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Add save_gdal.py --mask/--zero-mask options #1349

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Merged
yunjunz merged 5 commits into from
Jun 3, 2025
Merged

Add save_gdal.py --mask/--zero-mask options #1349

yunjunz merged 5 commits into from
Jun 3, 2025

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@barely-sad-one barely-sad-one commented May 18, 2025 •
edited by yunjunz
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This PR adds support for the -m and --zero-mask command-line arguments to the save_gdal.py CLI, allowing users to:

  • -m /path/to/mask: Apply a custom mask file (e.g. maskTempCoh.h5) to exclude invalid pixels.
  • --zero-mask: Automatically mask all zero-valued pixels in the data array.

Changes

  • Updated save_gdal.py to accept and handle inps.mask_file and inps.zero_mask.
  • Applied masking logic before writing output using data[mask == 0] = np.nan and data[data == 0] = np.nan.

Reminders

  • Fix -m --mask option for save_gdal/qgis.py #1254
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  • Pass Codacy code review (green)
  • Pass Circle CI test (green)
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Summary by Sourcery

Add support for custom and zero-value masking to the save_gdal.py command-line interface and apply the masking logic prior to output generation

New Features:

  • Add -m/--mask argument to save_gdal.py CLI for specifying a custom mask file
  • Add --zero-mask flag to automatically mask zero-valued pixels before writing output

Enhancements:

  • Apply masking logic in save_gdal.py using the provided mask file and zero-mask option before file export

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sourcery-ai bot commented May 18, 2025 •
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Reviewer's Guide

Enhances the save_gdal CLI by adding options to apply a user-supplied mask file and/or automatically mask zero-valued pixels, integrating the new masking steps into the data preparation workflow before writing output.

File-Level Changes

Change Details Files
Integrate custom and zero-value masking in save_gdal
  • Read custom mask via pp.read_mask when mask_file is specified
  • Set data[mask == 0] to NaN to exclude invalid pixels
  • Check zero_mask flag and set data[data == 0] to NaN
  • Release mask array after use
 src/mintpy/save_gdal.py
Extend CLI to accept mask and zero-mask options
  • Add -m/--mask argument for specifying a mask file
  • Add --zero-mask flag to enable automatic zero-value masking
 src/mintpy/cli/save_gdal.py

Assessment against linked issues

Issue Objective Addressed Explanation
#1254 Add a -m --mask option to save_gdal.py to allow users to specify a mask file. ✅
#1254 Implement the functionality to mask out pixels based on the provided mask file. ✅

Possibly linked issues

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Hey @barely-sad-one - I've reviewed your changes and they look great!

Here's what I looked at during the review
  • 🟡 General issues: 1 issue found
  • 🟢 Testing: all looks good
  • 🟢 Complexity: all looks good
  • 🟢 Documentation: all looks good
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@yunjunz yunjunz self-requested a review June 3, 2025 06:15
@yunjunz yunjunz changed the title Add -m --zero-mask to save_gdal.py Add save_gdal.py --mask/--zero-mask options Jun 3, 2025
yunjunz
yunjunz approved these changes Jun 3, 2025
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Thank you @barely-sad-one for the PR! Looks all good to me.

@yunjunz yunjunz merged commit 2de8201 into insarlab:main Jun 3, 2025
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🎉 🎉 🎉 Congrats on merging your first pull request! We here at behaviorbot are proud of you! 🎉 🎉 🎉

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-m --mask option for save_gdal/qgis.py

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