Re: [Joelib-help] Problems with whitespaces in pathnames

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Hi Gerd,

> and try to load a molecule from a file I get an error that 
> joelib can't load the file atomtypes.txt although the jar contains
> it. If I unpack joelib.jar it works. 
> I found out that the error occurs if the jar resists in a directory 
> with whitespaces in the pathname. Also I saw that wsi.ra.tools.ResourceLoader
> replaces '%20' in the pathname with ' ' which seems to be the
> problem here. Why is this done ? Any hints for fixing this problem ?

111. As you can see also the replacement takes only an effect for 
'files' which are not contained in a .zip or .jar file !

So the question is, why is this not recognized (line 161) ?

Switch
log4j.category.wsi.ra.tool.ResourceLoader=INFO
to
log4j.category.wsi.ra.tool.ResourceLoader=DEBUG
in build/log4.properties and src/log4j.properties

and try again. Then you could see a little bit more informations ! 
Otherwise you should add some System.out.println("abc"); to the 
ResourceLoader class to see why this check fails !

So three way plan:
1. increase verbosity in logging
2. add console informations and recompile sources
3. check again your example.

I added the replacement of white space characters (FOR FILES), because 
other users had the same path problem. So, we must find a way to combine 
the solutions for both problems at once.

222. Which way are you using for loading your file. ?
Stream, SimpleReader, ResourceLoader, ... ?

333. Have you anything changed in joelib.properties ?
There you can define another 'atomtype.txt'-path. Typically JOELib uses 
the resource-load mechanism to be independant from user-paths.

Regards, Joerg
-- 
Dipl. Chem. Joerg K. Wegner
Center of Bioinformatics Tuebingen (ZBIT)
Department of Computer Architecture
Univ. Tuebingen, Sand 1, D-72076 Tuebingen, Germany
Phone: (+49/0) 7071 29 78970
Fax: (+49/0) 7071 29 5091
E-Mail: mailto:we...@in...
WWW:    http://www-ra.informatik.uni-tuebingen.de
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