task. It differences the chop positions in all DBS observations and after applying the band-pass correction stores them in a product in calibration->pipeline-out called ReferenceSpectra.
Major updates to flagTool
Rotated cubes are now produced in the Level 2.5 product by default for maps carried out with a non-zero position angle, a non-rotated cube is also produced.
PACSSPIRE
Java version
HIPE 10.0 was built and tested against the Oracle Java Runtime Environment (JRE) version 1.6.0_37.
User releases for Windows and Linux already include the correct Java version.
Developer releases and user releases for Mac do not include Java. You must ensure that you have a compatible version of Java installed on your system.
If the minor version of your installed Java is different from the recommended one (for instance, 1.6.0_35 instead of 1.6.0_37) HIPE prints a warning in the command line window from which it was started. Minor version differences are unlikely to cause problems, but this cannot be guaranteed.
If the major version of your installed Java is different (for instance, 1.5.0 instead of 1.6.0) HIPE shows a warning in a dialogue window at startup. Major version differences are very likely to cause problems. We do not recommend that you try to run HIPE 10.0 with a Java version other than 1.6.0. In particular, HIPE 10 is known to give incorrect results if used under Java 7.
Core system
HIPE
Tables in viewers
Metadata can be edited directly in the GUI. It can be done by means of the options Add parameter, Edit parameter and Remove parameter in the table's popup menu.
Cells in table dataset viewers can be edited by selecting Allow editing in the popup menu, then double clicking on the target cells and writing the new value. A corresponding Jython command will be echoed.
Integral numbers in tables are left justified, as any other value. To easily compare them, an option to align them at the right is available in the table's popup mnu.
Variables view
The variables panel is now split in two: observations at the top, other variables at the bottom. The old single panel can still be shown by pressing the button with tip Show single panel within the view's toolbar. The user's choice is remembered among HIPE sessions.
File and directory selection
The open and save dialogs include user defined areas in the drop-down list labeled Look In or Save In.
When selecting a directory with a file chooser, files are also shown, although greyed out to indicate that they cannot be selected.
Miscellanea
It is possible to undo-redo in the console and in text fields for task parameters, by means of Ctrl-Z / Ctrl-Y (Linux & Windows) or Cmd-Z / Cmd-Y (OS X).
The maximum memory value shown in the memory bar reflects more accurately the actual memory available to HIPE. This value can vary slightly during a HIPE session.
The Locale is established as English so that the decimal separator will be a dot even in computers with language settings that use a comma for it. This ensures proper processing of tasks relying on it being a dot.
Plotting
TablePlotter
OverPlotter
Astronomical utilities
New package herschel.ia.toolbox.astro.healpix (based on JPL Healpix Java library)
Healpix interpolation functionality
radialV task: removed corrections parameter (enum), replaced with correct (String).
Numeric routines
Data fitting
Increased robustness in the case of fitting in the presence of heavy outliers.
Data interpolation
Random numbers
Statistics
Trend analysis
Mapping
Other functions
Source extraction
Images
Display
Image Display uses less memory and is a lot faster. It is now possible to display large image without the need for an enormous amount of memory.
It is possible to set the standard cut levels which should be used in the preference panel.
Analysis
Spectra
Display
Analysis
Data cubes
Display
Analysis
Herschel Science Archive
It is now possible to send the results of a query in the HSA User Interface directly to HIPE. The results will appear as TableDataset, allowing one to use the geometric search in the HSA UI (for instance), and directly use the result in a script, or save it to disk.
Calibration sources
Products and datasets
Observation context
Product Access
The "Save Product to Pool" view used to require that Enter was pressed after entering a tag to use when saving the product. This is now longer necessary. User friendliness of the view is also improved by providing direct user feedback when a tag is entered that is not valid, by coloring the cell red as you type.
Product Browser
Usability improvements. The selection of which pools to query is now more user-friendly, and right-click menus for certain actions on pools have been implemented. New pools can be created directly from the Product Browser by right-clicking, and local pools can be moved, renamed, deleted, etc.
Tasks
Speed-up of the registration and initialization of tasks. Tasks no longer create a default GUI (in Views). If needed, this GUI will be created on demand. This can speed up start-up time of hcss.dp.core by 20%.
