Re: [Open Babel] Multiple files conversion

[Matthew B. <mp...@pi...>]

That is a limitation of linux there is a maximum length of the command 
line. You should be able to use a for loop in bash like:

for f in *.pdb ; do babel ${f} -omol2 ${f%.*}.mol2 ; done

The ${s%.*} bit is some bash string manipulation for stripping the file 
extension.


On 06/26/2015 11:50 AM, AE wrote:
> Hello,
>
> I am trying to convert multiple (100000) files using open babel. Here 
> is what I do:
> babel *.pdb -omol2 -m
> But it seems there are too many files, I get:
> -bash: /usr/local/bin/babel: Argument list too long
> How can I solve this?
>
> Thank you,
>
> Alsa
>
>
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