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Forum: DNA/Very Low Energy
Re: None Pdb file for pdb4dna (João Júlio)
Date: Apr 02, 10:52
From: M. Hahn <M. Hahn>

Hi,
its just a guess, but from the error message it seems that there are
problems with the volumes

"
> *** G4Exception : GeomSolids0002
>       issued by : G4Box::G4Box()
> Dimensions too small for Solid: Bounding!
"

Try to increase the dimensions of the "Box" this error message refers to.

Best regards
Marc


>
> *** Discussion title: DNA/Very Low Energy
>
> Hi,
>
> I've been trying to import a pdb file from a genomic sequence from a
> bacteria that i have generated myself using a software named Avogrado
> but when I try to load it on pdb4dna I get this message:
>
> /PDB4DNA/det/loadPDB RecA.pdb Load PDB file : RecA.pdb.
>
> G4Material WARNING: duplicate name of material Galactic PDBlib::load >>
> No header found !!!! **************** atomisticView(...)
> **************** Number of loaded chains = 0 Number of Atoms = 0 Number
> of Hydrogens = 0 Number of Carbons = 0 Number of Oxygens = 0 Number of
> Nitrogens = 0 Number of Sulfurs = 0 Number of Phosphorus = 0 Number of
> undifined atoms =0
>
> -------- EEEE ------- G4Exception-START -------- EEEE -------
> *** G4Exception : GeomSolids0002
>       issued by : G4Box::G4Box()
> Dimensions too small for Solid: Bounding!
>      hX, hY, hZ = -inf, -inf, -inf
> *** Fatal Exception *** core dump ***
> -------- EEEE -------- G4Exception-END --------- EEEE -------
>
> *** G4Exception: Aborting execution *** Abortado (imagem do núcleo
> gravada)
>
> How can I fix this problem? Thanks
>
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