2020.14

[javierggt]

ska3-flight 2020.14

Summary:

The Ska3 runtime environment consists of an integrated suite of Python-3 packages and
associated applications. The shiny distribution is a major update to Ska3 that includes:

• Python 3.6 => 3.8: many very useful new features (What's New 3.7, What's New 3.8). Highlights:

  • dict is now ordered by insertion order
  • dataclasses
    • A gentler way of classes in Python
  • "walrus" operator
  • very handy debug print format

• Recent release of every core dependency, often including several years of new development / bug fixes

  • Numpy 1.12 (Jan-2017) => 1.18: stricter in many ways for more reliable code but may cause breakage.
  • Matplotlib 2.0 (Jan-2017) => 3.2
    • we've noticed minor changes in required keyword args in some plotting ('normed' no longer a kwarg of plt.hist)
    • pylab.find is no longer supported (see np.flatnonzero as a replacement for most applications)
  • Scipy 0.19 (Mar-2017) => 1.5
  • Astropy 4.0.1 (hopefully 4.1 to be released soon)
    • https://docs.astropy.org/en/v4.0.1/whatsnew/4.0.html#whatsnew-4-0-time-ymdhms
    • https://docs.astropy.org/en/v4.0.1/whatsnew/4.0.html#whatsnew-4-0-table-new
    • https://docs.astropy.org/en/v4.0.1/whatsnew/4.0.html#improvements-to-performance-for-tables
    • https://docs.astropy.org/en/v3.1.2/whatsnew/3.1.html#whatsnew-3-1-table
    • https://docs.astropy.org/en/v3.1.2/whatsnew/3.1.html#improvements-and-new-features-in-time

• Adds Jupyterlab: next generation Jupyter notebook environment

  • See https://towardsdatascience.com/jupyter-lab-evolution-of-the-jupyter-notebook-5297cacde6b

• Includes CxoTime which is now ready for production use and recommended instead of Chandra.Time.DateTime

• Other new packages of note:

  • acispy: Enhanced Ska data collection and plotting
  • python-docx and docxtpl: Python library for creating and updating Microsoft Word (.docx) files [local guru: John S].
  • filelock: Platform independent file lock that supports the with-statement.
  • jira: Python library to work with Jira APIs
  • libarchive: One-stop compressed archive creation and extraction (zip, tar, bz2, bstd) (https://github.com/dsoprea/PyEasyArchive)
  • mpld3: Make live browser or notebook plots using matplotlib (https://mpld3.github.io/)
  • pandoc: Universal document converter (https://pandoc.org/)
  • pycosat: SAT solver for computer geeks.
  • ruamel_yaml: Newer YAML interface with support for YAML 1.2 (https://yaml.readthedocs.io/en/latest/overview.html).
  • snappy: Fast compression library from Google.

• Other updated packages of note:

  • conda 4.8.3: not compatible with previous Ska3 conda (4.3) or any conda < 4.7
  • pytest 5.4.3: much improved and stricter than previous pytest 3.2.1; shows warnings by default.

• New documentation pages

  • https://sot.github.io/

• Under the hood

  • Many infrastructure updates that make managing Ska3 feasible.
  • Mostly captured in Skare3 tools
  • Hourly updates of Ska3 package dashboard
  • Daily run of full integration tests on linux using the latest development version of all Ska3 packages, with
    detailed inspection of test failures supported.
  • Integration tests can run (and pass) on Mac and Windows now.
  • Auto-generated and deployed documentation for each package release.
  • Use of GitHub actions for CI and code linting
  • Bulk GitHub PR's and updating of all Ska3 packages at once.

In addition to distributions built for linux (CentOS-7+) and MacOSX (Catalina), shiny adds a fully-functional
and tested binary conda distribution for Windows 10. This will be the basis for FOT MATLAB tools with the 2020_015 release.

Detailed package changes

See below.

Interface Impacts:

In general the core packages numpy, scipy, and matplotlib (and many others) have changed so much that functional testing is the only way to determine the interface impacts.

• Chandra.cmd_states deprecated in favor of kadi.commands.states
• Ska.ParseCM deprecated in favor of parse_cm.

FutureWarning: Ska.ParseCM is deprecated, use parse_cm instead

• Update Chandra.Time 3.20 => 4.0 with change that 2020:001 => 2020:001:00:00:00 instead of 2020:001:12:00:00. This
  can break code (especially tests) that use the shorthand YYYY:DDD notation for dates.

