Version 1.9.0

Major Changes

• Reduction of Keck/DEIMOS now defaults to mosaics of red and blue
  detector pairs
• Package data is no longer distributed via PyPI. Instead, we use
  astropy's downloading/caching system as needed by the user
• Significant refactor of object finding and 2D extraction algorithms
• Added support for:
  • VLT FORS2 600z grism
  • VLT XShooter UVB arm

Minor Changes/Improvements

• Default comb_id ordering matches the sorted file name in
  pypeit_setup
• Save output wavelength calibration from pypeit_identify to the
  cache for direct reuse in data reduction.
• The pypeit_identify GUI can now toggle between linear and log
  scaling of the arc spectrum flux.
• Dark subtraction now ignores any difference in exposure time, by
  default
• Added more flexible quicklook that can handle dithering.
• Bug fixes in local sky subtraction and extraction
• Fixed pypeit_setup issues due to bad LRIS headers.
• Fixed a bug in 2d coadding when objects were not being identified.
• Refactored 2d extraction.
• Minor enhancements to pypeit_identify GUI
• Refactoring of pypeit_show_wvcalib GUI

Instrument-specific Changes/Improvements

• Improve Keck/KCWI automatic frame typing.
• Added wavelength templates for
  • Keck/MOSFIRE (OH and arc lines)
  • bok_bc 300 grating template
• Improved wavelength solution for Gemini-Nort E2V detector
• Keck/DEIMOS now uses gain/RN values measured periodically by WMKO
• Added enhancements and fixes for Keck lris red Mark4.
• Added code to better parse Gemini/GNIRS dither sequences

Version 1.8.1

Minor release. Changes include:

• Various hotfixes
• Include preliminary support for fluxing with archived SensFunc files
  for DEIMOS.

Version 1.8.0

Significant changes

• Code to allow for mosaicing multiple detectors into a single reduction. This is now the default for Gemini GMOS and improves stability of wavelength calibration.
• Introduces pypeit_parse_calib_id script
• Refactored manual extraction
• Update for LDT/DeVeny including support for binned data, use_header for reading arc lamps used from frames, and reid_arxiv templates for three additional gratings.
• Slurps in and uses slitmask design for Keck/LRIS (limited usage)
• Significant improvements in 2D coadding.
• Scripts to explore the noise residuals in PypeIt

Datamodel changes and algorithmic improvements

• Improved performance of L.A. Cosmic implementation
• Now uses stars in alignment boxes for default calculation of slitmask offsets in DEIMOS reductions.
• 2D wavelength calibration image now added to MasterFlat output
• Improved treatment of saturation.
• Dark counts used for calculating the shot noise now includes measured dark images if provided.
• Include sky model in 2nd pass of global sky subtraction (not for IR redux).
• Skymask is now computed also for the maskdef_extract objects.
• Added dedicated fwhm and boxcar_radius for maskdef_extract objects.
• Added pypeit_version to the pypeit file header.
• Set DEIMOS find_fwhm default to 0.8" in binned pixels.
• Added row-dependent pattern-noise calculation for KCWI

Bug fixes

• Fixed a bug about how maskdef_offset is assigned to each detector
• Fixed 2Dcoadd spec bugs for central wavelength dithers.

Version 1.7.0

Major Changes

• MOSFIRE improvements:
  • improved frame typing
  • ingestion of slitmask metadata for MOSFIRE with association of extracted spectra to object name and coordinates
  • extraction of undetected objects
  • incorporates dither pattern from file headers
• Implements new Mark4 detector for Keck/LRISr; selected as the keck_lris_red_mark4 "spectrograph"

Minor Changes

• Introduces pypeit_parse_calib_id script
• Throw a warning if the chosen spectrograph has a header which does not match expectation
• Pypeit can now read (currently for Keck DEIMOS only) the list of arc lamps from the header and use it for wavelength calibration.
• Allow one to restrict the wavelength range of the arxiv template
• Set DEIMOS FWHM default to 10 pixels
• Fixed a bug in HolyGrail that did not allow for sigdetect and rms_wavelength to be slit dependent lists.

