[Biopython-dev] [Bug 1741] New: Bug in fasta consumer in Doc/tutorial.tex and Doc/examples/

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=1741

           Summary: Bug in fasta consumer in Doc/tutorial.tex and
                    Doc/examples/
           Product: Biopython
           Version: Not Applicable
          Platform: All
        OS/Version: All
            Status: NEW
          Severity: normal
          Priority: P2
         Component: Documentation
        AssignedTo: biopython-dev at biopython.org
        ReportedBy: andrea at salilab.org


Overview:
--------- 
Script fasta_consumer.py in Doc/examples doesn't work


Steps to Reproduce: 
-------------------
python fasta_consumer.py


Actual Results:
------------- 
Traceback (most recent call last):
  File "fasta_consumer.py", line 35, in ?
    all_species = extract_organisms("ls_orchid.fasta", 94)
  File "fasta_consumer.py", line 21, in extract_organisms
    scanner = Fasta._Scanner()
AttributeError: 'module' object has no attribute '_Scanner'



Expected Results: 
-----------------
number of species: 92
species names: ['C.irapeanum', 'C.californicum', 'C.fasciculatum', 
'C.margaritaceum', 'C.lichiangense', 'C.yatabeanum', 'C.guttatum',
...



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