Task Preferences
Preference to detect data retention in task parameters: when you reclaim memory via the "dustbin" button, tasks are checked to see if their parameters have data. You can then select which tasks to reset.
The system will now issue a warning if a task has apparently completed to 100% and more than 3 seconds pass before it has really completed execution (it detects tasks that "lie" about their completion status).
Task GUIs Help button will fall-back to on-line documentation if local documentation is not available.
Improved (updated) the information provided from tasks in the console (deprecated features and errors in tasks)
pause & resume are no longer tasks but just plain functions. They appear documented in the UM (they were in the URM before).
open* (Task, View, File) tasks open a confirmation dialogue if they fail to execute.
You can ask for a list with all outputs when you call a task passing __list__=True as an argument (in beta, may be removed, experimental): out, out2, out3 = taskName(arg1, ..., argN, __list__=True)
For Jython task developers: the following wrappers (decorators) have been added to support working with the EDT: execLater, execAndWait (similar to the SwingUtils functions). An example is provided in the source of ia_task tests (TestTaskForViewsEdt.py)
Quality control
Systematic product generation
Data input-output
poolDataReader , poolDataWriter, loadObs, downObs and localStoreWriter removed : saveProduct and MyHSA (getObservation) contain a superset of their features.
Tables
asciiTableReader task improvements:
Documentation: More examples, better tooltips and manual page (URM)
added more values to tableType : IPAC, SExtractor. SPACES now also reads TopCat ASCII Format
Better support for table header reading
New task sortTable will return a new table where rows have been sorted according to user criteria
FITS
fitsReader and simpleFitsReader 's type parameters can now accept strings (not just Java enum values).
Import View will check and ask for confirmation if the expected memory needs exceed the available memory
Virtual Observatory
Improved stability when sending data (on some platforms, sending data from within observations could cause problems, due to quotes being included in the name of an intermediate file).
Fix issues with WebStart applications (such as Aladin, HSA User Interface): Problems starting the applications on Windows XP, problems with automatic log-in.
Installer
Documentation
Updates to the Glossary, also available in a tab in the HIPE Help System sidebar.
Quality flags are now raised for monitoring SEUs (Sudden Event Upsets)
HIFI Pipeline
hifiPipeline task
The SPG version is now updated in the meta data when you run the pipeline
The pipeline will only try to run for spectrometers for which there is data at level 0 (previously the pipeline always tried to run for all spectrometers)
The option to customise the pipeline from the GUI is disabled by default when starting processing from Level 2
Mapping browse products changed so that the average spectrum and integrated cubes are shown for each subband separately
Level 0 Pipeline
The DoBadLo step (a step to flag out datasets known to be bad or unnecessary repeats) is reprocessed when a new calibration is passed to the pipeline.
WBS Pipeline
A new quality flag is introduced to warn of a single COMB failure
Improved checks and threshold values for the ZERO spectra.
Level 1 Pipeline
Addition of a task to allow comparison of emission in DBS chop positions, !mkDbsReference task. Differences the chop positions in all DBS observations and after applying the band-pass correction stores them in a product in calibration->pipeline-out called ReferenceSpectra. You may configure the task to average the differenced spectra together (a resampling is automatically done) and to resample the spectra yourself.
Additional parameters available to DoFilterLoads
Level 2 Pipeline
DoAvgTask now propagates ra_center and dec_center to metadata
A new task, MkFLagSummaryTable, creates a table containing all the flags raised by the pipeline for quick inspection
Level 2.5 Pipeline
Rotated cubes are now produced by default for maps carried out with a non-zero position angle, a non-rotated cube is also produced.
Flagged data are omitted from spectral cubes
Added a quality flag that is raised when doDeconvolution cannot complete in the Level 2.5 pipeline
HIFI Products
HifiUplinkProduct format changed to a table dataset (easier to read)
HIFI Spectrum Toolbox
Spectrum tasks (HIFI specifics)
A new task, !doOffset, to calculate the offset positions from the requested position is introduced. You can use it to switch between offset and absolute coordinates.
DoFold task now doubles in the reported integration times in the metadata after folding.
HIFI Data Processing Tools
Standing Wave Removal
Baseline Removal
Deconvolution
Added a 'BRIGHT_LINE' toggle. If enabled, doDeconvolution will ignore data set with this channel flag. Useful for preventing `ghosts' of bright lines caused by the iterative nature of the deconvolution algorithm. You need to manually mask these lines using, for example, flagTool.
