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Recent Releases of astrobase

astrobase - astrobase v0.5.3

v0.5.3 - 2021-01-16

New stuff

  • lcmath: The phase_bin_magseries_with_errs function can now accept per-measurement weights to allow different errors for each measurement. Added by @lgbouma.

  • services.tesslightcurves: The get_eleanor_lightcurves function now accepts an optional targetdata_kwargs dict to pass in custom target info parameters to the underlying eleanor.TargetData constructor. Added by @lgbouma.

  • services: A new alltesslightcurves module to get all available TESS light curves for an object was added by @mchris42.

  • checkplot.png: The _make_phased_magseries_plot function now accepts atrimylim kwarg to remove large outliers. Added by @lgbouma.

  • Gaia EDR3 support is now available in all functions in the services.gaia module and the dependent functions in the checkplot, identifiers, and varclass.starfeatures modules. Set the data_release kwarg to 'dr2' to use DR2, and 'edr3' to get data from EDR3.

NOTE: The Vizier TAP service mirror for EDR3 (currently) uses column names that are different from the Gaia main EDR3 and Heidelberg EDR3 mirrors. The services.gaia.objectlist_conesearch, services.gaia.objectlist_radeclbox, and services.gaia.objectid_search functions will fall back to DR2 if the Vizier mirror is used. To avoid this, use another mirror by setting thegaia_mirror kwarg to either 'gaia' or 'heidelberg'.

Changes

  • The default timeout for the SkyView service clients in plotbase and services.skyview has been changed to 45 seconds.

  • Minor fixes for deprecated methods in matplotlib and numpy.

Fixes

  • services.gaia: The Heidelberg mirror URL now uses HTTPS and should no longer fail all the time.

- Python
Published by waqasbhatti about 5 years ago

astrobase - astrobase v0.5.0

v0.5.0

This is a new major release. Support for Python 2.7 has been dropped. Astrobase now requires Python 3.5+.

New stuff

  • New services.tesslightcurves module to retrieve TESS HLSP light curves from MAST. This requires the astroquery, eleanor, and lightkurve packages. By @lgbouma.
  • services.identifiers: new tic_to_gaiadr2 function. By @lgbouma.

Fixes

  • periodbase.kbls: now resorts the input times, mags, errs by time to avoid a segfault in the wrapped eebls Fortran code. Should fix #94.
  • services.lccs: now includes the logging bits to make it an actually standalone module.

Changes

  • periodbase: all period-finder functions now resort their input times, mags, errs arrays by time before operating on them.
  • cpserver: reorganized the Tornado handlers into their own modules.
  • various flake8 formatting fixes all over the package
  • removed Python 2 specific code all over the package

Removed

  • The deprecated astrobase.varbase.lcfit module has been removed. Use the top-level astrobase.lcfit subpackage instead.

- Python
Published by waqasbhatti almost 6 years ago

astrobase - astrobase v0.4.3

New stuff

  • New services.limbdarkening module to retrieve limb-darkening Claret+ 2017 coefficients from Vizier (just for the TESS band for now). Added by @lgbouma.
  • New services.identifiers module to convert between SIMBAD, GAIA DR2, and TIC identifiers for objects. Added by @lgbouma.
  • New imageutils module for some simple FITS operations.
  • Added the fivetransitparam_fit_magseries function to lcfit.transits for fitting a line plus a Mandel-Agol transit model with everything fixed leaving the t0, period, a/Rstar, Rp/Rstar, and inclination as free parameters. Added by @lgbouma.

Fixes

  • Minor fixes to the checkplot and services subpackages.

- Python
Published by waqasbhatti over 6 years ago

astrobase - astrobase v0.4.2

Changes

  • All lcfit functions now use scipy.optimize.curve_fit instead of scipy.optimize.leastsq previously. This appears to produce much more reasonable fit parameter error estimates.
  • periodbase.kbls: The BLS stats functions now check for a sensible transit model when calculating stats (transit depth, duration, SNR, refit period and epoch).
  • checkplot.png: Added option to overplot circle on DSS finder-charts. checkplot.png.twolsp_checkplot_png can now return a matplotlib.Figure. Added by @lgbouma in #86.

Fixes

  • lcproc.tfa: Fixed caching of collected LC info when generating a TFA template.
  • checkplotserver: Fixed column errors in exported CSV from the interface (#85).

Removed

  • Removed deprecated function astrotess.get_time_flux_errs_from_Ames_lightcurve. Use astrotess.read_tess_fitslc instead.
  • Removed deprecated module services/tic.py. Use services/mast.py instead.

- Python
Published by waqasbhatti over 6 years ago

astrobase - astrobase v0.4.1

New stuff

  • periodbase.kbls: now returns BLS stats along with the period finder results.

