MarvinView to split multimol2 file into separate mol2 file

Hi,

I would like to do the following: use MarvinView on the command line to split a multi-mol2 file into all the possible separate mol2 files (i.e. one molecule per file).I have tried using OpenBabel to do so but for some ligands it modifies the aromaticity, so I cannot use it for that purpose.

Is this possible with MarvinView and without changing the bond types etc? If so, could you please let me know an example command that I could incorporate within my perl script?

Many thanks,

Juliette

Hi Juliette,

I would rather use the molconvert tool, with its -m switch.

Here you can find documentation for the molconvert tool.

Regards,
Istvan

Many thanks for the quick reply, I will use molconvert with the -m option.

Ok, if you have any further problem or question, please do not hasitate to ask.

Regards,
Istvan