Plotting output has been cleaned up and simplified.
doDeconvolution now gracefully exits whenever it fails to process an observation (occurs only for the most troublesome of data and is rare).
Spectral Cube creation
The GUI will by default pick up the rotation angle (flyAngle in the GUI) used when the map was observed. When the pipeline is run with the interactive level 2.5 pipeline selected or modified in any way then only this angle will be used, when the pipeline is run with all the default settings then non-rotated and rotated cubes will be produced. In the case that the flyAngle is zero only one set of cubes will be created.
flagTool
Major updates to make the tool faster, more intuitive and easier to use:
All data are displayed in a table to the left of the plot, enabling you to quickly select the datasets you want to flag without needing to cycle through all the data if not required.
All subbands can be displayed together (without gluing).
Flag type can be selected from the options above the plot instead of from a context menu
Documentation
Updates to the HIFI Data Reduction Guide:
Addition of a chapter describing how to convert positions in data to offsets
Improvements and updates to "How to add and remove flags" chapter, including documentation of new flagTool in the "Setting flags interactively for many spectra" section
Improvements and updates to "Running the HIFI pipeline" chapter
Update to mapping browse product description in "Tour of a HIFI observation context" chapter
Removal of references to the old CubeSpectrumAnalysisToolbox and replacement with references to the new Cube Toolbox
Various typos, improvements to style consistency and bug fixes.
PACS
Pipeline
Photometry
Spectroscopy
Calibration
Photometry
Spectroscopy
Analysis tools
Photometry
Spectroscopy
Product changes
Photometry
Spectroscopy
Documentation
SPIRE
Spire Dataset
New =DestriperDiagnosticProduct is added.
Calibration Products
Calibration Framework
Preprocessing
The Pcal products now have correctly filled in metadata.
Engineering Conversion
Common Pipeline
SigmaKappaDeglitcherTask
Added a diagnosticDetector task parameter for diagnostic purpose
All the long task parameters are shortened
The parameter types for detectGlitches, detectLargeGl and repairGlitches parameters are changed to Boolean.
Photometer Pipeline
New zeroPointCorrection task for cross-calibration with Planck HFI maps. This can only be run at the HSC until the HFI maps are made public. The output maps are included in the Level-2 context.
New ssoMotionCorrection task to produce modified Level-1 timelines adjusted to the reference frame of the moving object. Additional maps are created from this timeline and included in the Level-2 context.
DestriperTask
Added the minVel, maxVel, chanNoise and method task parameters to be in synch with naive mapper.
Added useOnlyMasks and ignoreDefaultMasks task parameters in synch with map mapper.
Added jumpThresh and jumpIter task parameters for jump detections.
Two second level deglitch algorithms are added, sigma-kappa and two sigmas
The meta data in startParameters has been changed to include all requirement meta keywords.
SpireMaskEditor
SpireMaskEditor is deleted
Level1SpireMaskEditor is added to display/edit mask flags for Level1 data
Level0_5SpireMaskEditor is added to display/edit mask flags for Level0_5 data
baselineRemovalPolynomial
"outlierRejectionThreshold" parameter renamed to "outlierThreshold"
Spectrometer Pipeline
History is now propagated from level-1 products to level-2 products when spirePreprocessCube and spireProjection are used in the spectrometer pipeline.
Source extraction
sourceExtractorTimeline
Significant speed improvements
Parameters renamed: "fitEllipticalGaussian" renamed to "fitEllipticalGauss2d" and "modelGauss2DFixedWidth" renamed to "modelGauss2dSigma".
Interactive Analysis and Tools
SpectrometerDetectorSpectrum (SDS) products have more functionality
Can be opened and used in the Spectrum Explorer
More tasks available
Arithmetic operations (+, -, *, /) work in scripts, when performing calculations between an SDS product and either another SDS product, a spectrum, or a number
Observation Viewer:
More information displayed in the viewer for level 0 and level 0.5 products
SDS Explorer
N-E arrows added to show orientation of the arrays
convolutionMapper
New task to create a kernel-filtered map directly from timeline data
Interested in what's new for other versions of HIPE? See this page for links to all the What's New documents from HIPE 4.0 onwards. 
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