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aaronmk
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# XML-database conversion
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import copy
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16
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import re
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13
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aaronmk
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from xml.dom import Node
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446
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import exc
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2436
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import Parser
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46
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import sql
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3077
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import sql_io
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2268
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import sql_gen
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84
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import strings
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133
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import util
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46
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import xml_dom
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2113
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import xml_func
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2436
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import xpath
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13
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aaronmk
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139
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def name_of(node): return re.sub(r'^.*\.', r'', node.tagName)
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16
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aaronmk
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13
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ptr_suffix = '_id'
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138
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def is_ptr(node_name): return node_name.lower().endswith(ptr_suffix)
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172
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def ptr_type_guess(node_name):
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assert is_ptr(node_name)
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return node_name[:-len(ptr_suffix)]
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def ptr_target(node):
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assert is_ptr(name_of(node))
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2113
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return xml_dom.value_node(node)
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13
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def find_by_name(node, name):
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46
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for parent in xml_dom.NodeParentIter(node):
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if name_of(parent) == name: return parent
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else:
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46
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for child in xml_dom.NodeElemIter(parent):
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child_name = name_of(child)
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if is_ptr(child_name):
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172
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target = ptr_target(child)
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if target.tagName == name: return target
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elif child_name == name: return child
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return None
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1850
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aaronmk
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def get(db, node, limit=None, start=None):
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def pkey(table): return sql.pkey(db, table)
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126
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141
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node = node.firstChild
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table = name_of(node)
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pkey_ = pkey(table)
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fields = []
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conds = {}
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133
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for child in xml_dom.NodeElemIter(node):
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child_name = name_of(child)
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if xml_dom.is_empty(child): fields.append(child_name)
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elif xml_dom.is_text(child): conds[child_name] = xml_dom.value(child)
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else: raise Exception('Joins not supported yet')
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id_ = xml_dom.get_id(node)
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if id_ != None: conds[pkey(table)] = id_ # replace any existing pkey value
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135
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if fields == []: fields.append(pkey_)
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864
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return sql.select(db, table, fields, conds, limit, start)
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126
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def put(db, node, row_ct_ref=None, on_error=exc.raise_, pool=None,
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store_ids=False, parent_id=None):
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'''store_ids enables searching the tree for missing fields'''
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1850
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def pkey(table): return sql.pkey(db, table, True)
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15
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def put_(node, parent_id=None):
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args = (db, node, row_ct_ref, on_error, pool, store_ids, parent_id)
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if parent_id != None and pool != None: pool.apply_async(put, args)
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else: return put(*args)
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461
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aaronmk
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def on_error_(e):
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446
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exc.add_msg(e, 'node:\n'+str(node))
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461
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on_error(e)
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446
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table = name_of(node)
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446
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try: pkey_ = pkey(table)
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461
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except sql.DatabaseErrors, e: on_error_(e); return None
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48
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row = {}
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children = []
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13
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48
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# Divide children into fields and children with fkeys to parent
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for child in xml_dom.NodeElemIter(node):
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child_name = name_of(child)
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463
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if xml_dom.is_empty(child): row[child_name] = None
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454
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elif xml_dom.is_text(child):
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84
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row[child_name] = strings.to_unicode(xml_dom.value(child))
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461
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elif is_ptr(child_name): row[child_name] = put_(ptr_target(child))
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48
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else: children.append(child)
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try: del row[pkey_]
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except KeyError: pass
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# Add fkey to parent
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if parent_id != None:
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parent_ptr = node.getAttribute('fkey')
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if parent_ptr == '': parent_ptr = pkey(name_of(node.parentNode))
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row[parent_ptr] = parent_id
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48
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aaronmk
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# Insert node
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446
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try:
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for try_num in xrange(2):
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try:
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3077
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id_ = sql_io.put(db, table, row, pkey_, row_ct_ref)
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446
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if store_ids: xml_dom.set_id(node, id_)
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break
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except sql.NullValueException, e:
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468
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aaronmk
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col = e.cols[0]
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446
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if try_num > 0: raise # exception still raised after retry
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468
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aaronmk
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if store_ids and is_ptr(col):
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446
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aaronmk
