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tickets/DM-26603: Update to latest scarlet #16

Merged
merged 108 commits into from
Oct 5, 2020
Merged

tickets/DM-26603: Update to latest scarlet #16

merged 108 commits into from
Oct 5, 2020

Commits on May 16, 2020

  1. Created initialise function. Works for ExtendedSource

    @herjy
    herjy committed May 16, 2020
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Commits on May 18, 2020

  1. new initialisation scheme

    @herjy
    herjy committed May 18, 2020
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  2. updated notebooks

    @herjy
    herjy committed May 18, 2020
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  3. SED coadds are optional. wavelet filtering for coadds is alro an option

    @herjy
    herjy committed May 18, 2020
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Commits on May 19, 2020

  1. corrected mistake in operators and helped tests pass

    @herjy
    herjy committed May 19, 2020
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  2. sed psf-rescaling from the sum of the diff_kernel.

    @herjy
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Commits on May 22, 2020

  1. common coadd. Initialisation functions consolidated in initialisation… 

    … module
    @herjy
    herjy committed May 22, 2020
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  2. AmericaniSation and clean up

    @herjy
    herjy committed May 22, 2020
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  3. fixed deconvolution

    @herjy
    herjy committed May 22, 2020
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  4. answers to Fred's review: changes to default parameters for initialis… 

    …ation and source
    @herjy
    herjy committed May 22, 2020
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  5. Improved wavelet coaddition by supressing the last wavelet scale

    @herjy
    herjy committed May 22, 2020
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Commits on May 27, 2020

  1. min_grad to 0.1 by default, updated the tests for multi-resolution

    @herjy
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  2. removed assert logL in quickstart notebook

    @herjy
    herjy committed May 27, 2020
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  3. Merge pull request pmelchior#173 from pmelchior/init_multi 

    Init multi
    @herjy
    herjy committed May 27, 2020
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Commits on May 28, 2020

  1. tiny bug-fix discovered when working with Erin. Just passing an index… 

    … as an int
    @herjy
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Commits on May 29, 2020

  1. Merge pull request pmelchior#178 from pmelchior/bug_fix 

    tiny bug-fix discovered when working with Erin.
    @herjy
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Commits on Jun 4, 2020

  1. Fix bug in random source

    fred3m committed Jun 4, 2020
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  2. Add min_iter param to set minimum number of iterations

    fred3m committed Jun 4, 2020
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  3. Merge pull request pmelchior#181 from pmelchior/random_bug 

    Random bug
    Fred Moolekamp committed Jun 4, 2020
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Commits on Jun 5, 2020

  1. relative_step bug fixed

    @herjy
    herjy committed Jun 5, 2020
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  2. Merge pull request pmelchior#182 from pmelchior/denoise_monotonic 

    relative_step bug fixed
    @herjy
    herjy committed Jun 5, 2020
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  3. Randomly skip a source to prevent degeneracy

    fred3m committed Jun 5, 2020
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  4. Allow skipping of degenerate sources

    fred3m committed Jun 5, 2020
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  5. Make log_norm a property

    fred3m committed Jun 5, 2020
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Commits on Jun 6, 2020

  1. Merge pull request pmelchior#183 from pmelchior/random_skip 

    Randomly skip a parameter update to prevent degeneracy
    Fred Moolekamp committed Jun 6, 2020
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Commits on Jun 17, 2020

  1. cleanup: on one __or__

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Commits on Jun 18, 2020

  1. Merge pull request pmelchior#184 from pmelchior/one-or 

    cleanup: only one __or__
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Commits on Jul 9, 2020

  1. functional form for SEDs

    @pmelchior
    pmelchior committed Jul 9, 2020
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Commits on Jul 11, 2020

  1. added bounds and @

    @pmelchior
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  2. consistent multi-obs inits

    @pmelchior
    pmelchior committed Jul 11, 2020
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  3. added box slicing

    @pmelchior
    pmelchior committed Jul 11, 2020
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  4. added Factor; removed FunctionalComponent

    @pmelchior
    pmelchior committed Jul 11, 2020
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  5. moved starlet init

    @pmelchior
    pmelchior committed Jul 11, 2020
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  6. implement factored component scheme

    @pmelchior
    pmelchior committed Jul 11, 2020
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Commits on Jul 13, 2020