• Cheta remote data access from chimchim

  • Python 3.8 code requires using python 3.8 remote server, and likewise for Python 3.6.
  • For MATLAB tools users everything should just work.
  • Standalone users need to ensure they have the correct new remote key file.
  • Remote servers for both versions are up and will remain running following deployment. Contact Mark Baski for questions.

Testing:

See https://github.com/sot/skare3/wiki/Ska3-shiny-testing

Review:

Community review of content and testing.

Deployment:

See https://github.com/sot/skare3/wiki/Shiny-promotion-plan

Outstanding actions

• Update user instructions for Ska3 to reflect the shiny update. This will include instructions for standalone users to reinstall (doing an in-place update does not work) and updates to the maintenance process.

Updated package requiring separate approval by FD

• arc / a.k.a Replan Central 4.3.0 -> 4.4.0
    - PR 55(jeanconn): Update for Shiny

Description: Version 4.4.0 includes a set of small changes for the new Python 3.8 "shiny" environment.

Rationale:Small changes to the plotting commands were required to work in the new environment. While making those changes, several other small improvements were effected.

Code changes:
sot/arc#55 - Update for shiny

This:Includes minor changes to a couple of Matplotlib commands that have changed for version 3.2.
Sets the timeline code to use kadi for commanded states instead of cmd_states.

Testing:This has been run in a shiny testing area and we have confirmed the processing and plots are reasonable.

Interface Impacts:None

Review:Ska team review.

Deployment Plan:This version will be installed as part of the shiny deployment.

Code Changes

ska3-flight changes (2020.12 -> 2020.14rc1)

New Packages

• aca_hi_bgd: 0.1.4
• aca_weekly_report: 0.1.3
• acispy: 2.1.0
• perigee_health_plots: 0.1.2
• ska-sphinx-theme: 1.3.0
• ska.report_ranges: 0.4.0
• skare3_tools: 1.0.1

Removed Packages

• jplephem # now included as a ska3-core package not a ska3-flight package
• tables3_api