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# Search for required column in ancestors and their children
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468
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target = find_by_name(node, ptr_type_guess(col))
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446
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aaronmk
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if target == None: raise
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468
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row[col] = xml_dom.get_id(target)
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446
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aaronmk
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else: raise
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461
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except sql.DatabaseErrors, e: on_error_(e); return None
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48
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aaronmk
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# Insert children with fkeys to parent
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1874
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for child in children: put_(child, id_)
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48
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aaronmk
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return id_
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1996
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aaronmk
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2039
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aaronmk
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class ColRef:
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'''A reference to a table column'''
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def __init__(self, name, idx):
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self.name = name
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self.idx = idx
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def __str__(self): return self.name
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3114
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aaronmk
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# Controls when and how put_table() will partition the input table
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3145
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aaronmk
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partition_size = 500000 # rows
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3114
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aaronmk
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2177
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input_col_prefix = '$'
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2549
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aaronmk
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put_table_special_funcs = set(['_simplifyPath'])
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2928
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aaronmk
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def put_table(db, node, in_table, in_row_ct_ref=None,
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2806
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aaronmk
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row_ins_ct_ref=None, limit=None, start=0, on_error=exc.raise_,
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parent_ids_loc=None, next=None):
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1996
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aaronmk
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'''
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1998
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aaronmk
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@param node The XML tree that transforms the input to the output. Similar to
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2177
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aaronmk
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put()'s node param, but with the input column name prefixed by
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input_col_prefix in place of the column value.
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2133
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aaronmk
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@return (table, col) Where the pkeys (from INSERT RETURNING) are made
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2067
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aaronmk
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available
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1998
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aaronmk
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'''
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2418
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in_table = sql_gen.as_Table(in_table)
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3113
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in_table.set_srcs([in_table], overwrite=False)
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2418
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aaronmk
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3123
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aaronmk
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def put_table_(node, in_row_ct_ref=None):
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3107
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aaronmk
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return put_table(db, node, in_table, in_row_ct_ref, row_ins_ct_ref,
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3123
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aaronmk
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on_error=on_error, parent_ids_loc=parent_ids_loc, next=next)
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155 |
3107
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aaronmk
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3122
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aaronmk
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# Subset and/or partition in_table if needed
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3114
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aaronmk
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in_row_ct = sql.table_row_count(db, in_table)
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158 |
3122
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aaronmk
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if limit != None or start != 0 or in_row_ct > partition_size:
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3121
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aaronmk
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end = in_row_ct
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3122
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aaronmk
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if limit != None: end = min(start + limit, end)
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3114
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aaronmk
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3122
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aaronmk
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full_in_table = in_table
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3121
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aaronmk
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for start_ in xrange(start, end, partition_size):
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limit_ = min(end - start_, partition_size)
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3122
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aaronmk
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# Row # is interally 0-based, but 1-based to the user
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db.log_debug('********** Partition: rows '+str(start_+1)+'-'
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+str(start_+limit_)+' **********', level=1.2)
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# Subset in_table
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in_table = copy.copy(full_in_table) # don't modify input!
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sql.run_query_into(db, sql.mk_select(db, full_in_table,
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limit=limit_, start=start_), into=in_table)
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# full_in_table will be shadowed (hidden) by created temp table
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sql.add_pkey(db, in_table)
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178 |
3142
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aaronmk
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# Recurse
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179 |
3122
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aaronmk
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pkeys_loc = put_table_(node, in_row_ct_ref)
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180 |
3130
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aaronmk
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181 |
3142
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aaronmk
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sql.empty_temp(db, in_table)
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183 |
3130
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aaronmk
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# Work around PostgreSQL's temp table disk space leak
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db.reconnect()
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185 |
3121
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aaronmk
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186 |
3114
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aaronmk
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return pkeys_loc
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188 |
2551
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aaronmk
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is_func = xml_func.is_func(node)
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189 |
2005
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aaronmk
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out_table = name_of(node)
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190 |
2432
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aaronmk
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191 |
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# Divide children into fields and children with fkeys to parent
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192 |
2005
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aaronmk
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row = {}
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children = []
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for child in xml_dom.NodeElemIter(node):
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child_name = name_of(child)
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if xml_dom.is_empty(child): row[child_name] = None
