HLA-1110: aperture keyword from poller to header #1683

s-goldman · 2023-10-25T20:58:29Z

This PR adds the aperture keyword to HAPProduct object as well as its child products (TotalProduct, FilterProduct, ExposureProduct). The code changes how the poller file data is used.

Previously the code either 1) used the poller file filenames and pulled the other relevant data from the header keywords 2) used full poller files with all of the relevant data. We have now implemented a third option where if the poller file has two columns, it is assumed that the second column is the aperture keyword. This code will then update the aperture keyword in the output SVM data for only WFPC2.

Checklist for maintainers

added entry in CHANGELOG.rst within the relevant release section
updated or added relevant tests
updated relevant documentation
added relevant milestone
added relevant label(s)
ran regression tests, post a link to the Jenkins job below.
How to run regression tests on a PR

…rom_poller_to_header_10_10_23

s-goldman · 2023-10-25T21:07:46Z

Still need to test inputs as a list, as opposed to polller file, and testing the MVMs.

codecov · 2023-10-25T21:12:34Z

Codecov Report

Attention: 21 lines in your changes are missing coverage. Please review.

Files	Coverage Δ
drizzlepac/hapsequencer.py	`58.13% <100.00%> (ø)`
drizzlepac/haputils/product.py	`65.26% <100.00%> (+0.05%)`	⬆️
drizzlepac/haputils/processing_utils.py	`74.80% <50.00%> (-0.41%)`	⬇️
drizzlepac/haputils/poller_utils.py	`51.58% <48.64%> (-0.49%)`	⬇️

... and 36 files with indirect coverage changes

📢 Thoughts on this report? Let us know!.

drizzlepac/haputils/product.py

drizzlepac/haputils/processing_utils.py

s-goldman · 2023-10-26T15:01:26Z

Since your waiting on me @mdlpstsci , I'll include you in my current problem-solving. My issue right now is a couple SVM unit tests.

It looks like gather_output_data is not working as intended, and not finding the test data that should be there.

Any thoughts?

(stenv-python-3.10) sgoldman@wovas2023 drizzlepac_dev % pytest tests/hap/test_svm_ibqk07.py 
=================================== test session starts ===================================
platform darwin -- Python 3.10.11, pytest-7.3.1, pluggy-1.0.0
rootdir: /Users/sgoldman/Documents/drizzlepac_dev
configfile: pyproject.toml
plugins: asdf-2.15.0, typeguard-3.0.2, jwst-1.10.2, xdist-3.3.1, ci-watson-0.6.1, anyio-3.7.0
collected 9 items                                                                         

tests/hap/test_svm_ibqk07.py .FFFF....                                                                                                 [100%]

================================================================== FAILURES ==================================================================
______________________________________________________________ test_svm_wcs_ir _______________________________________________________________

gather_output_data = []

    def test_svm_wcs_ir(gather_output_data):
        print("\ntest_svm_wcs_ir.")
        # Get the TDP for this detector
        tdp_files = [files for files in gather_output_data if files.lower().find("ir_total") > -1 and files.lower().endswith("drz.fits")]
    
        # Check the WCS solution is as expected
>       wcsname = fits.getval(tdp_files[0], "WCSNAME", ext=1).upper()
E       IndexError: list index out of range

/Users/sgoldman/Documents/drizzlepac_dev/tests/hap/test_svm_ibqk07.py:184: IndexError
----------------------------------------------------------- Captured stdout setup ------------------------------------------------------------

gather_output_data. Output data files: []
------------------------------------------------------------ Captured stdout call ------------------------------------------------------------

test_svm_wcs_ir.
____________________________________________________________ test_svm_wcs_ir_all _____________________________________________________________

gather_output_data = []

    def test_svm_wcs_ir_all(gather_output_data):
        print("\ntest_svm_wcs_ir_all.")
        # Check the output primary WCSNAME
        ir_files = [files for files in gather_output_data if files.lower().find("_ir_") > -1 and files.lower().endswith("drz.fits")]
    
        wcsnames = [fits.getval(ir, "WCSNAME", ext=1).upper() for ir in ir_files]
>       assert len(set(wcsnames)) == 1, f"WCSNAMES are not all the same for the IR detector: {wcsnames}"
E       AssertionError: WCSNAMES are not all the same for the IR detector: []
E       assert 0 == 1
E        +  where 0 = len(set())
E        +    where set() = set([])

/Users/sgoldman/Documents/drizzlepac_dev/tests/hap/test_svm_ibqk07.py:195: AssertionError
------------------------------------------------------------ Captured stdout call ------------------------------------------------------------

test_svm_wcs_ir_all.
_____________________________________________________________ test_svm_wcs_uvis ______________________________________________________________

gather_output_data = []

    def test_svm_wcs_uvis(gather_output_data):
        print("\ntest_svm_wcs_uvis.")
        # Get the TDP for this detector
        tdp_files = [files for files in gather_output_data if files.lower().find("uvis_total") > -1 and files.lower().endswith("drc.fits")]
    