Updated Packages

• aca_view: 0.3.0 -> 0.4.1 (0.3.0 -> 0.4.0 -> 0.4.1): Incremental improvements working toward replacing ACA EGSE
  • PR 45 (javierggt): Add documentation directory
  • PR 46 (javierggt): Moved docs sources to another directory
  • PR 55 (javierggt): Unified documentation style
  • PR 56 (javierggt): Shiny-related changes and other small things
  • PR 61 (javierggt): Fix time-matching between images and centroids.
  • PR 62 (javierggt): Configurable main-window size
  • PR 63 (javierggt): Tweaks: date format, temperature units, image titles, magnitudes
• acdc: 4.5.0 -> 4.7.0 (4.5.0 -> 4.6.0 -> 4.7.0): Improved plots and usability
  • PR 51 (taldcroft): Add 5-year plots of relevant quantities
  • PR 50 (taldcroft): Rearrange README and add docs on excluding SRDC's
  • PR 52 (taldcroft): Remove flake8 checking on f-string with no values
  • PR 53 (taldcroft): Add 2020:145 safe mode to annotated plot
  • PR 57 (jconnelly): Update flake8 check to use py38
  • PR 58 (taldcroft): Fixes for shiny
  • PR 56 (jconnelly): Add a summary page and relocate to public web
• acis_taco: 4.1.0 -> 4.2.0 (4.1.0 -> 4.2.0)
  • PR 15 (javierggt): Setting up automated builds
  • PR 16 (taldcroft): SHINY: Use legacy np printoptions for regression consistency
  • PR 19 (taldcroft): Changes for Python 3 and matplotlib deprecations
  • PR 20 (taldcroft): Updates for matplotlib 3.2
• acis_thermal_check: 3.3.0 -> 3.4.0 (3.3.0 -> 3.4.0): Use kadi.commands not Chandra.cmds_states, Ska.ParseCM
  • PR 35 (jzuhone): Re-issue Shiny PR
• acisfp_check: 3.3.0 -> 3.2.0 (3.3.0)
• agasc: 4.8.1 -> 4.10.2 (4.8.1 -> 4.9.0 -> 4.10.0 -> 4.10.1 -> 4.10.2): Add magnitude estimation infrastructure
  • PR 46 (javierggt): Unified documentation style
  • PR 48 (javierggt): added magnitude estimation (formerly known as mag-stats)
  • PR 50 (taldcroft): Nicer documentation including AGASC catalog description
  • PR 51 (jconnelly): Skip the mag supplement tests when no mags in supplement
  • PR 53 (jconnelly): Remove UserWarning on no mag table in supplement
  • PR 52 (jconnelly): Update supplement MAG_ACA_ERR test
  • PR 54 (javierggt): Fixes in supplement update script (start/stop, input/output, docs)
• annie: 0.10.1 -> 0.11.0 (0.10.1 -> 0.11.0)
  • PR 101 (taldcroft): SHINY: Pass tests
  • PR 105 (javierggt): Unified documentation style
  • PR 106 (taldcroft): Doc fixes
• backstop_history: 1.2.0 -> 1.3.0 (1.2.0 -> 1.3.0) : Use kadi.commands not Chandra.cmds_states, Ska.ParseCM
  • PR 17 (ggermain): Modifications to Baskstop History to accommodate data structure change…
• bep_pcb_check: 3.1.0 -> 3.0.0 (3.1.0)
• chandra.cmd_states: 3.15.2 -> 3.16.0 (3.15.2 -> 3.16.0) : Shiny compatibility, minor bug fix
  • PR 52 (taldcroft): Version for shiny
  • PR 54 (taldcroft): Ignore warnings
  • PR 55 (taldcroft): Updates for shiny
  • PR 56 (taldcroft): Ignore Ska.ParseCM warning in testing
  • PR 59 (jconnelly): Warn on use of sybase to get cmd_states
  • PR 61 (jconnelly): Set interrupt_loads to shorten timelines only as short as zero length
  • PR 62 (javierggt): Unified documentation style
• chandra.maneuver: 3.7.3 -> 3.8.0 (3.7.3 -> 3.8.0)
  • PR 18 (taldcroft): Version for shiny
  • PR 19 (taldcroft): Ignore expected warnings in pytest
  • PR 23 (javierggt): Unified documentation style
• chandra.time: 3.20.6 -> 4.0.0 (3.20.6 -> 4.0.0) : Support CxoTime and change in handling of 2020:001
  • PR 40 (taldcroft): Allow setup.py --version to work without Cython
  • PR 44 (taldcroft): Version for shiny
  • PR 43 (taldcroft): Migrate pydocs sphinx docs to project
  • PR 42 (taldcroft): Support CxoTime in DateTime and modernize
