Re: [Biojava-l] Newbie struggling with secondary structure

Hi Tjaart, you can use DSSP to determine the secondary structure from a PDB. http://swift.cmbi.ru.nl/gv/dssp/ or maybe better use Christoph's SecondaryStructure_Predictor with biojava http://www.charite.de/bioinf/strap/biojavaInAnger_SecondaryStructure_Predictor.html bye Martin

[Biojava-l] Re: structureNMRImpl

I forgot to mention, that I use a not yet published modified version ofStructureImpl, which can parse an ArrayList. It has a newconstructor for it, and the old BufferedReader method was changed so itgenerates the ArrayList for the parser method... On 2/8/06, Tamas Horvath <[EMAIL PROTECTED]> wr

[Biojava-l] warnings, errors, comments

> What do u think about making a givewarning flag for PDBFileParser? that would be nice - I would suggest to do it using the java -loggingtool - - actually that applies to all of biojava and should be suggested tothe list -I find java.util.logging very helpful. > By default it would be true, but