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src/p/y/pynast-1.2.2/pynast/util.py   pynast(Download)
from cogent.align.align import make_dna_scoring_dict, global_pairwise
from cogent.app.blast import blastn
from cogent.app.formatdb import build_blast_db_from_seqs, \
 build_blast_db_from_fasta_path
from cogent.app.muscle_v38 import align_unaligned_seqs as muscle_align_unaligned_seqs

src/c/o/cogent-1.5.3/tests/test_app/test_formatdb.py   cogent(Download)
from cogent.util.misc import remove_files
from cogent.app.blast import blastn
from cogent.app.formatdb import FormatDb, build_blast_db_from_seqs,\
    build_blast_db_from_fasta_path, build_blast_db_from_fasta_file
 
    def test_build_blast_db_from_seqs(self):
        """build_blast_db_from_seqs convenience function works as expected
        """
        blast_db, db_files = build_blast_db_from_seqs(self.in_seqs1,output_dir='/tmp')
        self.assertTrue(blast_db.startswith('/tmp/Blast_tmp_db'))

src/p/y/pycogent-HEAD/tests/test_app/test_formatdb.py   pycogent(Download)
from cogent.util.misc import remove_files
from cogent.app.blast import blastn
from cogent.app.formatdb import FormatDb, build_blast_db_from_seqs,\
    build_blast_db_from_fasta_path, build_blast_db_from_fasta_file
 
    def test_build_blast_db_from_seqs(self):
        """build_blast_db_from_seqs convenience function works as expected
        """
        blast_db, db_files = build_blast_db_from_seqs(self.in_seqs1,output_dir='/tmp')
        self.assertTrue(blast_db.startswith('/tmp/Blast_tmp_db'))