Examples with ItemGroupDAO org.akaza.openclinica.dao.submit.ItemGroupDAO used on opensource projects
Example 21 with ItemGroupDAO
use of org.akaza.openclinica.dao.submit.ItemGroupDAO in project OpenClinica by OpenClinica.
the class OpenRosaXmlGenerator method getItemGroupBeanByItemId.
@SuppressWarnings({ "rawtypes", "unchecked" })
private ItemGroupBean getItemGroupBeanByItemId(Integer itemId) {
ArrayList<ItemGroupBean> itemGroupBean = null;
igdao = new ItemGroupDAO(dataSource);
itemGroupBean = (ArrayList<ItemGroupBean>) igdao.findGroupsByItemID(itemId);
return itemGroupBean.get(0);
}
Also used :
ItemGroupDAO(org.akaza.openclinica.dao.submit.ItemGroupDAO)
ItemGroupBean(org.akaza.openclinica.bean.submit.ItemGroupBean)
Example 22 with ItemGroupDAO
use of org.akaza.openclinica.dao.submit.ItemGroupDAO in project OpenClinica by OpenClinica.
the class OpenRosaXmlGenerator method mapBeansToDTO.
/**
* @param html
* @param crf
* @param crfVersion
* @param crfSections
* @return
* @throws Exception
*/
private Integer mapBeansToDTO(Html html, CRFBean crf, CRFVersionBean crfVersion, ArrayList<SectionBean> crfSections) throws Exception {
boolean expressionEvaluate = true;
int sectionCount = 0;
ItemFormMetadataBean itemFormMetadataBean = null;
Body body = html.getBody();
ArrayList<Group> allSections = new ArrayList<Group>();
ArrayList<Bind> bindList = new ArrayList<Bind>();
WidgetFactory factory = new WidgetFactory(crfVersion);
html.getHead().setTitle(crf.getName());
for (SectionBean section : crfSections) {
ArrayList<Group> groups = new ArrayList<Group>();
Group singleSection = new Group();
singleSection.setUsercontrol(new ArrayList<UserControl>());
String ref = "/" + crfVersion.getOid() + "/" + "SECTION_" + section.getLabel().replaceAll("\\W", "_");
singleSection.setRef(ref);
String sectionExpression = null;
igdao = new ItemGroupDAO(dataSource);
ArrayList<ItemGroupBean> groupBeans = (ArrayList<ItemGroupBean>) igdao.findGroupBySectionId(section.getId());
int count = 0;
if (groupBeans.size() > 0) {
for (ItemGroupBean groupBean : groupBeans) {
ExpressionExpressionEvaluate eev = getSkipPattern(null, groupBean);
String expr = eev.getExpression();
expressionEvaluate = eev.isExpressionEvaluate();
if (expr != null) {
if (sectionExpression != null) {
sectionExpression = sectionExpression + " and " + expr;
count++;
} else {
sectionExpression = expr;
count++;
}
}
}
if (sectionExpression != null && groupBeans.size() == count) {
sectionExpression = getFullExpressionToParse(sectionExpression, crfVersion, expressionEvaluate);
} else {
sectionExpression = null;
}
setSectionWidget(section, crfVersion, sectionExpression, bindList, factory, singleSection);
HashMap<String, Object> groupMap = null;
boolean isGroupRepeating = false;
Group group = null;
Repeat repeat = null;
idao = new ItemDAO(dataSource);
ArrayList<ItemBean> items = (ArrayList<ItemBean>) idao.findAllBySectionIdOrderedByItemFormMetadataOrdinal(section.getId());
Integer itemGroupId = 0;
for (ItemBean item : items) {
ItemGroupBean itemGroupBean = getItemGroupBeanByItemId(item.getId());
if (itemGroupId != itemGroupBean.getId()) {
groupMap = getGroupInfo(itemGroupBean, crfVersion, section, factory, bindList);
isGroupRepeating = (Boolean) groupMap.get("isGroupRepeating");
group = (Group) groupMap.get("group");
repeat = (Repeat) groupMap.get("repeat");
}
itemFormMetadataBean = getItemFormMetadata(item, crfVersion);
int responseTypeId = itemFormMetadataBean.getResponseSet().getResponseTypeId();
boolean isItemRequired = itemFormMetadataBean.isRequired();
String responseLayout = itemFormMetadataBean.getResponseLayout();
String itemExpression = null;
ExpressionExpressionEvaluate eev = getSkipPattern(item, itemGroupBean);
itemExpression = eev.getExpression();
expressionEvaluate = eev.isExpressionEvaluate();
if (itemExpression != null)
itemExpression = getFullExpressionToParse(itemExpression, crfVersion, expressionEvaluate);
// Add the Item Header
setHeaderWidget(item, itemFormMetadataBean, itemGroupBean, bindList, factory, isGroupRepeating, repeat, group, itemExpression);
// Add the Item SubHeader
setSubHeaderWidget(item, itemFormMetadataBean, itemGroupBean, bindList, factory, isGroupRepeating, repeat, group, itemExpression);
// Add the Item itself
setItemWidget(item, responseTypeId, itemFormMetadataBean, itemGroupBean, bindList, factory, isGroupRepeating, repeat, group, isItemRequired, responseLayout, itemExpression);
if (itemGroupId != itemGroupBean.getId()) {
groups.add(group);
itemGroupId = itemGroupBean.getId();
}
}
// end of item loop
singleSection.setGroup(groups);
allSections.add(singleSection);
}
// end of groups per section if exist
sectionCount = allSections.size();
}
// end of section loop
body.setGroup(allSections);
html.getHead().getModel().setBind(bindList);
return sectionCount;
}
Also used :
Group(org.akaza.openclinica.web.pform.dto.Group)
Bind(org.akaza.openclinica.web.pform.dto.Bind)
ItemBean(org.akaza.openclinica.bean.submit.ItemBean)
ItemDAO(org.akaza.openclinica.dao.submit.ItemDAO)
ArrayList(java.util.ArrayList)
ItemGroupDAO(org.akaza.openclinica.dao.submit.ItemGroupDAO)
Repeat(org.akaza.openclinica.web.pform.dto.Repeat)
UserControl(org.akaza.openclinica.web.pform.dto.UserControl)
Body(org.akaza.openclinica.web.pform.dto.Body)
SectionBean(org.akaza.openclinica.bean.submit.SectionBean)
WidgetFactory(org.akaza.openclinica.web.pform.widget.WidgetFactory)
ItemGroupBean(org.akaza.openclinica.bean.submit.ItemGroupBean)
ItemFormMetadataBean(org.akaza.openclinica.bean.submit.ItemFormMetadataBean)
Example 23 with ItemGroupDAO
use of org.akaza.openclinica.dao.submit.ItemGroupDAO in project OpenClinica by OpenClinica.
the class SpreadSheetTableRepeating method toNewCRF.
public NewCRFBean toNewCRF(javax.sql.DataSource ds, ResourceBundle resPageMsg) throws IOException, CRFReadingException {
String dbName = SQLInitServlet.getDBName();
NewCRFBean ncrf = new NewCRFBean(ds, crfId);
// set crf id
ncrf.setCrfId(crfId);
StringBuffer buf = new StringBuffer();
HSSFWorkbook wb = new HSSFWorkbook(fs);
int numSheets = wb.getNumberOfSheets();
ArrayList queries = new ArrayList();
// ArrayList groupItemMapQueries = new ArrayList();
ArrayList errors = new ArrayList();
// ArrayList repeats = new ArrayList();
HashMap tableNames = new HashMap();
HashMap items = new HashMap();
SpreadSheetItemUtil item_from_row = null;
String pVersion = "";
String pVerDesc = "";
int parentId = 0;
// default is ST(String) type
int dataTypeId = 5;
HashMap itemCheck = ncrf.getItemNames();
HashMap GroupCheck = ncrf.getItemGroupNames();
HashMap openQueries = new LinkedHashMap();
// save all the item
HashMap backupItemQueries = new LinkedHashMap();
// queries if
// deleting item happens
// check for dupes, also
ArrayList secNames = new ArrayList();
ArrayList<String> itemGroupOids = new ArrayList<String>();
ArrayList<String> itemOids = new ArrayList<String>();
CRFDAO cdao = new CRFDAO(ds);
CRFBean crf = (CRFBean) cdao.findByPK(crfId);
ItemDAO idao = new ItemDAO(ds);
CRFVersionDAO cvdao = new CRFVersionDAO(ds);
ItemGroupDAO itemGroupDao = new ItemGroupDAO(ds);
SheetValidationContainer sheetContainer = new SheetValidationContainer();
HashMap<String, String> allItems = (HashMap<String, String>) sheetContainer.getAllItems();
// HashMap<String, String> allItems = new HashMap<String, String>();
Map<String, String[]> controlValues = new HashMap<String, String[]>();
int maxItemFormMetadataId = new ItemFormMetadataDAO(ds).findMaxId();
OnChangeSheetValidator instantValidator = new OnChangeSheetValidator(sheetContainer, resPageMsg);
int validSheetNum = 0;
for (int j = 0; j < numSheets; j++) {
// sheetIndex);
HSSFSheet sheet = wb.getSheetAt(j);
String sheetName = wb.getSheetName(j);
if (sheetName.equalsIgnoreCase("CRF") || sheetName.equalsIgnoreCase("Sections") || sheetName.equalsIgnoreCase("Items")) {
validSheetNum++;
}
}
if (validSheetNum != 3) {
errors.add("The excel spreadsheet doesn't have required valid worksheets. Please check whether it contains" + " sheets of CRF, Sections and Items.");
}
HSSFSheet sheet = wb.getSheetAt(4);
HSSFCell insCell = sheet.getRow(1).getCell((short) 0);
String versionNo = insCell.toString();
// 7/30
for (int j = 0; j < numSheets; j++) {
// sheetIndex);
sheet = wb.getSheetAt(j);
String sheetName = wb.getSheetName(j);
if (sheetName.equalsIgnoreCase("Instructions")) {
// totally ignore instructions
} else {
/*
* current strategem: build out the queries by hand and revisit
* this as part of the data loading module. We begin to check
* for errors here and look for blank cells where there should
* be data, tbh, 7/28
*/
int numRows = sheet.getPhysicalNumberOfRows();
int lastNumRow = sheet.getLastRowNum();
// logger.debug("PhysicalNumberOfRows" +
// sheet.getPhysicalNumberOfRows());
// great minds apparently think alike...tbh, commented out
// 06/19/2007
// logger.debug("LastRowNum()" + sheet.getLastRowNum());
String secName = "";
String page = "";
// YW << for holding "responseLabel_responseType"
ArrayList resPairs = new ArrayList();
// YW >>
// records all the
ArrayList resNames = new ArrayList();
// response_labels
HashMap htmlErrors = new HashMap();
// the above two need to persist across mult. queries,
// and they should be created FIRST anyway, since instrument is
// first
// also need to add to VERSIONING_MAP, tbh, 6-6-3
// try to count how many blank rows, if 5 concective blank rows
// found, stop reading
int blankRowCount = 0;
String itemName = null;
String default_value = null;
if (sheetName.equalsIgnoreCase("Items")) {
logger.debug("read an item in sheet" + sheetName);
Map labelWithOptions = new HashMap();
Map labelWithValues = new HashMap();
Map labelWithType = new HashMap<String, String>();
logger.debug("row20 is: " + getValue(sheet.getRow(0).getCell((short) 20)));