  • varbase.trends: added External Parameter Decorrelation with arbitrary external parameters, optimizer function, and objective function.

  • periodbase: added a wrapper for the Transit Least Squares period-finder (Hippke & Heller 2019; added by @lgbouma)

  • periodbase.zgls: added calculation of the analytic false-alarm probability.

  • services.gaia, services.mast: added single-object search-by-name functions.

  • lcfit.utils: added an iterative_fit function.

Changes

  • lcproc.tfa: now removes template objects from consideration if they're too close to the target object.

  • periodbase: broke out all of the functions in periodbase/__init__.py to periodbase/utils.py and periodbase/falsealarm.py as appropriate.

Fixes

  • periodbase: fixed epsilon checking against values of previous best periods when iterating through periodogram peaks (by @joshuawallace).

  • periodbase.zgls: now correctly uses tau in the calculation of the periodogram value.

  • varclass.starfeatures: fixed missing and in an if-statement (by @joshuawallace).

  • lcproc.tfa: various bug-fixes.

- Python
Published by waqasbhatti almost 7 years ago

astrobase - astrobase v0.4.0

This is a new major release. Several modules have been moved around. Most public facing modules and functions now have full docstrings that auto-generate Sphinx documentation (https://astrobase.readthedocs.io).

Work for the v0.4 series of releases will be tracked at:

https://github.com/waqasbhatti/astrobase/projects/1

New stuff

  • New top-level lcproc, checkplot, and lcfit subpackages.
  • services.mast: now has a tic_xmatch function.
  • lcfit.transits: added new mandelagol_and_line_fit_magseries function (by @lgbouma).
  • timeutils: added new get_epochs_given_midtimes_and_period function (by @lgbouma).
  • New periodbase.abls module to use Astropy 3.1's BoxLeastSquares as the BLS runner instead of the wrapped eebls.f used by periodbase.kbls. periodbase.kbls remains the default implementation when you do from astrobase import periodbase. You can call periodbase.use_astropy_bls() immediately after importing periodbase to switch the default BLS implementation to periodbase.abls.

Changes

  • varbase.lcfit has been moved to a new top-level subpackage called lcfit, and is broken up into lcfit.sinusoidal, lcfit.eclipses, lcfit.nonphysical and lcfit.transits submodules. The varbase/lcfit.py module will be removed in Astrobase 0.4.5.
  • lcproc.py has been moved to a new top-level subpackage called lcproc, and is broken up by specific functionality.
  • checkplot.py has been moved to a new top-level subpackage called checkplot, and is broken up into checkplot.pkl for making checkplot pickles, and checkplot.png for making checkplot PNGs.
  • periodbase.kbls.bls_stats_singleperiod and periodbase.kbls.bls_snr now do a trapezoidal transit model fit to the prospective transit found by an initial run of BLS and calculate the transit depth, duration, ingress duration, refit period, and refit epoch that way.
  • plotbase: the function plot_phased_mag_series is now called plot_phased_magseries.
  • plotbase: the function plot_mag_series is now called plot_magseries.
  • lcproc_aws.py has been moved to lcproc.awsrun.
  • lcproc now uses JSON files stored in either [astrobase install path]/data/lcformats or ~/.astrobase/lcformat-jsons to register custom LC formats. This is more flexible than the older approach of adding these to a top-level dict in lcproc.py.
  • lcfit.sinusoidal: the fourier_fit_magseries function now returns times.min() as the epoch value in its fitinfo dict (by @joshuawallace). The actual time of minimum light is returned as actual_fitepoch in the fitinfo dict.
  • periodbase/oldpf.py has been moved to periodbase/_oldpf.py. It will be removed in Astrobase 0.4.2.
  • The services.tic module has been deprecated and will be removed in Astrobase 0.4.2.
  • The astrotess.get_time_flux_errs_from_Ames_lightcurve function has been deprecated and will be removed in Astrobase 0.4.2. Use the astrotess.read_tess_fitslc and astrotess.filter_tess_lcdict functions instead.
  • We no longer run the Astrobase test suite on Python 2.7. Most things should continue to function, but there are no guarantees. Python 2.7 support will end in December 2019.

Fixes

  • Lots of bug fixes everywhere. See the commit history for details.

