Skip to content

Latest commit

 

History

History
932 lines (774 loc) · 41.5 KB

CHANGELOG.rst

File metadata and controls

932 lines (774 loc) · 41.5 KB
Raw

Marvin's Change Log

[2.8.1] - unreleased

  • Made the default API url the "mirror", i.e. point to the new JHU server home.
  • Changed the matplotlib seaborn-darkgrid style to seaborn-v0.8-darkgrid
  • Fixed astropy 6 quantity truthiness error in marvin.tools.quantities.spectrum.

[2.8.0] - 2022/08/17

  • Drop support for py <3.7. Min. version is py3.8.
  • Updating flask web dependencies: Flask > 2, Jinja2 > 3, werkzeug > 2.0, <2.1
  • Removing packaged Flask-JSGlue, replacing with custom 0.3.1 version with correct use of markupsafe.
  • Pinning miniumum numpy version to 1.20, removing use of np.int and np.float
  • Switch to packaging.version.parse from distutils for version checking
  • Updates test suite to run only on DR17, and on CI on Github Actions. Removes travis yaml.

[2.7.4] - 2022/07/27

  • Last tag to support python versions >2.7 up to <3.8
  • Pinning marvin_brain and marvin_wtforms_alchemy dependencies
  • Additional docs updates

[2.7.3] - 2022/07/12

  • Small tweaks to documentation links and tutorial exercise notebooks
  • Pinning markupsafe dependency to < 2.1

[2.7.2] - 2021/12/07

  • Small tweaks to the web interface: added tooltips, updated link to SkyServer
  • Adds default bintype to Explore page
  • Fixes issue :issue:`551` - fix z-index bug in Guided Query Builder
  • Fixes issue :issue:`142` - add link to Simbad

[2.7.1] - 2021/12/05

  • Bug fix in Query datamodel. Removed older MPLs from the datamodel as they are no longer in the database.

[2.7.0] - 2021/12/05

  • Adds support for DR17, aliases to MPL-11
  • Fixing bug in core Marvin Tools close method, for use as contextmanager
  • Fixing bug in web galaxy template when no nsa data available; so pages do not crash
  • Added new explore page in the web to upload a target list and display DAP maps
  • Adds basic VAC availablity to galaxy web page
  • Updates the Marvin Query Results.toJson method to return a more flexible JSON format
  • Improves performance of web query table
  • Adds export table button option to web query table
  • Improves web pages with various tooltips and other small improvements
  • Fixes bug in get_bpt method with add_all kwargs to ImageGrid for matplotlib>3.5
  • Adds support for DR17 DAPTYPES SPX and VOR10
  • Removes web and API support for MPL-8, MPL-9, and MPL-10

[2.6.1] - 2021/11/18

  • Issue :issue:`680` - Basic context manager functionality for marvin.tools.core.MarvinToolsClass, and relevant documentation for Cube and Maps. Users can automate closing file handlers when in file mode, by using with syntax, alleviating some issues with looping through lists of galaxies.
  • marvin.tools.core.MarvinToolsClass.close method is a self-contained way of closing the underlying data file. It is now called by marvin.tools.core.MarvinToolsClass.__del__ and marvin.tools.core.MarvinToolsClass.__exit__. marvin.tools.core.MarvinToolsClass.source_is_fits_hdulist_file evaluates whether the object is accessing a FITS HDUList.
  • Updated the manga database connection info for JHU

[2.6.0] - 2021/03/12

  • Adds - support for MaNGA data release MPL-11
  • Adds - updates to the Marvin documentation on citations
  • Fixes - Bug with remote access for removed emline_tplsigma spaxel property. Removed from MPL-10, MPL-11 datamodels.

[2.5.4] - 2021/03/5

  • ** Changes** - pinned flask-jwt-extended package version to <4.0

[2.5.3] - 2020/16/1

  • Changes - static web images to webp format for better compression and faster load times.

[2.5.2] - 2020/10/1

  • Restructuring to simplify setup, dependencies, and tests, for code health.
  • Adds - New setup.py and setup.cfg to simplify installation and dependency requirements
  • Adds - New dependencies marvin-brain, marvin-wtforms-alchemy, marvin-sqlalchemy-boolean-search, sdss-tree, and sdss-access.
  • Changes - Migrates to sdsstools for internal logging and config management.
  • Changes - Removes all external submodules, which have been converted into pypi releases.
  • Changes - Moves tests outside the python package
  • Fixes - Issues :issue:`643`, :issue:`644`, :issue:`645`, :issue:`646`

[2.5.1] - 2020/09/25

  • Fixes :issue:`711` - galaxy page bug when NSA dictionary not available prevents flag modals from appearing

[2.5.0] - 2020/09/04

  • Adds - support for MaNGA data release MPL-10
  • Removes - web / API support for MPLs 4, 5, 6
  • Removes - SPX and VOR10 binning schemese in MPLs 7-10, and DR15-16.

