Galaxy schema rendering script.

Uses sqlite_schemadisp to generate images like the one at
https://galaxyproject.org/admin/internals/data-model/
This commit is contained in:
Dannon Baker
2021-01-12 06:55:14 -05:00
parent 68839d48ee
commit 3d4f7b22b3
+44
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import os
import sys
from db_shell import * # noqa
gxy_root = os.path.abspath(os.path.join(os.path.dirname(__file__), os.pardir))
sys.path.insert(1, os.path.abspath(os.path.join(gxy_root, 'lib')))
from galaxy import model
from sqlalchemy import MetaData
from sqlalchemy.orm import class_mapper
from sqlalchemy_schemadisplay import create_schema_graph, create_uml_graph
if __name__ == "__main__":
gxy_root = os.path.abspath(os.path.join(os.path.dirname(__file__), os.pardir))
sqlitedb = os.path.join(gxy_root, 'database/universe.sqlite')
# Try to build a representation of what's in the sqlite database
if os.path.exists(sqlitedb):
graph = create_schema_graph(metadata=MetaData('sqlite:///' + sqlitedb),
show_datatypes=False,
show_indexes=False,
rankdir='LR',
concentrate=False)
print(f"Writing galaxy_universe.png, built from {sqlitedb}")
graph.write_png('galaxy_universe.png')
else:
print(f"No sqlitedb available at {sqlitedb}, skipping rendering")
# Build UML graph from loaded mapper
mappers = []
for attr in dir(model):
if attr[0] == '_':
continue
try:
cls = getattr(model, attr)
mappers.append(class_mapper(cls))
except Exception:
pass
graph = create_uml_graph(
mappers,
show_operations=False,
)
print("Writing galaxy_uml.png")
graph.write_png('galaxy_uml.png') # write out the file