  • PR 45 (taldcroft): Flake8
  • PR 46 (taldcroft): Change so date like 2020:001 is midnight not noon
  • PR 47 (taldcroft): Disable automatic astropy.iers downloads
  • PR 48 (taldcroft): Shiny
  • PR 52 (javierggt): Unified documentation style
• chandra_aca: 4.29.1 -> 4.31.1 (4.29.1 -> 4.30.0 -> 4.31.0 -> 4.31.1)
  • PR 95 (javierggt): Fixed bug in decom of imgstat. It must be an unsigned int.
  • PR 99 (taldcroft): Shiny tests
  • PR 90 (taldcroft): Add PIXTLM and BGDTYP
  • PR 104 (taldcroft): Migrate transforms here and make them work for N-d inputs
  • PR 105 (javierggt): Unified documentation style
  • PR 107 (jconnelly): Remove check that interval is just one obsid (for obc sol)
  • PR 106 (jconnelly): Use modern vectorized Quaternion
  • PR 108 (taldcroft): Support calculating and plotting planet positions
  • PR 109 (javierggt): Improve setup.py for ephemeris data download
  • PR 110 (taldcroft): Improve _aca_packets_to_table speed by factor of 20
  • PR 111 (javierggt): Fix aca_view issue 57, need masked=True in Table creation
  • PR 112 (taldcroft): Calculate row/col of planet even if off CCD
• cxotime: 3.1.1 -> 3.2.3 (3.1.1 -> 3.2.0 -> 3.2.1 -> 3.2.2 -> 3.2.3) : Now production-ready
  • PR 4 (javierggt): Setting up automated builds
  • PR 6 (taldcroft): SHINY: always use UTC scale for DateTime formats + other improvements
  • PR 7 (taldcroft): Shiny
  • PR 8 (taldcroft): Improve the documentation
  • PR 9 (taldcroft): Allow for CxoTime() to get current time in date format
  • PR 13 (taldcroft): Faster guessing of CxoTime-specific formats
  • PR 17 (taldcroft): Add flake8 checking workflow
  • PR 14 (javierggt): Unified documentation style
  • PR 15 (taldcroft): Much faster parsing in CxoTime and add maude format
  • PR 21 (javierggt): Copy changes from astropy. Fixes issue Convert pip build.sh scripts to setup.py #20 (C99 mode)
  • PR 16 (taldcroft): export astropy units and TimeDelta within cxotime
  • PR 22 (taldcroft): Remove an extra underscore in PyInit declaration
  • PR 23 (taldcroft): Fix incompatibility with DateTime init with None
• find_attitude: 3.3.2 -> 3.4.0 (3.3.2 -> 3.4.0)
  • PR 11 (javierggt): Setting up automated builds
  • PR 15 (javierggt): Unified documentation style
• hopper: 4.4.1 -> 4.5.0 (4.4.1 -> 4.5.0)
  • PR 17 (javierggt): Setting up automated builds
• kadi: 5.2.0 -> 5.4.0 (5.2.0 -> 5.3.0 -> 5.4.0)
  • PR 165 (taldcroft): Fix flake8 issues
  • PR 166 (taldcroft): SHINY: update dates for Chandra.Time 4.0+
  • PR 167 (taldcroft): SHINY: remove all dependencies on Chandra.cmd_states and Ska.ParseCM
  • PR 169 (taldcroft): Change default remove_starcat to False
  • PR 168 (taldcroft): SHINY: add times to states and commands outputs
  • PR 170 (taldcroft): Add helpers for compatibility with legacy commands / states code
  • PR 173 (taldcroft): Fix async problem of event query within Jupyter notebook
  • PR 175 (taldcroft): Shiny
  • PR 176 (taldcroft): Fix continuity and states for start within maneuver
  • PR 190 (taldcroft): Migrate cmds.h5 idx column from 16 to 32 bits
  • PR 193 (javierggt): Unified documentation style
  • PR 194 (taldcroft): Use $SKA/data/mpcrit1 not /data/mpcrit1
• maude: 3.3.2 -> 3.4.0 (3.3.2 -> 3.4.0)
  • PR 22 (javierggt): setting token for authentication
  • PR 23 (taldcroft): SHINY: update test times for Chandra.Time 4.0+
  • PR 27 (javierggt): Unified documentation style
• mica: 4.21.2 -> 4.23.0 (4.21.2 -> 4.22.0 -> 4.23.0)
  • PR 225 (taldcroft): Remove tables3_api imports
  • PR 226 (taldcroft): Updates for passing tests on shiny
  • PR 224 (taldcroft): test_get_l0_images ends up trying to load mica/archive/asp1/archfiles…
