blakesweeney

SELECT
  precomputed.id
FROM rnc_rna_precomputed precomputed
JOIN rnc_taxonomy tax
ON
  tax.id = precomputed.taxid
WHERE
  tax.lineage LIKE 'cellular organisms; Bacteria; %'
  AND precomputed.is_active = true    -- exclude sequences without active cross-references
  AND rna_type = 'rRNA'

blakesweeney

from pprint import pprint

import requests

# The metadata fields to fetch from the text search API
fields = [
    'description',
    'rna_type',
    'has_secondary_structure',
    'expert_db',

blakesweeney

import time
import requests

FINISHED = set(['succeeded', 'failed'])


# Some large and slow requests may fail because of the retry limit in requests.
# Set the retry higher for these cases.
# 3 seconds is a pretty good wait most requests should be done in < 10 seconds.
def fetch(*args, **kwargs):

blakesweeney

Traceback (most recent call last):
  File "/usr/local/Cellar/python/2.7.1/bin/alot", line 20, in <module>
    main()
  File "/usr/local/Cellar/python/2.7.1/lib/python2.7/site-packages/alot/init.py", line 101, in main
    args.colours,
  File "/usr/local/Cellar/python/2.7.1/lib/python2.7/site-packages/alot/ui.py", line 111, in __init__
    self.mainloop.run()
  File "/usr/local/Cellar/python/2.7.1/lib/python2.7/site-packages/urwid-1.0.1-py2.7-macosx-10.4-i386.egg/urwid/main_loop.py", line 274, in run
    self.screen.run_wrapper(self._run)
  File "/usr/local/Cellar/python/2.7.1/lib/python2.7/site-packages/urwid-1.0.1-py2.7-macosx-10.4-i386.egg/urwid/raw_display.py", line 237, in run_wrapper

blakesweeney

Warning: Unbrewed dylibs were found in /usr/local/lib
You have unbrewed dylibs in /usr/local/lib. If you didn't put them there on purpose,
they could cause problems when building Homebrew formulae.

Unexpected dylibs (delete if they are no longer needed):
    /usr/local/lib/libcdt.4.dylib
    /usr/local/lib/libcgraph.5.dylib
    /usr/local/lib/libgcc_s.1.dylib
    /usr/local/lib/libgcc_s.10.4.dylib
    /usr/local/lib/libgcc_s.10.5.dylib