obi import: small efficiency improvement when dealing with NA values
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@ -79,6 +79,7 @@ def run(config):
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cdef list old_elements_names
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cdef list new_elements_names
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cdef ProgressBar pb
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cdef bytes NA_value
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global obi_errno
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@ -102,6 +103,8 @@ def run(config):
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iseq = input[1]
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NA_value = config['obi']['nastring']
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get_quality = False
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NUC_SEQS_view = False
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if isinstance(output[1], View) :
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@ -141,9 +144,9 @@ def run(config):
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if tag != b"ID" and tag != b"DEFINITION" and tag != b"NUC_SEQ" and tag != b"QUALITY" : # TODO hmmm...
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value = seq[tag]
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# Check NA value
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if value == config['obi']['nastring'] :
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if value == NA_value :
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value = None
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if tag not in dcols :
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