- Python
Published by waqasbhatti about 7 years ago

astrobase - astrobase v0.3.20

New stuff

  • plotbase.plot_phased_magseries can now overplot a light curve model. Added by @lgbouma.
  • new varbase/transits.py module for planet transit specific tools. Added by @lgbouma.
  • new awsutils.py module for interfacing with various AWS services for lcproc_aws.py.
  • new lcproc_aws.py module for lcproc functions ported to AWS workflows.
  • astrotess.py now has read_tess_fitslc, consolidate_tess_fitslc, and filter_tess_fitslc functions like astrokep.py to read MAST archived *_lc.fits files (from the TESS Alerts page) into lcdicts.
  • new services/mast.py module for querying the STScI MAST API. Added a tic_conesearch function to help with future checkplot making that will include TIC IDs and TESS mags.
  • lcproc.register_custom_lcformat can now provide arbitrary kwargs to the LC reader and normalization functions.

Changes

  • services: service clients that talk to single mirrors now use a random sleep before launching the request to avoid overload when running in many parallel processes.
  • checkplot, starfeatures: include all GAIA neighbor proper motions instead of just the target object proper motions.
  • starfeatures functions now recognize TESS and Kepler mags for checkplot making.
  • services/lccs.py: updated for v0.2 of the LCC-Server's API.
  • lcproc.make_lclist now accepts an input list of actual filenames to turn into a lclist catalog pickle.
  • hatsurveys.hatlc.normalize_lcdict_byinst now also uses the LC's ccd column to generate the normalization key.

Fixes

  • added checks in various places for both lists and tuples where lists only were expected.
  • lcfit.mandelagol_fit_magseries: various bugfixes.
  • lcproc.make_lclist now handles duplicate object IDs with different light curve files correctly.
  • lcproc, checkplot: remove spaces in object IDs for output filenames.
  • astrokep.py: fix LC normalization.

- Python
Published by waqasbhatti over 7 years ago

astrobase - v0.3.19

v0.3.19

New stuff

  • varbase.lcfit: now includes a mandelagol_fit_magseries function to fit a Mandel-Agol transit model. Implemented by @lgbouma. Requires emcee, h5py, corner and BATMAN.
  • Added astrotess.py by @lgbouma containing basic TESS TOI light curve reader functions.
  • Added services/tic.py by @lgbouma containing a basic TESS Input Catalog at MAST API client.
  • lcproc.parallel_cp: can now slice task lists using start and end indices.

Changes

  • services/skyview: added configurable retry behavior if the downloaded FITS file is corrupted.
  • checkplot: the fast_mode kwarg now disables SIMBAD lookup because the service is unreliable.
  • hatsurveys/hatlc: added a quiet kwarg for the normalization functions.

Fixes

  • lcproc.add_cpinfo_to_lclist: fix typo abs_gaiamag -> gaia_absmag; these values will now be extracted correctly from checkplots.
  • periodbase.kbls.bls_serial/parallel_pfind: also returns the magsarefluxes kwarg from the input.
  • periodbase.kbls.bls_stats_singleperiod and bls_snr: fix transit depth sign if magsarefluxes = True.

v0.3.18

New stuff

  • checkplot: added a fast_mode kwarg for checkplot_pickle so external service queries time out faster when the services are not responsive.

Changes

  • lcmath.sigclip_magseries: sigclip can now be either int or float.

Fixes

  • lcfit: in the *_fit_magseries functions, fitmagminind can be a multiple-item array instead of a single item for flat light curves. This will break the time-of-minimum finding routine for an LC fit. Now uses the first item in the array for magseriesepoch if this is the case. Added by @joshuawallace.

v0.3.17

New stuff

  • kbls: added a dedicated bls_stats_singleperiod function to get time of center-transit, refit period, and transit duration
  • hatlc: added console script to directly read/dump HAT LCs and metadata from the command-line
  • hatlc: added support for LCC server produced CSV light curves
  • services: removed hatds.py, added new lccs.py for common LCC server API
  • checkplotserver: added a standalone mode for serving checkplot pickles
  • checkplot.checkplot_pickle_to_png: add support for LCC server produced JSON

Changes

  • k2hat: fixes to column names in lcdict to bring into line with other LC readers in the hatsurveys subpackage
  • hatlc.read_and_filter_sqlitecurve: make less verbose in case of errors
  • kbls.bls_snr: get time of center-transit using a better method
  • kbls.bls_snr: return refit periods and epochs
  • cpserver.js: added parsing of observatory and telescope keys in checkplots if present

Fixes

  • cp.checkplot_pickle_update: fix unicode filename handling for py2 (#52)
  • coordutils: fix sign parsing bug in dms_str_to_tuple
  • lcproc.add_cpinfo_to_lclist: fix incorrect cpdict keys for varfeatures

v0.3.16

Fixes

  • services: fixed infinite mirror-hop loop when submitting queries for SIMBAD/GAIA, these should now bail out after maxtries number of submission tries are reached.
  • cpserver: fixed some issues with frontend JS breaking if GAIA xy positions are not available for some reason

v0.3.15

New stuff

  • cpserver: added a baseurl kwarg to checkplotserver so one can launch multiple instances of it and have them go to separate base URLs if reverse-proxying to external users.
  • plotbase.plot_phased_mag_series: allow output to an existing matplotlib.axes.Axes object