[2.4.1] - 2020/08/05

  • Adds - support for using the marvin mirror at magrathea.sdss.org, hosted at Johns Hopkins
  • Adds - new use_mirror custom config option to automatically set marvin to use the mirror

[2.4.0] - 2020/07/19

  • Adds - caching web routes on Plate, Galaxy pages
  • Adds - new use_cache option to Cachable Query class. Implemented in most marvin database calls.
  • Adds - most Marvin Tools now use query caching for database calls
  • Adds - a new CacheMixIn that adds optional caching to classes utilizing db calls
  • Adds - a new Redis dogpile.cache backend; with new regions for Maps and Modelcubes
  • Adds - new utility functions for DRPall, and DAPall files, get_xxx_path, get_xxx_file, get_xxx_table
  • Adds - adds visual morphology VAC for DR16+
  • Fixes - Issue :issue:`695` - better web spectra/map error messages;
  • Changes - tree and sdss_access submodules to latest 3.0+ and 1.0+ versions
  • Changes - path changes to accommodate new tree and sdss_access

[2.3.6] - 2020/04/14

Fixed

  • Issue :issue:`700` - pinned webargs package to version <6, networkx package <2.4

[2.3.5] - 2019/12/09

Added

  • Support for MPL-9 MaNGA data
  • Issue :issue:`648` - Option to toggle common lines from the DAP in web spectrum viewer
  • Issue :issue:`112` - Option to toggle between rest-frame and observed wavelength in web spectrum viewer
  • Issue :issue:`679` - Option to toggle on DONOTUSE pixel region masks in web spectrum viewer
  • master-fifo file to uwsgi base config ini file
  • adds an alert to authenticate when no static image detected

Changed

  • updated datamodels to include MPL-9 changes
  • turned off API rate limiting globally
  • turned back on old spaxel query method
  • switched random image web page to use improved get_random_images function
  • changing galaxy page static image grab to use cube.getImage().url

[2.3.4] - 2019/12/09

Changed

  • Added explicit python path in uwsgi prod.ini file

Fixed

  • Bug in session variable controlling DAP bintemps

[2.3.3] - 2019/12/09

Added

  • Support for DR16. Updated datamodels and docs.
  • Added Galaxy Zoo VAC
  • Added GEMA VAC
  • Added Firefly VAC
  • Added Visual Morphology VAC
  • Merged :pr:`678`, richer support for VACs
  • Merged :pr:`652`, richer support for Windows
  • Merged :pr:`677`, updated documentation on issues with fuzzy string matching
  • Merged :pr:`687`, fixes map arithmetic with reflexive operators

Changed

  • all yaml.load uses new Loader to accommodate old and new yaml spec;
  • updated Runtime Issues documentation to include section on numpy.ufunc binary warnings
  • added to reprs for some db ModelClasses
  • all sdss_access.sync.RsyncAccess has been converted to sdss_access.sync.Access to allow for Linux/Windows switching
  • updates citation to Marvin paper
  • DAP Maps label on galaxy page now contains a pop up of links for more info

Fixed

  • Issue :issue:`658` - modelcube datamodel units missing angstrom
  • Issue :issue:`655` - added yaml loader to remove yaml warnings for 5.1 spec
  • Fixed bug when server tries to access NSA on cube when none exists and triggers remote authentication issue
  • Issue :issue:`664` - Fixed link to MaNGA's Getting Started in docs.
  • Issue :issue:`686` - added reflexive operators to EnhancedMap
  • Issue :issue:`689` - added link to CSV file of Firefly stellar mass measurements needed for the Spatially-Resolved Mass-Metallicity Relation Tutorial
  • Issue :issue:`682` - adds info links next to DAP Maps selection on galaxy page
  • Issue :issue:`581` - makes MapSpecView button a session variable
  • Issuu :issue:`208` - makes map selections session variable
  • Issue :issue:`171` - fix y-min to 0 for spectrum web view

