The 12 Patterns diagrams¶
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pip install eoap_cwlwrap
pip install eoap_cwlwrap
Requirement already satisfied: eoap_cwlwrap in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (0.16.0) Requirement already satisfied: click>=8.0 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from eoap_cwlwrap) (8.2.1) Requirement already satisfied: cwl-loader>=0.9.0 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from eoap_cwlwrap) (0.10.0) Requirement already satisfied: cwl-utils>=0.38 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from eoap_cwlwrap) (0.40) Requirement already satisfied: cwltool>=3.1.20250110105449 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from eoap_cwlwrap) (3.1.20250715140722) Requirement already satisfied: loguru in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from eoap_cwlwrap) (0.7.3) Requirement already satisfied: ruamel-yaml>=0.18.15 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwl-loader>=0.9.0->eoap_cwlwrap) (0.18.15) Requirement already satisfied: cwl-upgrader>=1.2.3 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwl-utils>=0.38->eoap_cwlwrap) (1.2.12) Requirement already satisfied: packaging in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwl-utils>=0.38->eoap_cwlwrap) (25.0) Requirement already satisfied: rdflib in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwl-utils>=0.38->eoap_cwlwrap) (7.1.4) Requirement already satisfied: requests in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwl-utils>=0.38->eoap_cwlwrap) (2.32.5) Requirement already satisfied: schema-salad<9,>=8.8.20250205075315 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwl-utils>=0.38->eoap_cwlwrap) (8.9.20250723145140) Requirement already satisfied: ruamel.yaml.clib>=0.2.7 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from ruamel-yaml>=0.18.15->cwl-loader>=0.9.0->eoap_cwlwrap) (0.2.14) Requirement already satisfied: mistune<3.1,>=3 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from schema-salad<9,>=8.8.20250205075315->cwl-utils>=0.38->eoap_cwlwrap) (3.0.2) Requirement already satisfied: CacheControl<0.15,>=0.13.1 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from CacheControl[filecache]<0.15,>=0.13.1->schema-salad<9,>=8.8.20250205075315->cwl-utils>=0.38->eoap_cwlwrap) (0.14.3) Requirement already satisfied: mypy_extensions in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from schema-salad<9,>=8.8.20250205075315->cwl-utils>=0.38->eoap_cwlwrap) (1.1.0) Requirement already satisfied: msgpack<2.0.0,>=0.5.2 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from CacheControl<0.15,>=0.13.1->CacheControl[filecache]<0.15,>=0.13.1->schema-salad<9,>=8.8.20250205075315->cwl-utils>=0.38->eoap_cwlwrap) (1.1.1) Requirement already satisfied: filelock>=3.8.0 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from CacheControl[filecache]<0.15,>=0.13.1->schema-salad<9,>=8.8.20250205075315->cwl-utils>=0.38->eoap_cwlwrap) (3.19.1) Requirement already satisfied: pyparsing<4,>=2.1.0 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from rdflib->cwl-utils>=0.38->eoap_cwlwrap) (3.2.5) Requirement already satisfied: setuptools in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwl-upgrader>=1.2.3->cwl-utils>=0.38->eoap_cwlwrap) (80.9.0) Requirement already satisfied: prov==1.5.1 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwltool>=3.1.20250110105449->eoap_cwlwrap) (1.5.1) Requirement already satisfied: psutil>=5.6.6 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwltool>=3.1.20250110105449->eoap_cwlwrap) (7.1.0) Requirement already satisfied: coloredlogs in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwltool>=3.1.20250110105449->eoap_cwlwrap) (15.0.1) Requirement already satisfied: pydot>=1.4.1 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwltool>=3.1.20250110105449->eoap_cwlwrap) (4.0.1) Requirement already satisfied: argcomplete>=1.12.0 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwltool>=3.1.20250110105449->eoap_cwlwrap) (3.6.2) Requirement already satisfied: spython>=0.3.0 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwltool>=3.1.20250110105449->eoap_cwlwrap) (0.3.14) Requirement already satisfied: rich-argparse in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from cwltool>=3.1.20250110105449->eoap_cwlwrap) (1.7.1) Requirement already satisfied: lxml in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from prov==1.5.1->cwltool>=3.1.20250110105449->eoap_cwlwrap) (6.0.2) Requirement already satisfied: networkx in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from prov==1.5.1->cwltool>=3.1.20250110105449->eoap_cwlwrap) (3.5) Requirement already satisfied: python-dateutil in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from prov==1.5.1->cwltool>=3.1.20250110105449->eoap_cwlwrap) (2.9.0.post0) Requirement already satisfied: six>=1.9.0 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from prov==1.5.1->cwltool>=3.1.20250110105449->eoap_cwlwrap) (1.17.0) Requirement already satisfied: charset_normalizer<4,>=2 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from requests->cwl-utils>=0.38->eoap_cwlwrap) (3.4.3) Requirement already satisfied: idna<4,>=2.5 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from requests->cwl-utils>=0.38->eoap_cwlwrap) (3.10) Requirement already satisfied: urllib3<3,>=1.21.1 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from requests->cwl-utils>=0.38->eoap_cwlwrap) (2.5.0) Requirement already satisfied: certifi>=2017.4.17 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from requests->cwl-utils>=0.38->eoap_cwlwrap) (2025.8.3)
Requirement already satisfied: humanfriendly>=9.1 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from coloredlogs->cwltool>=3.1.20250110105449->eoap_cwlwrap) (10.0) Requirement already satisfied: rich>=11.0.0 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from rich-argparse->cwltool>=3.1.20250110105449->eoap_cwlwrap) (14.1.0) Requirement already satisfied: markdown-it-py>=2.2.0 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from rich>=11.0.0->rich-argparse->cwltool>=3.1.20250110105449->eoap_cwlwrap) (4.0.0) Requirement already satisfied: pygments<3.0.0,>=2.13.0 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from rich>=11.0.0->rich-argparse->cwltool>=3.1.20250110105449->eoap_cwlwrap) (2.19.2) Requirement already satisfied: mdurl~=0.1 in /opt/hostedtoolcache/Python/3.13.7/x64/lib/python3.13/site-packages (from markdown-it-py>=2.2.0->rich>=11.0.0->rich-argparse->cwltool>=3.1.20250110105449->eoap_cwlwrap) (0.1.2)
Note: you may need to restart the kernel to use updated packages.