boolean hasWDColumn = "width_decimal".equalsIgnoreCase(getValue(sheet.getRow(0).getCell((short) 20))) ? true : false;
// Adding itemnames for further use
// HashMap itemNames = new HashMap();
// htaycher : code should be competly refactored to use stucture to hold all data per row
ArrayList<SpreadSheetItemUtil> row_items = new ArrayList<SpreadSheetItemUtil>();
for (int k = 1; k < numRows; k++) {
if (sheet.getRow(k) == null) {
blankRowCount++;
if (blankRowCount == 5) {
break;
}
continue;
}
int cellIndex = 0;
HSSFCell cell = sheet.getRow(k).getCell((short) 0);
item_from_row = new SpreadSheetItemUtil();
row_items.add(item_from_row);
item_from_row.setItemName(getValue(cell));
item_from_row.verifyItemName(row_items, errors, htmlErrors, j, resPageMsg);
itemName = item_from_row.getItemName();
// }
cell = sheet.getRow(k).getCell((short) 1);
String descLabel = getValue(cell);
descLabel = descLabel.replaceAll("<[^>]*>", "");
item_from_row.setDescriptionLabel(descLabel);
if (StringUtil.isBlank(descLabel)) {
// errors.add("The DESCRIPTION_LABEL column was
// blank at row " + k + ", Items worksheet.");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("DESCRIPTION_LABEL_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",1", resPageMsg.getString("required_field"));
}
if (descLabel != null && descLabel.length() > 4000) {
errors.add(resPageMsg.getString("item_desc_length_error"));
}
cell = sheet.getRow(k).getCell((short) 2);
String leftItemText = getValue(cell);
if (leftItemText != null && leftItemText.length() > 4000) {
errors.add(resPageMsg.getString("left_item_length_error"));
}
item_from_row.setLeftItemText(leftItemText);
// Commented out to resolve issue-2413
// if (StringUtil.isBlank(leftItemText)) {
// errors.add(resPageMsg.getString("the") + " " +
// resPageMsg.getString("LEFT_ITEM_TEXT_column") + " "
// + resPageMsg.getString("was_blank_at_row") + k + ","
// + resPageMsg.getString("items_worksheet") + ".");
// htmlErrors.put(j + "," + k + ",2",
// resPageMsg.getString("required_field"));
// }
cell = sheet.getRow(k).getCell((short) 3);
String unit = getValue(cell).trim();
if (unit != null && unit.length() > 0) {
String muSql = "";
// htaycher max length=64
if (unit.length() > 64) {
errors.add(resPageMsg.getString("units_length_error"));
htmlErrors.put(j + "," + k + "," + CrfTemplateColumnNameEnum.UNITS.getCellNumber(), resPageMsg.getString("INVALID_FIELD"));
}
if (this.existingUnits.size() > 0) {
} else {
this.existingUnits = this.measurementUnitDao.findAllNames();
if (this.existingUnits == null) {
this.existingUnits = new TreeSet<String>();
}
}
if (this.existingOIDs.size() > 0) {
} else {
this.existingOIDs = this.measurementUnitDao.findAllOIDs();
if (this.existingOIDs == null) {
this.existingOIDs = new TreeSet<String>();
}
}
if (this.existingUnits.contains(unit)) {
this.logger.debug("unit=" + unit + " existed.");
} else {
String oid = "";
try {
oid = new MeasurementUnitOidGenerator().generateOid(unit);
} catch (Exception e) {
throw new RuntimeException("CANNOT GENERATE OID");
}
if (this.existingOIDs.contains(oid)) {
if (oid.length() > 40) {
oid = oid.substring(0, 35);
}
oid = new MeasurementUnitOidGenerator().randomizeOid(oid);
}
this.existingOIDs.add(oid);
this.existingUnits.add(unit);
/* muSql = this.getMUInsertSql(oid, unit, ub.getId(), dbName);
queries.add(muSql);*/
muSql = this.getMUInsertSqlParameters();
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(oid));
sqlParameters.add(new SqlParameter(unit));
QueryObject qo = new QueryObject();
qo.setSql(muSql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
}
}
cell = sheet.getRow(k).getCell((short) 4);
String rightItemText = getValue(cell);
if (rightItemText != null && rightItemText.length() > 2000) {
errors.add(resPageMsg.getString("right_item_length_error"));
}
// section label
cell = sheet.getRow(k).getCell((short) 5);
item_from_row.setSectionLabel(getValue(cell));
item_from_row.verifySectionLabel(row_items, errors, secNames, htmlErrors, j, resPageMsg);
secName = item_from_row.getSectionLabel();
// *******************************************
// group_label will go here, tbh in place 6
// have to advance all the rest by one at least (if
// there are
// no other columns) tbh, 5-14-2007
// group label
cell = sheet.getRow(k).getCell((short) 6);
item_from_row.setGroupLabel(getValue(cell));
// is it a reason for 13816
if (item_from_row.getItemName().length() > 0) {
if (!StringUtil.isBlank(item_from_row.getGroupLabel())) {
allItems.put(item_from_row.getItemName(), item_from_row.getGroupLabel());
} else {
allItems.put(item_from_row.getItemName(), "Ungrouped");
}
}
String groupLabel = item_from_row.getGroupLabel();
sheetContainer.getItemSectionNameMap().put(itemName, secName);
sheetContainer.collectRepGrpItemNameMap(itemName, item_from_row.getGroupLabel());
// header
cell = sheet.getRow(k).getCell((short) 7);
String header = getValue(cell);
if (header != null && header.length() > 2000) {
errors.add(resPageMsg.getString("item_header_length_error"));
}
// subheader
cell = sheet.getRow(k).getCell((short) 8);
String subHeader = getValue(cell);
if (subHeader != null && subHeader.length() > 240) {
errors.add(resPageMsg.getString("item_subheader_length_error"));
htmlErrors.put(j + "," + k + "," + CrfTemplateColumnNameEnum.SUBHEADER.getCellNumber(), resPageMsg.getString("INVALID_FIELD"));
}
// parentid
cell = sheet.getRow(k).getCell((short) 9);
String parentItem = getValue(cell);
item_from_row.setParentItem(parentItem);
item_from_row.verifyParentID(row_items, errors, htmlErrors, j, resPageMsg, itemGroups);
// for now , when(if ) code refactoring will be done, item will be written by SpreadSheetItemUtil
parentItem = item_from_row.getParentItem();
// column id
cell = sheet.getRow(k).getCell((short) 10);
int columnNum = 0;
String column = getValue(cell);
if (!StringUtil.isBlank(column)) {
try {
columnNum = Integer.parseInt(column);
} catch (NumberFormatException ne) {
columnNum = 0;
}
}
// page number
cell = sheet.getRow(k).getCell((short) 11);
if (cell != null) {
page = getValue(cell);
}
// question number
cell = sheet.getRow(k).getCell((short) 12);
String questionNum = getValue(cell);
// response type
cell = sheet.getRow(k).getCell((short) 13);
String responseType = getValue(cell);
int responseTypeId = 1;
if (StringUtil.isBlank(responseType)) {
// errors.add("The RESPONSE_TYPE column was blank at
// row " + k + ", items worksheet.");
// htmlErrors.put(j + "," + k + ",13", "REQUIRED
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_TYPE_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + ",13", resPageMsg.getString("required_field"));
} else {
if (!ResponseType.findByName(responseType.toLowerCase())) {
// errors.add("The RESPONSE_TYPE column was
// invalid at row " + k
// + ", items worksheet.");
// htmlErrors.put(j + "," + k + ",13", "INVALID
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_TYPE_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + ",13", resPageMsg.getString("INVALID_FIELD"));
} else {
responseTypeId = ResponseType.getByName(responseType.toLowerCase()).getId();
item_from_row.setResponseTypeId(responseTypeId);
}
if (responseTypeId == 5) {
cell = sheet.getRow(k).getCell((short) 18);
String def = getValue(cell);
if (!StringUtil.isBlank(def)) {
errors.add(resPageMsg.getString("radio_with_default") + item_from_row.getItemName() + resPageMsg.getString("change_radio"));
htmlErrors.put(j + "," + k + "," + CrfTemplateColumnNameEnum.DEFAULT_VALUE.getCellNumber(), resPageMsg.getString("INVALID_FIELD"));
}
} else if (responseTypeId == ResponseType.INSTANT_CALCULATION.getId()) {
unit = "";
}
}
cell = sheet.getRow(k).getCell((short) 14);
String responseLabel = getValue(cell);
if (StringUtil.isBlank(responseLabel) && responseTypeId != ResponseType.TEXT.getId() && responseTypeId != ResponseType.TEXTAREA.getId()) {
// << tbh #4180
// errors.add("The RESPONSE_LABEL column was blank
// at row " + k + ", items worksheet.");
// htmlErrors.put(j + "," + k + ",14", "REQUIRED
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_LABEL_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + ",14", resPageMsg.getString("required_field"));
} else if ("file".equalsIgnoreCase(responseType) && !"file".equalsIgnoreCase(responseLabel)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_LABEL_column") + " " + resPageMsg.getString("should_be_file") + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",14", resPageMsg.getString("should_be_file"));
}
cell = sheet.getRow(k).getCell((short) 15);
String resOptions = getValue(cell);
// >> tbh #4180, we cant have blanks since they will trip us up later in the process
if (responseTypeId == ResponseType.TEXT.getId()) {
responseLabel = "text";
} else if (responseTypeId == ResponseType.TEXTAREA.getId()) {
responseLabel = "textarea";
}
// << tbh
if (responseLabel.equalsIgnoreCase("text") || responseLabel.equalsIgnoreCase("textarea")) {
resOptions = "text";
} else if ("file".equalsIgnoreCase(responseType)) {
resOptions = "file";
}
int numberOfOptions = 0;
if (!resNames.contains(responseLabel) && StringUtil.isBlank(resOptions) && responseTypeId != ResponseType.TEXT.getId() && responseTypeId != ResponseType.TEXTAREA.getId()) {
// << tbh #4180
// errors.add("The RESPONSE_OPTIONS_TEXT column was
// blank at row " + k
// + ", Items worksheet.");
// htmlErrors.put(j + "," + k + ",15", "REQUIRED
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_OPTIONS_TEXT_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + ",15", resPageMsg.getString("required_field"));
}
if (!resNames.contains(responseLabel) && !StringUtil.isBlank(resOptions)) {
if (responseTypeId == 8 || responseTypeId == 9) {
// YW 1-29-2008 << only one option for
// "calculation" type and "group-calculation"
// type
// but do we really need this variable these two
// types?