[2.3.2] - 2019/02/27

Added

  • Support for MPL-8

Fixed

[2.3.1] - 2018/12/10

Refactored

  • The entire Sphinx documentation

[2.3.0] - 2018/12/03

Breaking changes

  • Removed Bin class. Bin information is now available on a per-quantity basis (:issue:`109`). See :ref:`What's new? <whats-new>` and documentation for details.
  • Syntax on the inputs to the Query and Results tools has been changed.
  • DAP spaxel queries have been disabled due to performance issues. We expect to bring them back soon. Metadata queries (those querying the NSA or DAPall tables) are still available.
  • getSpaxel now only loads the quantities from the parent object (that means that, for example, Maps.getSpaxel only loads Maps properties by default). Additional quantities can be loaded using ~marvin.tools.spaxel.Spaxel.load.
  • getSpaxel accepted arguments have been changed to cube, maps, and modelcube. The formerly accepted arguments (drp, properties, model(s)) now raise a deprecation error.

Added

  • Added cheatsheet to docs.
  • New Web authentication using Flask-Login
  • New API authentication using Flask-JWT-Extended
  • Adds MPL-7 / DR15 datamodel
  • New config.access attribute indicating public or collab access
  • New config.login method to handle token-based login
  • New marvin.yml config file for customization of configuration options
  • Adds User table into the history schema of mangadb. Tracks user logins.
  • Map has a new method getSpaxel to retrieve an Spaxel using the parent Maps.
  • New configuration option in marvin.yml, default_release, to set the release to be used when Marvin gets imported (:issue:`463`).
  • Applying a NumPy ufunc (except np.log10()) raises NotImplementedError because ivar propagation is not implemented yet.
  • New Marvin Image Tool to load optical images using the MMA (:issue:`22`)
  • New Bundle and Cutout utility classes
  • New MMAMixIn for providing multi-modal data access
  • qual_flag and pixmask_flag are now stored in the datamodel (:issue:`479,482`).
  • Query tool now accepts a new targets and quality keyword argument which enables querying on target or quality maskbit labels. (:issue:`485`)
  • Added a new API route for streaming large query results. This uses a generator to stream large results back to the client to minimize memory usage and bulk responses.

Changed

  • Integrated datamodel plotting params into actual datamodel structures
  • Moved netrc checks into the Brain
  • Expanded sasurl into public and collab urls
  • Changes personal emails to sdss helpdesk email in web
  • Added rawsql and return_params columns to history.query table in mangadb
  • Extra keyword arguments passed to Spectrum.plot are now forwarded to Axes.plot.
  • Tools (e.g., Cube, Maps) can now be accessed from the marvin namespace (e.g., marvin.tools.Cube or marvin.tools.cube.Cube).
  • Map plotting ax_setup() function is now hidden.
  • Moved yanny.py to extern/ and added a readme file for the external packages (:issue:`468`).
  • ~marvin.tools.quantities.Spectrum.plot now only masks part of the spectrum that have the DONOTUSE maskbit set (:issue:`455`).
  • pixmask is now available for all quantities (except AnalysisProprty). The property masked now uses the bit DONOTUSE to determine what values must be masked out (:issue:`462`).
  • Raises error when applying inst_sigma_correction on stellar_sigma MPL-6 maps. Applies correction to stellar_sigma and emline_sigma for web maps with added 'Corrected' title (:issue:`478`)
  • Removes targeting bits from Spaxel and Bin (:issue:`465`).
  • The name of the channel is now shown in the Property description (:issue:`424`).
  • Replaced inconsistent parameter model in ~marvin.tools.maps.Maps.getSpaxel. Use models instead.
  • MarvinError now accepts an optional ignore_git keyword to locally turn off the git addition to the message
  • Using the return_all keyword in Query or getAll in Results now calls the streaming API route instead.
  • When ~marvin.tool.cube.Cube or ~marvin.tool.modelcube.ModelCube are instantiated from file, gunzip the file to a temporary location to speed up subsequent access (:issue:`525`).
  • Convert MMA warnings to debug messages (:issue:`580`).