Changes

  • cpserver: checkplot filenames are now URI encoded in requests to checkplotserver

- Python
Published by waqasbhatti over 7 years ago

astrobase - astrobase v0.3.14

New stuff

  • checkplot: add update_checkplot_objectinfo function to retroactively update checkplots with new information after they've been created
  • services: added a SIMBAD TAP query client
  • services.gaia: added complete_query_later kwarg to save still-running query info if a timeout is reached. the next invocation of the same query will check if it completed and will retrieve the results
  • varclass.starfeatures: get all possible external object IDs from SIMBAD
  • checkplot, lcproc, starfeatures: add gaia_max_timeout, gaia_mirror, and complete_query_later kwargs to query and checkplot related functions

Changes

  • services.gaia: now uses DR2
  • services.gaia: now figures out which GAIA mirrors to use automatically, uses CDS by default
  • services.gaia: can now skip to another GAIA mirror if the current one doesn't work. mirrors enabled are the GAIA main site, the Heidelberg mirror, and the CDS mirror
  • lcproc.add_cpinfo_to_lclist: add magcols to the output dict and run SIMBAD query again if necessary
  • checkplot._pkl_finder_objectinfo: allow direct use of dict as lclistpkl kwarg

Fixes

  • checkplot: actually retry finder chart with forcefetch=True
  • cpserver.js: handle errors correctly on checkplot load
  • cpserver.js: more failure handling
  • kbls: new chunk-size determination scheme, should fix Github #50
  • services.gaia: automatically figure out table names for mirrors
  • services.gaia: fix missing import, tests: use new expected GAIA ID for DR2
  • services.gaia: handle timeouts and 503s a bit better
  • services.gaia, skyview: add handling for corrupt cached results
  • services.simbad: enforce random wait time between retries
  • starfeatures: fix missing simbad_result var
  • tests: more fixes for GAIA DR2
  • varfeatures.nonperiodic_lightcurve_features: fix ndet inconsistency

- Python
Published by waqasbhatti almost 8 years ago

astrobase - astrobase v0.3.13

(this changelog includes v0.3.12 changes)

New stuff

  • checkplot, checkplotserver: handle cases of no PF results, also PF results w/ only 1 phased LC. This allows making checkplot pickles for objects with no period-finder results just to see their mags, colors, finder chart, and GAIA info in the checkplotserver web interface or as checkplot pickles exported to PNG
  • lcproc.runcp: allow empty pfpickle input for CPs w/o phased LCs
  • lcproc: new add_cpinfo_to_lclist function to add back checkplot info to the object catalog generated by lcproc.make_lclist
  • lcproc, plotbase: add overlay_zoomcontain kwarg for fits_finder_chart function to zoom finder charts automatically to the footprint of all annotated objects in the overlay
  • services.gaia: now randomly picks between GAIA archive mirrors and can skip dead ones automatically
  • (v0.3.12) lcproc: added TFA (Kovacs et al. 2005) implementation and parallel drivers
  • (v0.3.12) lcproc: added EPD drivers for LC collections

Changes

  • checkplot: finder reticle now at radec -> xy of object instead of center of chart
  • services.gaia: return query params for info after an HTTPError
  • (v0.3.12) lcproc, checkplotlist: make nworkers depend on actual number of CPUs
  • (v0.3.12) lcproc: add minobservations kwarg for runcp, parallel_cp, parallel_cpdir

Fixes

  • services.gaia: standardize ra, dec etc strings to make cache hits more probable
  • lcproc.runcp: workaround for list of pfmethods if not provided in the period-finding result pickle
  • cps UI: fix overview tab LC tile widths if no PF methods are present in the checkplot pickle
  • cpserver: fix object comments not being included in CSV/JSON export from web interface or being written to the original checkplotlist JSON
  • checkplot: handle 'objectid' not found in HAT LC objectinfo dicts
  • (v0.3.12) lcproc: fix addressing of magcols so stuff like specifying 'epd.mags', 'tfa.mags' works for most functions correctly
  • (v0.3.12) lcproc.timebinlc: write results to correct outdict keys based on magcols
  • (v0.3.12) lcfit: fix missing imports
  • (v0.3.12) lcfit.spline_fit_magseries: fix annoying 'x must be strictly increasing' error by removing duplicate x values
  • (v0.3.12) checkplot: fix axes -> ax typo

