Marvin’s Change Log
[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.
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
- bugfix in MPL-6 datamodel for gew OII lines
[2.2.0] - 2018/01/12
- 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
- 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
[2.1.4] - 2017/08/02
- 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 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
- 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
- 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.
- 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.
- 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.
- Issue #232 and Issue #251: Automatic setting of matplotlib style
sheets via seaborn import or
plt.style.use()
.
[2.1.2] - 2017/03/17
- API and Web argument validation using webargs and marshmallow. If
parameters invalid, returns 422 status.
- 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.
- 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 query runtime output in search page html. And a warning if
query is larger than 20 seconds.
- 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+
- 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
- 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.
- 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
- 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
- Docs now use
marvin.__version__
.
- Fixed #100, #103: problem with getMap for properties without ivar.
- Fixed #101: problem with marvin query.
[2.0.6] - 2016/11/17
- Bug in Queries with dap query check running in remote mode. Param
form is empty.
[2.0.5] - 2016/11/17
- Added netrc configuration to installation documentation.
- Added netrc check on init.
- 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]
- Full refactoring of Marvin 1.0
- Refactored web
- Marvin Tools
- Queries (only global properties, for now)
- Point-and-click for marvin-web
- RESTful API
- Many more changes
- Issue albireox/marvin#2: Change how matplotlib gets imported.