Fixed

  • Issue :issue:`421` - query returning spaxel props returns wrong total count
  • Bugfix - Python 3 xrange syntax bug in buildImageDict
  • Bin._create_spaxels instantiating spaxels with the wrong (i,j) values for the bin. The (i, j) values from the binid map were being swapped twice before sending them to SpaxelBase (:issue:`457`).
  • A bug in the calculation of the deredden inverse variance in a ~marvin.tools.quantities.datacube.DataCube.
  • Issue with setting drpall path on initial import/set of release before tree has been planted
  • Issue :issue:`456` - spectrum web display shows incorrect RA, Dec
  • Issue :issue:`422` - ensuring config auto checks access to netrc
  • Issue :issue:`423` - adding marvin.yml documentation
  • Issue :issue:`431` - adding login documentation
  • Issue :issue:`151` - adding web spectrum tooltips
  • Issue :issue:`548` - failed to retrieve ModelCube extension in remote mode
  • Fixed typo by in method name Spectrum.derredden -> Spectrum.deredden.
  • Fixed #305 - adding ivar propogation for np.log10(Map)
  • A bug when explicitly returning default parameters in a query (:issue:`484`)
  • Fixed #510 - fixes incorrect conversion to sky coordinates in map plotting.
  • Fixed #563 - fail retrieving Query datamodels in Python 3.6+.
  • Fixes bug with sasurl not properly being set to api.sdss.org on initial import
  • Incorrect setting of the default bintype to download from web (:issue:`531`).
  • Fixed :issue:`536`, :issue:`537`, :issue:`538`. Added modelcube to downloadList.
  • Incorrect mismatch warning between MPL-7 and DR15 (:issue:`495`).
  • Incorrect handling of maskbits when the mask does not contain any of the bits in the list (:issue:`507`).
  • Fixed :issue:`534` - flipped axes in NSA scatterplot when plotting absmag colors
  • Fixed :issue:`559` - bug in check_marvin when marvindb is None
  • Fixed :issue:`579` - bug in MMA with marvindb preventing files from opening
  • Fixed :issue:`543`, :issue:`552`, :issue:`553` - bugs with various Query handlings
  • Fixed :issue:`575` - cannot access maps due to bug in login and authentication in Interaction class
  • Fixed :issue:`539` - print downloadList target directory
  • Fixed :issue:`566` - made error message for web query with non-unique parameters name more specific

Refactored

  • Moved marvin.core.core to marvin.tools.core and split the mixins into marvin.tools.mixins.
  • Reimplemented ~marvin.tools.mixins.aperture.GetApertureMixIn.getAperture as a mixin using photutils apertures (:issue:`3,315`).
  • Reimplemented ~marvin.tools.rss.RSS as a list of ~marvin.tools.rss.RSSFiber objects (:issue:`27,504`).
  • Moved pieces of MarvinToolsClass into marvin.tools.mixins.
  • Reimplemented ~marvin.tools.query.Query to remove local query dependencies from remote mode usage.

[2.2.5] - 2018/04/26

Changed

  • Galaxy Web page spaxel loading to be robust when no modelspaxels are present in the database.

[2.2.4] - 2018/04/04

Fixed

  • Issue #400: SII in BPT diagram should use sum of 6717 and 6732.

[2.2.3] - 2018/03/20

Added

  • Added tests for emline_gflux_ha_6564 and fixed values in galaxy_test_data.

Fixed

Removed

  • The banner that showed up in Safari has been removed since most versions should now work properly.

[2.2.2] - 2018/02/25

Fixed

  • MPL-6 issue with all H-alpha extensions mapped to NII instead. Indexing issue in MPL-6 datamodel.
  • MPL-6 issue with elliptical coordinate extensions; missing R/Reff channel in MPL-6 datamodel.
  • Issue #324
  • Issue #325
  • Issue #326
  • Issue #327
  • Issue #330
  • Issue #333
  • Issue #335
  • Issue #336
  • Issue #343
  • Issue #351
  • Issue #353
  • Issue #357
  • Issue #358
  • Issue #360
  • Issue #363
  • Issue #373

[2.2.1] - 2018/01/12

Fixed

  • bugfix in MPL-6 datamodel for gew OII lines

[2.2.0] - 2018/01/12

Added

  • Added Maskbit class for easy conversion between mask values, bits, and labels.
  • Better BPT documentation, in particular in the Modifying the plot section.
  • A hack function marvin.utils.plot.utils.bind_to_figure() that replicate the contents of a matplotlib axes in another figure.
  • New scatter and histogram plotting utility functions
  • Integrated scatter and histogram plotting into query Results
  • New methods for easier query Results handling
  • New Pythonic DRP, DAP, and Query DataModels
  • Access to DAPall data

