/** Compares all values to whats already in the database returns the number of errors found. */
private void checkCreate(
String id_or_alias,
String ind,
String variable,
String value,
String date,
String ref,
String comm,
int suid) {
// ResultSet rset;
int nrErrors = 0;
String identity = null;
try {
// First if no IDENTITY was sent, we need to get it through alias!
if (id_or_alias.equalsIgnoreCase("ALIAS")
&& (ind != null)
&& (!ind.trim().equalsIgnoreCase(""))) {
identity = db.getIdentity(ind);
} else {
identity = ind;
}
// compare to database, is this unique? (can it be inserted?)
if (!db.isPhenotypeUnique(variable, identity)) {
// the phenotype exists
String Message =
" The Phenotype [V="
+ variable
+ ", I="
+ identity
+ "] already exists, cannot be created.";
errorList.add(Message);
nrErrors++;
}
// Does the individual exist?
if (db.isIndividualUnique(identity)) {
// the Individual does not exist
String Message = " The Individual with " + id_or_alias + " " + ind + " does not exist.";
errorList.add(Message);
}
// does variable exist?
if (db.isVariableUnique(variable)) {
// the variable does not exist
String Message = " Variable " + variable + " does not exist";
errorList.add(Message);
}
} catch (Exception e) {
// Flag for error and set the errMessage if it has not been set
e.printStackTrace(System.err);
}
}
private boolean checkValues(
String identity, String variable, String value, String date, String ref, String comm) {
boolean ret = true;
if (identity == null || identity.trim().equals("")) {
errorList.add("Unable to read Identity/Alias.");
ret = false;
} else if (identity.length() > 11) {
errorList.add("Identity/Alias [" + identity + "] exceeds 11 characters.");
ret = false;
}
if (variable == null || variable.trim().equals("")) {
errorList.add("Unable to read variable.");
ret = false;
} else if (variable.length() > 20) {
errorList.add("Variable [" + variable + "] exceeds 20 characters.");
ret = false;
}
if (value == null || value.trim().equals("")) {
errorList.add("Unable to read value.");
ret = false;
}
if (value != null && value.length() > 20) {
errorList.add("Value [" + value + "] exceeds 20 characters.");
ret = false;
}
if (!(date == null || date.trim().equals(""))) {
try {
java.util.Date temp = java.sql.Date.valueOf(date);
} catch (Exception e) {
errorList.add("Date not in the format 'YYYY-MM-DD'");
ret = false;
}
}
if (ref != null && ref.length() > 32) {
errorList.add("Reference [" + ref + "] exceeds 32 characters.");
ret = false;
}
if (comm != null && comm.length() > 256) {
errorList.add("Comment exceeds 256 characters.");
ret = false;
}
return ret;
}
/** Checks if the phenotype exists Makes certain the genotype can be updated */
private void checkUpdate(
String id_or_alias,
String ind,
String variable,
String value,
String date,
String ref,
String comm,
int suid,
Vector deviationMessages,
Vector databaseValues,
char delim) {
// ResultSet rset;
String identity = null;
boolean match = false;
try {
// First if no IDENTITY was sent, we need to get it through alias!
if (id_or_alias.equalsIgnoreCase("ALIAS")
&& ind != null
&& !ind.trim().equalsIgnoreCase("")) {
identity = db.getIdentity(ind);
} else identity = ind;
// compare to database, does genotype exist? can it be updated..
if (db.isPhenotypeUnique(variable, identity)) {
String Message = "The Phenotype does not exist, cannot be updated.";
errorList.add(Message);
}
// rset.close();
} // try
catch (Exception e) {
// Flag for error and set the errMessage if it has not been set
e.printStackTrace(System.err);
}
}
