Mercurial > repos > jankanis > blast2html
comparison blast2html.py @ 123:720efb818f1b
really fix python 2.6 array type code issue
author | Jan Kanis <jan.code@jankanis.nl> |
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date | Thu, 31 Jul 2014 18:40:28 +0200 |
parents | 5f104d05aa23 |
children | 0fa962dd83b4 |
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122:5f104d05aa23 | 123:720efb818f1b |
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327 | 327 |
328 for hit in hits(result): | 328 for hit in hits(result): |
329 hsps = hit.Hit_hsps.Hsp | 329 hsps = hit.Hit_hsps.Hsp |
330 | 330 |
331 # In python 2.6 array doesn't accept unicode type codes, but in 3.4 it requires them | 331 # In python 2.6 array doesn't accept unicode type codes, but in 3.4 it requires them |
332 cover = array(str('B'), [0]) * query_length | 332 typecode_B = builtin_str('B') |
333 cover = array(typecode_B, [0]) * query_length | |
333 for hsp in hsps: | 334 for hsp in hsps: |
334 cover[hsp['Hsp_query-from']-1 : int(hsp['Hsp_query-to'])] = array(str('B'), [1]) * blastxml_len(hsp) | 335 cover[hsp['Hsp_query-from']-1 : int(hsp['Hsp_query-to'])] = array(typecode_B, [1]) * blastxml_len(hsp) |
335 cover_count = cover.count(1) | 336 cover_count = cover.count(1) |
336 | 337 |
337 best_hsp = max(hsps, key=lambda h: h['Hsp_bit-score']) | 338 best_hsp = max(hsps, key=lambda h: h['Hsp_bit-score']) |
338 | 339 |
339 yield dict(hit = hit, | 340 yield dict(hit = hit, |