Changed

  • Issue #190: Maps.get_bpt() and marvin.utils.dap.bpt.bpt_kewley06() now also return a list of axes. Each axes contains a method pointing to the marvin.utils.plot.utils.bind_to_figure() function, for easily transfer the axes to a new figure.
  • All Cubes, Maps, and Modelcubes use Astropy Quantities
  • Refactored to the Bin class
  • Bin and Spaxel are now subclassed from SpaxelBase

Fixed

[2.1.4] - 2017/08/02

Added

  • Added new query_params object, for easier navigation of available query parameters. Added new tests.
  • Added a new guided query builder using Jquery Query Builder to the Search page
  • Added a View Galaxies link on the web results to view postage stamps of the galaxies in the results
  • Added Route Rate Limiting. Adopts a limit of 200/min for all api routes and 60/minute for query api calls and web searches

Changed

  • Changed call signature for :meth:marvin.utils.plot.map.no_coverage_mask (removed value arg because unused, added None as default value ivar (None), and re-ordered args and kwargs).
  • Changed call signature for :meth:marvin.utils.plot.map.bad_data_mask (removed value arg because unused).
  • Changed the Marvin web search page to use the new query_params and parameter grouping. Removed the autocomplete input box.
  • Updated the documentation on query and query_params.
  • Modified Guided Search operator options to remove options that could not be parsed by SQLA boolean_search
  • Refactored the web settings, route registration, extensions to enable extensibility
  • Issue #282: Improvements to "Go to CAS" link. Changed to Go To SkyServer and updated link to public up-to-date link

Fixed

  • Issue #102: problem with urllib package when attempting to retrieve the Marvin URLMap
  • Issue #93: safari browser does not play well with marvin
  • Issue #155: Contrails in Web Map
  • Issue #174: sdss_access may not be completely python 3 compatible
  • Issue #196: Bin not loading from local sas
  • Issue #207: Get Maps in MapSpecView of Galaxy page sometimes fails to return selected maps
  • Issue #210: pip upgrade may not install new things as fresh install
  • Issue #209: marvin version from pip install is incorrect
  • Issue #268: Cube flux from file error
  • Issue #85: Python does not start in Python 3
  • Issue #273: ha.value bug
  • Issue #277: Ticks for log normalized colorbar
  • Issue #275: logger crashes on warning when other loggers try to log
  • Issue #258: 422 Invalid Parameters
  • Issue #271: Problem in dowloading image.
  • Issue #97: sqlalchemy-boolean-search not found when installed from pip source
  • Issue #227: Marvin installation in python 3.6 (update setuptools to 36)
  • Issue #262: problem with marvin update
  • Issue #270: BPT array sizing not compatible
  • Issue #88: Deployment at Utah requires automatisation
  • Issue #234: Add (and use) functions to the datamodel to determine plotting parameters
  • Issue #278: marvin_test_if decorator breaks in python 2.7
  • Issue #274: cube slicing to get a spaxel fails with maps error
  • Issue #39: implement more complete testing framework
  • Issue #242: Result object representation error with 0 query results
  • Issue #159: Marvin issues multiple warnings in PY3
  • Issue #149: Improve integrated flux maps display in web

[2.1.3] - 2017/05/18

Added

  • Issue #204: added elpetro_absmag colours to mangaSampleDB models.
  • Issue #253: Plotting tutorial.
  • Issue #223: Easy multi-panel map plotting (with correctly placed colorbars).
  • Issue #232 and Issue #251: Uses matplotlib style sheets context managers for plotting (map, spectrum, and BPT) and restores previous defaults before methods finish.
  • Issue #189: Map plotting accepts user-defined value, ivar, and/or mask (including BPT masks).
  • Issue #252: Quantile clipping for properties other than velocity, sigma, or flux in web.
  • Added utils.plot.map doc page.
  • Added tools.map doc page.

Changed

  • Issue #243: inverted __getitem__ behaviour for Cube/Maps/ModelCube and fixed tests.
  • Modified Flask Profiler File to always point to $MARVIN_DIR/flask_profiler.sql
  • Issue #241: Moved map plotting methods from tools/map to utils/plot/map
  • Issue #229 and Issue #231: Switch to new gray/hatching scheme (in tools and web):
    • gray: spaxels with NOCOV.
    • hatched: spaxels with bad data (UNRELIABLE and DONOTUSE) or S/N below some minimum value.
    • colored: good data.
  • Issue #238: Move plot defaults to datamodel (i.e., bitmasks, colormaps, percentile clips, symmetric, minimum SNR).
  • Issue #206: SNR minimum to None (effectively 0) for velocity maps so that they aren't hatched near the zero velocity contour.
  • Simplified default colormap name to "linearlab."
  • Decreased map plot title font size in web so that it does not run onto second line and overlap plot.

