public static void main(String[] args) {
String[] infos = IdentifierExpertSystem.instance().getKernelInformations();
String[] titles = IdentifierExpertSystem.instance().getKernelTitles();
Hashtable attributes = new Hashtable();
int kernelHash = IdentifierExpertSystem.instance().getKernelHash();
StringBuffer buffer = new StringBuffer(10000);
String title;
String delimiterHuge =
"===========================================================================\n";
String delimiterSmall =
"---------------------------------------------------------------------------\n";
buffer.append(delimiterHuge);
buffer.append(("Date: " + (new Date()).toGMTString()) + "\n");
buffer.append("JOELib2 chemistry kernel (expert systems) ID: " + kernelHash + "\n");
buffer.append("The following expert systems are used:\n");
buffer.append(delimiterSmall);
for (int i = 0; i < infos.length; i++) {
attributes.clear();
title = IdentifierExpertSystem.CML_KERNEL_REFERENCE_PREFIX + kernelHash + ":" + titles[i];
// if (i < (infos.length - 1))
// {
// buffer.append(", ");
// }
buffer.append(title + " (" + infos[i].hashCode() + ") \n");
buffer.append(infos[i] + "\n");
}
buffer.append(delimiterHuge);
String[] asList = IdentifierExpertSystem.getDependencyTreeClassNames();
for (int i = 0; i < asList.length; i++) {
buffer.append("dependency class is: \t\t\t\t" + asList[i] + "\n");
buffer.append(
"dependency version hash code is: \t\t"
+ IdentifierExpertSystem.getDependencyTreeHash(asList[i])
+ " (including chemistry kernel hash: "
+ kernelHash
+ ")\n");
buffer.append(
"dependency algorithm complexity is at least: \t"
+ IdentifierExpertSystem.getDependencyTreeComplexity(asList[i])
+ " (+ basic user input graph, + cyclic dependencies, + data structure , + forgotten dependencies)\n");
buffer.append("\n" + IdentifierExpertSystem.getDependencyTree(asList[i]) + "\n");
if (i < (asList.length - 1)) {
buffer.append(delimiterSmall);
}
}
buffer.append(delimiterHuge);
System.out.println(buffer.toString());
}
/** Constructor for the JOETypeTable object */
private BasicResidueData() {
initialized = false;
Properties prop = BasicPropertyHolder.instance().getProperties();
resourceFile = prop.getProperty(this.getClass().getName() + ".resourceFile", DEFAULT_RESOURCE);
_resname = new Vector();
_resatoms = new Vector();
_resbonds = new Vector();
_vatmtmp = new Vector();
_vtmp = new Vector();
vendor = VENDOR;
releaseVersion = IdentifierExpertSystem.transformCVStag(RELEASE_VERSION);
releaseDate = IdentifierExpertSystem.transformCVStag(RELEASE_DATE);
IdentifierExpertSystem.instance().addHardCodedKernel(this);
init();
IdentifierExpertSystem.instance().addSoftCodedKernel(this);
}
/**
* @param class1
* @param buffer
* @param i
*/
private static int recurseInto(
Class class1, StringBuffer buffer, int tabs, Vector<String> results) {
Method dependencies = null;
Method releaseVersion = null;
try {
dependencies = class1.getMethod("getDependencies", null);
releaseVersion = class1.getMethod("getReleaseVersion", null);
} catch (SecurityException e) {
// ignore all exceptions
} catch (NoSuchMethodException e) {
// ignore all exceptions
}
int dependsOn = 0;
if (dependencies != null) {
Object dependsOnVal = null;
Object releaseVal = null;
// if (releaseVersion != null) {
// System.out.println(classes[c].getName() + " "
// + releaseVersion + " isAccessible="
// + releaseVersion.isAccessible() + " isStatic="
// + Modifier.isStatic(releaseVersion.getModifiers())
// + " isPublic="
// + Modifier.isPublic(releaseVersion.getModifiers()));
// }
try {
int modifier = dependencies.getModifiers();
if (Modifier.isStatic(modifier) && Modifier.isPublic(modifier)) {
dependsOnVal = dependencies.invoke(null, null);
}
if (releaseVersion != null) {
modifier = releaseVersion.getModifiers();
if (Modifier.isStatic(modifier) && Modifier.isPublic(modifier)) {
releaseVal = releaseVersion.invoke(null, null);
}
}
} catch (IllegalArgumentException e2) {
// ignore all exceptions
} catch (IllegalAccessException e2) {
// ignore all exceptions
} catch (InvocationTargetException e2) {
// ignore all exceptions
} catch (NullPointerException e2) {
// ignore all exceptions
}
if ((dependsOnVal != null) && (dependsOnVal instanceof Class[])) {
Class[] dependson = (Class[]) dependsOnVal;
for (int j = 0; j < tabs; j++) {
buffer.append(DELIMITER);
}
buffer.append(class1 + "(");
if ((releaseVal != null) && (releaseVal instanceof String)) {
String release = (String) releaseVal;
buffer.append("version ");
buffer.append(release);
} else {
buffer.append("no version available");
}
buffer.append(")");
if (dependson.length != 0) {
if (class1 != SMARTSParser.class) {
buffer.append(" depends on");
} else {
buffer.append(" depends on (WARNING: cyclic dependencies)");
}
for (int i = 0; i < dependson.length; i++) {
if (class1 != SMARTSParser.class) {
buffer.append('\n');
// System.out.println("dependson["+i+"]:"+dependson[i]);
dependsOn += recurseInto(dependson[i], buffer, tabs + 1, results);
dependsOn++;
} else {
if ((i % 7) == 0) {
buffer.append('\n');
for (int j = 0; j < (tabs + 1); j++) {
buffer.append(DELIMITER);
}
}
int index = dependson[i].getName().lastIndexOf(".");
if (index == -1) {
index = 0;
} else {
index = index + 1;
}
buffer.append(dependson[i].getName().substring(index));
if (i < (dependson.length - 1)) {
buffer.append(", ");
}
}
}
}
if (tabs == 0) {
String finalDT = buffer.toString();
results.add(finalDT);
int dthash = IdentifierExpertSystem.instance().getKernelHash();
dthash = (31 * dthash) + finalDT.hashCode();
dependencyVersionHash.put(
class1.getName(), new int[] {dthash, results.size() - 1, dependsOn});
}
}
}
return dependsOn;
}