I also noticed today that this bug also happens in linux (Debian and ubuntu
at least) with OB < 2.3. It doesn't happen to me with OB 2.3 on debian, but
it does with OB 2.3 on windows...
On debian I forgot to upgrade the python-openbabel package (the python
bindings) alongside the rest of OB, but it surprisingly worked (if the
commandline works, I would have thought of this as a bug on the bindings...
but it disappeared when upgrading just libopenbabel).
2011/5/7 Chris Morley <[email protected]>
> On 05/05/2011 21:12, Geoffrey Hutchison wrote:
> >> I was writing an application in python which reads and writes some data
> stored in gzipped sdf and mol2 files. These files are gzipped, and I can use
> them directly with pybel.readfile in linux without problems with OB 2.3.
> However, when I try the same on MS Windows with OB 2.3 and python 2.7.1,
> when I try to read a sdf file I just get a warning like this:
> >
> > There is no support for gzip on Windows -- the C++ code used for libz has
> a known bug. (Our intent is that we'll switch to the Boost::Iostreams, which
> offers a much more robust gzip and bzip2 implementation).
>
> That's not quite right. On the Windows commandline and GUI, gzipped
> files are read ok. It is writing of compressed files that is not
> supported because of this bug.
>
> However I find the same problem as Adrià Cereto-Massagué
> when using Python on Windows with most gzipped files. The files are
> all read ok in the OpenBabel GUI. But strangely this file
> http://dalkescientific.com/writings/benzodiazepine.sdf.gz works ok for
> me. I'll open a bug report.
>
> Chris
>
>
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--
*Adrià Cereto Massagué*
Biotechnology student
Universitat Rovira i Virgili
Languages: Català, Español, English, Français, Deutsch, Português, Esperanto
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