- Python
Published by waqasbhatti almost 8 years ago

astrobase - astrobase v0.3.11

New stuff

  • checkplot.checkplot_pickle_to_png: can now export to StringIO or BytesIO instance in addition to a PNG filename.
  • checkplot/lcproc: added a maxnumneighbors kwarg to control the max number of neighbors the function retrieves around the target object. Added by Joshua Wallace (@joshuawallace).
  • cpserver UI: added object-neighbor color and mag diffs per neighbor to the overview tab if available.
  • cpserver UI: zoom effects on mouse-over for phased LC tiles to make reviewing easier.
  • lcproc.make_lclist/filter_lclist: can now make overlayed FITS finder charts if a FITS file for the object catalog is provided. The lc-collection-work Jupyter notebook has more details.
  • plotbase: added a fits_finder_chart function to make an annotated finder chart from a given FITS file with WCS information.

Changes

  • cpserver UI: finder chart reticle appearance changed slightly to obscure stars near the target less.
  • cpserver UI: moved the 'Save to PNG' button to the overview tab so it's more obvious.
  • checkplot:checkplot_pickle: can now fall back to GAIA proper motions if 'pmra' and 'pmdecl' are not provided in the input objectinfo dict kwarg.
  • cpserver: now gzips the response (slightly speed up if the checkplotserver is running somewhere else other than localhost).
  • cpserver: PNG export for a checkplot is now done in memory (theoretically, this enables PNG export in readonly mode, but that's disabled for now).

Fixes

  • checkplot.checkplot_pickle_to_png: fix py2 StringIO isinstance() issues.
  • cpserver: fix broken handling of missing nbr mag and color diffs.
  • cpserver UI: fix the CSV/JSON export to correctly include all previous reviewed objects instead of just the ones from the current session.
  • cpserver: readonly mode now disables all input correctly.
  • cpserver UI: fix checkplot list traverse breaking at ends of list.
  • periodbase.kbls.bls_snr: fixed transit duration calculation, pointed out in Github PR #45.
  • lcproc: fix readerfunc apply if sequences are returned.

- Python
Published by waqasbhatti almost 8 years ago

astrobase - astrobase v0.3.9

New stuff

  • checkplot: can now provide epochs for folding phased light curves as input, overriding the default light curve time-of-minimum finding strategy
  • starfeatures and checkplot: can now use arbitrary mags and colors in input objectinfo dicts, can add custom bandpasses as well
  • checkplotserver UI: added highlight for each GAIA neighbor in the DSS finder chart as cursor mouses over its row in the GAIA neighbor list table to help with visualizing close neighbors
  • tests: added tests for new epoch and mag/color handling
  • added a CITE.md

Changes

  • checkplot: no longer warns if a pickle was written in Python 2 and latin1 encoding was needed to read it in Python 3
  • checkplot: a Savitsky-Golay fit is now tried before giving up on finding time-of-minimum of a light curve if the initial spline fit failed
  • checkplotserver: UI fixes to not squish phased LC tiles into too small an area; now they overflow off the page with scroll-bars, but should remain legible
  • lcmath.sigclip_magseries can now use either median/MAD or mean/stdev as the central and spread values in determining where to clip (added by @joshuawallace in #40)

Fixes

  • checkplotserver: handle more nan-JSON breakage
  • starfeatures: handle missing information correctly
  • fixed link at the top of hatlc.py to the astrobase-notebooks repository (added by @adrn in #37)
  • checkplotlist: fixed to not use non-existent str.isdecimal() in Python 2
  • various other Python 3 specific things were fixed to make them work on python 2.7 as well

- Python
Published by waqasbhatti almost 8 years ago

astrobase - astrobase v0.3.8

New stuff

  • added a varbase/trends.py module for detrending LCs
  • varbase/trends: added implementation of classic EPD and random-forest EPD
  • lcmath: add a sigclip_magseries_with_extparams function
  • checkplots: now able to handle multiple invocations of the same period-finder method (e.g. for exploring different period-ranges with the same PF method)

Changes

  • timeutils: use HTTPS url for JPL ephem download
  • setup.py: use pip>=6 requirements format; allows conditional py2 dependency on the backported future package, instead of the hack we had before
  • lcproc.filter_lclist: get the whole matching row from the external catalog for xmatches instead of just the objectid
  • lcfit.legendre_fit_magseries: add legendre fit coeffs to output dict
  • removed imageutils.py, moved to another package in development
  • periodbase: periodepsilon is now a fraction diff from previous peak instead of an absolute diff, should work better for finding peaks in the periodograms for all period ranges now

Fixes

  • kbls.bls_snr: fix for not using the same kwargs from the initial BLS run
  • kbls: fixing nphasebins and messaging about autofreq
  • starfeatures.neighbor_gaia_features: handle missing K mag
  • cpserver.js: better handle missing checkplot info from GAIA, etc.
  • tests: fixed some bugs
  • checkplot.checkplot_pickle_to_png: guard against missing phased LCs for nbestperiods
  • lcproc: various fixes for new generation checkplots

- Python
Published by waqasbhatti about 8 years ago

astrobase - astrobase v0.3.5

Changes

  • removed example PNGs from PyPI source and wheel distributions to cut down on size; now back to a reasonable ~750 kB instead of ~4 MB previously.