Version 1.6.0

Changes include:

• Improved basic image processing, particularly error propagation and documentation
• Minor changes to MasterBias, MasterBias, and spec1d datamodel.

Version 1.5.0

Major updates since version 1.4.2:

• Improvement to installation docs and scripts to ease installation of telluric and quick-look files.
• Support dithered observations for DEIMOS.

See Change Log

Version 1.4.0

CHANGES

• Include a fix for when no edges are detected in EdgeTraceSet by
  adding the bound_detector parameter. Most instruments have a
  default of bound_detector = False meaning that the code will skip
  processing any detector where no slit edges are found. Some
  instuments set the default to be bound_detector = True because the
  slit edges always or often fall off the edge of the detector (i.e.,
  the detector is fully illuminated). These instruments are currently
  mmt_mmirs, mmt_bluechannel, not_alfosc, and shane_kast; note
  that some gemini_gmos data in the DevSuite require
  bound_detector=True, as well.
• Improved wavelength template for DEIMOS gratings: 600ZD, 830G.
• Added new ArI, KrI, NeI, XeI arc lines.
• PypeIt can now compute arc line FWHM from the lines themselves. This
  is controlled by a new parset, fwhm_fromlines, which is set to
  False by default, except for DEIMOS.
• Added a development document about the DEIMOS wavelength calibration.
• Limit reduction to detectors 3 and 7 when DEIMOS LVM mask is used
  (other detectors are empty)
• Add wavelength RMS to SpecObj. This is an update of the datamodel to
  1.3.3
• Add Bok B&C spectrograph
• Add pypeit_obslog script that simple compiles and prints metadata
  from a set of fits files needed by pypeit to run.
• Change PypeItSetup.from_file_root to require the output path to
  write the vanilla pypeit file. If no path is provided, the object is
  instatiated without creating any output.
• Fixed bug in sensitivity function code adressing issue #747. Revamped sensitivity
  function completely to compute zeropoints and throughput. Enhanced sensfunc.py QA.
• Added MOSFIRE QL script.
• Added support for VLT/SINFONI K 25mas (0.8x0.8 arcsec FOV) platescale
• Updated docs for differencing imaging sky subtraction.
• Added "sky" frametype for difference imaging sky subtraction addressing issue # 1068
• Improved and sped up sensitivity function telluric codes.
• Fixed bugs in ArchiveReid automatic wavelength identification.
• Removed numba dependency.
• Improved pypeit_view_fits script.
• Fixed ginga bugs in display.py and added automatic cuts to show_2dspec
• Added latin hypercube sampler to pypeit.utils which is required for differential evolution
  optimizations.
• Improved GMOS R400 wavelength solution
• Turned off GMOS-S binning restriction
• Add GTC OSIRIS spectrograph
• Updates for docs on adding new spectrographs. And a bok test
• Added a new pypeit_collate_1d tool to automatically group 1D Spectra from
  multiple files by group and coadd them.
• PypeIt will now add HISTORY keyword entries to FITS files.
• use_maskdesign is turned off for DEIMOS LVM masks
• a new parameter use_user_fwhm is added in ExtractionPar to allow
  the user to set their preferred fwhm
• Improved slittrace.assign_maskinfo
• PypeIt can now force extractions of DEIMOS non detected objects at the
  location expected from slitmask design.
• SpecObj and SlitTrace datamodel versions updated
• pypeit_show_2dspec shows traces of forced extraction and manual extraction
  with a different colors
• Updated docs about extraction and DEIMOS

Version 1.3.3

Simple hotfixes for release 1.3.2.

Version 1.3.2

• Improvements to DEIMOS 900ZD reductions, specifically wavelength calibration
• Major refactor of installation protocol and continuous-integration testing, including testing on ubuntu, macos, and windows
• Added pypeit_obslog script

Version 1.3

Merge pull request #1108 from pypeit/v13_doc_mods

Doc hot fix