sdss/marvin: Marvin Beta 2.3.0

This release represents a major overhaul of Marvin for the DR15 public data release. It introduces a new token authentication system, a public versus collaboration access modes, and many other new and refactored changes. With this version change on the server-side, all Marvin versions 2.2.x will no longer be compatible. Breaking changes Removed Bin class. Bin information is now available on a per-quantity basis (:issue:109). See :ref:What's 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 (:issues: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