- Python
Published by waqasbhatti about 8 years ago

astrobase - astrobase v0.3.4

New stuff

  • checkplot: added cross-matching against external catalogs
  • checkplotserver: add GAIA information
  • checkplotserver: add display of GAIA CMD for object if available
  • checkplotserver: add xmatch information
  • checkplotserver: added all current astrobase period-finders and their specific options
  • checkplotserver: added time, mag/flux filtering, and sigclip for period-search tab
  • checkplotserver: link to neighbors' checkplots if they're in current collection
  • checkplotserver: add some more var/obj tags available by default
  • coordutils: add general kdtree functions
  • cpserver.js: add xypos to GAIA neighbor display, for TBD cutout overlay
  • lcproc: add xmatch drivers
  • lcproc: get color/mag diffs between object and LCC neighbors
  • lcproc: implemented functions to add CMDs to checkplots
  • magnitudes: add GAIA absolute mag calc
  • services.gaia: also get parallaxes from the gaia_source table if available
  • starfeatures: attempt to handle no close GAIA matches
  • starfeatures: get BV from JHK if necessary
  • starfeatures: get GAIA xy positions on object Skyview cutout

Changes

Lots of reorganization and cleanup:

  • hatlc, hplc, oldhatlc, k2hat were all moved to the hatsurveys subpackage
  • all checkplotserver related modules are now in the cpserver subpackage

Other changes:

  • checkplot, lcproc: change default nbr radius to 60 arcsec
  • checkplot: starfeatures.neighbor_features -> neighbor_gaia_features
  • checkplotserver: default nav shortcut key now alt+shift+left/right instead of ctrl+left/right
  • checkplotserver UI: reorganized for better workflow, disabled TBD elements for now
  • lcproc, checkplot: put in xmatch kwargs and calls
  • setup.py: add cpserver subpackage

Fixes

  • checkplot: fix location for font
  • checkplot, cpserver: various fixes to imports and nan-handling
  • cpserver, cp: fix JSON encoder to handle more weird things
  • cpserver: make ACF period search actually work from the frontend
  • cpserver: handle case where neighbors don't have LCs
  • cpserver: handle nans better in arrays sent to frontend
  • cpserver: handle nans from xmatch results
  • cps UI: clear periodsearch elems on checkplot load
  • cps UI: load previously saved period/epoch for plotting in psearch-tab
  • cps UI: more small fixes
  • lcmath: add missing imports
  • lcproc: fixed bugs with new neighbor processing
  • lcproc: fix issue with missing LC renorm for runcp
  • periodbase.macf: fix filterwindow kwarg

- Python
Published by waqasbhatti about 8 years ago

astrobase - astrobase v0.3.3

New stuff

  • checkplot: added all new star features to checkplot dict objectinfo
  • cpserver: added implementation for neighbors tab
  • cpserver: add GAIA neighbors, dereddened colors, color classes to web interface
  • services.skyview: add sizepix param, gracefully handle older cache fnames
  • checkplotlist: add a default sortorder and sortkey (objectid - asc)

Fixes

  • checkplot: fix broken coordutils imports for checkplot_png, et al.
  • checkplot: add extra guards against measurements being all nan or not enough finite values
  • checkplot.checkplotpickleto_png: guard against missing or insufficient neighbor LCs
  • checkplot: fix checkplot_png download of finder charts
  • checkplotlist: fix various horrendous bugs when no sorting/filtering specified
  • cpserver js: fix long-broken arbitrary period, epoch, etc. input
  • lcproc: check if a neighbor LC actually exists before processing it
  • lcproc: guard against insufficient measurements for neighbors too
  • plotbase: fix long-broken stamp fetch that tests ignored
  • starfeatures.neighbor_features: correctly handle case where there are no GAIA neighbors