  • PR 227 (taldcroft): Remove use of Chandra.cmd_states
  • PR 230 (taldcroft): Shiny
  • PR 231 (taldcroft): More shiny fixes
  • PR 233 (taldcroft): Use q_att_raw for ASPSOL quaternions if available
  • PR 240 (taldcroft): Unified documentation style
  • PR 244 (jconnelly): Don't throw error if there is more than one log (more than one aspect interval)
  • PR 245 (javierggt): removed outdated documentation section
  • PR 80 (jconnelly): Add the list of obsids that are bad for trending to the project
  • PR 242 (taldcroft): Remove warning when account doesn't have axafvv access
  • PR 236 (jconnelly): Toss the centroid dashboard code into mica
  • PR 248 (jconnelly): Fixes for asp1 processing
  • PR 247 (taldcroft): Add mod to be able to get 8x8 images in aca_l0.get_slot_data
• proseco: 4.8.1 -> 4.10.0 (4.8.1 -> 4.9.0 -> 4.10.0)
  • PR 326 (taldcroft): Fix a documentation link
  • PR 327 (taldcroft): Update flake8 checking for recent version of flake8
  • PR 317 (taldcroft): Fixes for shiny Ska3
  • PR 328 (taldcroft): Add monitors and target_offset attributes to ACACatalogTable
  • PR 332 (taldcroft): Fix inadvertent re-use of base class allowed_kwargs
  • PR 333 (taldcroft): Remove defunct thumbs_up property
  • PR 334 (taldcroft): Set to use 3.8 in flake8 check
  • PR 331 (taldcroft): Add include/exclude of fids by index/id
  • PR 343 (taldcroft): Fix allowed_kwargs test after Update acisops/acis_thermal_check to acis_thermal_check version 3.0 #331
  • PR 341 (taldcroft): Update to use chandra_aca versions of radec_to_yagzag, and yagzag_to_radec
  • PR 344 (taldcroft): Add img_size guide parameter to control guide star image readout size
  • PR 339 (javierggt): Unified documentation style
  • PR 348 (jconnelly): Update penalty limit from -8.1 to -7.5C
• psmc_check: 3.1.0 -> 3.0.0 (3.1.0)
• pyyaks: 4.4.2 -> 4.5.0 (4.4.2 -> 4.5.0)
  • PR 12 (taldcroft): SHINY: fix test to pass with modern pytest
• quaternion: 3.5.2 -> 3.6.0 (3.5.2 -> 3.6.0)
  • PR 32 (taldcroft): Add rotate_x_to_vec class method (from Ska.quatutil)
  • PR 33 (javierggt): Unified documentation style
• ska.arc5gl: 3.1.4 -> 3.1.5 (3.1.4 -> 3.1.5)
  • PR 12 (javierggt): Unified documentation style
• ska.astro: 3.2.4 -> 3.3.0 (3.2.4 -> 3.3.0)
  • PR 12 (javierggt): Unified documentation style
• ska.dbi: 4.0.2 -> 4.1.0 (4.0.2 -> 4.1.0)
  • PR 17 (taldcroft): Version for shiny
  • PR 21 (javierggt): Unified documentation style
• ska.engarchive: 4.48.0 -> 4.50.1 (4.48.0 -> 4.49.0 -> 4.50.0 -> 4.50.1)
  • PR 194 (taldcroft): Better warnings
  • PR 195 (taldcroft): Fix problem with sync stats update for rarely sampled content
  • PR 196 (taldcroft): Allow model version in MUPS clean computed MSID and fix tests
  • PR 197 (taldcroft): Shiny tests
  • PR 198 (taldcroft): Allow multiple paths in ENG_ARCHIVE
  • PR 203 (javierggt): Unified documentation style
  • PR 202 (taldcroft): Remove use of axes.axesPatch. This is a shiny change. Fixes Weekly release 2019.09.09 #201
  • PR 204 (taldcroft): Fix a problem with remote access on Windows in Py3.8
  • PR 205 (taldcroft): Shiny remote followup
  • PR 206 (taldcroft): Lazy-load inital content and remote access setup
  • PR 208 (taldcroft): Use get_xija_model_spec instead of GitHub for pftank2t model
• ska.file: 3.4.4 -> 3.4.5 (3.4.4 -> 3.4.5)
  • PR 13 (javierggt): Unified documentation style
• ska.ftp: 3.5.3 -> 3.6.0 (3.5.3 -> 3.6.0)
  • PR 21 (taldcroft): Improve input validation, make tests more consistent
  • PR 22 (taldcroft): Version for shiny
  • PR 26 (javierggt): Unified documentation style
• ska.matplotlib: 3.11.4 -> 3.12.0 (3.11.4 -> 3.12.0)
