[pypy-issue] [issue1346] Bio.AlignIO slower on Pypy than in Python2.7 ?

Diego Javier Zea tracker at bugs.pypy.org
Tue Dec 11 20:07:27 CET 2012


New submission from Diego Javier Zea <diego_zea at yahoo.com.ar>:

time pypy2.0 MI_PDB_partII.py 
[SeqRecord(seq=Seq('------------------------------------------------------...---',
SingleLetterAlphabet()), id='CPXA_PSEPU/175-394', name='CPXA_PSEPU/175-394',
description='CPXA_PSEPU/175-394', dbxrefs=[])]

real	0m6.126s
user	0m6.060s
sys	0m0.048s

time python2.7 MI_PDB_partII.py 
[SeqRecord(seq=Seq('------------------------------------------------------...---',
SingleLetterAlphabet()), id='CPXA_PSEPU/175-394', name='CPXA_PSEPU/175-394',
description='CPXA_PSEPU/175-394', dbxrefs=[])]

real	0m1.373s
user	0m1.292s
sys	0m0.072s


Read a Alignment with Pypy is slower than reading the same Alignment with Python
2.7 :/

----------
files: MI_PDB_partII.py
messages: 5072
nosy: diego_zea, pypy-issue
priority: performance bug
release: 2.0
status: unread
title: Bio.AlignIO slower on Pypy than in Python2.7 ?

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PyPy bug tracker <tracker at bugs.pypy.org>
<https://bugs.pypy.org/issue1346>
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