Fixed

  • Interactive prompt for username in sdss_access now works for Python 3.
  • Fixed #195: The data file for the default colormap for Map.plot() ("linear_Lab") is now included in pip version of Marvin and does not throw invalid FileNotFoundError if the data file is missing.
  • Fixed #143: prevents access mode to go in to remote if filename is present.
  • Fixed #213: shortcuts are now only applied on full words, to avoid blind replacements.
  • Fixed #206: no longer masks spaxels close to zero velocity contour in web and tools map plots
  • Fixed #229: corrects web bitmask parsing for map plots
  • Fixed #231: hatch regions within IFU but without data in map plots
  • Fixed #255: Lean tutorial code cells did not work with the ipython directive, so they now use the python directive.
  • Highcharts draggable legend cdn.

Removed

  • Issue #232 and Issue #251: Automatic setting of matplotlib style sheets via seaborn import or plt.style.use().

[2.1.2] - 2017/03/17

Added

  • API and Web argument validation using webargs and marshmallow. If parameters invalid, returns 422 status.

Changed

  • Per Issue #186: Switched to using the elpetro version of stellar mass, absolute magnitude i-band, and i-band mass-to-light ratio for NSA web display, from sersic values. (elpetro_logmass, elpetro_absmag_i, elpetro_mtol_i)
  • Issue #188: deprecated snr in favour of snr_min for get_bpt. snr can still be used.
  • Issue #187: Renamed NSA Display tab in web to Galaxy Properties. Added a link to the NASA-Sloan Atlas catalogue to the table title.
  • Moved our documentation to readthedocs for version control. Updated all Marvin web documenation links to point to readthedocs.

Fixed

  • A bug in the calculation of the composite mask for BPT.
  • Issue #179: Fixed a python 2/3 exception error compatibility with the 2.1 release.

[2.1.1] - 2017/02/18

Added

  • Added query runtime output in search page html. And a warning if query is larger than 20 seconds.

Changed

  • Removed the python 3 raise Exception in the check_marvin bin
  • Reverted the api/query return output from jsonify back to json.dumps
    • This is an issue with python 2.7.3 namedtuple vs 2.7.11+

Fixed

  • Issue #181: web display of maps were inverted; changed to xyz[jj, ii, val] in heatmap.js
  • Added more code to handle MarvinSentry exceptions to fix #179.

[2.1.0] - 2017/02/16

Added

  • Restructured documentation index page.
  • Improved installation documentation:
    • Removed old installation text
    • Added section on marvin SDSS dependencies and SAS_BASE_DIR
    • Added section for FAQ about installation
    • Added web browser cache issue into FAQ
  • Added traceback info in the API calls
    • Added traceback attribute in Brain config
    • Added hidden _traceback attribute in Marvin config
    • Only implemented in two Query API calls at the moment
    • Added a few tests for traceback
    • see usage in cube_query in marvin/api/query.py
  • Added the Ha_to_Hb ratio the DAP ModelClasses for querying
  • Added new script to perform somce basic system, os, and Marvin checks: bin/check_marvin
  • Added an alert banner when the user is using Safari. See #94.
  • Issue #122: added ra/dec to spaxel
  • Issue #145: Limited the number of query parameters in the web
  • Added more tests to Results for sorting, paging, and getting subsets
  • Added kwargs input for Spaxel when using Result.convertToTool
  • Added automatic Sentry error logging #147 into MarvinError, and Sentry in Flask for production mode
  • Added custom error handlers for the web, with potential user feedback form
  • Added Sentry tool for grabbing and displaying Sentry statistics
  • Added text to MarvinError with a Github Issues link and description of how to submit and issue
  • Added Results option to save to CSV
  • Added new parameters in Marvin Config to turn off Sentry error handling and Github Issue message
  • Added Python example code for getting a spectrum in galaxy page of web.
  • Added new test for image utilities getRandomImages, getImagesByPlate, getImagesByList
  • Added new documentation on Image Utilities
  • Added new image utility function showImage, which displays images from your local SAS
  • Added the Kewley+06 implementation of the BPT classification as Maps.get_bpt()
  • Added quick access to the NSA information for a Cube/Maps either from mangaSampleDB or drpall.

