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import networkx as nx
import sys
import json
graphml_file = sys.argv[1]
groundtruth_file = sys.argv[2]
graphml_file_w_groundtruth = sys.argv[3]
g = nx.read_graphml(graphml_file)
print(nx.info(g))
with open(groundtruth_file) as f:
read_dict=json.load(f)
max_len=0
for read in read_dict:
for aln_info in read_dict[read]:
try:
max_len=max(max_len,len(str(aln_info[0])))
max_len=max(max_len,len(str(aln_info[1])))
except:
print()
raise
pow_mov=10**(max_len+1)
for node in g.nodes():
#print node
nodeid = node.split('_')[0]
#print nodeid
rev = int(node.split('_')[1])
if rev==1:
nodeid+="'"
if nodeid in read_dict:
g.node[node]['chr'] = read_dict[nodeid][0][2]
g.node[node]['aln_end'] = pow_mov*read_dict[nodeid][0][2]+max(read_dict[nodeid][0][0],read_dict[nodeid][0][1])
# g.node[node]['aln_start'] = pow_mov*read_dict[nodeid][0][2]+min(read_dict[nodeid][0][0],read_dict[nodeid][0][1])
# g.node[node]['repeat']=0
# if len (read_dict[nodeid]) >1 :
# g.node[node]['repeat']=1
# chrom_maps=set([aln[3] for aln in read_dict[nodeid]])
# if len (chrom_maps) > 1:
# g.node[node]['repeat']=10
else:
g.node[node]['chr'] = -1
g.node[node]['aln_end'] = -1
# g.node[node]['aln_start'] = -1
# g.node[node]['repeat']=-1
nx.write_graphml(g, graphml_file_w_groundtruth)
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