numberOfOptions = 1;
// YW >>
} else {
// String[] resArray = resOptions.split(",");
String text1 = resOptions.replaceAll("\\\\,", "##");
String[] resArray = text1.split(",");
numberOfOptions = resArray.length;
}
}
/**
* The application will show error on page if two
* identical RESPONSE_LABEL has different
* RESPONSE_OPTIONS_TEXT
*/
String[] mapResArray = (String[]) labelWithOptions.get(responseLabel);
String text1 = resOptions.replaceAll("\\\\,", "##");
String[] resArray = text1.split(",");
item_from_row.setResponseOptions(resArray);
logger.debug(item_from_row.getItemName());
if (labelWithOptions.containsKey(responseLabel)) {
if (!StringUtil.isBlank(resOptions)) {
for (int i = 0; i < resArray.length; i++) {
if (!resArray[i].equals(mapResArray[i])) {
errors.add(resPageMsg.getString("resp_label_with_different_resp_options") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + ",15", resPageMsg.getString("resp_label_with_different_resp_options_html_error"));
break;
}
}
}
} else {
labelWithOptions.put(responseLabel, resArray);
}
cell = sheet.getRow(k).getCell((short) 16);
String resValues = getValue(cell);
if (responseLabel.equalsIgnoreCase("text") || responseLabel.equalsIgnoreCase("textarea")) {
resValues = "text";
} else if ("file".equalsIgnoreCase(responseType)) {
resValues = "file";
}
if (!resNames.contains(responseLabel) && StringUtil.isBlank(resValues) && responseTypeId != ResponseType.TEXT.getId() && responseTypeId != ResponseType.TEXTAREA.getId() && responseTypeId != ResponseType.INSTANT_CALCULATION.getId()) {
// << tbh #4180
// errors.add("The RESPONSE_VALUES column was blank
// at row " + k + ", Items worksheet.");
// htmlErrors.put(j + "," + k + ",16", "REQUIRED
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_VALUES_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + ", " + k + ",16", resPageMsg.getString("required_field"));
}
// YW 1-25-2008 << validate scoring expression
if (responseTypeId == ResponseType.CALCULATION.getId() || responseTypeId == ResponseType.GROUP_CALCULATION.getId()) {
// func, it must be correctly spelled
if (resValues.contains(":")) {
String[] s = resValues.split(":");
if (!"func".equalsIgnoreCase(s[0].trim())) {
errors.add(resPageMsg.getString("expression_not_start_with_func_at") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",16", resPageMsg.getString("INVALID_FIELD"));
}
}
String exp = resValues;
// make both \\, and , works for functions
exp = exp.replace("\\\\,", "##");
exp = exp.replace("##", ",");
exp = exp.replace(",", "\\\\,");
resValues = exp;
if (exp.startsWith("func:")) {
exp = exp.substring(5).trim();
}
exp = exp.replace("\\\\,", "##");
StringBuffer err = new StringBuffer();
ArrayList<String> variables = new ArrayList<String>();
ScoreValidator scoreValidator = new ScoreValidator(locale);
if (!scoreValidator.isValidExpression(exp, err, variables)) {
errors.add(resPageMsg.getString("expression_invalid_at") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ": " + err);
htmlErrors.put(j + "," + k + ",16", resPageMsg.getString("INVALID_FIELD"));
}
if (exp.startsWith("getexternalvalue") || exp.startsWith("getExternalValue")) {
// do a different set of validations here, tbh
} else {
String group = groupLabel.length() > 0 ? groupLabel : "Ungrouped";
for (String v : variables) {
if (!allItems.containsKey(v)) {
errors.add("Item '" + v + "' must be listed before the item '" + itemName + "' at row " + k + ", items worksheet. ");
htmlErrors.put(j + "," + k + ",16", "INVALID FIELD");
} else {
if (responseTypeId == 8 && !allItems.get(v).equalsIgnoreCase(group)) {
errors.add("Item '" + v + "' and item '" + itemName + "' must have a same GROUP_LABEL at row " + k + ", items worksheet. ");
htmlErrors.put(j + "," + k + ",16", "INVALID FIELD");
} else if (responseTypeId == 9) {
String g = allItems.get(v);
if (!g.equalsIgnoreCase("ungrouped") && g.equalsIgnoreCase(group)) {
errors.add("Item '" + v + "' and item '" + itemName + "' should not have a same GROUP_LABEL at row " + k + ", items worksheet. ");
htmlErrors.put(j + "," + k + ",16", "INVALID FIELD");
}
}
}
}
}
} else if ("instant-calculation".equalsIgnoreCase(responseType)) {
OnChangeSheetValidationCell onchangecell = new OnChangeSheetValidationCell(OnChangeSheetValidationType.ALL, new SheetCell.Builder().rowName(itemName).colTitle("RESPONSE_VALUES_column").colValue(resValues).forWhich("instant_calculation").sheetNum(j).rowNum(k).colNum(16).build());
instantValidator.addValidationCells(onchangecell);
} else if (numberOfOptions > 0) {
// YW >>
String value1 = resValues.replaceAll("\\\\,", "##");
String[] resValArray = value1.split(",");
if (resValArray.length != numberOfOptions) {
/*
* errors.add("There are an incomplete number of
* option-value pairs in " + "RESPONSE_OPTIONS
* and RESPONSE_VALUES at row " + k + ",
* questions worksheet; perhaps you are missing
* a comma? If there is a comma in any option
* text/value itself, please use \\, instead.");
* htmlErrors.put(j + "," + k + ",15", "NUMBER
* OF OPTIONS DOES NOT MATCH"); htmlErrors.put(j +
* "," + k + ",16", "NUMBER OF VALUES DOES NOT
* MATCH");
*/
errors.add(resPageMsg.getString("incomplete_option_value_pair") + " " + resPageMsg.getString("RESPONSE_OPTIONS_column") + " " + resPageMsg.getString("and") + " " + resPageMsg.getString("RESPONSE_VALUES_column") + " " + resPageMsg.getString("at_row") + k + " " + resPageMsg.getString("items_worksheet") + "; " + resPageMsg.getString("perhaps_missing_comma"));
htmlErrors.put(j + "," + k + ",15", resPageMsg.getString("number_option_not_match"));
htmlErrors.put(j + "," + k + ",16", resPageMsg.getString("number_value_not_match"));
}
}
/**
* The application will show error on page if two
* identical RESPONSE_LABEL has different REPONSE_VALUES
*/
String[] mapValArray = (String[]) labelWithValues.get(responseLabel);
String value1 = resValues.replaceAll("\\\\,", "##");
String[] resValArray = value1.split(",");
if (labelWithValues.containsKey(responseLabel)) {
if (!StringUtil.isBlank(resValues)) {
// elements in them
if (null != resValArray && null != mapValArray && resValArray.length != mapValArray.length) {
errors.add(resPageMsg.getString("resp_label_with_different_resp_values") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",16", resPageMsg.getString("resp_label_with_different_resp_values_html_error"));
} else {
for (int i = 0; i < resValArray.length; i++) {
if (!resValArray[i].equals(mapValArray[i])) {
errors.add(resPageMsg.getString("resp_label_with_different_resp_values") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + ",16", resPageMsg.getString("resp_label_with_different_resp_values_html_error"));
break;
}
}
}
}
controlValues.put(secName + "---" + itemName, mapValArray);
} else {
labelWithValues.put(responseLabel, resValArray);
controlValues.put(secName + "---" + itemName, resValArray);
}
/*
* Adding two columns here for the repeating rows,
* REsPONSE_LAYOUT and DEFAULT_VALUE TBH, 06/05/2007 YW
* 08-02-2007: move default_value down after data_type
*/
// RESPONSE_LAYOUT
cell = sheet.getRow(k).getCell((short) 17);
// should be horizontal or vertical, tbh
// BWP: the application will assume a vertical layout if
// this value is not horizontal
// BWP 08-02-2007 <<
String responseLayout = getValue(cell);
responseLayout = responseLayout.replaceAll("<[^>]*>", "");
// BWP >>
cell = sheet.getRow(k).getCell((short) 19);
String dataType = getValue(cell);
dataType = dataType.replaceAll("<[^>]*>", "");
item_from_row.setDataType(dataType);
String dataTypeIdString = "1";
if (StringUtil.isBlank(dataType)) {
// errors.add("The DATA_TYPE column was blank at row
// " + k + ", items worksheet.");
// htmlErrors.put(j + "," + k + ",19", "REQUIRED
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("DATA_TYPE_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + ",19", resPageMsg.getString("required_field"));
} else {
if (!ItemDataType.findByName(dataType.toLowerCase())) {
// errors.add("The DATA_TYPE column was invalid
// at row " + k + ", Items worksheet.");
// htmlErrors.put(j + "," + k + ",19", "INVALID
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("DATA_TYPE_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + ",19", resPageMsg.getString("INVALID_FIELD"));
} else {
if ("file".equalsIgnoreCase(responseType) && !"FILE".equalsIgnoreCase(dataType)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("DATA_TYPE_column") + " " + resPageMsg.getString("should_be_file") + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + ",19", resPageMsg.getString("should_be_file"));
} else if ("instant-calculation".equalsIgnoreCase(responseType)) {
OnChangeSheetValidationCell onchangecell = new OnChangeSheetValidationCell(OnChangeSheetValidationType.NONE, SheetValidationType.SHOULD_BE_ST, new SheetCell.Builder().rowName(itemName).colTitle("DATA_TYPE_column").colValue(dataType).forWhich("instant_calculation").sheetNum(j).rowNum(k).colNum(19).build());
instantValidator.addValidationCells(onchangecell);
}
// dataTypeId =
// (ItemDataType.getByName(dataType)).getId();
dataTypeIdString = "(SELECT ITEM_DATA_TYPE_ID From ITEM_DATA_TYPE Where CODE='" + dataType.toUpperCase() + "')";
}
}
if (responseTypeId == 3 || responseTypeId == 5 || responseTypeId == 6 || responseTypeId == 7) {
if (labelWithType.containsKey(responseLabel)) {
// datatype
if (!dataType.equalsIgnoreCase(labelWithType.get(responseLabel).toString())) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("DATA_TYPE_column") + " " + resPageMsg.getString("does_not_match_the_item_data_type_with_the_same_response_label") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + ",19", resPageMsg.getString("INVALID_FIELD"));
}
} else {
labelWithType.put(responseLabel, dataType);
// make sure response values matching datatype
if (resValArray.length > 0) {
boolean wrongType = false;
if ("int".equalsIgnoreCase(dataType)) {
for (String s : resValArray) {
String st = s != null && s.length() > 0 ? s.trim() : "";
if (st.length() > 0) {
try {
Integer I = Integer.parseInt(st);
// but 2.3 is not integer
if (!I.toString().equals(st)) {
wrongType = true;
}
} catch (Exception e) {
wrongType = true;
}
}
}
if (wrongType) {
wrongType = false;
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_VALUES_column") + " " + resPageMsg.getString("should_be_integer") + " " + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + ",16", resPageMsg.getString("should_be_integer"));
}
} else if ("real".equalsIgnoreCase(dataType)) {
for (String s : resValArray) {
String st = s != null && s.length() > 0 ? s.trim() : "";
if (st.length() > 0) {
try {
Double I = Double.parseDouble(st);
} catch (Exception e) {
wrongType = true;
}
}
}
if (wrongType) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_VALUES_column") + " " + resPageMsg.getString("should_be_real") + " " + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",16", resPageMsg.getString("should_be_real"));
}
}
}
}
}
// DEFAULT_VALUE
// can be anything, tbh
//
// YW 08-02-2007 << in database, default_value has been
// set type as varchar(255);
// outside database, it's going to be tied with item's
// DATA_TYPE
// here, default_value has been handled for dataType =
// date
// default value
cell = sheet.getRow(k).getCell((short) 18);
item_from_row.setDefaultValue(getValue(cell));