        # Check the WCS solution is as expected
>       wcsname = fits.getval(tdp_files[0], "WCSNAME", ext=1).upper()
E       IndexError: list index out of range

/Users/sgoldman/Documents/drizzlepac_dev/tests/hap/test_svm_ibqk07.py:204: IndexError
------------------------------------------------------------ Captured stdout call ------------------------------------------------------------

test_svm_wcs_uvis.
___________________________________________________________ test_svm_wcs_uvis_all ____________________________________________________________

gather_output_data = []

    def test_svm_wcs_uvis_all(gather_output_data):
        # Check the output primary WCSNAME
        print("\ntest_svm_wcs_uvis_all.")
        uvis_files = [files for files in gather_output_data if files.lower().find("_uvis_") > -1 and files.lower().endswith("drc.fits")]
    
        wcsnames = [fits.getval(uvis, "WCSNAME", ext=1).upper() for uvis in uvis_files]
>       assert len(set(wcsnames)) == 1, f"WCSNAMES are not all the same for the UVIS detector: {wcsnames}"
E       AssertionError: WCSNAMES are not all the same for the UVIS detector: []
E       assert 0 == 1
E        +  where 0 = len(set())
E        +    where set() = set([])

/Users/sgoldman/Documents/drizzlepac_dev/tests/hap/test_svm_ibqk07.py:215: AssertionError
------------------------------------------------------------ Captured stdout call ------------------------------------------------------------

test_svm_wcs_uvis_all.
============================================================== warnings summary ==============================================================
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:121
  /opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:121: DeprecationWarning: pkg_resources is deprecated as an API
    warnings.warn("pkg_resources is deprecated as an API", DeprecationWarning)

../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
  /opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('mpl_toolkits')`.
  Implementing implicit namespace packages (as specified in PEP 420) is preferred to `pkg_resources.declare_namespace`. See https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages
    declare_namespace(pkg)

../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
  /opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('sphinxcontrib')`.
  Implementing implicit namespace packages (as specified in PEP 420) is preferred to `pkg_resources.declare_namespace`. See https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages
    declare_namespace(pkg)

../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
  /opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('stsci')`.
  Implementing implicit namespace packages (as specified in PEP 420) is preferred to `pkg_resources.declare_namespace`. See https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages
    declare_namespace(pkg)

../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/stsci/tools/stpyfits.py:20
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/stsci/tools/stpyfits.py:20
  /opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/stsci/tools/stpyfits.py:20: DeprecationWarning: distutils Version classes are deprecated. Use packaging.version instead.
    ASTROPY_VER_GE32 = LooseVersion(astropy.__version__) >= LooseVersion('3.2')

-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
========================================================== short test summary info ===========================================================
FAILED tests/hap/test_svm_ibqk07.py::test_svm_wcs_ir - IndexError: list index out of range
FAILED tests/hap/test_svm_ibqk07.py::test_svm_wcs_ir_all - AssertionError: WCSNAMES are not all the same for the IR detector: []
FAILED tests/hap/test_svm_ibqk07.py::test_svm_wcs_uvis - IndexError: list index out of range
FAILED tests/hap/test_svm_ibqk07.py::test_svm_wcs_uvis_all - AssertionError: WCSNAMES are not all the same for the UVIS detector: []
============================================ 4 failed, 5 passed, 10 warnings in 231.02s (0:03:51) ============================================
(stenv-python-3.10) sgoldman@wovas2023 drizzlepac_dev %

drizzlepac/haputils/poller_utils.py

s-goldman · 2023-10-26T15:06:59Z

Since your waiting on me @mdlpstsci , I'll include you in my current problem-solving. My issue right now is a couple SVM unit tests.

It looks like gather_output_data is not working as intended, and not finding the test data that should be there.

Any thoughts?

(stenv-python-3.10) sgoldman@wovas2023 drizzlepac_dev % pytest tests/hap/test_svm_ibqk07.py 
=================================== test session starts ===================================
platform darwin -- Python 3.10.11, pytest-7.3.1, pluggy-1.0.0
rootdir: /Users/sgoldman/Documents/drizzlepac_dev
configfile: pyproject.toml
plugins: asdf-2.15.0, typeguard-3.0.2, jwst-1.10.2, xdist-3.3.1, ci-watson-0.6.1, anyio-3.7.0
collected 9 items                                                                         

tests/hap/test_svm_ibqk07.py .FFFF....                                                                                                 [100%]

