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src/s/e/seal-0.4.0-rc2/tests/seal/lib/aligner/bwa/test_bwa_memory.py   seal(Download)
  bnsp, pacseq = bwa.restore_reference(refseq_fname)
  print_meminfo("AFTER RESTORING REFERENCE")
  gopt, popt = bwa.gap_init_opt(), bwa.pe_init_opt()
  ii, last_ii = bwa.isize_info_t(), bwa.isize_info_t()
  last_ii.avg = -1.0
  bnsp, pacseq = bwa.restore_reference(refseq_fname)
  print_meminfo("AFTER RESTORING REFERENCE")
  gopt, popt = bwa.gap_init_opt(), bwa.pe_init_opt()
  ii, last_ii = bwa.isize_info_t(), bwa.isize_info_t()
  last_ii.avg = -1.0

src/s/e/seal-0.4.0-rc2/tests/seal/lib/aligner/bwa/try_bwa_pairs.py   seal(Download)
def process_sequences(bwts, bns, pacseq, seq_reader, N, analyze_seqs=None):
  gopt = bwa.gap_init_opt()
  popt = bwa.pe_init_opt()
 
  ii      = bwa.isize_info_t()

src/s/e/seal-0.4.0-rc2/tests/seal/lib/aligner/bwa/test_seq_list_len.py   seal(Download)
    resident_list.append(resident)
 
    gopt, popt = bwa.gap_init_opt(), bwa.pe_init_opt()
    ii, last_ii = bwa.isize_info_t(), bwa.isize_info_t()
    last_ii.avg = -1.0

src/s/e/seal-0.4.0-rc2/tests/seal/lib/aligner/bwa/try_itermulti.py   seal(Download)
  seq_list_len = 10000
  max_isize = pairing_batch_size = 10000
  gopt, popt = bwa.gap_init_opt(), bwa.pe_init_opt()
 
  read_flow = Bio.SeqIO.parse(open(read_fname), 'fastq-illumina')

src/s/e/seal-0.4.0-rc2/tests/seal/lib/aligner/bwa/try_bwa_iterator.py   seal(Download)
  seq_list_len = 5000
  max_isize = pairing_batch_size = 1000
  gopt, popt = bwa.gap_init_opt(), bwa.pe_init_opt()
 
  read_flow = Bio.SeqIO.parse(open(read_fname), 'fastq-illumina')