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Display units: line lists #2148
Display units: line lists #2148
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I tried adding custom lines after changing the units and also adding custom lines in different units and then switching to those units. Everything worked as expected. I did notice that the table at the bottom of the plugin showing rest and observed units could potentially be updated if it made scientific sense. Should the observed value be in the original units of the line or should it update with the spectral unit? Since I don't know if that is a valid question and everything else looks good I'll go ahead and approve!
I think we'll eventually want this (at least as the default), but I think it makes sense to defer until the refactor (which will make use of a database of all lines, etc). |
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Codecov Report
Additional details and impacted files@@ Coverage Diff @@
## dev-display-units #2148 +/- ##
====================================================
Coverage ? 91.96%
====================================================
Files ? 146
Lines ? 15960
Branches ? 0
====================================================
Hits ? 14678
Misses ? 1282
Partials ? 0 Help us with your feedback. Take ten seconds to tell us how you rate us. Have a feature suggestion? Share it here. ☔ View full report in Codecov by Sentry. |
Thought I had approved this, sorry. I tested and saw that everything worked on Friday, let me do one more pass of the actual code before I give it a check mark. |
class BaseSpectrumVerticalLine(Lines, HubListener): | ||
class PluginMark(): | ||
def __init__(self, *args, **kwargs): | ||
super().__init__(*args, **kwargs) |
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Wait, this doesn't inherit anything...does the base python Class
init handle setting self.[whatever]
for kwargs if you call super().__init__
like this?
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turns out its required in order for the comm
to be set correctly when other classes inherit from this and Lines
I removed the other reviewer tags since I'm 2, I think that's at least in the direction of what we agreed on for avoiding overloading reviews 😃 |
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I did one more quick test post-changes and it still works, thanks!
* BaseSpectrumVerticalLine to inherit unit-support from PluginMark * convert units on internal rest value * code cleanup
* BaseSpectrumVerticalLine to inherit unit-support from PluginMark * convert units on internal rest value * code cleanup
* BaseSpectrumVerticalLine to inherit unit-support from PluginMark * convert units on internal rest value * code cleanup
* BaseSpectrumVerticalLine to inherit unit-support from PluginMark * convert units on internal rest value * code cleanup
* BaseSpectrumVerticalLine to inherit unit-support from PluginMark * convert units on internal rest value * code cleanup
* BaseSpectrumVerticalLine to inherit unit-support from PluginMark * convert units on internal rest value * code cleanup
* Added .ico and .svg files * app-wide display unit in specviz (#2048) * basic app-wide display unit in specviz (not all plugins are updated yet) * unit-aware select component which maps to glue-supported unit strings * implement use_display_units option for get_data, get_subsets Co-authored-by: Jesse Averbukh <javerbukh@gmail.com> Co-authored-by: Kyle Conroy <kyleconroy@gmail.com> * bump glue-core to necessary version for display units * change PR number in changelog to main PR * Display units line analysis (#2128) * emit event when display unit changed * update line analysis for unit changes * cubeviz/slice plugin unit conversion support (we might want to generalize some of this logic more into the mark's _update_data when adding support for spectral lines as well) * Display units support for markers plugin (#2130) * update markers plugin for display units * move unit-updating logic to mark itself * LineUncertainties to be unit-aware * fix support for markers in cubeviz * display units: fix failing tests (#2132) * fix error raised when spectrum uncertainty is None * fix RTD build failure because of missing mixin available in import * fix test setting display unit now that um is preferred to micron * add disabled unit conversion plugin to mosviz * avoid unit-conversion error in cubeviz tests * bump versions of glue/glue-jupyter * fix deg intialization in cubeviz slice plugin * add LinesAutoUnit to __all__ so RTD can find it * add use_display_units kwarg to get_spectral_regions * fix setting display units for unitless data * Apply suggestions from code review Co-authored-by: P. L. Lim <2090236+pllim@users.noreply.github.com> * Display units: line lists (#2148) * BaseSpectrumVerticalLine to inherit unit-support from PluginMark * convert units on internal rest value * code cleanup * remove unit conversion plugin from all bug specviz * for initial implementation - eventually we'll want to implement across all plugins/viewers * get_display_unit fallback for configs without unit conversion plugin * Update glue-core dependency * Update Subset Tools plugin to use display units (#2195) * bump glue-core to necessary version for display units * cubeviz/slice plugin unit conversion support (we might want to generalize some of this logic more into the mark's _update_data when adding support for spectral lines as well) * display units: fix failing tests (#2132) * fix error raised when spectrum uncertainty is None * fix RTD build failure because of missing mixin available in import * fix test setting display unit now that um is preferred to micron * add disabled unit conversion plugin to mosviz * avoid unit-conversion error in cubeviz tests * bump versions of glue/glue-jupyter * fix deg intialization in cubeviz slice plugin * add LinesAutoUnit to __all__ so RTD can find it * add use_display_units kwarg to get_spectral_regions * fix setting display units for unitless data * Apply suggestions from code review Co-authored-by: P. L. Lim <2090236+pllim@users.noreply.github.com> * remove unit conversion plugin from all bug specviz * for initial implementation - eventually we'll want to implement across all plugins/viewers * Working on unit conversion handling in subset plugin * Get subset updating working in non-default units * Add changelog * Update jdaviz/configs/default/plugins/subset_plugin/subset_plugin.vue Co-authored-by: Kyle Conroy <kyleconroy@gmail.com> --------- Co-authored-by: Kyle Conroy <kyleconroy@gmail.com> Co-authored-by: P. L. Lim <2090236+pllim@users.noreply.github.com> * allow downstream apps to set what classes are considered native marks * Fix unit conversion for PluginMarks and y-limits (#2215) * Fix unit conversion for PluginMarks and y-limits * Only use equivalency if it's a spec viewer * Store wavelength unit on data update * Remove redundant line * Better check in marks * Replace subset_to_apply in docs where possible (#2223) * Replace subset_to_apply in docs where possible (#2223) * Avoid trying to convert units of empty marks arrays * Add open method to automatically detect config and load data * Update demo notebooks * Codestyle * Add autoconfig test coverage * Revert "Update demo notebooks" This reverts commit cc513b3. * Add mention of open to relevant example notebooks * Prepare to support open via cli * Remove the need to open file twice for autoconfig detection * Fix Helper vs App Docstring * TST: Change PIP_EXTRA_INDEX_URL because packages moved where they upload nightly builds. * Display units: model fitting (#2216) * model component compatibility based on display units * equation validity based on display units * allow re-estimating model parameters to update compat checks * test coverage * get_data(use_display_units) to pass spectral_density equivalency * handle whitespace in model equation * Add clarity for kwargs * plugin results: support overwriting when data loaded in multiple viewers (#2222) * reverts removal of call to set_plot_axes when loading data into viewer (#2235) * fixes a bug in the axes labels on cube viewers in cubeviz as well as setting the correct attributes in lcviz * Subsume failing identifier test into autoconfig test * Update subset plugin UI (#2234) * Update subset plugin UI * Apply suggestions from code review Co-authored-by: Kyle Conroy <kyleconroy@gmail.com> --------- Co-authored-by: Kyle Conroy <kyleconroy@gmail.com> * Changelog * Add docs page to explain how to create jdaviz-readable products (#2228) * Add page for data products * Update index * Fix title * Capital letters * Address first review comments * Edit format * Apply suggestions from code review Co-authored-by: P. L. Lim <2090236+pllim@users.noreply.github.com> * Including reference in import_data * Update docs/create_products.rst * Update docs/create_products.rst --------- Co-authored-by: Camilla Pacifici <cpacifici@stsci.edu> Co-authored-by: P. L. Lim <2090236+pllim@users.noreply.github.com> Co-authored-by: Ricky O'Steen <39831871+rosteen@users.noreply.github.com> * FEAT: Load annulus from file and allow IMPORT DATA to load reg files. Annulus support provided by glue-viz/glue#2403 and glue-viz/glue-astronomy#92 Add test for exception. Bump minimum requirements for glue-core and glue-astronomy. * disallow gaussian smooth output as input * BUG: Fix ellipse translation in app.get_subsets() * DOC: Use pydata-sphinx-theme (#2243) * DOC: Use pydata-sphinx-theme that has dark mode, modern design, and mobile friendly DOC: No longer need tomli DOC: Now requires sphinx-astropy 1.9.1 * Add cards to index page with icons * Remove iframe hardcoding so it scales in mobile mode * DOC: Insert small logo next to title instead of a giant logo above the title * Add app method to simplify spectral subset (#2237) * Add app method to simplify spectral subset Add simplify button to subset plugin * Fix xor bug exposed by simplify button * Fix style checks * Remove print statements * Add tooltip to simplify button * Make button appear only if the subset can be simplified * Make simplify button appear only when applicable * Apply suggestions from code review Co-authored-by: P. L. Lim <2090236+pllim@users.noreply.github.com> * Update changes file --------- Co-authored-by: P. L. Lim <2090236+pllim@users.noreply.github.com> * Fix missed conflict --------- Co-authored-by: Jennifer Kotler <jkotler@esme.stsci.edu> Co-authored-by: P. L. Lim <2090236+pllim@users.noreply.github.com> Co-authored-by: Jesse Averbukh <javerbukh@gmail.com> Co-authored-by: Ricky O'Steen <rosteen@stsci.edu> Co-authored-by: Ricky O'Steen <39831871+rosteen@users.noreply.github.com> Co-authored-by: Duy Nguyen <duytnguyendtn.open@gmail.com> Co-authored-by: Camilla Pacifici <camilla.pacifici@gmail.com> Co-authored-by: Camilla Pacifici <cpacifici@stsci.edu>
Description
This pull request updates the line lists plugin so that existing lines are unit-aware. This does not yet update the display of lines in the plugin itself to show in the display units - that work will likely be deferred for the refactor of the line list plugin as both of those efforts will require changing the way the information is stored internally.
Screen.Recording.2023-04-12.at.3.57.14.PM.mov
Changelog will point to #2127 so is ignored from CI here.
Closes #2028
Change log entry
CHANGES.rst
? If you want to avoid merge conflicts,list the proposed change log here for review and add to
CHANGES.rst
before merge. If no, maintainershould add a
no-changelog-entry-needed
label.Checklist for package maintainer(s)
This checklist is meant to remind the package maintainer(s) who will review this pull request of some common things to look for. This list is not exhaustive.
trivial
label.