public class PrepareMMcifIndexFile extends PrepareIndexFile
Modifier and Type | Field and Description |
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static java.util.logging.Logger |
logger |
Constructor and Description |
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PrepareMMcifIndexFile() |
Modifier and Type | Method and Description |
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void |
createMMcifInfoList(java.io.File[] pdbfiles,
java.io.File outputFile,
java.io.File chainInfoFile)
parses a set of PDB files and writes info into a file
the file is tab separated and has the following columns:
name length resolution depositionDate modificationDate technique title classification filename
binaryDirectory: a directory in which binary files containing the atoms will be places, to provide a speedup
This method needs to be run, before a DBSearch can be performed, since the files created by this method
are required for the DBSearch
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java.io.File[] |
getAllMMcif(java.io.File dir) |
static void |
main(java.lang.String[] args) |
void |
prepareIndexFileForInstallation(FlatFileInstallation installation)
prepare the index file for this installation
|
createPDBInfoList, getAllPDB, logPDBInfoFile
public static void main(java.lang.String[] args)
public java.io.File[] getAllMMcif(java.io.File dir)
public void prepareIndexFileForInstallation(FlatFileInstallation installation) throws java.io.FileNotFoundException, java.io.IOException
prepareIndexFileForInstallation
in class PrepareIndexFile
installation
- java.io.FileNotFoundException
java.io.IOException
public void createMMcifInfoList(java.io.File[] pdbfiles, java.io.File outputFile, java.io.File chainInfoFile) throws java.io.FileNotFoundException, java.io.IOException
pdbfiles
- outputFile
- java.io.FileNotFoundException
java.io.IOException