item_from_row.verifyDefaultValue(row_items, errors, htmlErrors, j, resPageMsg);
default_value = item_from_row.getDefaultValue();
cellIndex = 19;
String widthDecimal = "";
logger.debug("hasWidthDecimalColumn=" + hasWDColumn);
if (hasWDColumn) {
++cellIndex;
cell = sheet.getRow(k).getCell((short) cellIndex);
widthDecimal = getValue(cell);
if (StringUtil.isBlank(widthDecimal)) {
widthDecimal = "";
} else {
if ("single-select".equalsIgnoreCase(responseType) || "multi-select".equalsIgnoreCase(responseType) || "radio".equalsIgnoreCase(responseType) || "checkbox".equalsIgnoreCase(responseType)) {
errors.add(resPageMsg.getString("error_message_for_width_decimal_at") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ":" + " " + resPageMsg.getString("width_decimal_unavailable_for_single_multi_checkbox_radio"));
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_FIELD"));
} else {
StringBuffer message = new StringBuffer();
boolean isCalc = responseTypeId == 8 || responseTypeId == 9 ? true : false;
message = Validator.validateWidthDecimalSetting(widthDecimal, dataType, isCalc, this.locale);
if (message.length() > 0) {
errors.add(resPageMsg.getString("error_message_for_width_decimal_at") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ":" + " " + message);
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_FIELD"));
}
}
}
}
++cellIndex;
cell = sheet.getRow(k).getCell((short) cellIndex);
String regexp = getValue(cell);
String regexp1 = "";
if (!StringUtil.isBlank(regexp)) {
// parse the string and get reg exp eg. regexp:
// /[0-9]*/
regexp1 = regexp.trim();
if (regexp1.startsWith("regexp:")) {
String finalRegexp = regexp1.substring(7).trim();
// logger.debug("reg:" + finalRegexp);
if (finalRegexp.contains("\\\\")) {
// \\ in the regular expression it should
// not be allowed
// errors.add("The VALIDATION column has an
// invalid regular expression at row " + k
// + ", Items worksheet. Regular expression
// contained '\\\\', it should only contain
// one '\\'. ");
// htmlErrors.put(j + "," + k + ",21",
// "INVALID FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("VALIDATION_column") + " " + resPageMsg.getString("has_an_invalid_regular_expression_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot") + resPageMsg.getString("regular_expression_contained") + " '\\\\', " + resPageMsg.getString("it_should_only_contain_one") + "'\\'. ");
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_FIELD"));
} else {
if (finalRegexp.startsWith("/") && finalRegexp.endsWith("/")) {
finalRegexp = finalRegexp.substring(1, finalRegexp.length() - 1);
try {
Pattern p = Pattern.compile(finalRegexp);
// YW 11-21-2007 << add another \ if
// there is \ in regexp
char[] chars = regexp1.toCharArray();
regexp1 = "";
for (char c : chars) {
if (c == '\\' && !dbName.equals("oracle")) {
regexp1 += c + "\\";
} else {
regexp1 += c;
}
}
// YW >>
} catch (PatternSyntaxException pse) {
// errors.add("The VALIDATION column
// has an invalid regular expression
// at row " + k
// + ", Items worksheet. Example:
// regexp: /[0-9]*/ ");
// htmlErrors.put(j + "," + k +
// ",21", "INVALID FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("VALIDATION_column") + resPageMsg.getString("has_an_invalid_regular_expression_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot") + resPageMsg.getString("Example") + " regexp: /[0-9]*/ ");
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_FIELD"));
}
} else {
// errors.add("The VALIDATION column has
// an invalid regular expression at row
// " + k
// + ", Items worksheet. Example:
// regexp: /[0-9]*/ ");
// htmlErrors.put(j + "," + k + ",21",
// "INVALID FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("VALIDATION_column") + resPageMsg.getString("has_an_invalid_regular_expression_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot") + " " + resPageMsg.getString("Example") + " regexp: /[0-9]*/ ");
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_FIELD"));
}
}
} else if (regexp1.startsWith("func:")) {
boolean isProperFunction = false;
try {
Validator.processCRFValidationFunction(regexp1);
isProperFunction = true;
} catch (Exception e) {
// errors.add(e.getMessage() + ", at row " +
// k
// + ", Items worksheet." );
// htmlErrors.put(j + "," + k + ",21",
// "INVALID FIELD");
errors.add(e.getMessage() + ", " + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_FIELD"));
}
} else {
// errors.add("The VALIDATION column was invalid
// at row " + k
// + ", Items worksheet. ");
// htmlErrors.put(j + "," + k + ",21", "INVALID
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("VALIDATION_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot"));
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_FIELD"));
}
}
++cellIndex;
cell = sheet.getRow(k).getCell((short) cellIndex);
String regexpError = getValue(cell);
regexpError = regexpError.replaceAll("<[^>]*>", "");
if (!StringUtil.isBlank(regexp) && StringUtil.isBlank(regexpError)) {
// errors.add("The VALIDATION_ERROR_MESSAGE column
// was blank at row " + k
// + ", Items worksheet. It cannot be blank if
// VALIDATION is not blank.");
// htmlErrors.put(j + "," + k + ",22", "REQUIRED
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("VALIDATION_ERROR_MESSAGE_column") + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot") + " " + resPageMsg.getString("cannot_be_blank_if_VALIDATION_not_blank"));
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("required_field"));
}
if (regexpError != null && regexpError.length() > 255) {
errors.add(resPageMsg.getString("regexp_errror_length_error"));
}
++cellIndex;
boolean phiBoolean = false;
cell = sheet.getRow(k).getCell((short) cellIndex);
String phi = getValue(cell);
// logger.debug("++ phi: "+getValue(cell));
if (StringUtil.isBlank(phi)) {
phi = "0";
} else // 06/07
if (cell.getCellType() == HSSFCell.CELL_TYPE_NUMERIC) {
double dphi = cell.getNumericCellValue();
if ((dphi - (int) dphi) * 1000 == 0) {
phi = (int) dphi + "";
}
}
if (!"0".equals(phi) && !"1".equals(phi)) {
// errors.add("The PHI column was invalid at row " +
// k
// + ", Items worksheet. PHI can only be either 0 or
// 1.");
// htmlErrors.put(j + "," + k + ",23", "INVALID
// VALUE");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("PHI_column") + resPageMsg.getString("was_invalid_at_row") + k + ", " + resPageMsg.getString("items_worksheet_with_dot") + resPageMsg.getString("PHI_column") + " " + resPageMsg.getString("can_only_be_either_0_or_1"));
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_VALUE"));
} else {
phiBoolean = "1".equals(phi) ? true : false;
}
++cellIndex;
boolean isRequired = false;
cell = sheet.getRow(k).getCell((short) cellIndex);
String required = getValue(cell);
// added to stop NPEs, tbh 06/04/2007
if (StringUtil.isBlank(required)) {
required = "0";
} else if (cell.getCellType() == HSSFCell.CELL_TYPE_NUMERIC) {
double dr = cell.getNumericCellValue();
if ((dr - (int) dr) * 1000 == 0) {
required = (int) dr + "";
}
}
if (!"0".equals(required) && !"1".equals(required)) {
// errors.add("The REQUIRED column was invalid at
// row " + k
// + ", Items worksheet. REQUIRED can only be either
// 0 or 1. ");
// htmlErrors.put(j + "," + k + ",24", "INVALID
// VALUE");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("REQUIRED_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot") + resPageMsg.getString("REQUIRED_column") + resPageMsg.getString("can_only_be_either_0_or_1"));
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_VALUE"));
} else {
isRequired = "1".equals(required) ? true : false;
}
// >> tbh 02/04/2010 adding this column for Dynamics
++cellIndex;
boolean isShowItem = true;
// default is true
cell = sheet.getRow(k).getCell((short) cellIndex);
String showItem = getValue(cell);
if (!StringUtil.isBlank(showItem)) {
isShowItem = "0".equals(showItem) ? false : true;
isShowItem = "Hide".equalsIgnoreCase(showItem) ? false : true;
// supporting both, tbh 03/2010
}
++cellIndex;
cell = sheet.getRow(k).getCell((short) cellIndex);
String display = getValue(cell);
String controlItemName = "", optionValue = "", message = "";
if (!StringUtil.isBlank(display)) {
if (isShowItem != false) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("ITEM_DISPLAY_STATUS_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot") + resPageMsg.getString("should_be_hide_for_scd"));
htmlErrors.put(j + "," + k + "," + (cellIndex - 1), resPageMsg.getString("INVALID_VALUE"));
}
String pvKey = secName + "---";
String d = display.replaceAll("\\\\,", "##");
String[] par = d.split(",");
// validate availability of item_label
if (par.length == 3) {
String p0 = par[0].trim();
String p1 = par[1].trim();
String p2 = par[2].trim();
if (p0.length() > 0 && p1.length() > 0 && p2.length() > 0) {
if (SpreadSheetItemUtil.isItemWithSameParameterExistsIncludingMyself(p0, row_items)) {
controlItemName = p0;
optionValue = p1;
message = p2;
pvKey += p0;
if (controlValues.containsKey(pvKey)) {
String[] pvs = controlValues.get(pvKey);
boolean existing = false;
for (String s : pvs) {
if (s.trim().equals(p1)) {
existing = true;
break;
}
}
if (!existing) {
optionValue = "";
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SIMPLE_CONDITIONAL_DISPLAY_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot") + resPageMsg.getString("control_response_value_invalid") + " " + p1.replace("##", "\\\\,"));
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_VALUE"));
}
}
} else {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SIMPLE_CONDITIONAL_DISPLAY_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot") + resPageMsg.getString("control_item_name_invalid") + " " + p0);
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_VALUE"));
}
} else {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SIMPLE_CONDITIONAL_DISPLAY_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot") + resPageMsg.getString("correct_pattern"));
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_VALUE"));
}
} else {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SIMPLE_CONDITIONAL_DISPLAY_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet_with_dot") + resPageMsg.getString("correct_pattern"));
htmlErrors.put(j + "," + k + "," + cellIndex, resPageMsg.getString("INVALID_VALUE"));
}
}
// Create oid for Item Bean
String itemOid = idao.getValidOid(new ItemBean(), crfName, itemName, itemOids);
itemOids.add(itemOid);
// better spot for checking item might be right here,
// tbh 7-25
String vlSql = "";
if (dbName.equals("oracle")) {
/* vlSql =
"INSERT INTO ITEM (NAME,DESCRIPTION,UNITS,PHI_STATUS,"
+ "ITEM_DATA_TYPE_ID, ITEM_REFERENCE_TYPE_ID,STATUS_ID,OWNER_ID,DATE_CREATED,OC_OID) " + "VALUES ('"
+ stripQuotes(itemName) + "','" + stripQuotes(descLabel) + "','" + stripQuotes(unit) + "'," + (phiBoolean == true ? 1 : 0)
+ "," + dataTypeIdString + ",1,1," + ub.getId() + ", sysdate" + ",'" + itemOid + "')";*/
vlSql = "INSERT INTO ITEM (NAME,DESCRIPTION,UNITS,PHI_STATUS," + "ITEM_DATA_TYPE_ID, ITEM_REFERENCE_TYPE_ID,STATUS_ID,OWNER_ID,DATE_CREATED,OC_OID) " + "VALUES (?,?,?," + (phiBoolean == true ? 1 : 0) + "," + dataTypeIdString + ",1,1," + ub.getId() + ", sysdate" + ",?)";
} else {
vlSql = "INSERT INTO ITEM (NAME,DESCRIPTION,UNITS,PHI_STATUS," + "ITEM_DATA_TYPE_ID, ITEM_REFERENCE_TYPE_ID,STATUS_ID,OWNER_ID,DATE_CREATED,OC_OID) " + "VALUES (?,?,?," + phiBoolean + "," + dataTypeIdString + ",1,1," + ub.getId() + ", NOW()" + ",?)";
