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import os
import json
reads = []
b = 1
while os.path.exists("block%i" % b):
with open("block%i" % b) as f:
reads.extend(json.load(f))
b += 1
with open("subjects") as f:
subjects = json.load(f)
relabeled_fasta = open("relabeledSeqs.fasta", "wt")
original_labels = open("originalLabels.ttl", "wt")
for i, r in enumerate(reads):
with open(r["path"], "rt") as fa:
label = fa.readline()
original_labels.write("<%s> <http://biohackathon.org/bh20-seq-schema/original_fasta_label> \"%s\" .\n" % (subjects[i], label[1:].strip().replace('"', '\\"')))
relabeled_fasta.write(">"+subjects[i]+"\n")
data = fa.read(8096)
while data:
relabeled_fasta.write(data)
endswithnewline = data.endswith("\n")
data = fa.read(8096)
if not endswithnewline:
relabeled_fasta.write("\n")
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