- Python
Published by waqasbhatti about 8 years ago

astrobase - astrobase v0.3.2

Changes in this release

  • cpserver: correct imports for varfeatures
  • cpserver: enable specwindow LSP, AoVMH, ACF plots
  • cpserver: show time-sampling specwindow LSP if it exists
  • lcproc.get_periodicfeatures: handle insufficient # of finite LC pts
  • lcproc: makelclist -> make_lclist, getlclist -> filter_lclist
  • services.gaia: added GAIA cone-search function
  • varclass.periodicfeatures: lots of fixes for handling LC fit errors
  • varclass.starfeatures: fix dist_arcsec calculation from xyz_dist
  • varclass.starfeatures, lcproc: added GAIA nbr dist features, fixed more bugs

- Python
Published by waqasbhatti about 8 years ago

astrobase - astrobase v0.3.0

Changes in this release

  • moved some modules around for better organization

    • fakelcgen -> fakelcs.generation
    • fakelcrecovery -> fakelcs.recovery
    • varbase.features -> varclass.varfeatures
    • hatds -> services.hatds

  • new modules:

    • varclass.periodicfeatures
    • varclass.starfeatures
    • varclass.rfclass
    • services.dust
    • services.gaia
    • services.skyview
    • services.trilegal

  • checkplot: arbitrary lspmethods in priority order for neighbors

  • checkplotlist: use '|' to separate filter/sort ops/operands, not '_'

  • fakelcs.generation: add in cepheids as a fakevar class

  • fakelcs.recovery: added grid-search for optimizing per-magbin varidx

  • fakelcs.recovery: added plotting for optimization results

  • lcfit: additional guards against leastsq failure

  • lcfit: handle case where covxmatrix isn't returned

  • lcmodels.eclipses: add secondaryphase as another param

  • lcproc: added get_starfeatures, serial and parallel drivers

  • lcproc: added parallel_periodicfeatures, _lcdir

  • lcproc: adding in per-magbin variable index thresholds

  • lcproc: fix glob for parallel_runcp_pfdir

  • lcproc: added star, periodic_feature parallel and serial drivers

  • lcproc.runpf: remove BLS, add AoVMH + specwindow L-S as default PF

  • periodbase, plotbase: add specwindow function to registries

  • periodbase.zgls: add specwindow_lsp to check for peaks caused by time-sampling

  • many other bugfixes

Work that may be in progress

  • added lcproc_batch.py for running LC processing on AWS, GKE, etc.
  • added Dockerfiles to run astrobase from a Docker container

- Python
Published by waqasbhatti about 8 years ago

astrobase - astrobase v0.2.9

Changes in this release

  • moved the Jupyter notebooks to their own repository at https://github.com/waqasbhatti/astrobase-notebooks
  • various fixes after the notebook move

- Python
Published by waqasbhatti over 8 years ago

astrobase - astrobase v0.2.8

Fixes in this release

  • checkplot: add a short cp2png function for convenience
  • checkplot/hplc: add gzip support
  • checkplot, hplc, lcproc: fix binary mode opening for gzipped pickles
  • checkplot: remove stray re-raise so things won't break if no finder
  • fakelcgen.addfakelcvariability: don't add variability if it exists
  • fakelcgen: add generatetransitlightcurve, addfakelcvariability fns
  • fakelcgen: add timecols, magcols, errcols to fakelcdict; transit stuff
  • fakelcgen: finished up addvariabilitytofakelccollection
  • fakelcgen: fixed bugs in generate[eb|flare]lightcurve
  • fakelcgen: fixing generatetransitlightcurve
  • fakelcgen: fix random declination range
  • fakelcgen: handle non-variables in addfakelcvariability
  • fakelcgen/lcproc: chosen random mag -> scalar; feature arrays -> 1-d
  • fakelcgen: use the correct bin count dist for random mag assignments
  • hplc: read gzipped pklc transparently
  • lcproc: add parallel_runcp for list of periodfinding result pickles
  • lcproc: HP gzipped pklc glob update

Work that may be in progress

  • [WIP] varclass.fakelcrecovery: TBD

- Python
Published by waqasbhatti over 8 years ago

astrobase - astrobase v0.2.7

Fixes in this release

  • checkplot: use axesgrid1 because axesgrid is deprecated apparently
  • features.allnonperiodicfeatures: add back magsarefluxes kwarg
  • lcmath: add (optional for now) iterative sigclip to sigclip_magseries
  • lcmodels.eclipses: fixes to docstring
  • lcmodels.eclipses, lcfit: implemented invgauss_eclipses model & fit fns
  • lcproc.plotvariabilitythresholds: yscale -> log
  • lcproc: stetsonthreshold -> variabilitythreshold, now per mag-bin
  • lcproc: stupid bug fix
  • lcproc.variability_threshold: get and plot LC RMS as well
  • recoverysim: added makefakelccollection
  • recoverysim: fixed up makefakelc, makefakelc_collection
  • recoverysim: now two separate modules: fakelcgen and fakelcrecovery
  • varbase.features: some more measures added
  • varbase.lcfit: fix confusing fourierorder, fourierparams kwargs. GH PR #27
  • varbase.signals: fixes for GH PR #25 and #29
  • varbase/signals: fix long-broken gls_prewhiten iterative prewhiten function
  • checkplot.twolsp_checkplot.png: Wrapped LOGWARNING in if verbose: statement

