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#!/usr/bin/python3
import re
import sqlite3
import argparse
parser = argparse.ArgumentParser(description="""
Look for nodes without images in the database, and tries to
associate them with images from their children
""", formatter_class=argparse.RawDescriptionHelpFormatter)
parser.parse_args()
dbFile = 'data.db'
compoundNameRegex = re.compile(r'\[(.+) \+ (.+)]')
upPropagateCompoundImgs = False
print('Opening databases')
dbCon = sqlite3.connect(dbFile)
dbCur = dbCon.cursor()
dbCur.execute('CREATE TABLE linked_imgs (name TEXT PRIMARY KEY, otol_ids TEXT)')
print('Getting nodes with images')
resolvedNodes: dict[str, str] = {} # Will map node names to otol IDs with a usable image
query = 'SELECT nodes.name, nodes.id FROM nodes INNER JOIN node_imgs ON nodes.name = node_imgs.name'
for name, otolId in dbCur.execute(query):
resolvedNodes[name] = otolId
print(f'Found {len(resolvedNodes)}')
print('Iterating through nodes, trying to resolve images for ancestors')
nodesToResolve: dict[str, list[dict[str, str | int | None]]] = {}
# Maps a node name to a list of objects that represent possible child images
processedNodes: dict[str, str] = {} # Map a node name to an OTOL ID, representing a child node whose image is to be used
parentToChosenTips: dict[str, int] = {} # Used to prefer images from children with more tips
iterNum = 0
while resolvedNodes:
iterNum += 1
if iterNum % 1e3 == 0:
print(f'At iteration {iterNum}')
# Get next node
nodeName, otolId = resolvedNodes.popitem()
processedNodes[nodeName] = otolId
# Traverse upwards, resolving ancestors if able
while True:
# Get parent
row = dbCur.execute('SELECT parent FROM edges WHERE child = ?', (nodeName,)).fetchone()
if row is None or row[0] in processedNodes or row[0] in resolvedNodes:
break
parent: str = row[0]
# Get parent data
if parent not in nodesToResolve:
childNames: list[str] = [
row[0] for row in dbCur.execute('SELECT child FROM edges WHERE parent = ?', (parent,))]
query = 'SELECT name, tips FROM nodes WHERE name IN ({})'.format(','.join(['?'] * len(childNames)))
childObjs = [{'name': row[0], 'tips': row[1], 'otolId': None} for row in dbCur.execute(query, childNames)]
childObjs.sort(key=lambda x: x['tips'], reverse=True)
nodesToResolve[parent] = childObjs
else:
childObjs = nodesToResolve[parent]
# Check if highest-tips child
if childObjs[0]['name'] == nodeName:
# Resolve parent, and continue from it
dbCur.execute('INSERT INTO linked_imgs VALUES (?, ?)', (parent, otolId))
del nodesToResolve[parent]
processedNodes[parent] = otolId
parentToChosenTips[parent] = childObjs[0]['tips']
nodeName = parent
continue
else:
# Mark child as a potential choice
childObj = next(c for c in childObjs if c['name'] == nodeName)
childObj['otolId'] = otolId
break
# When out of resolved nodes, resolve nodesToResolve nodes, possibly adding more nodes to resolve
if not resolvedNodes:
for name, childObjs in nodesToResolve.items():
childObj = next(c for c in childObjs if c['otolId'] is not None)
resolvedNodes[name] = childObj['otolId']
parentToChosenTips[name] = childObj['tips']
dbCur.execute('INSERT INTO linked_imgs VALUES (?, ?)', (name, childObj['otolId']))
nodesToResolve.clear()
print('Replacing linked-images for compound nodes')
iterNum = 0
for nodeName in processedNodes.keys():
iterNum += 1
if iterNum % 1e4 == 0:
print(f'At iteration {iterNum}')
#
match = compoundNameRegex.fullmatch(nodeName)
if match is not None:
# Replace associated image with subname images
subName1, subName2 = match.group(1,2)
otolIdPair = ['', '']
if subName1 in processedNodes:
otolIdPair[0] = processedNodes[subName1]
if subName2 in processedNodes:
otolIdPair[1] = processedNodes[subName2]
# Use no image if both subimages not found
if otolIdPair[0] == '' and otolIdPair[1] == '':
dbCur.execute('DELETE FROM linked_imgs WHERE name = ?', (nodeName,))
continue
# Add to db
dbCur.execute('UPDATE linked_imgs SET otol_ids = ? WHERE name = ?',
(otolIdPair[0] + ',' + otolIdPair[1], nodeName))
# Possibly repeat operation upon parent/ancestors
if upPropagateCompoundImgs:
while True:
# Get parent
row = dbCur.execute('SELECT parent FROM edges WHERE child = ?', (nodeName,)).fetchone()
if row is not None:
parent = row[0]
# Check num tips
(numTips,) = dbCur.execute('SELECT tips from nodes WHERE name = ?', (nodeName,)).fetchone()
if parent in parentToChosenTips and parentToChosenTips[parent] <= numTips:
# Replace associated image
dbCur.execute('UPDATE linked_imgs SET otol_ids = ? WHERE name = ?',
(otolIdPair[0] + ',' + otolIdPair[1], parent))
nodeName = parent
continue
break
print('Closing databases')
dbCon.commit()
dbCon.close()
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