[Biopython-dev] TogoWS test failure, was: Compiling Biopython on 64 bit Windows

[veera singham]

Peter Cock <p.j.a.cock <at> googlemail.com> writes:

> 
> OnSat,Apr 9,2014 at 1:23 PM,PeterCock<p.j.a.cock <at>googlemail.com> wrote:
> > The TogoWS team confirmed this is a problem with the
> > server and expect it to be fixed shortly.
> >
> > Peter
> 
> For the record, this is working now :)
> 
> Peter
> 


Hi all,

I've recently tried to compile the Biopython 1.63 on MacOsX 10.9.2 
using python version 2.7.5 and had similar TogoWS test failure.

Here I've attached the log files of the error command:

ERROR: test_genebank_to_embl (test_TogoWS.TogoConvert)
Conversion of GenBank to EMBL.

Traceback (most recent call last):
File"test_TogoWS.py", line 508, in test_genbank_to_embl
new = SeqIO.read(TogoWS.convert(handle, "genbank", "embl"),"embl")
File "Users/veerasingham/Downloads/
biopython-1.63/build/lib.macosx-10.9-intel2.7
/Bio/SEqIO/_init_.py:,line 650, in read
raise ValueError("No records found in handle")
ValueError:No records found in handle

ERROR:test_genbank_to_fasta (test_TogoWS.TogoConvert)
Conversion of GenBank to FASTA.

Traceback (most recent call last):
File"test_TogoWS.py", line 508, in test_genbank_to_fasta
new = SeqIO.read(TogoWS.convert(handle, "genbank", "fasta"),"fasta")
File "Users/veerasingham/Downloads/
biopython-1.63/build/lib.macosx-10.9-intel2.7
/Bio/SEqIO/_init_.py:,line 650, in read
raise ValueError("No records found in handle")
ValueError:No records found in handle

All the other test is OK.

The Biopython, however is successfully installed and seemed 
to work according to simple test code as suggested over the 
installation web page.

I wonder if this error is due to a similar case due to the TogoWS server error? 
Can anyone suggest how to fixed  this?

I afraid that this error may affect my subsequent analysis involving biopython.

Please let me know if there is any update on this. 

Thanks.

Cheers,

Veera