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python-biopython  1.60
Classes | Namespaces | Functions | Variables
test_SeqIO.py File Reference

Go to the source code of this file.

Classes

class  test_SeqIO.ForwardOnlyHandle

Namespaces

namespace  test_SeqIO

Functions

def test_SeqIO.send_warnings_to_stdout
def test_SeqIO.compare_record
def test_SeqIO.record_summary
def test_SeqIO.col_summary
def test_SeqIO.alignment_summary
def test_SeqIO.check_simple_write_read

Variables

 test_SeqIO.BytesIO = StringIO
list test_SeqIO.protein_alphas = [Alphabet.generic_protein]
list test_SeqIO.dna_alphas = [Alphabet.generic_dna]
list test_SeqIO.rna_alphas = [Alphabet.generic_rna]
list test_SeqIO.nucleotide_alphas
list test_SeqIO.no_alpha_formats
list test_SeqIO.possible_unknown_seq_formats = ["qual", "genbank", "gb", "embl", "imgt"]
list test_SeqIO.test_write_read_alignment_formats
list test_SeqIO.test_files
tuple test_SeqIO.handle = StringIO()
tuple test_SeqIO.records = list(SeqIO.parse(handle, t_format))
string test_SeqIO.mode = "rb"
tuple test_SeqIO.h = open(t_filename,mode)
list test_SeqIO.records2 = []
list test_SeqIO.records3 = []
tuple test_SeqIO.seq_iterator = SeqIO.parse(handle=h, format=t_format)
tuple test_SeqIO.record = seq_iterator.next()
list test_SeqIO.records4 = [record]
list test_SeqIO.records5 = [record]
list test_SeqIO.accs = record.annotations["accessions"]
tuple test_SeqIO.base_alpha = Alphabet._get_base_alphabet(record.seq.alphabet)
list test_SeqIO.good = []
list test_SeqIO.bad = []
 test_SeqIO.given_alpha = None
tuple test_SeqIO.given_base = Alphabet._get_base_alphabet(given_alpha)
tuple test_SeqIO.alignment
tuple test_SeqIO.alignment_len = alignment.get_alignment_length()