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src/c/o/cogent-1.5.3/tests/test_core/test_alignment.py   cogent(Download)
from cogent.struct.rna2d import ViennaStructure
 
from cogent.core.alignment import SequenceCollection, \
    make_gap_filter, coerce_to_string, \
    seqs_from_array, seqs_from_model_seqs, seqs_from_generic, seqs_from_fasta, \
    def test_aln_from_fasta(self):
        """aln_from_fasta should initialize aln from fasta-format string"""
        s = '>aa\nAB\nC\n>bb\nDE\nF\n'
        obs_a, obs_labels = aln_from_fasta(s.splitlines())
        self.assertEqual(obs_a, array(['ABC','DEF'], 'c').view('B')) #seq -> numbers

src/p/y/pycogent-HEAD/tests/test_core/test_alignment.py   pycogent(Download)
from cogent.struct.rna2d import ViennaStructure
 
from cogent.core.alignment import SequenceCollection, \
    make_gap_filter, coerce_to_string, \
    seqs_from_array, seqs_from_model_seqs, seqs_from_generic, seqs_from_fasta, \
    def test_aln_from_fasta(self):
        """aln_from_fasta should initialize aln from fasta-format string"""
        s = '>aa\nAB\nC\n>bb\nDE\nF\n'
        obs_a, obs_labels = aln_from_fasta(s.splitlines())
        self.assertEqual(obs_a, array(['ABC','DEF'], 'c').view('B')) #seq -> numbers