================================================================== FAILURES ==================================================================
______________________________________________________________ test_svm_wcs_ir _______________________________________________________________

gather_output_data = []

    def test_svm_wcs_ir(gather_output_data):
        print("\ntest_svm_wcs_ir.")
        # Get the TDP for this detector
        tdp_files = [files for files in gather_output_data if files.lower().find("ir_total") > -1 and files.lower().endswith("drz.fits")]
    
        # Check the WCS solution is as expected
>       wcsname = fits.getval(tdp_files[0], "WCSNAME", ext=1).upper()
E       IndexError: list index out of range

/Users/sgoldman/Documents/drizzlepac_dev/tests/hap/test_svm_ibqk07.py:184: IndexError
----------------------------------------------------------- Captured stdout setup ------------------------------------------------------------

gather_output_data. Output data files: []
------------------------------------------------------------ Captured stdout call ------------------------------------------------------------

test_svm_wcs_ir.
____________________________________________________________ test_svm_wcs_ir_all _____________________________________________________________

gather_output_data = []

    def test_svm_wcs_ir_all(gather_output_data):
        print("\ntest_svm_wcs_ir_all.")
        # Check the output primary WCSNAME
        ir_files = [files for files in gather_output_data if files.lower().find("_ir_") > -1 and files.lower().endswith("drz.fits")]
    
        wcsnames = [fits.getval(ir, "WCSNAME", ext=1).upper() for ir in ir_files]
>       assert len(set(wcsnames)) == 1, f"WCSNAMES are not all the same for the IR detector: {wcsnames}"
E       AssertionError: WCSNAMES are not all the same for the IR detector: []
E       assert 0 == 1
E        +  where 0 = len(set())
E        +    where set() = set([])

/Users/sgoldman/Documents/drizzlepac_dev/tests/hap/test_svm_ibqk07.py:195: AssertionError
------------------------------------------------------------ Captured stdout call ------------------------------------------------------------

test_svm_wcs_ir_all.
_____________________________________________________________ test_svm_wcs_uvis ______________________________________________________________

gather_output_data = []

    def test_svm_wcs_uvis(gather_output_data):
        print("\ntest_svm_wcs_uvis.")
        # Get the TDP for this detector
        tdp_files = [files for files in gather_output_data if files.lower().find("uvis_total") > -1 and files.lower().endswith("drc.fits")]
    
        # Check the WCS solution is as expected
>       wcsname = fits.getval(tdp_files[0], "WCSNAME", ext=1).upper()
E       IndexError: list index out of range

/Users/sgoldman/Documents/drizzlepac_dev/tests/hap/test_svm_ibqk07.py:204: IndexError
------------------------------------------------------------ Captured stdout call ------------------------------------------------------------

test_svm_wcs_uvis.
___________________________________________________________ test_svm_wcs_uvis_all ____________________________________________________________

gather_output_data = []

    def test_svm_wcs_uvis_all(gather_output_data):
        # Check the output primary WCSNAME
        print("\ntest_svm_wcs_uvis_all.")
        uvis_files = [files for files in gather_output_data if files.lower().find("_uvis_") > -1 and files.lower().endswith("drc.fits")]
    
        wcsnames = [fits.getval(uvis, "WCSNAME", ext=1).upper() for uvis in uvis_files]
>       assert len(set(wcsnames)) == 1, f"WCSNAMES are not all the same for the UVIS detector: {wcsnames}"
E       AssertionError: WCSNAMES are not all the same for the UVIS detector: []
E       assert 0 == 1
E        +  where 0 = len(set())
E        +    where set() = set([])

/Users/sgoldman/Documents/drizzlepac_dev/tests/hap/test_svm_ibqk07.py:215: AssertionError
------------------------------------------------------------ Captured stdout call ------------------------------------------------------------

test_svm_wcs_uvis_all.
============================================================== warnings summary ==============================================================
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:121
  /opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:121: DeprecationWarning: pkg_resources is deprecated as an API
    warnings.warn("pkg_resources is deprecated as an API", DeprecationWarning)

../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
  /opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('mpl_toolkits')`.
  Implementing implicit namespace packages (as specified in PEP 420) is preferred to `pkg_resources.declare_namespace`. See https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages
    declare_namespace(pkg)

../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
  /opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('sphinxcontrib')`.
  Implementing implicit namespace packages (as specified in PEP 420) is preferred to `pkg_resources.declare_namespace`. See https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages
    declare_namespace(pkg)

../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870
  /opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/pkg_resources/__init__.py:2870: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('stsci')`.
  Implementing implicit namespace packages (as specified in PEP 420) is preferred to `pkg_resources.declare_namespace`. See https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages
    declare_namespace(pkg)

