Hi,
trying to construct a multialignment ressource I got the following
message.
(I downloaded maf files from UCSC)
Thanks for your help.
Michel
os.listdir(os.curdir)
['hg18', 'hg18.pureseq', 'hg18.seqlen', 'hs18mm8rn4.idDict',
'hs18mm8rn4.seqIDdict', 'hs18mm8rn40.build', 'maf', 'mm8',
'mm8.pureseq', 'mm8.seqlen', 'mm9', 'mm9.pureseq', 'mm9.seqlen',
'rn4', 'rn4.pureseq', 'rn4.seqlen']
genomes = {'hg18':'hg18','mm8':'mm8', 'rn4':'rn4'}
for k,v in genomes.items():
genomes[k] = seqdb.SequenceFileDB(v)
genomes
{'hg18': <SequenceFileDB 'hg18'>, 'mm8': <SequenceFileDB 'mm8'>,
'rn4': <SequenceFileDB 'rn4'>}
genomeUnion=seqdb.PrefixUnionDict(genomes)
msa = cnestedlist.NLMSA('hs18mm8rn4','w',genomeUnion,os.listdir
('maf'))
Traceback (most recent call last):
File "<console>", line 1, in <module>
File "cnestedlist.pyx", line 1508, in
pygr.cnestedlist.NLMSA.__init__
File "cnestedlist.pyx", line 1735, in
pygr.cnestedlist.NLMSA.readMAFfiles
OverflowError: long int too large to convert to int
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