Changed

  • When marvin is running from source (not dist), marvin.__version__ is dev.
  • Removed the cleanUpQueries method to assess db stability
  • Switched dogpile.cache from using a file to python-memcached
  • Syntax changes and bug fixes to get Marvin Web working when Marvin run on 3.5
  • Got Queries and Results working in 3.5
  • Changed all convertToTool options in Results from mangaid to plateifu
  • Added release explicitly into api query routes
  • Modified the decision tree in query to throw an error in local mode
  • Modified convertToTool to accept a mode keyword
  • Modifed the MarvinError for optional Sentry exception catching, and github issue inclusion
  • Updated all Marvin tests to turn off Sentry exception catching and the github message
  • Updated some of the Tools Snippets on the web
  • Overhauled Map plotting
    • uses DAP bitmasks (NOVALUE, BADVALUE, MATHERROR, BADFIT, and DONOTUSE)
    • adds percentile and sigma clipping
    • adds hatching for regions with data (i.e., a spectrum) but no measurement by the DAP
    • adds Linear Lab color map
    • adds option for logarithmic colorbar
    • adds option to use sky coordinates
    • adds map property name as title
    • makes plot square
    • sets plotting defaults:
      • cmap is linear_Lab (sequential)
      • cmap is RdBu_r (diverging) for velocity plots (Note: this is reversed from the sense of the default coolwarm colormap in v2.0---red for positive velocities and blue for negative velocities)
      • cmap is inferno (sequential) for sigma plots
      • clips at 5th and 95th percentiles
      • clips at 10th and 90th percentiles for velocity and sigma plots
      • velocity plots are symmetric about 0
      • uses DAP bitmasks NOVALUE, BADVALUE, MATHERROR, BADFIT, and DONOTUSE
      • also masks spaxels with ivar=0
      • minimum SNR is 1
  • Changed Marvin Plate path back to the standard MarvinToolsClass use
  • Made sdss_access somewhat more Python 3 compatible
  • Modified the image utilities to return local paths in local/remote modes and url paths when as_url is True
  • downloadList utility function now downloads images
  • updated the limit-as parameter in the uwsgi ini file to 4096 mb from 1024 mb for production environment

Fixed

  • Issue #115: drpall does not get updated when a tool sets a custom release.
  • Issue #107: missing os library under save function of Map class
  • Issue #117: hybrid colours were incorrect as they were being derived from petroth50_el.
  • Issue #119: test_get_spaxel_no_db fails
  • Issue #121: bugfix with misspelled word in downloadList utility function
  • Issue #105: query results convertToTool not robust when null/default parameters not present
  • Issue #136: BinTest errors when nose2 run in py3.5 and marvin server in 3.5
  • Issue #137: PIL should work in py2.7 and py3.5
  • Issue #172: broken mode=auto in image utilities
  • Issue #158: version discrepancy in setup.py

[2.0.9] - 2016/11/19

Added

  • Docs now use marvin.__version__.

Fixed

  • Fixed #100, #103: problem with getMap for properties without ivar.
  • Fixed #101: problem with marvin query.

[2.0.8] - 2016/11/18

Fixed

  • Now really fixing #98

[2.0.7] - 2016/11/18

Fixed

  • Fixed issue #98

[2.0.6] - 2016/11/17

Fixed

  • Bug in Queries with dap query check running in remote mode. Param form is empty.

[2.0.5] - 2016/11/17

Added

  • Added netrc configuration to installation documentation.
  • Added netrc check on init.

Fixed

  • Added mask to model spaxel.
  • Bug in Cube tool when a galaxy loaded from db does not have NSA info; no failure with redshift
  • Two bugs in index.py on KeyErrors: Sentry issues 181369719,181012809
  • Bug on plate web page preventing meta-data from rendering
  • Fixed installation in Python 3.
  • Fixed long_description in setup.py to work with PyPI.
  • Fixed a problem that made marvin always use the modules in extern

[The dark ages] - multiple versions not logged.

[1.90.0]

Changed

  • Full refactoring of Marvin 1.0
  • Refactored web

Added

  • Marvin Tools
  • Queries (only global properties, for now)
  • Point-and-click for marvin-web
  • RESTful API
  • Many more changes

Fixed

  • Issue albireox/marvin#2: Change how matplotlib gets imported.