  • PR 9 (taldcroft): Avoid top-level import of pyplot for benefit of upstream packages
  • PR 13 (taldcroft): Version for shiny
  • PR 14 (taldcroft): Accept any validate DateTime or CxoTime initializer
  • PR 18 (javierggt): Unified documentation style
• ska.numpy: 3.8.4 -> 3.9.0 (3.8.4 -> 3.9.0)
  • PR 7 (taldcroft): Allow setup.py --version to run without Cython, numpy
  • PR 8 (taldcroft): Version for shiny
  • PR 9 (taldcroft): Shiny tests
  • PR 13 (javierggt): Unified documentation style
• ska.parsecm: 3.3.4 -> 3.4.0 (3.3.4 -> 3.4.0)
  • PR 8 (taldcroft): Deprecate use of Ska.ParseCM : Note that this deprecation propagates to Chandra.cmd_states
  • PR 12 (javierggt): Unified documentation style
• ska.quatutil: 3.3.3 -> 3.4.0 (3.3.3 -> 3.4.0)
  • PR 10 (taldcroft): Version for shiny
  • PR 15 (javierggt): Unified documentation style
• ska.shell: 3.4.1 -> 3.5.0 (3.4.1 -> 3.5.0)
  • PR 19 (taldcroft): Use explicit package name in call to get_version
  • PR 23 (javierggt): Unified documentation style
• ska.sun: 3.5.3 -> 3.6.0 (3.5.3 -> 3.6.0)
  • PR 15 (javierggt): Unified documentation style
• ska.tdb: 3.5.3 -> 3.6.0 (3.5.3 -> 3.6.0)
  • PR 12 (taldcroft): Version for shiny
  • PR 16 (javierggt): Unified documentation style
• ska3-core: 2020.5 -> 2020.14rc1
• ska_helpers: 0.1.2 -> 0.3.0 (0.1.2 -> 0.2.0 -> 0.3.0)
  • PR 13 (taldcroft): Ignore useless warning about Ska being already imported
  • PR 16 (taldcroft): Add ska_helpers.utils module with LazyDict
• ska_path: 3.1.1 -> 3.1.2 (3.1.1 -> 3.1.2)
  • PR 6 (javierggt): Setting up automated builds
• ska_sync: 4.6.0 -> 4.7.0 (4.6.0 -> 4.7.0)
  • PR 17 (javierggt): Setting up automated builds
  • PR 16 (jconnelly): Add old config as ska_sync/limited_config
  • PR 22 (taldcroft): Use getpass.getuser() instead of USER env var
  • PR 21 (taldcroft): Add chandra_models for sync
• sparkles: 4.6.0 -> 4.7.0 (4.6.0 -> 4.7.0)
  • PR 142 (taldcroft): Fix date in test for Chandra.Time 4.0+
  • PR 143 (taldcroft): formatted callargs HTML id to be consistent between JavaScript and HTML
  • PR 106 (taldcroft): Improve roll options including uniform sampling of roll range
• starcheck: 13.7.0 -> 13.8.0 (13.7.0 -> 13.7.1 -> 13.8.0)
  • PR 356 (taldcroft): Remove orphaned scripts / makefile
  • PR 357 (jconnelly): change yaml loading to avoid warning
  • PR 358 (jconnelly): Fix info statement regarding being off padded CCD
  • PR 360 (jconnelly): Planning limit increase -7.1 C to -6.5 C, penalty limit -8.1 C to -7.5 C
• testr: 4.3.1 -> 4.5.0 (4.3.1 -> 4.4.0 -> 4.5.0)
  • PR 20 (javierggt): Setting up automated builds
  • PR 22 (taldcroft): Ignore certain warnings and supply pytest args as list not string
  • PR 21 (javierggt): Skare3 ci
  • PR 23 (taldcroft): Disable caching of test results
  • PR 24 (taldcroft): Support running with no --test-spec
  • PR 25 (taldcroft): Ignore bleach warning
  • PR 29 (javierggt): Unified documentation style
  • PR 30 (javierggt): rename log files and use pathlib.Path
  • PR 32 (taldcroft): Support Windows for package testing
• xija: 4.19.0 -> 4.21.1 (4.19.0 -> 4.20.0 -> 4.20.1 -> 4.21.0 -> 4.21.1)
  • PR 91 (taldcroft): Shiny
  • PR 95 (javierggt): Unified documentation style
  • PR 97 (taldcroft): Migrate all doc strings to use numpydoc
  • PR 99 (taldcroft): Allow model_spec to be provided as Path
  • PR 96 (taldcroft): Add module to allow getting model spec files from Ska data
  • PR 100 (taldcroft): Add timeout error catch that occurs on linux
  • PR 102 (taldcroft): Fix get_model_spec to work on Windows
  • PR 103 (taldcroft): Add MSIDStatePower component
  • PR 104 (taldcroft): Use github's 'latest' release link for latest version

