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RE: [Pytables-users] ValueError when a list of numarray.arrays used.
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From: Shin, D. <sd...@ca...> - 2004-10-10 03:59:34
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I got it.
Then, let me ask one question about it.
Assuming at every simulation step I got a numeric array of 100 rows and 10
cols,
what is the most efficient way to append it to Table?
I want to use Table rather than EArray because of explicit column names.
Thank for your kind reply.
Daehyok Shin (Peter)
> -----Original Message-----
> From: pyt...@li...
> [mailto:pyt...@li...]On Behalf Of
> Francesc Alted
> Sent: Saturday, October 09, 2004 AM 5:55
> To: pyt...@li...
> Subject: Re: [Pytables-users] ValueError when a list of
> numarray.arrays used.
>
>
> Hi Daehyok,
>
> The ultimate reason for this is that numarray.records.array
> cannot convert a
> list of arrays to a RecArray. See:
>
> In [27]: records.array([[1.,2.]]*3, formats='f8,f8')
> Out[27]:
> array(
> [(1.0, 2.0),
> (1.0, 2.0),
> (1.0, 2.0)],
> formats=['1Float64', '1Float64'],
> shape=3,
> names=['c1', 'c2'])
>
> That works well. But...
>
> In [28]: records.array([array([1.,2.])]*3, formats='f8,f8')
> ------------------------------------------------------------------
> ---------
> IndexError Traceback (most recent
> call last)
>
> /home/falted/python.nobackup/IM-2004.01.05/<console>
>
> /usr/local/lib/python2.3/site-packages/numarray/records.py in
> array(buffer, formats, shape, names, byteorder, aligned)
> 382 if isinstance(buffer[0], num.NumArray) or
> isinstance(buffer[0], chararray.CharArray):
> 383 return fromarrays(buffer, formats=formats,
> shape=shape, names=names,
> --> 384 byteorder=byteorder, aligned=aligned)
> 385 else:
> 386 return fromrecords(buffer, formats=formats,
> shape=shape, names=names,
>
> /usr/local/lib/python2.3/site-packages/numarray/records.py in
> fromarrays(arrayList, formats, names, shape, byteorder, aligned)
> 183 for i in range(len(arrayList)):
> 184 try:
> --> 185 _array.field(_array._names[i])[:] = arrayList[i]
> 186 except TypeError: # trap only TypeError to get
> better messages
> 187 raise TypeError, "Incorrect format %s, copy
> unsuccessful." % _array._formats[i]
>
> IndexError: list index out of range
>
> does not work.
>
> Perhaps, this worked with previous versions of numarray, I can't remember.
> Anyway, I'll remove the part of manual where I say that Table.append() do
> accept lists of numarrays/Numeric/chararray.
>
> Cheers,
>
> Francesc
>
> A Divendres 08 Octubre 2004 23:17, Shin va escriure:
> > While filling up a table, I met a strange error message.
> > When the appended program is tried with version 0.8.1,
> > only the second trial to use a list of arrays raises an ValueError.
> > But, the manual says I can use a list of numarrays to append multi-rows.
> > What did I miss? Or, a bug? Thanks.
> >
> > >>>>>>>>>>>>>>> test3.py <<<<<<<<<<<<<<<<<<
> >
> > #!/usr/bin/env python
> >
> > from numarray import *
> > from tables import *
> >
> > # By using a list of lists.
> > class Cols(IsDescription):
> > V1 = FloatCol()
> > V2 = FloatCol()
> >
> > f = openFile("test.hd5", "w")
> > tab = f.createTable("/","Data",Cols,"Data")
> >
> > d = []
> > for i in range(10):
> > d = d + [[1.0,1.0]]
> >
> > tab.append(d)
> > f.close()
> >
> > # By using a list of arrays.
> >
> > f = openFile("test.hd5", "w")
> > tab = f.createTable("/","Data",Cols,"Data")
> >
> > d = []
> > for i in range(10):
> > d = d + [array([1.0,1.0])]
> >
> > tab.append(d)
> > f.close()
> >
> > >>>>>>>>> Here is the error message caught in ipython <<<<<<
> >
> > In [1]: execfile("test3.py")
> >
> ------------------------------------------------------------------
> ---------
> > ValueError Traceback (most recent call
> > last)
> >
> > /home/sdhyok/catchlab/catchlab/catchlab/pkg/rhessys/test/<console>
> >
> > /home/sdhyok/catchlab/catchlab/catchlab/pkg/rhessys/test/test3.py
> > 24 for i in range(10):
> > 25 d = d + [array([1.0,1.0])]
> > 26
> > ---> 27 tab.append(d)
> > tab = /Data (Table(0,)) 'Data'
> > description := {
> > ...pe=1, dflt=0.0, pos=None) }
> > byteorder := little, global append = undefined, d = [array([ 1.,
> > 1.]), array([ 1., 1.]), array([ 1., 1.]), array([ 1., 1.]), array([
> > 1., 1.]), array([ 1., 1.]), array([ 1., 1.]), array([ 1., 1.]),
> > array([ 1., 1.]), array([ 1., 1.])]
> > 28 f.close()
> >
> > /usr/lib/python2.3/site-packages/tables/Table.py in append(self=/Data
> > (Table(0,)) 'Data'
> > description := {
> > ...pe=1, dflt=0.0, pos=None) }
> > byteorder := little, rows=[array([ 1., 1.]), array([ 1., 1.]),
> > array([ 1., 1.]), array([ 1., 1.]), array([ 1., 1.]), array([ 1.,
> > 1.]), array([ 1., 1.]), array([ 1., 1.]), array([ 1., 1.]), array([
> > 1., 1.])])
> > 588 except:
> > 589 (type, value, traceback) = sys.exc_info()
> > --> 590 raise ValueError, \
> > global ValueError = undefined, global str = undefined, self =
> > /Data (Table(0,)) 'Data'
> > description := {
> > ...pe=1, dflt=0.0, pos=None) }
> > byteorder := little, value = <exceptions.IndexError instance>
> > 591 "rows parameter cannot be converted into a recarray object
> > compliant with table '%s'. The error was: <%s>" % (str(self), value)
> > 592 lenrows = recarray.shape[0]
> >
> > ValueError: rows parameter cannot be converted into a recarray object
> > compliant with table '/Data (Table(0,)) 'Data''. The error was: <list
> > index out of range>
> >
>
> --
> Francesc Alted
>
>
>
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