../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/stsci/tools/stpyfits.py:20
../../../../opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/stsci/tools/stpyfits.py:20
  /opt/anaconda3/envs/stenv-python-3.10/lib/python3.10/site-packages/stsci/tools/stpyfits.py:20: DeprecationWarning: distutils Version classes are deprecated. Use packaging.version instead.
    ASTROPY_VER_GE32 = LooseVersion(astropy.__version__) >= LooseVersion('3.2')

-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
========================================================== short test summary info ===========================================================
FAILED tests/hap/test_svm_ibqk07.py::test_svm_wcs_ir - IndexError: list index out of range
FAILED tests/hap/test_svm_ibqk07.py::test_svm_wcs_ir_all - AssertionError: WCSNAMES are not all the same for the IR detector: []
FAILED tests/hap/test_svm_ibqk07.py::test_svm_wcs_uvis - IndexError: list index out of range
FAILED tests/hap/test_svm_ibqk07.py::test_svm_wcs_uvis_all - AssertionError: WCSNAMES are not all the same for the UVIS detector: []
============================================ 4 failed, 5 passed, 10 warnings in 231.02s (0:03:51) ============================================
(stenv-python-3.10) sgoldman@wovas2023 drizzlepac_dev %

@mdlpstsci Actually it might be the fact that the test is testing full poller files, which I haven't tested yet.

mdlpstsci

Just a caution: For complex code, it is good to keep changes straightforward. I would not have inserted the new "aperture" value in the middle of the string which gets split up into tokens.

Please update any and all comment strings throughout the poller_utils.py module to include the new information. Again, I would use a different word than just "aperture" to differentiate it from the original FITS RAW keyword value.

mdlpstsci

You should also add an entry in the CHANGELOG.

mdlpstsci · 2023-10-26T15:23:32Z

@s-goldman It does not look like the output is on Artifactory. So...I would get the dataset and process it with the original code, keeping all the output. I would then process it with the new code, and see if the differences are valid.

drizzlepac/haputils/poller_utils.py

mdlpstsci

Important documentation changes.

mdlpstsci

Ready to go!

s-goldman added 11 commits October 10, 2023 16:20

Added logic for len(input_table)==2

95bce45

added aperture to create_row_info

99c4114

removed set trace

b6abaf6

elif and else statements added

1a2079e

catches mvm w/o full poller. Added f strings.

f008533

Passes aperture to objects, breaks code.

43c8873

added product.py

4074328

Merge branch 'spacetelescope:master' into HLA-1110_APERTURE_keyword_f…

9be107c

…rom_poller_to_header_10_10_23

Added aperture col for simple 1-col poller case.

f3fb649

grism issue fix, empty_aperture added in polerfile

fc56a37

line that updates header keyword

7b51cc3

s-goldman added enhancement Do Not Merge PR which should not be merged labels Oct 25, 2023

s-goldman requested review from mdlpstsci and a team as code owners October 25, 2023 20:58

mdlpstsci reviewed Oct 26, 2023

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s-goldman added 2 commits October 26, 2023 10:45

header update only for WFPC2

cb0e3bb

removed multiple type hints

e7d25b1

mdlpstsci reviewed Oct 26, 2023

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s-goldman added 2 commits October 26, 2023 11:25

proper handling of aperture for full poller

1641c9b

Changed aperture name

dc1cfcf

added changelog

0f46a6b

mdlpstsci reviewed Oct 26, 2023

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s-goldman added 3 commits October 26, 2023 15:16

Change not update from master.

ab834b2

added docs to poller_utils

1ad96e4

added docs for prod_list filter in poller_utils

dfc1839

mdlpstsci removed the Do Not Merge PR which should not be merged label Oct 26, 2023

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s-goldman changed the title ~~[WIP] HLA-1110: aperture keyword from poller to header 10 10 23~~ HLA-1110: aperture keyword from poller to header Oct 26, 2023

s-goldman merged commit f9ed037 into spacetelescope:master Oct 26, 2023
13 of 14 checks passed

s-goldman deleted the HLA-1110_APERTURE_keyword_from_poller_to_header_10_10_23 branch October 26, 2023 20:36

mdlpstsci pushed a commit to mdlpstsci/drizzlepac that referenced this pull request Oct 26, 2023

HLA-1110: aperture keyword from poller to header (spacetelescope#1683)

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mdlpstsci mentioned this pull request Oct 26, 2023

HLA-1145: New drizzlepac release candidate 3.6.2rc1 #1685

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s-goldman mentioned this pull request Nov 1, 2023

HLA-1150: MVM failure due to HAPProduct constructor mismatch #1693

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s-goldman mentioned this pull request Nov 8, 2023

HLA-1154 Bug fix for processing no_proc_key='WARN' #1698

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HLA-1110: aperture keyword from poller to header #1683

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HLA-1110: aperture keyword from poller to header #1683

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