}
// backupItemQueries.put(itemName, vlSql);
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
QueryObject qo = new QueryObject();
sqlParameters.add(new SqlParameter(itemName));
sqlParameters.add(new SqlParameter(descLabel));
sqlParameters.add(new SqlParameter(unit));
sqlParameters.add(new SqlParameter(itemOid));
qo = new QueryObject();
qo.setSql(vlSql);
qo.setSqlParameters(sqlParameters);
backupItemQueries.put(itemName, qo);
// to compare items from DB later, if two items have the
// same name,
// but different units or phiStatus, they are different
ItemBean ib = new ItemBean();
ib.setName(itemName);
ib.setUnits(unit);
ib.setPhiStatus(phiBoolean);
ib.setDescription(descLabel);
ib.setDataType(ItemDataType.getByName(dataType.toLowerCase()));
// put metadata into item
ResponseSetBean rsb = new ResponseSetBean();
// notice that still "\\," in options - jxu-08-31-06
String updatedResOptions = resOptions.replaceAll("\\\\,", "\\,");
String updatedResValues = resValues.replaceAll("\\\\,", "\\,");
// following rsb used in isResponseValid in CreateCRFVersionServlet for comparing response
// options text and values between form versions. Please keep as is. - Z 19-Jun-2020
rsb.setOptions(stripQuotes(updatedResOptions), stripQuotes(updatedResValues));
ItemFormMetadataBean ifmb = new ItemFormMetadataBean();
ifmb.setResponseSet(rsb);
ifmb.setShowItem(isShowItem);
ib.setItemMeta(ifmb);
items.put(itemName, ib);
int ownerId = ub.getId();
if (!itemCheck.containsKey(itemName)) {
// item not in
// the DB
// openQueries.put(itemName, vlSql);
openQueries.put(itemName, qo);
} else {
// item in the DB
ItemBean oldItem = (ItemBean) idao.findByNameAndCRFId(itemName, crfId);
if (oldItem.getOwnerId() == ub.getId()) {
// update
if (!cvdao.hasItemData(oldItem.getId())) {
// no
// item
// data
String upSql = "";
if (dbName.equals("oracle")) {
upSql = "UPDATE ITEM SET DESCRIPTION=?,UNITS=?," + "PHI_STATUS=" + (phiBoolean ? 1 : 0) + "," + "ITEM_DATA_TYPE_ID=" + dataTypeIdString + " WHERE exists (SELECT versioning_map.item_id from versioning_map, crf_version where" + " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id= " + crfId + " AND item.item_id = versioning_map.item_id)" + " AND item.name=? " + " AND item.owner_id = ?";
} else {
upSql = "UPDATE ITEM SET DESCRIPTION=?,UNITS=?," + "PHI_STATUS=" + phiBoolean + "," + "ITEM_DATA_TYPE_ID=" + dataTypeIdString + // the missing from clause bug
" FROM versioning_map, crf_version" + " WHERE item.name=? AND item.owner_id =? " + " AND item.item_id = versioning_map.item_id AND" + " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id = " + crfId;
}
// end of if dbName
// openQueries.put(itemName, upSql);
sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(descLabel));
sqlParameters.add(new SqlParameter(unit));
sqlParameters.add(new SqlParameter(itemName));
sqlParameters.add(new SqlParameter(ownerId + "", JDBCType.INTEGER));
qo = new QueryObject();
qo.setSql(upSql);
qo.setSqlParameters(sqlParameters);
openQueries.put(itemName, qo);
} else {
String upSql = "";
if (// New Feature allow date to pdate even if the data is entered
oldItem.getDataType() == oldItem.getDataType().DATE && ib.getDataType() == ib.getDataType().PDATE) {
if (dbName.equals("oracle")) {
/*upSql =
"UPDATE ITEM SET DESCRIPTION='" + stripQuotes(descLabel)
+ "',PHI_STATUS=" + (phiBoolean ? 1 : 0) + "," + "ITEM_DATA_TYPE_ID=" + dataTypeIdString
+ " WHERE exists (SELECT versioning_map.item_id from versioning_map, crf_version where"
+ " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id= " + crfId
+ " AND item.item_id = versioning_map.item_id)" + " AND item.name='" + stripQuotes(itemName)
+ "' AND item.owner_id = " + ownerId;*/
upSql = "UPDATE ITEM SET DESCRIPTION=? " + ",PHI_STATUS=" + (phiBoolean ? 1 : 0) + "," + "ITEM_DATA_TYPE_ID=" + dataTypeIdString + " WHERE exists (SELECT versioning_map.item_id from versioning_map, crf_version where" + " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id= " + crfId + " AND item.item_id = versioning_map.item_id)" + " AND item.name=? " + " AND item.owner_id = ?";
} else {
/* upSql =
"UPDATE ITEM SET DESCRIPTION='" + stripQuotes(descLabel)
+ "',PHI_STATUS=" + phiBoolean
+ ","
+ "ITEM_DATA_TYPE_ID="
+ dataTypeIdString
+ " FROM versioning_map, crf_version" + " WHERE item.name='" + stripQuotes(itemName) + "' AND item.owner_id = "
+ ownerId + " AND item.item_id = versioning_map.item_id AND"
+ " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id = " + crfId;*/
upSql = "UPDATE ITEM SET DESCRIPTION=? " + ",PHI_STATUS=" + phiBoolean + "," + "ITEM_DATA_TYPE_ID=" + dataTypeIdString + " FROM versioning_map, crf_version" + " WHERE item.name=? AND item.owner_id =? " + " AND item.item_id = versioning_map.item_id AND" + " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id = " + crfId;
}
// end of if dbName
sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(descLabel));
sqlParameters.add(new SqlParameter(itemName));
sqlParameters.add(new SqlParameter(ownerId + "", JDBCType.INTEGER));
qo = new QueryObject();
qo.setSql(upSql);
qo.setSqlParameters(sqlParameters);
} else {
if (dbName.equals("oracle")) {
/* upSql =
"UPDATE ITEM SET DESCRIPTION='" + stripQuotes(descLabel) + "'," + "PHI_STATUS=" + (phiBoolean ? 1 : 0)
+ " WHERE exists (SELECT versioning_map.item_id from versioning_map, crf_version where"
+ " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id= " + crfId
+ " AND item.item_id = versioning_map.item_id)" + " AND item.name='" + stripQuotes(itemName)
+ "' AND item.owner_id = " + ownerId;*/
upSql = "UPDATE ITEM SET DESCRIPTION=?,PHI_STATUS=" + (phiBoolean ? 1 : 0) + " WHERE exists (SELECT versioning_map.item_id from versioning_map, crf_version where" + " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id= " + crfId + " AND item.item_id = versioning_map.item_id)" + " AND item.name=? " + " AND item.owner_id = ?";
} else {
/* upSql =
"UPDATE ITEM SET DESCRIPTION='" + stripQuotes(descLabel) + "'," + "PHI_STATUS=" + phiBoolean
+ " FROM versioning_map, crf_version" + " WHERE item.name='" + stripQuotes(itemName) + "' AND item.owner_id = "
+ ownerId + " AND item.item_id = versioning_map.item_id AND"
+ " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id = " + crfId;*/
upSql = "UPDATE ITEM SET DESCRIPTION=?,PHI_STATUS=" + phiBoolean + " FROM versioning_map, crf_version" + " WHERE item.name=? AND item.owner_id =? " + " AND item.item_id = versioning_map.item_id AND" + " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id = " + crfId;
}
// end of if dbName
sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(descLabel));
sqlParameters.add(new SqlParameter(itemName));
sqlParameters.add(new SqlParameter(ownerId + "", JDBCType.INTEGER));
qo = new QueryObject();
qo.setSql(upSql);
qo.setSqlParameters(sqlParameters);
}
openQueries.put(itemName, qo);
}
} else {
ownerId = oldItem.getOwner().getId();
}
}
String sql = "";
sqlParameters = new ArrayList<>();
if (dbName.equals("oracle")) {
/*sql =
"INSERT INTO RESPONSE_SET (LABEL, OPTIONS_TEXT, OPTIONS_VALUES, " + "RESPONSE_TYPE_ID, VERSION_ID)" + " VALUES ('"
+ stripQuotes(responseLabel) + "', '" + stripQuotes(resOptions.replaceAll("\\\\,", "\\,")) + "','"
+ stripQuotes(resValues.replace("\\\\", "\\")) + "'," + "(SELECT RESPONSE_TYPE_ID From RESPONSE_TYPE Where NAME='"
+ stripQuotes(responseType.toLowerCase()) + "')," + versionIdString + ")";*/
sql = "INSERT INTO RESPONSE_SET (LABEL, OPTIONS_TEXT, OPTIONS_VALUES, RESPONSE_TYPE_ID, VERSION_ID)" + " VALUES (?, ?, ?,(SELECT RESPONSE_TYPE_ID From RESPONSE_TYPE Where NAME=?)," + versionIdString + ")";
sqlParameters.add(new SqlParameter(responseLabel));
sqlParameters.add(new SqlParameter(resOptions.replaceAll("\\\\,", "\\,")));
sqlParameters.add(new SqlParameter(resValues.replace("\\\\", "\\")));
sqlParameters.add(new SqlParameter(responseType.toLowerCase()));
} else {
/*sql =
"INSERT INTO RESPONSE_SET (LABEL, OPTIONS_TEXT, OPTIONS_VALUES, " + "RESPONSE_TYPE_ID, VERSION_ID)" + " VALUES ('"
+ stripQuotes(responseLabel) + "', E'" + stripQuotes(resOptions) + "', E'" + stripQuotes(resValues) + "',"
+ "(SELECT RESPONSE_TYPE_ID From RESPONSE_TYPE Where NAME='" + stripQuotes(responseType.toLowerCase()) + "'),"
+ versionIdString + ")";*/
sql = "INSERT INTO RESPONSE_SET (LABEL, OPTIONS_TEXT, OPTIONS_VALUES, RESPONSE_TYPE_ID, VERSION_ID)" + " VALUES (?, ?, ?,(SELECT RESPONSE_TYPE_ID From RESPONSE_TYPE Where NAME=?)," + versionIdString + ")";
sqlParameters.add(new SqlParameter(responseLabel));
sqlParameters.add(new SqlParameter(updatedResOptions));
sqlParameters.add(new SqlParameter(updatedResValues));
sqlParameters.add(new SqlParameter(responseType.toLowerCase()));
}
// one response type
if (!resPairs.contains(responseLabel.toString().toLowerCase() + "_" + responseType.toString().toLowerCase())) {
// YW >>
if (!resNames.contains(responseLabel)) {
// queries.add(sql);
qo = new QueryObject();
qo.setSql(sql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
resNames.add(responseLabel);
} else // this will have to change since we have some data
// in the actual
// spreadsheet
// change it to caching response set names in a
// collection?
// or just delete the offending cells from the
// spreadsheet?
// YW <<
{
errors.add("Error found at row \"" + (k + 1) + "\" in items worksheet. ResponseLabel \"" + responseLabel + "\" for ResponseType \"" + responseType + "\" has been used for another ResponseType. ");
htmlErrors.put(j + "," + k + ",14", "INVALID FIELD");
}
resPairs.add(responseLabel.toString().toLowerCase() + "_" + responseType.toString().toLowerCase());
// YW >>
}
String parentItemString = "0";
if (!StringUtil.isBlank(parentItem)) {
if (dbName.equals("oracle")) {
parentItemString = "(SELECT MAX(ITEM_ID) FROM ITEM WHERE NAME='" + parentItem + "' AND owner_id = " + ownerId + " )";
} else {
parentItemString = "(SELECT ITEM_ID FROM ITEM WHERE NAME='" + parentItem + "' AND owner_id = " + ownerId + " ORDER BY OC_OID DESC LIMIT 1)";
}
}
String selectCorrectItemQueryPostgres = " (SELECT I.ITEM_ID FROM ITEM I LEFT OUTER JOIN ITEM_FORM_METADATA IFM ON I.ITEM_Id = IFM.ITEM_ID LEFT OUTER JOIN CRF_VERSION CV ON IFM.CRF_VERSION_ID = CV.CRF_VERSION_ID WHERE " + " ( I.NAME='" + itemName + "'" + " AND I.owner_id = " + ownerId + " AND CV.CRF_VERSION_ID is null )" + " OR " + " ( I.NAME='" + itemName + "'" + " AND I.owner_id = " + ownerId + " AND CV.CRF_VERSION_ID is not null AND CV.CRF_ID =" + crfId + " ) " + " ORDER BY I.OC_OID DESC LIMIT 1) ";
String selectCorrectItemQueryOracle = " (SELECT MAX(I.ITEM_ID) FROM ITEM I LEFT OUTER JOIN ITEM_FORM_METADATA IFM ON I.ITEM_Id = IFM.ITEM_ID LEFT OUTER JOIN CRF_VERSION CV ON IFM.CRF_VERSION_ID = CV.CRF_VERSION_ID WHERE " + " ( I.NAME='" + itemName + "'" + " AND I.owner_id = " + ownerId + " AND CV.CRF_VERSION_ID is null )" + " OR " + " ( I.NAME='" + itemName + "'" + " AND I.owner_id = " + ownerId + " AND CV.CRF_VERSION_ID is not null AND CV.CRF_ID =" + crfId + " )) ";
String sql2 = "";
sqlParameters = new ArrayList<>();
if (dbName.equals("oracle")) {
/*sql2 =
"INSERT INTO ITEM_FORM_METADATA (CRF_VERSION_ID, RESPONSE_SET_ID," + "ITEM_ID,SUBHEADER,HEADER,LEFT_ITEM_TEXT,"
+ "RIGHT_ITEM_TEXT,PARENT_ID,SECTION_ID,ORDINAL,PARENT_LABEL,COLUMN_NUMBER,PAGE_NUMBER_LABEL,question_number_label,"
