/*.................................................................................................................*/
public Object doCommand(String commandName, String arguments, CommandChecker checker) {
if (checker.compare(
this.getClass(),
"Sets the number of trees included in each tree block",
"[number of trees]",
commandName,
"setNumberTrees")) {
MesquiteInteger pos = new MesquiteInteger(0);
int newNum = MesquiteInteger.fromFirstToken(arguments, pos);
if (!MesquiteInteger.isCombinable(newNum))
newNum =
MesquiteInteger.queryInteger(
containerOfModule(),
"Set Number of Trees",
"Number of Trees:",
numTrees,
0,
MesquiteInteger.infinite);
if (newNum > 0 && newNum != numTrees) {
numTrees = newNum;
parametersChanged();
}
} else if (checker.compare(
this.getClass(),
"Returns the module supplying trees",
"[name of module]",
commandName,
"getTreeFiller")) {
return fillerTask;
} else return super.doCommand(commandName, arguments, checker);
return null;
}
/*.................................................................................................................*/
public boolean startJob(String arguments, Object condition, boolean hiredByName) {
if (!MesquiteThread.isScripting()) {
int s =
MesquiteInteger.queryInteger(
containerOfModule(),
"Number of taxa to exclude",
"Enter the number of randomly chosen taxa to exclude",
numExcluded);
if (MesquiteInteger.isCombinable(s)) numExcluded = s;
else return false;
}
addMenuItem("Number of Taxa Excluded...", makeCommand("setNumberExcluded", this));
return true;
}
/**
* Called to provoke any necessary initialization. This helps prevent the module's intialization
* queries to the user from happening at inopportune times (e.g., while a long chart calculation
* is in mid-progress)
*/
public void initialize(Taxa taxa) {
setPreferredTaxa(taxa);
fillerTask.initialize(taxa);
if (!fillerTask.hasLimitedTrees(taxa)) {
if (!MesquiteThread.isScripting() && !nTreesSet) {
int n =
MesquiteInteger.queryInteger(
containerOfModule(),
"Trees per block?",
"How many trees to include per tree block?",
numTrees);
if (MesquiteInteger.isCombinable(n) && n > 0) numTrees = n;
nTreesSet = true;
}
}
ntreesItem.setEnabled(!fillerTask.hasLimitedTrees(taxa));
MesquiteTrunk.resetMenuItemEnabling();
}
/*.................................................................................................................*/
public Object doCommand(String commandName, String arguments, CommandChecker checker) {
if (checker.compare(
this.getClass(),
"Sets the number of trees included in each tree block",
"[number of trees]",
commandName,
"setNumberTrees")) {
MesquiteInteger pos = new MesquiteInteger(0);
int newNum = MesquiteInteger.fromFirstToken(arguments, pos);
if (!MesquiteInteger.isCombinable(newNum))
newNum =
MesquiteInteger.queryInteger(
containerOfModule(),
"Set Number of Trees",
"Number of Trees:",
numTrees,
0,
MesquiteInteger.infinite);
if (newNum > 0 && newNum != numTrees) {
numTrees = newNum;
parametersChanged();
}
} else if (checker.compare(
this.getClass(),
"Sets the module supplying trees",
"[name of module]",
commandName,
"setTreeFiller")) {
TreeBlockFiller temp =
(TreeBlockFiller)
replaceEmployee(
TreeBlockFiller.class, arguments, "Source of trees for tree blocks", fillerTask);
if (temp != null) {
fillerTask = temp;
initialize(preferredTaxa);
parametersChanged(); // ?
}
return temp;
} else return super.doCommand(commandName, arguments, checker);
return null;
}
/**
* Called to provoke any necessary initialization. This helps prevent the module's intialization
* queries to the user from happening at inopportune times (e.g., while a long chart calculation
* is in mid-progress)
*/
public void initialize(Taxa taxa) {
setPreferredTaxa(taxa);
fillerTask.initialize(taxa);
if (!fillerTask.hasLimitedTrees(taxa)) {
if (!MesquiteThread.isScripting() && !nTreesSet) {
int n =
MesquiteInteger.queryInteger(
containerOfModule(),
"Trees per block?",
"How many trees to include per tree block?",
numTrees);
if (MesquiteInteger.isCombinable(n) && n > 0) numTrees = n;
nTreesSet = true;
}
}
if (enableNumTreesChoice() && ntreesItem == null)
ntreesItem = addMenuItem("Number of Trees...", makeCommand("setNumberTrees", this));
if (ntreesItem != null && fillerTask != null)
ntreesItem.setEnabled(!fillerTask.hasLimitedTrees(taxa));
MesquiteTrunk.resetMenuItemEnabling();
}
/** queryies the user to choose a tree and returns an integer of the tree chosen */
public int queryUserChoose(Taxa taxa, String forMessage) {
int ic = MesquiteInteger.unassigned;
int numBlocks = getNumberOfTreeBlocks(taxa);
if (MesquiteInteger.isCombinable(numBlocks)) {
String[] s = new String[numBlocks];
for (int i = 0; i < numBlocks; i++) {
s[i] = getTreeBlockNameString(taxa, i);
}
if (forMessage == null) {
forMessage = "Choose tree block";
}
return ListDialog.queryList(
containerOfModule(), "Choose tree block", forMessage, MesquiteString.helpString, s, 0);
} else {
if (forMessage == null) {
forMessage = "Number of tree block to be used";
}
int r = MesquiteInteger.queryInteger(containerOfModule(), "Choose tree block", forMessage, 1);
if (MesquiteInteger.isCombinable(r)) return MesquiteTree.toInternal(r);
else return r;
}
}
/*.................................................................................................................*/
public Object doCommand(String commandName, String arguments, CommandChecker checker) {
if (checker.compare(
this.getClass(),
"Sets the number of randomly chosen taxa to exclude",
"[number]",
commandName,
"setNumberExcluded")) {
int s = MesquiteInteger.fromString(parser.getFirstToken(arguments));
if (!MesquiteInteger.isCombinable(s)) {
s =
MesquiteInteger.queryInteger(
containerOfModule(),
"Number of taxa to exclude",
"Enter the number of randomly chosen taxa to exclude",
numExcluded);
}
if (MesquiteInteger.isCombinable(s)) {
numExcluded = s;
parametersChanged();
}
} else return super.doCommand(commandName, arguments, checker);
return null;
}