In [2]:
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from cwl2puml import (
to_puml,
DiagramType
)
from eoap_cwlwrap import wrap_locations
from io import (
StringIO,
BytesIO
)
from IPython.display import (
display_markdown,
display_png,
Markdown
)
from plantuml import deflate_and_encode
from PIL import Image
from typing import List
from urllib.request import urlopen
from loguru import logger
import sys
logger.remove() #remove the old handler. Else, the old one will work along with the new one you've added below'
logger.add(sys.stderr, level="CRITICAL")
base_url = 'https://raw.githubusercontent.com/eoap/application-package-patterns/refs/heads/main'
directory_stage_in = f"{base_url}/templates/stage-in.cwl"
file_stage_in = f"{base_url}/templates/stage-in-file.cwl"
stage_out_cwl = f"{base_url}/templates/stage-out.cwl"
debug = False
for pattern_index in range(1, 13, 1):
display_markdown(Markdown(f"# Pattern {pattern_index}"))
workflow_id = f"pattern-{pattern_index}"
workflows_cwl = f"{base_url}/cwl-workflow/{workflow_id}.cwl"
cwl_document = wrap_locations(
workflows=workflows_cwl,
workflow_id=workflow_id,
directory_stage_in=directory_stage_in,
file_stage_in=file_stage_in,
stage_out=stage_out_cwl
)
for diagram_type in DiagramType:
display_markdown(Markdown(f"## {diagram_type.name.lower()} diagram"))
out = StringIO()
to_puml( # workflow_id='main' by default
cwl_document=cwl_document,
diagram_type=diagram_type,
output_stream=out
)
clear_output = out.getvalue()
if debug:
print(clear_output)
encoded = deflate_and_encode(clear_output)
diagram_url = f"https://uml.planttext.com/plantuml/png/{encoded}"
with urlopen(diagram_url) as url:
img = Image.open(BytesIO(url.read()))
display_png(img)
from cwl2puml import (
to_puml,
DiagramType
)
from eoap_cwlwrap import wrap_locations
from io import (
StringIO,
BytesIO
)
from IPython.display import (
display_markdown,
display_png,
Markdown
)
from plantuml import deflate_and_encode
from PIL import Image
from typing import List
from urllib.request import urlopen
from loguru import logger
import sys
logger.remove() #remove the old handler. Else, the old one will work along with the new one you've added below'
logger.add(sys.stderr, level="CRITICAL")
base_url = 'https://raw.githubusercontent.com/eoap/application-package-patterns/refs/heads/main'
directory_stage_in = f"{base_url}/templates/stage-in.cwl"
file_stage_in = f"{base_url}/templates/stage-in-file.cwl"
stage_out_cwl = f"{base_url}/templates/stage-out.cwl"
debug = False
for pattern_index in range(1, 13, 1):
display_markdown(Markdown(f"# Pattern {pattern_index}"))
workflow_id = f"pattern-{pattern_index}"
workflows_cwl = f"{base_url}/cwl-workflow/{workflow_id}.cwl"
cwl_document = wrap_locations(
workflows=workflows_cwl,
workflow_id=workflow_id,
directory_stage_in=directory_stage_in,
file_stage_in=file_stage_in,
stage_out=stage_out_cwl
)
for diagram_type in DiagramType:
display_markdown(Markdown(f"## {diagram_type.name.lower()} diagram"))
out = StringIO()
to_puml( # workflow_id='main' by default
cwl_document=cwl_document,
diagram_type=diagram_type,
output_stream=out
)
clear_output = out.getvalue()
if debug:
print(clear_output)
encoded = deflate_and_encode(clear_output)
diagram_url = f"https://uml.planttext.com/plantuml/png/{encoded}"
with urlopen(diagram_url) as url:
img = Image.open(BytesIO(url.read()))
display_png(img)
Pattern 1¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
Pattern 2¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
Pattern 3¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
Pattern 4¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
Pattern 5¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
Pattern 6¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
Pattern 7¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
Pattern 8¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
Pattern 9¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
Pattern 10¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
Pattern 11¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
Pattern 12¶
activity diagram¶
component diagram¶
class diagram¶
sequence diagram¶
state diagram¶