  1. Fix bug in wavelets to make starlets picklable

    fred3m committed Jul 13, 2020
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  2. Merge pull request pmelchior#189 from pmelchior/wavelet_pickle_bug 

    Fix bug in wavelets to make starlets picklable
    Fred Moolekamp committed Jul 13, 2020
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  3. made bbox non-abstrac in Factor; Component.bbox instead of shape

    @pmelchior
    pmelchior committed Jul 13, 2020
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Commits on Jul 14, 2020

  1. bugfixes for multi-observation support

    @pmelchior
    pmelchior committed Jul 14, 2020
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  2. minor bugfixes

    @pmelchior
    pmelchior committed Jul 14, 2020
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  3. version 1.1; docs updates

    @pmelchior
    pmelchior committed Jul 14, 2020
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Commits on Jul 15, 2020

  1. add_boxes in display functions

    @pmelchior
    pmelchior committed Jul 15, 2020
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Commits on Jul 17, 2020

  1. first round of Remy's comments

    @pmelchior
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  2. Factor gets model_frame; added get_parameter by name

    @pmelchior
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Commits on Jul 18, 2020

  1. Frame has Box, not is Box, for consistency of Box slicing and products

    @pmelchior
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Commits on Jul 22, 2020

  1. Use scm for versioning

    fred3m committed Jul 22, 2020
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  2. Implement changes from PR 185

    fred3m committed Jul 22, 2020
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  3. removed ComponentTree; added CombinedComponent

    @pmelchior
    pmelchior committed Jul 22, 2020
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  4. Merge pull request pmelchior#197 from pmelchior/tag1.0 

    Use scm for versioning
    Fred Moolekamp committed Jul 22, 2020
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  5. Fred's comments

    @pmelchior
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Commits on Jul 25, 2020

  1. created Model; refactored components and sources; removed parameter f… 

    …ixing
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Commits on Aug 1, 2020

  1. addition refactoring of Component and Model

    @pmelchior
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  2. removed kwargs for attributes

    @pmelchior
    pmelchior committed Aug 1, 2020
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Commits on Aug 2, 2020

  1. fixed add/multiple: cannot use np.sum/np.prod for unknown reasons

    @pmelchior
    pmelchior committed Aug 2, 2020
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  2. minor bugfixes

    @pmelchior
    pmelchior committed Aug 2, 2020
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  3. re-enabled parameter fixing; improved parameter access

    @pmelchior
    pmelchior committed Aug 2, 2020
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Commits on Aug 3, 2020

  1. bugfixes; doc updates

    @pmelchior
    pmelchior committed Aug 3, 2020
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  2. added factory to unify ExtendedSource; sensible defaults

    @pmelchior
    pmelchior committed Aug 3, 2020
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  3. set minimum spectrum value to 1e-20; bugfix

    @pmelchior
    pmelchior committed Aug 3, 2020
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  4. bugfix in docs

    @pmelchior
    pmelchior committed Aug 3, 2020
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  5. fixed test

    @pmelchior
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Commits on Aug 4, 2020

  1. Merge branch 'master' into factored

    @pmelchior
    pmelchior committed Aug 4, 2020
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  2. Fred's review

    @pmelchior
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Commits on Aug 5, 2020

  1. CombinedComponent with different boxes; imports

    @pmelchior
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  2. imports; docs fixes

    @pmelchior
    pmelchior committed Aug 5, 2020
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  3. added Observation parameter hooks; closes pmelchior#200

    @pmelchior
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  4. WCS transformation overhaul; fixes pmelchior#192

    @pmelchior
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Commits on Aug 6, 2020

  1. restructed tutorial to make use of Observation

    @pmelchior
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Commits on Aug 7, 2020

  1. added missing SED stabilization if MultiExtendedSource

    @pmelchior
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  2. multi-resolution methods use new WCS code

    @pmelchior
    pmelchior committed Aug 7, 2020
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  3. docstrings

    @pmelchior
    pmelchior committed Aug 7, 2020
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  4. Merge pull request pmelchior#201 from pmelchior/obs-params 

    added Observation parameter hooks; closes pmelchior#200
    @pmelchior
    pmelchior committed Aug 7, 2020
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  5. Merge branch 'factored' into wcs

    @pmelchior
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  6. Merge pull request pmelchior#202 from pmelchior/wcs 

    astropy WCS
    @pmelchior
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  7. Merge pull request pmelchior#191 from pmelchior/factored 

