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src/c/o/cogent-1.5.3/cogent/format/pdb_color.py   cogent(Download)
#!/usr/bin/env python
from __future__ import division
from cogent.app.muscle_v38 import muscle_seqs
from cogent.app.util import get_tmp_filename
from cogent.parse.fasta import MinimalFastaParser
    """
    outname = get_tmp_filename()
    res = muscle_seqs([seq1,seq2], add_seq_names=True, WorkingDir="/tmp", out_filename=outname)
    seq1_aligned,seq2_aligned =list(MinimalFastaParser(res['MuscleOut'].read()))
    res.cleanUp()

src/p/y/pycogent-HEAD/cogent/format/pdb_color.py   pycogent(Download)
#!/usr/bin/env python
from __future__ import division
from cogent.app.muscle_v38 import muscle_seqs
from cogent.app.util import get_tmp_filename
from cogent.parse.fasta import MinimalFastaParser
    """
    outname = get_tmp_filename()
    res = muscle_seqs([seq1,seq2], add_seq_names=True, WorkingDir="/tmp", out_filename=outname)
    seq1_aligned,seq2_aligned =list(MinimalFastaParser(res['MuscleOut'].read()))
    res.cleanUp()

src/p/y/pycogent-HEAD/tests/test_app/test_muscle_v38.py   pycogent(Download)
from cogent.util.unit_test import TestCase, main
from cogent.util.misc import flatten
from cogent.app.muscle_v38 import Muscle, muscle_seqs, aln_tree_seqs, \
        align_unaligned_seqs, build_tree_from_alignment, \
        align_and_build_tree, add_seqs_to_alignment, align_two_alignments

src/c/o/cogent-1.5.3/tests/test_app/test_muscle_v38.py   cogent(Download)
from cogent.util.unit_test import TestCase, main
from cogent.util.misc import flatten
from cogent.app.muscle_v38 import Muscle, muscle_seqs, aln_tree_seqs, \
        align_unaligned_seqs, build_tree_from_alignment, \
        align_and_build_tree, add_seqs_to_alignment, align_two_alignments