+ "REGEXP,REGEXP_ERROR_MSG,REQUIRED,DEFAULT_VALUE,RESPONSE_LAYOUT,WIDTH_DECIMAL, show_item)" + " VALUES ("
+ versionIdString
+ ",(SELECT RESPONSE_SET_ID FROM RESPONSE_SET WHERE LABEL='"
+ stripQuotes(responseLabel)
+ "'"
+ " AND VERSION_ID="
+ versionIdString
+ "),"
+ selectCorrectItemQueryOracle
+ ",'"
+ stripQuotes(subHeader)
+ "','"
+ stripQuotes(header)
+ "','"
+ stripQuotes(leftItemText)
+ "','"
+ stripQuotes(rightItemText)
+ "',"
+ parentItemString
+ ", (SELECT SECTION_ID FROM SECTION WHERE LABEL='"
+ secName
+ "' AND "
+ "CRF_VERSION_ID IN "
+ versionIdString
+ "), "
+ k
+ ",'"
+ parentItem
+ "',"
+ columnNum
+ ",'"
+ stripQuotes(page)
+ "','"
+ stripQuotes(questionNum)
+ "','"
+ stripQuotes(regexp1)
+ "','"
+ stripQuotes(regexpError)
+ "', "
+ (isRequired ? 1 : 0)
+ ", '"
+ stripQuotes(default_value)
+ "','"
+ stripQuotes(responseLayout)
+ "','"
+ widthDecimal
+ "', "
+ (isShowItem ? 1 : 0)
+ ")";*/
sql2 = "INSERT INTO ITEM_FORM_METADATA (CRF_VERSION_ID, RESPONSE_SET_ID," + "ITEM_ID,SUBHEADER,header,LEFT_ITEM_TEXT," + "RIGHT_ITEM_TEXT,PARENT_ID,SECTION_ID,ORDINAL,PARENT_LABEL,COLUMN_NUMBER,PAGE_NUMBER_LABEL,question_number_label," + "REGEXP,REGEXP_ERROR_MSG,REQUIRED)" + " VALUES (" + versionIdString + ",(SELECT RESPONSE_SET_ID FROM RESPONSE_SET WHERE LABEL=?" + " AND VERSION_ID=" + versionIdString + ")," + selectCorrectItemQueryOracle + // subheader, header, leftItemText, rightItemText
",?, ?, ?, ?," + parentItemString + ", (SELECT SECTION_ID FROM SECTION WHERE LABEL='" + secName + "' AND " + "CRF_VERSION_ID IN " + versionIdString + "), " + k + ",'" + parentItem + "'," + columnNum + // page, questionNum, regexp1, regexpError
",?,?,?,?, " + (isRequired ? 1 : 0) + ",?,?,'" + widthDecimal + // default_value, responseLayout
"', " + (isShowItem ? 1 : 0) + ")";
} else {
/*sql2 =
"INSERT INTO ITEM_FORM_METADATA (CRF_VERSION_ID, RESPONSE_SET_ID," + "ITEM_ID,SUBHEADER,HEADER,LEFT_ITEM_TEXT,"
+ "RIGHT_ITEM_TEXT,PARENT_ID,SECTION_ID,ORDINAL,PARENT_LABEL,COLUMN_NUMBER,PAGE_NUMBER_LABEL,question_number_label,"
+ "REGEXP,REGEXP_ERROR_MSG,REQUIRED,DEFAULT_VALUE,RESPONSE_LAYOUT,WIDTH_DECIMAL, show_item)" + " VALUES ("
+ versionIdString
+ ",(SELECT RESPONSE_SET_ID FROM RESPONSE_SET WHERE LABEL='"
+ stripQuotes(responseLabel)
+ "'"
+ " AND VERSION_ID="
+ versionIdString
+ "),"
+ selectCorrectItemQueryPostgres
+ ",'"
+ stripQuotes(subHeader)
+ "','"
+ stripQuotes(header)
+ "','"
+ stripQuotes(leftItemText)
+ "','"
+ stripQuotes(rightItemText)
+ "',"
+ parentItemString
+ ", (SELECT SECTION_ID FROM SECTION WHERE LABEL='"
+ secName
+ "' AND "
+ "CRF_VERSION_ID IN "
+ versionIdString
+ "), "
+ k
+ ",'"
+ parentItem
+ "',"
+ columnNum
+ ",'"
+ stripQuotes(page)
+ "','"
+ stripQuotes(questionNum)
+ "','"
+ stripQuotes(regexp1)
+ "','"
+ stripQuotes(regexpError)
+ "', "
+ isRequired
+ ", '"
+ stripQuotes(default_value)
+ "','"
+ stripQuotes(responseLayout) + "','" + widthDecimal + "'," + isShowItem
+ ")";*/
sql2 = "INSERT INTO ITEM_FORM_METADATA (CRF_VERSION_ID, RESPONSE_SET_ID," + "ITEM_ID,SUBHEADER,HEADER,LEFT_ITEM_TEXT," + "RIGHT_ITEM_TEXT,PARENT_ID,SECTION_ID,ORDINAL,PARENT_LABEL,COLUMN_NUMBER,PAGE_NUMBER_LABEL,question_number_label," + "REGEXP,REGEXP_ERROR_MSG,REQUIRED,DEFAULT_VALUE,RESPONSE_LAYOUT,WIDTH_DECIMAL, show_item)" + " VALUES (" + versionIdString + // responseLabel
",(SELECT RESPONSE_SET_ID FROM RESPONSE_SET WHERE LABEL=?" + " AND VERSION_ID=" + versionIdString + ")," + selectCorrectItemQueryPostgres + // subheader, header, leftItemText, rightItemText
",?, ?, ?, ?, " + parentItemString + ", (SELECT SECTION_ID FROM SECTION WHERE LABEL='" + secName + "' AND " + "CRF_VERSION_ID IN " + versionIdString + "), " + k + ",'" + parentItem + "'," + columnNum + // page, questionNum, regexp1, regexpError
",?,?,?,?," + isRequired + // default_value, responseLayout
",?,?,'" + widthDecimal + "'," + isShowItem + ")";
}
// queries.add(sql2);
sqlParameters.add(new SqlParameter(responseLabel));
sqlParameters.add(new SqlParameter(subHeader));
sqlParameters.add(new SqlParameter(header));
sqlParameters.add(new SqlParameter(leftItemText));
sqlParameters.add(new SqlParameter(rightItemText));
sqlParameters.add(new SqlParameter(page));
sqlParameters.add(new SqlParameter(questionNum));
sqlParameters.add(new SqlParameter(regexp1));
sqlParameters.add(new SqlParameter(regexpError));
sqlParameters.add(new SqlParameter(default_value));
sqlParameters.add(new SqlParameter(responseLayout));
qo = new QueryObject();
qo.setSql(sql2);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
// link version with items now
String sql3 = "";
if (dbName.equals("oracle")) {
/*sql3 =
"INSERT INTO VERSIONING_MAP (CRF_VERSION_ID, ITEM_ID) VALUES ( " + versionIdString + "," + selectCorrectItemQueryOracle + ")";*/
sql3 = "INSERT INTO VERSIONING_MAP (CRF_VERSION_ID, ITEM_ID) VALUES ( " + versionIdStringWithParameter + "," + selectCorrectItemQueryOracle + ")";
} else {
/*sql3 =
"INSERT INTO VERSIONING_MAP (CRF_VERSION_ID, ITEM_ID) VALUES ( " + versionIdString + "," + selectCorrectItemQueryPostgres + ")";*/
sql3 = "INSERT INTO VERSIONING_MAP (CRF_VERSION_ID, ITEM_ID) VALUES ( " + versionIdStringWithParameter + "," + selectCorrectItemQueryPostgres + ")";
}
// queries.add(sql3);
sqlParameters = new ArrayList<>();
// in versionIdStringWithParameter there is one parameter:crfId
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
qo = new QueryObject();
qo.setSql(sql3);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
String sql2_1 = "";
if (display.length() > 0) {
if (controlItemName.length() > 0 && optionValue.length() > 0 && message.length() > 0) {
/* if (dbName.equals("oracle")) {
sql2_1 = "insert into scd_item_metadata (scd_item_form_metadata_id,control_item_form_metadata_id,control_item_name,"
+ "option_value,message) values("
+ "(select max(ifm.item_form_metadata_id) from item_form_metadata ifm where ifm.item_id=" + selectCorrectItemQueryOracle
+ "and ifm.show_item=0 ),"
+ "(select cifm.item_form_metadata_id from item, item_form_metadata cifm"
+ " where cifm.crf_version_id = " + versionIdString
+ " and item.item_id = (select it.item_id from item it, versioning_map vm where it.name = '" + controlItemName +"'"
+ " and vm.crf_version_id = " + versionIdString + " and vm.item_id = it.item_id)"
+ " and cifm.item_id = item.item_id), "
+ "'" + controlItemName + "', '" + stripQuotes(optionValue) + "', '" + stripQuotes(message) + "'"
+ ")";*/
if (dbName.equals("oracle")) {
sql2_1 = "insert into scd_item_metadata (scd_item_form_metadata_id,control_item_form_metadata_id,control_item_name," + "option_value,message) values(" + "(select max(ifm.item_form_metadata_id) from item_form_metadata ifm where ifm.item_id=" + selectCorrectItemQueryOracle + "and ifm.show_item=0 )," + "(select cifm.item_form_metadata_id from item, item_form_metadata cifm" + " where cifm.crf_version_id = " + versionIdString + " and item.item_id = (select it.item_id from item it, versioning_map vm where it.name = '" + controlItemName + "'" + " and vm.crf_version_id = " + versionIdString + " and vm.item_id = it.item_id)" + " and cifm.item_id = item.item_id), " + "?,?,?" + ")";
} else {
/* sql2_1 = "insert into scd_item_metadata (scd_item_form_metadata_id,control_item_form_metadata_id,control_item_name,"
+ "option_value,message) values("
+ "(select max(ifm.item_form_metadata_id) from item_form_metadata ifm where ifm.item_id=" + selectCorrectItemQueryPostgres
+ "and ifm.show_item=false ),"
+ "(select cifm.item_form_metadata_id from item, item_form_metadata cifm"
+ " where cifm.crf_version_id = " + versionIdString
+ " and item.item_id = (select it.item_id from item it, versioning_map vm where it.name = '" + controlItemName +"'"
+ " and vm.crf_version_id = " + versionIdString + " and vm.item_id = it.item_id)"
+ " and cifm.item_id = item.item_id), "
+ "'" + controlItemName + "', '" + stripQuotes(optionValue) + "', '" + stripQuotes(message) + "'"
+ ")";*/
sql2_1 = "insert into scd_item_metadata (scd_item_form_metadata_id,control_item_form_metadata_id,control_item_name," + "option_value,message) values(" + "(select max(ifm.item_form_metadata_id) from item_form_metadata ifm where ifm.item_id=" + selectCorrectItemQueryPostgres + "and ifm.show_item=false )," + "(select cifm.item_form_metadata_id from item, item_form_metadata cifm" + " where cifm.crf_version_id = " + versionIdString + " and item.item_id = (select it.item_id from item it, versioning_map vm where it.name = '" + controlItemName + "'" + " and vm.crf_version_id = " + versionIdString + " and vm.item_id = it.item_id)" + " and cifm.item_id = item.item_id), " + "?,?,?" + ")";
}
// queries.add(sql2_1);
sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(controlItemName));
sqlParameters.add(new SqlParameter(optionValue));
sqlParameters.add(new SqlParameter(message));
qo = new QueryObject();
qo.setSql(sql2_1);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
} else {
logger.debug("No insert into scd_item_metadata for item name = " + itemName + "with Simple_Conditional_Display = \"" + display + "\".");
}
}
// }
if (!StringUtil.isBlank(groupLabel)) {
ItemGroupBean itemGroup;
ItemGroupMetadataBean igMeta;
igMeta = new ItemGroupMetadataBean();
itemGroup = new ItemGroupBean();
try {
logger.debug("found " + groupLabel);
itemGroup = (ItemGroupBean) itemGroups.get(groupLabel);
logger.debug("*** Found " + groupLabel + " and matched with " + itemGroup.getName());
// if(itemGroup != null){
igMeta = itemGroup.getMeta();
if (igMeta == null) {
igMeta = new ItemGroupMetadataBean();
}
// above throws Nullpointer, need to change so
// that it does not, tbh 07-08-07
String sqlGroupLabel = "";
if (dbName.equals("oracle")) {
sqlGroupLabel = "INSERT INTO ITEM_GROUP_METADATA (" + "item_group_id,HEADER," + "subheader, layout, repeat_number, repeat_max," + " repeat_array,row_start_number, crf_version_id," + "item_id , ordinal, show_group, repeating_group) VALUES (" + "(SELECT MAX(ITEM_GROUP_ID) FROM ITEM_GROUP WHERE NAME='" + itemGroup.getName() + "' AND crf_id = " + crfId + " ),'" + igMeta.getHeader() + "', '" + igMeta.getSubheader() + "', '" + // above removed?
igMeta.getLayout() + "', " + // above removed?
igMeta.getRepeatNum() + ", " + igMeta.getRepeatMax() + ", '" + igMeta.getRepeatArray() + "', " + // above removed?
igMeta.getRowStartNumber() + ",?" + "," + "(SELECT MAX(ITEM.ITEM_ID) FROM ITEM,ITEM_FORM_METADATA,CRF_VERSION WHERE ITEM.NAME='" + itemName + "' " + "AND ITEM.ITEM_ID = ITEM_FORM_METADATA.ITEM_ID and ITEM_FORM_METADATA.CRF_VERSION_ID=CRF_VERSION.CRF_VERSION_ID " + "AND CRF_VERSION.CRF_ID= " + crfId + " )," + k + ", " + (igMeta.isShowGroup() ? 1 : 0) + ", " + (igMeta.isRepeatingGroup() ? 1 : 0) + ")";
} else {
sqlGroupLabel = "INSERT INTO ITEM_GROUP_METADATA (" + "item_group_id,header," + "subheader, layout, repeat_number, repeat_max," + " repeat_array,row_start_number, crf_version_id," + "item_id , ordinal, show_group, repeating_group) VALUES (" + "(SELECT ITEM_GROUP_ID FROM ITEM_GROUP WHERE NAME='" + itemGroup.getName() + "' AND crf_id = " + crfId + " LIMIT 1),E'" + igMeta.getHeader() + "', E'" + igMeta.getSubheader() + "', '" + // above removed?
igMeta.getLayout() + "', " + // above removed?
igMeta.getRepeatNum() + ", " + igMeta.getRepeatMax() + ", '" + igMeta.getRepeatArray() + "', " + // above removed?
