Hello,
I have several lists that have string names with genes, the genes can
range between 4 and 6 characters and the lists can range, in size,
between 20 to 3000. For this reason I thought the simplest way was to
store the array using VLArray objects. My code this is very simple and
looks like this:
dbfile.createGroup('/','Misc','Additional Data')
Vlarray =
dbfile.createVLArray('/Misc','Dupes',StringAtom(flavor='numpy',length=6),
'Genes whose entries are duplicated')
Vlarray.append(array(dupes))
Vlarray =
dbfile.createVLArray('/Misc','Processed',StringAtom(flavor='numpy',length=6),
'Gene entries considered to be valid')
Vlarray.append(array(processed))
Vlarray =
dbfile.createVLArray('/Misc','Missing',StringAtom(flavor='numpy',length=6),
'Genes whose information was incomplete')
Vlarray.append(array(missing))
After revieweing the outcome of this process I've noticed that
elements in the array display the original text and then some garbled
text. I am thinking that it might because I am assigning elements of
size 4 when I've specified length=6 in the StringAtom object, but
since I am new about PyTables I am not sure how to overcome this
problem.
I would appreciate any insight in solving my problem.
BTW, I am using Python 2.4.3, PyTables 1.3 and MacOS X 10.4.6.
Thanks,
Pepe
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