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Pattern 8

Application Package Pattern 8¶

The CWL includes:

one input parameter of type Directory
one output parameter of type Directory?

This scenario takes as input an acquisition, applies an algorithm and may or may not generate and output

Implementation: detects water bodies using the Normalized Difference Water Index (NDWI) and Otsu thresholding.

---------------------------------------------------------------------------
AttributeError                            Traceback (most recent call last)
Cell In[3], line 1
----> 1 wf.plot()

AttributeError: 'WorkflowViewer' object has no attribute 'plot'

Inputs¶

Id	Type	Label	Doc
`aoi`	`string`	area of interest	area of interest as a bounding box
`epsg`	`string`	EPSG code	EPSG code
`bands`	`string[]`	bands used for the NDWI	bands used for the NDWI
`item`	`Directory`	Landsat-8/9 acquisition reference	Landsat-8/9 acquisition reference
`produce_output`	`boolean`	Flag to produce the output	Flag to produce the output

Steps¶

Id	Runs	Label	Doc
`step`	`#clt`	Detect water bodies	Detect water bodies based on the NDWI and otsu threshold from Landsat-8/9 acquisition

Outputs¶

Id	Type	Label	Doc
`water_bodies`	`[ null, Directory ]`	Water bodies detected	Water bodies detected based on the NDWI and otsu threshold

Data flow management¶

---------------------------------------------------------------------------
TypeError                                 Traceback (most recent call last)
Cell In[7], line 2
      1 w = WorkflowWrapper(workflow=wf.workflow, entrypoint=entrypoint)
----> 2 wrapped = w.wrap()
      3 
      4 app_cwl_file = f".{entrypoint}.cwl"
      5 

File ~/work/application-package-patterns/application-package-patterns/docs/helpers.py:120, in WorkflowWrapper.wrap(self)
    113 file_stage_in = load_cwl_from_location(
    114     path=f"{self.base_url}/templates/stage-in-file.cwl"
    115 )
    116 stage_out_cwl = load_cwl_from_location(
    117     path=f"{self.base_url}/templates/stage-out.cwl"
    118 )
--> 120 return wrap(
    121     directory_stage_in=directory_stage_in,
    122     file_stage_in=file_stage_in,
    123     workflows=self.workflow,
    124     workflow_id=self.entrypoint,
    125     stage_out=stage_out_cwl,
    126 )

TypeError: wrap() got an unexpected keyword argument 'workflows'. Did you mean 'workflow'?

---------------------------------------------------------------------------
NameError                                 Traceback (most recent call last)
Cell In[8], line 1
----> 1 wf = WorkflowViewer(cwl_file=app_cwl_file, workflow=wrapped, entrypoint="main")
      2 
      3 wf.display_class_diagram()

NameError: name 'wrapped' is not defined

Workflow sequence diagram¶

No description has been provided for this image

Inputs¶

Id	Type	Label	Doc
`aoi`	`string`	area of interest	area of interest as a bounding box
`epsg`	`string`	EPSG code	EPSG code
`bands`	`string[]`	bands used for the NDWI	bands used for the NDWI
`item`	`Directory`	Landsat-8/9 acquisition reference	Landsat-8/9 acquisition reference
`produce_output`	`boolean`	Flag to produce the output	Flag to produce the output

Steps¶

Id	Runs	Label	Doc
`step`	`#clt`	Detect water bodies	Detect water bodies based on the NDWI and otsu threshold from Landsat-8/9 acquisition

Outputs¶

Id	Type	Label	Doc
`water_bodies`	`[ null, Directory ]`	Water bodies detected	Water bodies detected based on the NDWI and otsu threshold

Execution¶

Inputs¶

{
  "aoi": "-118.985,38.432,-118.183,38.938",
  "epsg": "EPSG:4326",
  "bands": [
    "green",
    "nir08"
  ],
  "item": {
    "class": "https://raw.githubusercontent.com/eoap/schemas/main/url.yaml#URL",
    "value": "https://planetarycomputer.microsoft.com/api/stac/v1/collections/landsat-c2-l2/items/LC08_L2SP_042033_20231007_02_T1"
  },
  "produce_output": true,
  "another_input": "some_value",
  "s3_bucket": "my-bucket",
  "sub_path": "my/sub/path",
  "aws_access_key_id": "test",
  "aws_secret_access_key": "test",
  "region_name": "us-west-1",
  "endpoint_url": "https://s3.us-west-1.amazonaws.com"
}

Errors¶

CWL execution terminated with errors:

[1;30mINFO[0m /opt/hostedtoolcache/Python/3.14.6/x64/lib/python3.14/site-packages/ipykernel_launcher.py 3.1.20260315121657
[1;30mINFO[0m Resolved '../cwl-workflow/pattern-8.cwl#main' to 'file:///home/runner/work/application-package-patterns/application-package-patterns/cwl-workflow/pattern-8.cwl#main'
[1;30mWARNING[0m [33m../cwl-workflow/pattern-8.cwl:102:7: Warning: checking item
                                     Warning:   Field 'class' contains undefined reference to
                                     'http://oeap.github.io/schema#JSONSchemaHint'[0m
[1;30mERROR[0m [31mTool definition failed validation:
Reference '#main' not found in file 'file:///home/runner/work/application-package-patterns/application-package-patterns/cwl-workflow/pattern-8.cwl'.[0m