igMeta.getRowStartNumber() + "," + versionIdStringWithParameter + "," + // LIMIT 1),"
"(SELECT ITEM.ITEM_ID FROM ITEM,ITEM_FORM_METADATA,CRF_VERSION WHERE ITEM.NAME='" + itemName + "' " + "AND ITEM.ITEM_ID = ITEM_FORM_METADATA.ITEM_ID and ITEM_FORM_METADATA.CRF_VERSION_ID=CRF_VERSION.CRF_VERSION_ID " + "AND CRF_VERSION.CRF_ID= " + crfId + " ORDER BY ITEM.OC_OID DESC LIMIT 1)," + k + ", " + igMeta.isShowGroup() + ", " + igMeta.isRepeatingGroup() + ")";
}
// queries.add(sqlGroupLabel);
sqlParameters = new ArrayList<>();
// in versionIdStringWithParameter there is one parameter:crfId
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
qo = new QueryObject();
qo.setSql(sqlGroupLabel);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
} catch (NullPointerException e) {
// Auto-generated catch block, added tbh 102007
logger.error("Error message", e);
errors.add(resPageMsg.getString("Error_found_at_row") + " \"" + (k + 1) + "\"" + resPageMsg.getString("items_worksheet_with_dot") + resPageMsg.getString("GROUP_LABEL") + "\"" + groupLabel + "\" " + resPageMsg.getString("does_not_exist_in_group_spreadsheet"));
htmlErrors.put(j + "," + k + ",6", resPageMsg.getString("GROUP_DOES_NOT_EXIST"));
}
} else {
String sqlGroupLabel = "";
if (dbName.equals("oracle")) {
sqlGroupLabel = "INSERT INTO ITEM_GROUP_METADATA (item_group_id,HEADER,subheader, layout, repeat_number, repeat_max," + " repeat_array,row_start_number, crf_version_id," + "item_id , ordinal, repeating_group) VALUES (" + "(SELECT MAX(ITEM_GROUP_ID) FROM ITEM_GROUP WHERE NAME='Ungrouped' AND crf_id = ? ),'" + "" + "', '" + "" + "', '" + "" + "', " + 1 + ", " + 1 + ", '', 1,?," + selectCorrectItemQueryOracle + "," + k + ", 0)";
} else {
sqlGroupLabel = "INSERT INTO ITEM_GROUP_METADATA (item_group_id,header,subheader, layout, repeat_number, repeat_max," + " repeat_array,row_start_number, crf_version_id," + "item_id , ordinal, repeating_group) VALUES (" + "(SELECT ITEM_GROUP_ID FROM ITEM_GROUP WHERE NAME='Ungrouped' AND crf_id = ?" + " LIMIT 1),'" + "" + "', '" + "" + "', '" + "" + "', " + 1 + ", " + 1 + ", '', 1," + versionIdString + "," + selectCorrectItemQueryPostgres + "," + k + ", false)";
}
// >>>>>>> .r10888
// queries.add(sqlGroupLabel);
sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
qo = new QueryObject();
qo.setSql(sqlGroupLabel);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
}
}
// **************************************
// above this is where we will add the first sql query for
// group names
// will have to be put in a seperate list
// and added at the end so that we insure
// that all new item_names and group_names have been added,
// tbh 5/14
// **************************************
// below is place where we will add the sheet name for
// Groups
// tbh, 5/14/2007
// DONE -- add sql insert queries below
// TODO review html error creation in table at end of file
// TODO find out where to add the form group beans
// TODO find out where to add the map beans
// we need to make sure groups sql are executed first,
// because item_group_id is
// used when we insert item group meta data with item
// validate that items of one group are not spread over several sections
SpreadSheetItemUtil.verifySectionGroupPlacementForItems(row_items, errors, htmlErrors, j, resPageMsg, itemGroups);
SpreadSheetItemUtil.verifyUniqueItemPlacementInGroups(row_items, errors, htmlErrors, j, resPageMsg, crfName, ds);
instantValidator.validate();
errors = (ArrayList<String>) instantValidator.getSheetErrors().addErrorsToSheet(errors);
htmlErrors = (HashMap<String, String>) instantValidator.getSheetErrors().putHtmlErrorsToSheet(htmlErrors);
} else if (sheetName.equalsIgnoreCase("Groups")) {
logger.debug("read groups, ***comment added 5.14.07");
ArrayList groupNames = new ArrayList();
// create a group - item relationship with this table? hmm
// they are in order: group_label, group_layout,
// group_header,
// group_sub_header, group_repeat_number, group_repeat_max,
// group_repeat_array
// so: seven rows
// let's insert the default group first
ItemGroupBean defaultGroup = new ItemGroupBean();
defaultGroup.setName("Ungrouped");
defaultGroup.setCrfId(crfId);
defaultGroup.setStatus(Status.AVAILABLE);
// Create oid for Item Group
String defaultGroupOid = itemGroupDao.getValidOid(defaultGroup, crfName, defaultGroup.getName(), itemGroupOids);
itemGroupOids.add(defaultGroupOid);
String defaultSql = "";
if (dbName.equals("oracle")) {
/* defaultSql =
"INSERT INTO ITEM_GROUP ( name, crf_id, status_id, date_created ,owner_id,oc_oid) VALUES ('" + defaultGroup.getName()
+ "', " + defaultGroup.getCrfId() + "," + defaultGroup.getStatus().getId() + ",sysdate," + ub.getId() + ",'"
+ defaultGroupOid + "')";*/
defaultSql = "INSERT INTO ITEM_GROUP ( name, crf_id, status_id, date_created ,owner_id,oc_oid)" + " VALUES (?, ?, ?,sysdate, ?, ?)";
} else {
/* defaultSql =
"INSERT INTO ITEM_GROUP ( name, crf_id, status_id, date_created ,owner_id,oc_oid) VALUES ('" + defaultGroup.getName()
+ "', " + defaultGroup.getCrfId() + "," + defaultGroup.getStatus().getId() + ",now()," + ub.getId() + ",'"
+ defaultGroupOid + "')";*/
defaultSql = "INSERT INTO ITEM_GROUP ( name, crf_id, status_id, date_created ,owner_id,oc_oid)" + " VALUES (?, ?, ?,now(), ?, ?)";
}
if (!GroupCheck.containsKey("Ungrouped")) {
// queries.add(defaultSql);
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(defaultGroup.getName()));
sqlParameters.add(new SqlParameter(defaultGroup.getCrfId().toString(), JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(defaultGroup.getStatus().getId() + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(ub.getId() + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(defaultGroupOid + ""));
QueryObject qo = new QueryObject();
qo.setSql(defaultSql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
}
for (int gk = 1; gk < numRows; gk++) {
if (sheet.getRow(gk) == null) {
blankRowCount++;
if (blankRowCount == 5) {
break;
}
continue;
}
HSSFCell cell = sheet.getRow(gk).getCell((short) 0);
String groupLabel = getValue(cell);
groupLabel = groupLabel.replaceAll("<[^>]*>", "");
if (StringUtil.isBlank(groupLabel)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("GROUP_LABEL_column") + resPageMsg.getString("was_blank_at_row") + " " + gk + ", " + resPageMsg.getString("Groups_worksheet") + ".");
htmlErrors.put(j + "," + gk + ",0", resPageMsg.getString("required_field"));
}
if (groupLabel != null && groupLabel.length() > 255) {
errors.add(resPageMsg.getString("group_label_length_error"));
}
// must these be unique? probably so, tbh
if (groupNames.contains(groupLabel)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("GROUP_LABEL_column") + resPageMsg.getString("was_a_duplicate_of") + " " + groupLabel + resPageMsg.getString("at_row") + gk + ", " + resPageMsg.getString("Groups_worksheet") + ".");
htmlErrors.put(j + "," + gk + ",0", resPageMsg.getString("DUPLICATE_FIELD"));
} else {
groupNames.add(groupLabel);
}
// removed reference to 'groupLayout' here, tbh 102007
boolean isRepeatingGroup = true;
boolean newVersionCrf = false;
int cellNo = 0;
if (!(versionNo.equalsIgnoreCase("Version: 2.2") || versionNo.equalsIgnoreCase("Version: 2.5") || versionNo.equalsIgnoreCase("Version: 3.0"))) {
cellNo = 1;
cell = sheet.getRow(gk).getCell((short) cellNo);
try {
isRepeatingGroup = getValue(cell).equalsIgnoreCase("grid");
newVersionCrf = true;
} catch (Exception eee) {
errors.add(resPageMsg.getString("repeating_group_error"));
}
}
cell = sheet.getRow(gk).getCell((short) ++cellNo);
String groupHeader = getValue(cell);
// replace any apostrophes in groupHeader: issue 3277
groupHeader = org.akaza.openclinica.core.form.StringUtil.escapeSingleQuote(groupHeader);
if (groupHeader != null && groupHeader.length() > 255) {
errors.add(resPageMsg.getString("group_header_length_error"));
}
if (isRepeatingGroup) {
sheetContainer.getRepeatingGroupLabels().add(groupLabel);
}
cell = sheet.getRow(gk).getCell((short) ++cellNo);
String groupRepeatNumber = getValue(cell);
// adding clause to convert to int, tbh, 06/07
if (newVersionCrf && !isRepeatingGroup && !StringUtil.isBlank(groupRepeatNumber)) {
errors.add(resPageMsg.getString("repeat_number_none_repeating"));
} else if (!isRepeatingGroup && StringUtil.isBlank(groupRepeatNumber)) {
groupRepeatNumber = "1";
} else {
if (StringUtil.isBlank(groupRepeatNumber)) {
groupRepeatNumber = "1";
} else if (cell.getCellType() == HSSFCell.CELL_TYPE_NUMERIC) {
double dr = cell.getNumericCellValue();
if ((dr - (int) dr) * 1000 == 0) {
groupRepeatNumber = (int) dr + "";
}
} else {
logger.debug("found a non-numeric code in a numeric field: groupRepeatNumber");
}
}
cell = sheet.getRow(gk).getCell((short) ++cellNo);
String groupRepeatMax = getValue(cell);
// adding clause to convert to int, tbh 06/07
if (newVersionCrf && !isRepeatingGroup && !StringUtil.isBlank(groupRepeatMax)) {
errors.add(resPageMsg.getString("repeat_max_none_repeating"));
} else if (!isRepeatingGroup && StringUtil.isBlank(groupRepeatMax)) {
groupRepeatMax = "1";
} else {
if (StringUtil.isBlank(groupRepeatMax)) {
// problem, tbh
groupRepeatMax = "40";
} else if (cell.getCellType() == HSSFCell.CELL_TYPE_NUMERIC) {
double dr = cell.getNumericCellValue();
if ((dr - (int) dr) * 1000 == 0) {
groupRepeatMax = (int) dr + "";
// check for zero value
try {
int repeatMaxInt = Integer.parseInt(groupRepeatMax);
if (repeatMaxInt < 1) {
groupRepeatMax = "40";
}
} catch (NumberFormatException nfe) {
groupRepeatMax = "40";
}
}
} else {
logger.debug("found a non-numeric code in a numeric field: groupRepeatMax");
}
}
// >> tbh 02/2010 adding show_hide for Dynamics
cell = sheet.getRow(gk).getCell((short) ++cellNo);
String showGroup = getValue(cell);
boolean isShowGroup = true;
if (!StringUtil.isBlank(showGroup)) {
try {
isShowGroup = "0".equals(showGroup) ? false : true;
isShowGroup = "Hide".equalsIgnoreCase(showGroup) ? false : true;
} catch (Exception eee) {
logger.debug("caught an exception with the boolean value for groups");
}
}
// if (!"1".equals(showGroup) && !"0".equals(showGroup)) {
// // throw an error here
// errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SHOW_GROUP_column") + " "
// + resPageMsg.getString("was_invalid_at_row") + " " + gk + ", " + resPageMsg.getString("Groups_worksheet") + ". "
// + resPageMsg.getString("SHOW_GROUP_column") + resPageMsg.getString("can_only_be_either_0_or_1"));
// htmlErrors.put(j + "," + gk + "," + 4, resPageMsg.getString("INVALID_VALUE"));
// }
// cell = sheet.getRow(gk).getCell((short) 6);
// String groupRepeatArray = getValue(cell);
// below added 06/14/2007, tbh
/*
* BWP>>commented out after removal of borders column
* cell = sheet.getRow(gk).getCell((short) 7); String
* groupBorders = getValue(cell); Integer borders = 0;
* try { borders = Integer.valueOf(groupBorders); if
* (borders.intValue() <0) { errors.add("The BORDERS
* column must be a positive integer. " + groupBorders + "
* at row " + gk + ", Groups worksheet.");
* htmlErrors.put(j + "," + gk + ",7", "INVALID FIELD"); } }
* catch (NumberFormatException ne) { errors.add("The
* BORDERS column must be a positive integer. " +
* groupBorders + " at row " + gk + ", Groups