    Spectrum and Morphology as Factor
    @pmelchior
    pmelchior committed Aug 7, 2020
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  8. pandoc dependency

    @pmelchior
    pmelchior committed Aug 7, 2020
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Commits on Aug 15, 2020

  1. Update Travis to execute regression tests

    fred3m committed Aug 15, 2020
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  2. Fix bug in Travis testing script

    fred3m committed Aug 15, 2020
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  3. Include plot udpates in regresion teseting

    fred3m committed Aug 15, 2020
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  4. Add testing doc templates

    fred3m committed Aug 15, 2020
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Commits on Aug 17, 2020

  1. Fix bug adding extra vertical space to saved figs

    fred3m committed Aug 17, 2020
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  2. Remove unused command line testing parameter

    fred3m committed Aug 17, 2020
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Commits on Aug 18, 2020

  1. Interactive tests checkpoint

    fred3m committed Aug 18, 2020
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Commits on Aug 19, 2020

  1. Multiple measurements per page working 

    This is the last commit with all of the measurements working.
THe problem with this implementation is that for the larger datasets,
eg dataset 1 has 100 sources, the 12 scatter plots contain a total
of 1200 points, which causes the initial load time to be quite large.

So I wanted to save my progress here in case I want to return to this
method of organization, but for ease of use the next several commits
plan to go back to a single measurement per screen.
    fred3m committed Aug 19, 2020
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  2. Fixed plotting bug

    fred3m committed Aug 19, 2020
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  3. Update docstrings and a few js improvements

    fred3m committed Aug 19, 2020
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Commits on Aug 20, 2020

  1. Update test script to use scarlet_extensions

    fred3m committed Aug 20, 2020
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  2. Re-enable tests

    fred3m committed Aug 20, 2020
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Commits on Aug 27, 2020

  1. Change environment variable for test repo

    fred3m committed Aug 27, 2020
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  2. Merge pull request pmelchior#186 from pmelchior/testing 

    Implement scarlet_test for regression testing
    Fred Moolekamp committed Aug 27, 2020
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Commits on Sep 3, 2020

  1. Invert the load order of the merged branches

    fred3m committed Sep 3, 2020
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  2. Fix bug in Tavis script 

    The current master will fail if the scarlet branch also does not
exist in scarlet_extensions. This commit adds the quiet `-q`
parameter to ignore the error generated if the branch does not exist.
    fred3m committed Sep 3, 2020
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Commits on Sep 9, 2020

  1. Merge pull request pmelchior#208 from pmelchior/merge_bug 

    Invert the load order of the merged branches
    Fred Moolekamp committed Sep 9, 2020
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Commits on Sep 15, 2020

  1. Natively implement scm

    fred3m committed Sep 15, 2020
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  2. Fix bug in travis script

    fred3m committed Sep 15, 2020
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  3. Merge pull request pmelchior#209 from pmelchior/versioneering 

    Versioneering
    Fred Moolekamp committed Sep 15, 2020
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Commits on Sep 25, 2020

  1. renamed loss to log_likelihood

    @pmelchior
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  2. added plot_likelihood and plot_observation; notebook updates

    @pmelchior
    pmelchior committed Sep 25, 2020
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  3. Fred's comment: re-introduce Blend.loss

    @pmelchior
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  4. sign flip for test

    @pmelchior
    pmelchior committed Sep 25, 2020
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  5. testing travis

    @pmelchior
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  6. testing travis

    @pmelchior
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  7. fit-> logger.info; returns it, logL; notebooks print those as best pr… 

    …actice
    @pmelchior
    pmelchior committed Sep 25, 2020
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  8. removed outdated and offending deconvolution notebook

    @pmelchior
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  9. commented git rev-parse to make travis behave

    @pmelchior
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  10. Merge pull request pmelchior#206 from pmelchior/more-display 

    Streamlining
    @pmelchior
    pmelchior committed Sep 25, 2020
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  11. Merge remote-tracking branch 'upstream/master' into tickets/DM-26603

    fred3m committed Sep 25, 2020
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Commits on Sep 28, 2020

  1. Don't fail retrieving the version from a non-git repo

    fred3m committed Sep 28, 2020
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  2. Skip building scarlet docs

    fred3m committed Sep 28, 2020
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