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python-biopython  1.60
Namespaces | Variables
test_Clustalw_tool.py File Reference

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Namespaces

namespace  test_Clustalw_tool

Variables

 test_Clustalw_tool.clustalw_exe = None
list test_Clustalw_tool.prog_files = os.environ["PROGRAMFILES"]
list test_Clustalw_tool.likely_dirs
list test_Clustalw_tool.likely_exes
tuple test_Clustalw_tool.output = commands.getoutput("clustalw2 --version")
string test_Clustalw_tool.input_file = "does_not_exist.fasta"
tuple test_Clustalw_tool.cline = ClustalwCommandline(clustalw_exe, infile=input_file)
string test_Clustalw_tool.temp_filename_with_spaces = "Clustalw/temp horses.fasta"
tuple test_Clustalw_tool.handle = open(temp_filename_with_spaces, "w")
string test_Clustalw_tool.temp_large_fasta_file = "temp_cw_prot.fasta"
tuple test_Clustalw_tool.records = list(SeqIO.parse("NBRF/Cw_prot.pir", "pir"))
tuple test_Clustalw_tool.input_records
tuple test_Clustalw_tool.align = AlignIO.read(output_file, "clustal")
tuple test_Clustalw_tool.output_records = SeqIO.to_dict(SeqIO.parse(output_file,"clustal"))
 test_Clustalw_tool.tree_file = newtree_file