ska3-core changes (2020.5 -> 2020.14rc1)

New Packages

• astropy-sphinx-theme: 1.1
• attrs: 19.3.0
• autopep8: 1.5.3
• backcall: 0.2.0
• bcrypt: 3.1.7
• blosc: 1.19.0
• brotlipy: 0.7.0
• bzip2: 1.0.8
• ca-certificates: 2020.6.24
• commonmark: 0.9.1
• conda: 4.8.3
• conda-build: 3.18.11
• conda-package-handling: 1.6.1
• dbus: 1.13.16
• filelock: 3.0.12
• flake8: 3.8.3
• future: 0.18.2
• gettext: 0.19.8.1
• gitdb: 4.0.5
• glib: 2.65.0
• glob2: 0.7
• importlib-metadata: 1.7.0
• importlib_metadata: 1.7.0
• intel-openmp: 2019.4
• joblib: 0.16.0
• jplephem: 2.14
• json5: 0.9.5
• jupyterlab: 2.1.5
• jupyterlab_server: 1.2.0
• kiwisolver: 1.2.0
• lcms2: 2.11
• libarchive: 3.4.2
• libedit: 3.1.20191231
• libffi: 3.3
• libiconv: 1.16
• liblief: 0.10.1
• libllvm9: 9.0.1
• libsodium: 1.0.18
• libxml2: 2.9.10
• llvm-openmp: 10.0.0
• lz4-c: 1.9.2
• lzo: 2.10
• matplotlib-base: 3.2.2
• mccabe: 0.6.1
• mkl-service: 2.3.0
• mkl_fft: 1.1.0
• mkl_random: 1.1.1
• mock: 4.0.2
• more-itertools: 8.4.0
• ncurses: 6.2
• numpy-base: 1.18.5
• pandoc: 2.10
• parso: 0.7.0
• pcre: 8.44
• pkginfo: 1.5.0.1
• pluggy: 0.13.1
• prometheus_client: 0.8.0
• prompt-toolkit: 3.0.5
• py-lief: 0.10.1
• pycosat: 0.6.3
• pynacl: 1.4.0
• pyopenssl: 19.1.0
• pyrsistent: 0.16.0
• pysocks: 1.7.1
• python-libarchive-c: 2.9
• ripgrep: 11.0.2
• ruamel_yaml: 0.15.87
• send2trash: 1.5.0
• setuptools-scm: 4.1.2
• smmap: 3.0.2
• snappy: 1.1.8
• soupsieve: 2.0.1
• sphinx-argparse: 0.2.5
• sphinxcontrib-applehelp: 1.0.2
• sphinxcontrib-devhelp: 1.0.2
• sphinxcontrib-htmlhelp: 1.0.3
• sphinxcontrib-jsmath: 1.0.1
• sphinxcontrib-qthelp: 1.0.3
• sphinxcontrib-serializinghtml: 1.1.4
• tbb: 2020.0
• threadpoolctl: 2.1.0
• toml: 0.10.1
• tqdm: 4.47.0
• typing_extensions: 3.7.4.2
• urllib3: 1.25.9
• webencodings: 0.5.1
• zipp: 3.1.0
• zstd: 1.4.5

Removed Packages

• _nb_ext_conf
• anaconda-client
• asn1crypto
• bkcharts
• clyent
• curl
• git
• gitdb2
• html5lib
• jbig
• krb5
• libgcc
• libssh2
• nb_anacondacloud
• nbpresent
• path.py
• pep8
• pyasn1
• pytest-arraydiff
• pytest-astropy
• pytest-doctestplus
• pytest-openfiles
• pytest-remotedata
• python.app
• qtawesome
• runipy
• simplegeneric
• singledispatch
• smmap2
• sphinxcontrib
• sphinxcontrib-websupport