Work that may be in progress

  • [WIP] moved various LC models into lcmodels, TODO: finish these
  • [WIP] setting up the varclass package, TODO: finish this

- Python
Published by waqasbhatti over 8 years ago

astrobase - astrobase v0.2.6

Fixes in this release:

  • lcfit: fix error handling
  • lcfit: implement traptransitfitmagseries to fit trapezoids to transit signals
  • lcfit.traptransitfitmagseries: get formal 1-sig errs for final params
  • lcproc/checkplot: use full lcfpath in makelclist, getlclist, nbr procs
  • lcproc, features: fix broken beyond1std, add bestmagcol to results
  • lcproc.makelclist: add maxlcs kwarg
  • lcproc.makelclist: fixing various bugs
  • lcproc, periodbase: update period-finder registry dicts
  • periodbase: fix falsealarmprob for PDM
  • periodbase.makecombinedperiodogram: addmethods kwarg
  • README: added zenodo DOI badge
  • smav: bump up default nharmonics to 6 from 4
  • smav: use correct dot product function (np.vdot not np.dot)

- Python
Published by waqasbhatti over 8 years ago

astrobase - astrobase v0.2.5

Fixes

  • checkplot: add neighbor stuff to checkplot png as well
  • checkplot.checkplotpickleto_png: actually fix mistaken pkl outfile ext
  • checkplot: fix handling of no neighbors case
  • checkplot: get neighbors of target, their radecs, xys, and lcfpaths
  • checkplotlist: added some TODOs for multi-checkplot-per-object stuff
  • checkplotlist: more notes on planned features
  • finally added coding: utf-8 to everything
  • glsp: remove because all moved to zgls.py
  • lcmath: added a fillmagseriesgaps function
  • lcmath, autocorr: add some guards against weirdness
  • lcmath.fillmagseriesgaps: fix normalization of fluxes
  • lcmath.fillmagseriesgaps: use 0.0 to fill gaps instead of noiselevel by default
  • lcmath.fillmagseriesgaps: use scipy's perfectly cromulent mode function instead of our own mode function
  • lcproc: added updatecheckplotdictnbrlcs to get neighbor LCs
  • lcproc: add neighbor stuff to parallel_cp workers and driver
  • lcproc: add serial_varfeatures
  • lcproc: better kwargs for xmatchexternal
  • lcproc: fix default fileglobs for HAT and HPX LCs
  • lcproc.makelclist: do parallel info collection instead
  • lcproc.makelclist: get actual ndets per magnitude column
  • lcproc.makelclist: remove useless fileglob from tasklist
  • lcproc.parallelcplcdir: make output directory if it's doesn't exist
  • lcproc.parallel_varfeatures: use ProcessPoolExecutor instead of mp.Pool
  • lcproc.runpf: make BLS SNR optional because it takes forever
  • lcproc.runpf/runcp: allow any of the period-finders from periodbase
  • lcproc: simplify parallel task list for makelclist
  • macf: added macfperiodfind
  • macf: added plotacfresults to see smoothed/unsmoothed ACF and peaks
  • macf: fixed, tested; reproduces McQuillian+ (2014) results on KeplerLCs
  • macf: search interval for ACF peaks now depends on smoothing
  • periodbase.macf: initial bits for McQuillian+ (2013a, 2014) period-finder
  • periodbase: add a makecombinedperiodogram fn
  • periodbase: add macf to base namespace
  • plotbase: get the FITS header for the cutout for WCS purposes later
  • README, various: add links to ADS for period-finders, fix spelling of names
  • smav: bugs fixed, seems to be working OK
  • periodbase.smav: implemented aovhm_periodfind, to be tested
  • varbase.autocorr: actually return acf as np.array
  • varbase.autocorr: new autocorrmagseries function using lcmath.fillmagseries_gaps
  • varbase.autocorr: return acf as np.array
  • varbase.autocorr: use 0.0 to fill gaps instead of noiselevel by default
  • varbase.features: fix annoyingly subtle bug causing np.polyfit crashes
  • varbase.features: np.nonzero -> npnonzero
  • zgls, lcfit: guard against zero errors here too
  • zgls: move the glsp functions into here

- Python
Published by waqasbhatti over 8 years ago