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All Samples(4)  |  Call(2)  |  Derive(0)  |  Import(2)

src/s/e/seal-0.4.0-rc2/tests/seal/lib/aligner/bwa/try_bwa_iterator.py   seal(Download)
 
import seal.lib.aligner.bwa as bwa
from seal.lib.aligner.bwa.bwa_iterator import BWAIterator, MRVisitor
 
 
    visitor = MRVisitor(logger, ctx, counters)
 
    bwa_iterator = BWAIterator(refseq_fname, gopt, popt, max_isize,
                               pairing_batch_size, visitor)
    for read, mate in bwa_iterator.analyze(bwsa, l):

src/s/e/seal-0.4.0-rc2/tests/seal/lib/aligner/bwa/try_itermulti.py   seal(Download)
 
import seal.lib.aligner.bwa as bwa
from seal.lib.aligner.bwa.bwa_iterator import BWAIterator
 
 
  bwsa = bwa.build_bws_array(pairs)
 
  bwa_iterator = BWAIterator(refseq_fname, gopt, popt, max_isize,
                             pairing_batch_size)
  pairs = [p for p in bwa_iterator.analyze(bwsa, l)]