Updated Packages

• alabaster: 0.7.10 -> 0.7.12
• asgiref: 3.2.3 -> 3.2.10
• astroid: 1.5.3 -> 2.4.2
• astropy: 3.0.3 -> 4.0.1.post1
• astropy-healpix: 0.4 -> 0.5
• babel: 2.5.0 -> 2.8.0
• beautifulsoup4: 4.6.0 -> 4.9.1
• bleach: 1.5.0 -> 3.1.5
• bokeh: 0.12.7 -> 2.1.1
• certifi: 2016.2.28 -> 2020.6.20
• cffi: 1.10.0 -> 1.14.0
• cryptography: 1.8.1 -> 2.9.2
• cython: 0.26 -> 0.29.21
• decorator: 4.1.2 -> 4.4.2
• django: 3.0.1 -> 3.0.3
• docutils: 0.14 -> 0.16
• docxtpl: 0.6.3 -> 0.10.0
• entrypoints: 0.2.3 -> 0.3
• expat: 2.1.0 -> 2.2.9
• freetype: 2.5.5 -> 2.10.2
• gitpython: 2.1.3 -> 3.1.3
• h5py: 2.7.0 -> 2.10.0
• hdf5: 1.8.17 -> 1.10.4
• icu: 54.1 -> 58.2
• idna: 2.6 -> 2.10
• imagesize: 0.7.1 -> 1.2.0
• ipykernel: 4.6.1 -> 5.3.3
• ipyparallel: 6.0.2 -> 6.3.0
• ipython: 6.1.0 -> 7.16.1
• ipywidgets: 7.3.0 -> 7.5.1
• isort: 4.2.15 -> 4.3.21
• jedi: 0.10.2 -> 0.17.1
• jinja2: 2.9.6 -> 2.11.2
• jsonschema: 2.6.0 -> 3.2.0
• jupyter_client: 5.1.0 -> 6.1.6
• jupyter_console: 5.2.0 -> 6.1.0
• jupyter_core: 4.3.0 -> 4.6.3
• lazy-object-proxy: 1.3.1 -> 1.4.3
• libcxx: 9.0.1 -> 10.0.0
• libgfortran: 3.0.0 -> 3.0.1
• libpng: 1.6.30 -> 1.6.37
• libtiff: 4.0.6 -> 4.1.0
• libxslt: 1.1.29 -> 1.1.34
• line_profiler: 2.0 -> 2.1.2
• llvmlite: 0.18.0 -> 0.33.0
• lxml: 3.8.0 -> 4.5.2
• markupsafe: 1.0 -> 1.1.1
• matplotlib: 2.0.2 -> 3.2.2
• mistune: 0.7.4 -> 0.8.4
• mkl: 2017.0.3 -> 2019.4
• nb_conda: 2.2.0 -> 2.2.1
• nb_conda_kernels: 2.1.0 -> 2.2.3
• nbconvert: 5.2.1 -> 5.6.1
• nbformat: 4.4.0 -> 5.0.7
• networkx: 1.11 -> 2.4
• notebook: 5.0.0 -> 6.0.3
• numba: 0.33.0 -> 0.50.1
• numexpr: 2.6.2 -> 2.7.1
• numpy: 1.12.1 -> 1.18.5
• numpydoc: 0.7.0 -> 1.1.0
• olefile: 0.44 -> 0.46
• openssl: 1.0.2l -> 1.1.1g
• packaging: 16.8 -> 20.4
• pandas: 0.20.3 -> 1.0.5
• paramiko: 2.1.2 -> 2.7.1
• pbr: 5.4.4 -> 5.4.5
• pexpect: 4.2.1 -> 4.8.0
• pickleshare: 0.7.4 -> 0.7.5
• pillow: 4.2.1 -> 7.2.0
• pip: 9.0.1 -> 20.1.1
• prompt_toolkit: 1.0.15 -> 3.0.5
• psutil: 5.2.2 -> 5.7.0
• ptyprocess: 0.5.2 -> 0.6.0
• py: 1.4.34 -> 1.9.0
• pycodestyle: 2.3.1 -> 2.6.0
• pycparser: 2.18 -> 2.20
• pyflakes: 1.6.0 -> 2.2.0
• pygments: 2.2.0 -> 2.6.1
• pylint: 1.7.2 -> 2.5.3
• pyparsing: 2.2.0 -> 2.4.7
• pyqt: 5.6.0 -> 5.9.2
• pytables: 3.4.2 -> 3.6.1
• pytest: 3.2.1 -> 5.4.3
• python: 3.6.2 -> 3.8.3
• python-dateutil: 2.6.1 -> 2.8.1
• python-docx: 0.8.7 -> 0.8.10
• pytz: 2017.2 -> 2020.1
• pyyaml: 3.12 -> 5.3.1
• pyzmq: 16.0.2 -> 19.0.1
• qt: 5.6.2 -> 5.9.7
• qtconsole: 4.3.1 -> 4.7.5
• qtpy: 1.3.1 -> 1.9.0
• readline: 6.2 -> 8.0
• requests: 2.14.2 -> 2.24.0
• rope: 0.9.4 -> 0.17.0
• scikit-learn: 0.19.0 -> 0.23.1
• scipy: 0.19.1 -> 1.5.0
• setuptools: 36.4.0 -> 49.2.0
• setuptools_scm: 3.3.3 -> 4.1.2
• sherpa: 4.11.1 -> 4.12.2
• sip: 4.18 -> 4.19.8
• six: 1.10.0 -> 1.15.0
• snowballstemmer: 1.2.1 -> 2.0.0
• sphinx: 1.6.3 -> 3.1.2
• sqlite: 3.13.0 -> 3.32.3
• sqlparse: 0.3.0 -> 0.3.1
• terminado: 0.6 -> 0.8.3
• testpath: 0.3.1 -> 0.4.4
• tk: 8.5.18 -> 8.6.10
• tornado: 4.5.2 -> 6.0.4
• traitlets: 4.3.2 -> 4.3.3
• wcwidth: 0.1.7 -> 0.2.5
• wheel: 0.29.0 -> 0.34.2
• widgetsnbextension: 3.3.0 -> 3.5.1
• wrapt: 1.10.11 -> 1.11.2
• xz: 5.2.3 -> 5.2.5
• yaml: 0.1.6 -> 0.2.5
• zeromq: 4.1.3 -> 4.3.2

Related Issues

Fixes #540
Fixes #543
Fixes #541
Fixes #544