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Error report: DBBuddy #125

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biologyguy opened this issue Jun 1, 2018 · 0 comments
Open

Error report: DBBuddy #125

biologyguy opened this issue Jun 1, 2018 · 0 comments

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@biologyguy
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biologyguy commented Jun 1, 2018

21dac56ac10b185accd18c843f0efe3a
1
# DatabaseBuddy: 1.3.0
# Function: live_shell
# Python: 3.6.5 |Anaconda, Inc.| (default, Apr 29 2018, 16:14:56) [GCC 7.2.0]
# Platform: linux
# User: rk7rOY1amm
# Date: 2018-06-01

ValueError: Premature end of features table, marker '//' found

  File "DatabaseBuddy.py", line 2349, in launch_live_shell
    LiveShell(dbbuddy, temp_file)
  File "DatabaseBuddy.py", line 1438, in __init__
    self.cmdloop()
  File "cmd.py", line 138, in cmdloop
    stop = self.onecmd(line)
  File "cmd.py", line 217, in onecmd
    return func(arg)
  File "DatabaseBuddy.py", line 1715, in do_fetch
    retrieve_sequences(self.dbbuddy)
  File "DatabaseBuddy.py", line 715, in retrieve_sequences
    refseq.fetch_sequences("nucleotide")
  File "DatabaseBuddy.py", line 1160, in fetch_sequences
    for rec in SeqIO.parse(self.results_file.get_handle("r"), "gb"):
  File "__init__.py", line 617, in parse
    for r in i:
  File "Scanner.py", line 489, in parse_records
    record = self.parse(handle, do_features)
  File "Scanner.py", line 473, in parse
    if self.feed(handle, consumer, do_features):
  File "Scanner.py", line 445, in feed
    self._feed_feature_table(consumer, self.parse_features(skip=False))
  File "Scanner.py", line 171, in parse_features
    raise ValueError("Premature end of features table, marker '//' found")

//
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