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elif xml_dom.is_text(child):
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row[child_name] = strings.to_unicode(xml_dom.value(child))
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199 |
2113
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aaronmk
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else:
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child_value = xml_dom.value_node(child)
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201 |
2434
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aaronmk
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if is_func or is_ptr(child_name) or xml_func.is_func(child_value):
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202 |
2432
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aaronmk
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row[child_name] = child_value
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203 |
2113
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aaronmk
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else: children.append(child)
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204 |
2434
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aaronmk
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205 |
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# Special handling for structural XML functions
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if out_table == '_simplifyPath':
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207 |
2436
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aaronmk
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# Parse args
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def wrap_e(e): raise xml_func.SyntaxError(e)
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209 |
2434
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aaronmk
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try:
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210 |
2506
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aaronmk
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next = row['next'] # modifies outer next var used by put_table_()
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211 |
2434
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aaronmk
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require = row['require']
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212 |
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path = row['path']
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213 |
2436
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aaronmk
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except KeyError, e: wrap_e(e)
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try: next = xpath.parse(next)
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except Parser.SyntaxError, e: wrap_e(e)
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try: next = next[0].name
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217 |
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except IndexError, e: wrap_e(e)
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218 |
2434
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aaronmk
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219 |
2506
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aaronmk
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return put_table_(path)
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220 |
2434
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aaronmk
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221 |
2966
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aaronmk
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no_empty = set([in_table])
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222 |
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223 |
3107
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aaronmk
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def pkey(table): return sql.pkey(db, table, True)
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224 |
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225 |
2434
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aaronmk
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# Remove any explicit pkey
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226 |
2133
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aaronmk
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try: del row[pkey(out_table)]
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227 |
2005
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aaronmk
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except KeyError: pass
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228 |
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229 |
2177
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aaronmk
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# Add fkey to parent
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230 |
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if parent_ids_loc != None:
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231 |
2966
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aaronmk
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no_empty.add(parent_ids_loc.table)
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232 |
2177
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aaronmk
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parent_ptr = node.getAttribute('fkey')
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233 |
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if parent_ptr == '': parent_ptr = pkey(name_of(node.parentNode))
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234 |
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row[parent_ptr] = parent_ids_loc
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235 |
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236 |
2060
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aaronmk
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# Divide fields into input columns and literal values
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237 |
2506
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aaronmk
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parent_ids_loc = None # applies to this section
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238 |
2313
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aaronmk
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in_tables = [in_table]
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239 |
2060
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aaronmk
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for out_col, value in row.iteritems():
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240 |
2432
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aaronmk
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# Handle forward pointers
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241 |
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if xml_dom.is_node(value): row[out_col] = value = put_table_(value)
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242 |
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243 |
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# Translate values
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244 |
2268
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aaronmk
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if isinstance(value, sql_gen.Col): # value is temp table column
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245 |
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in_tables.append(value.table)
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246 |
2177
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aaronmk
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elif util.is_str(value) and value.startswith(input_col_prefix):
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247 |
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# value is input column
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248 |
2272
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aaronmk
|
row[out_col] = sql_gen.Col(strings.remove_prefix(input_col_prefix,
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249 |
2313
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aaronmk
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value), in_table)
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250 |
2177
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aaronmk
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else: # value is literal value; should only be string or None
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251 |
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assert util.is_str(value) or value == None
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252 |
2323
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aaronmk
|
row[out_col] = sql_gen.NamedCol(out_col, value)
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253 |
2060
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aaronmk
|
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254 |
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# Insert node
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255 |
3077
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aaronmk
|
pkeys_loc = sql_io.put_table(db, out_table, in_tables, row, row_ins_ct_ref,
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256 |
2813
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aaronmk
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None, next, is_func, on_error)
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257 |
2060
|
aaronmk
|
|
258 |
2975
|
aaronmk
|
sql.empty_temp(db, set(in_tables) - no_empty)
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259 |
2966
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aaronmk
|
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260 |
2177
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aaronmk
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# Insert children with fkeys to parent
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261 |
2506
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aaronmk
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parent_ids_loc = pkeys_loc # applies to this section
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262 |
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for child in children: put_table_(child)
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263 |
2177
|
aaronmk
|
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264 |
2423
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aaronmk
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# Count # rows and update in_row_ct_ref once all columns have been processed
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265 |
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if in_row_ct_ref != None:
|
266 |
2427
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aaronmk
|
in_row_ct_ref[0] += sql.table_row_count(db, in_table)
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267 |
2423
|
aaronmk
|
|
268 |
2133
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aaronmk
|
return pkeys_loc
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