* worksheet."); htmlErrors.put(j + "," + gk + ",7",
* "INVALID FIELD"); } >>
*/
// above added 06/14/2007, tbh
ItemGroupBean fgb = new ItemGroupBean();
fgb.setName(groupLabel);
fgb.setCrfId(crfId);
fgb.setStatus(Status.AVAILABLE);
ItemGroupMetadataBean igMeta = new ItemGroupMetadataBean();
igMeta.setHeader(groupHeader);
igMeta.setRepeatingGroup(isRepeatingGroup);
// htaycher: no borders anymnore //13817
igMeta.setBorders(0);
// igMeta.setLayout(groupLayout);
// igMeta.setRepeatArray(groupRepeatArray);
igMeta.setShowGroup(isShowGroup);
try {
igMeta.setRepeatMax(new Integer(Integer.parseInt(groupRepeatMax)));
if (igMeta.getRepeatMax() < 1) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("GROUP_REPEAT_MAX_column") + " " + resPageMsg.getString("must_be_a_positive_integer") + ". " + groupRepeatMax + " " + resPageMsg.getString("at_row") + " " + gk + ", " + resPageMsg.getString("Groups_worksheet") + ". ");
htmlErrors.put(j + "," + gk + ",3", resPageMsg.getString("INVALID_FIELD"));
}
} catch (NumberFormatException n2) {
logger.error("Error message", n2);
if ("".equals(groupRepeatMax)) {
igMeta.setRepeatMax(40);
} else {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("GROUP_REPEAT_MAX_column") + " " + resPageMsg.getString("must_be_a_positive_integer") + ". " + groupRepeatMax + " " + resPageMsg.getString("at_row") + " " + gk + ", " + resPageMsg.getString("Groups_worksheet") + ". ");
htmlErrors.put(j + "," + gk + ",3", resPageMsg.getString("INVALID_FIELD"));
}
}
try {
igMeta.setRepeatNum(new Integer(Integer.parseInt(groupRepeatNumber)));
if (igMeta.getRepeatNum() < 1) {
// mantiss 13917
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("GROUP_REPEAT_NUM_column") + " " + resPageMsg.getString("must_be_a_positive_integer_or_blank") + ". " + groupRepeatNumber + " " + resPageMsg.getString("at_row") + " " + gk + ", " + resPageMsg.getString("Groups_worksheet") + ". ");
htmlErrors.put(j + "," + gk + ",2", resPageMsg.getString("INVALID_FIELD"));
}
} catch (NumberFormatException n3) {
logger.error(n3.getMessage());
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("GROUP_REPEAT_NUM_column") + " " + resPageMsg.getString("must_be_a_positive_integer_or_blank") + ". " + groupRepeatNumber + " " + resPageMsg.getString("at_row") + " " + gk + ", " + resPageMsg.getString("Groups_worksheet") + ". ");
htmlErrors.put(j + "," + gk + ",2", resPageMsg.getString("INVALID_FIELD"));
}
// igMeta.setSubheader(groupSubheader);
fgb.setMeta(igMeta);
// now, we place the form group bean where we can
// generate the sql
// and find it again, tbh 5/14/2007
// Create oid for Item Group
String groupOid = itemGroupDao.getValidOid(fgb, crfName, fgb.getName(), itemGroupOids);
itemGroupOids.add(groupOid);
// changed to add metadata into item_group_metadata
// table-jxu
String gsql = "";
if (dbName.equals("oracle")) {
/* gsql =
"INSERT INTO ITEM_GROUP ( " + "name, crf_id, status_id, date_created ,owner_id,oc_oid)" + "VALUES ('" + fgb.getName() + "', "
+ fgb.getCrfId() + "," + fgb.getStatus().getId() + "," + "sysdate," + ub.getId() + ",'" + groupOid + "')";*/
gsql = "INSERT INTO ITEM_GROUP ( name, crf_id, status_id, date_created ,owner_id,oc_oid)" + " VALUES (?, ?, ?,sysdate, ?, ?)";
} else {
/* gsql =
"INSERT INTO ITEM_GROUP ( " + "name, crf_id, status_id, date_created ,owner_id,oc_oid)" + "VALUES ('" + fgb.getName() + "', "
+ fgb.getCrfId() + "," + fgb.getStatus().getId() + "," + "now()," + ub.getId() + ",'" + groupOid + "')";*/
gsql = "INSERT INTO ITEM_GROUP ( name, crf_id, status_id, date_created ,owner_id,oc_oid)" + " VALUES (?, ?, ?,now(), ?, ?)";
}
itemGroups.put(fgb.getName(), fgb);
if (!GroupCheck.containsKey(fgb.getName())) {
// item group not in the DB, then insert
// otherwise, will use the existing group because
// group name is unique
// and shared within CRF
// queries.add(gsql);
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(fgb.getName()));
sqlParameters.add(new SqlParameter(fgb.getCrfId().toString(), JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(fgb.getStatus().getId() + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(ub.getId() + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(groupOid + ""));
QueryObject qo = new QueryObject();
qo.setSql(gsql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
}
// if (!StringUtil.isBlank(groupLabel)) {
// String itemName =
// (String)itemsToGrouplabels.get(groupLabel);
// logger.debug("found "+itemName+" when we passed group
// label "+groupLabel);
// ItemGroupBean itemGroup = new ItemGroupBean();
// //logger.debug("found "+groupLabel);
// itemGroup= (ItemGroupBean)itemGroups.get(groupLabel);
// logger.debug("*** Found "+
// groupLabel+
// " and matched with "+
// itemGroup.getName());
// igMeta = itemGroup.getMeta();
// //above throws Nullpointer, need to change so that it
// does not, tbh 07-08-07
// //moved down here from line 590, tbh
//
// String sqlGroupLabel = "INSERT INTO
// ITEM_GROUP_METADATA ("+
// "item_group_id,header," +
// "subheader, layout, repeat_number, repeat_max," +
// " repeat_array,row_start_number, crf_version_id," +
// "item_id , ordinal, borders) VALUES (" +
// "(SELECT ITEM_GROUP_ID FROM ITEM_GROUP WHERE NAME='"
// + itemGroup.getName()
// + "' AND crf_id = " + crfId + " ORDER BY OID DESC
// LIMIT 1),'"+
// igMeta.getHeader()+"', '" +
// igMeta.getSubheader()+ "', '" +
// igMeta.getLayout()+ "', " +
// igMeta.getRepeatNum()+", " +
// igMeta.getRepeatMax()+", '" +
// igMeta.getRepeatArray()+"', " +
// igMeta.getRowStartNumber()+ "," +
// versionIdString + "," +
// "(SELECT ITEM_ID FROM ITEM WHERE NAME='" + itemName +
// "' AND owner_id = " + ub.getId() + " ORDER BY OID
// DESC LIMIT 1)," +
// igMeta.getOrdinal() + ",'" +
// igMeta.getBorders()+
// "')";
// queries.add(sqlGroupLabel);
//
// }
}
} else if (sheetName.equalsIgnoreCase("Sections")) {
logger.debug("read sections");
// BORDER, tbh
for (int k = 1; k < numRows; k++) {
if (blankRowCount == 5) {
// 06/2007
break;
}
if (sheet.getRow(k) == null) {
blankRowCount++;
continue;
}
HSSFCell cell = sheet.getRow(k).getCell((short) 0);
String secLabel = getValue(cell);
secLabel = secLabel.replaceAll("<[^>]*>", "");
if (StringUtil.isBlank(secLabel)) {
// errors.add("The SECTION_LABEL column was blank at
// row " + k + ", Sections worksheet.");
// htmlErrors.put(j + "," + k + ",0", "REQUIRED
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SECTION_LABEL_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + " " + ", " + resPageMsg.getString("sections_worksheet") + ".");
htmlErrors.put(j + "," + k + ",0", resPageMsg.getString("required_field"));
}
if (secLabel != null && secLabel.length() > 2000) {
errors.add(resPageMsg.getString("section_label_length_error"));
}
if (secLabel.contains("'")) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SECTION_LABEL_column") + " value " + secLabel + " " + resPageMsg.getString("has_invalid_character") + "\" ' \"" + ". " + resPageMsg.getString("remove_invalid_character"));
}
if (secNames.contains(secLabel)) {
// errors.add("The SECTION_LABEL column was a
// duplicate of " + secLabel + " at row " + k
// + ", sections worksheet.");
// htmlErrors.put(j + "," + k + ",0", "DUPLICATE
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SECTION_LABEL_column") + resPageMsg.getString("was_a_duplicate_of") + secLabel + " " + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("sections_worksheet") + ".");
htmlErrors.put(j + "," + k + ",0", resPageMsg.getString("DUPLICATE_FIELD"));
}
// logger.debug("section name:" + secLabel + "row num:"
// +k);
secNames.add(secLabel);
cell = sheet.getRow(k).getCell((short) 1);
String title = getValue(cell);
title = title.replaceAll("<[^>]*>", "");
if (StringUtil.isBlank(title)) {
// errors.add("The SECTION_TITLE column was blank at
// row " + k + ", Sections worksheet.");
// htmlErrors.put(j + "," + k + ",1", "REQUIRED
// FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SECTION_TITLE_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("sections_worksheet") + ".");
htmlErrors.put(j + "," + k + ",1", resPageMsg.getString("required_field"));
}
if (title != null && title.length() > 2000) {
errors.add(resPageMsg.getString("section_title_length_error"));
}
cell = sheet.getRow(k).getCell((short) 2);
String subtitle = getValue(cell);
if (subtitle != null && subtitle.length() > 2000) {
errors.add(resPageMsg.getString("section_subtitle_length_error"));
}
cell = sheet.getRow(k).getCell((short) 3);
String instructions = getValue(cell);
if (instructions != null && instructions.length() > 2000) {
errors.add(resPageMsg.getString("section_instruction_length_error"));
}
cell = sheet.getRow(k).getCell((short) 4);
String pageNumber = getValue(cell);
if (pageNumber != null && pageNumber.length() > 5) {
errors.add(resPageMsg.getString("section_page_number_length_error"));
}
cell = sheet.getRow(k).getCell((short) 5);
String parentSection = getValue(cell);
parentSection = parentSection.replaceAll("<[^>]*>", "");
if (!StringUtil.isBlank(parentSection)) {
try {
parentId = Integer.parseInt(parentSection);
} catch (NumberFormatException ne) {
parentId = 0;
}
}
// below added 06/2007, tbh
cell = sheet.getRow(k).getCell((short) 6);
String strBorder = getValue(cell);
strBorder = strBorder.replaceAll("<[^>]*>", "");
Integer intBorder = new Integer(0);
try {
intBorder = new Integer(strBorder);
} catch (NumberFormatException npe) {
// let it pass here, tbh 06/18/2007
}
// change to sql 06/2007; change to section table in
// svn? tbh
String sql = "";
// BWP added borders column 4/24/2008
if (dbName.equals("oracle")) {
/* sql =
"INSERT INTO SECTION (CRF_VERSION_ID," + "STATUS_ID,LABEL, TITLE, INSTRUCTIONS, SUBTITLE, PAGE_NUMBER_LABEL,"
+ "ORDINAL, PARENT_ID, OWNER_ID, DATE_CREATED, BORDERS) " + "VALUES (" + versionIdString + ",1,'" + secLabel + "','"
+ stripQuotes(title) + "', '" + stripQuotes(instructions) + "', '" + stripQuotes(subtitle) + "','" + pageNumber + "'," + k
+ "," + parentId + "," + ub.getId() + ",sysdate," + intBorder + ")";*/
sql = "INSERT INTO SECTION (CRF_VERSION_ID," + "STATUS_ID,LABEL, TITLE, INSTRUCTIONS, SUBTITLE, PAGE_NUMBER_LABEL," + "ORDINAL, PARENT_ID, OWNER_ID, DATE_CREATED,BORDERS) " + "VALUES (" + versionIdString + ",1,?,?,?,?,'" + pageNumber + "'," + k + "," + parentId + "," + ub.getId() + ",NOW()," + intBorder + ")";
} else {
/*sql =
"INSERT INTO SECTION (CRF_VERSION_ID," + "STATUS_ID,LABEL, TITLE, INSTRUCTIONS, SUBTITLE, PAGE_NUMBER_LABEL,"
+ "ORDINAL, PARENT_ID, OWNER_ID, DATE_CREATED,BORDERS) " + "VALUES (" + versionIdString + ",1,'" + secLabel + "','"
+ stripQuotes(title) + "', '" + stripQuotes(instructions) + "', '" + stripQuotes(subtitle) + "','" + pageNumber + "'," + k
+ "," + parentId + "," + ub.getId() + ",NOW()," + intBorder + ")";*/
sql = "INSERT INTO SECTION (CRF_VERSION_ID," + "STATUS_ID,LABEL, TITLE, INSTRUCTIONS, SUBTITLE, PAGE_NUMBER_LABEL," + "ORDINAL, PARENT_ID, OWNER_ID, DATE_CREATED,BORDERS) " + "VALUES (" + versionIdString + ",1,?,?,?,?,'" + pageNumber + "'," + k + "," + parentId + "," + ub.getId() + ",NOW()," + intBorder + ")";
}
// queries.add(sql);
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(secLabel));
sqlParameters.add(new SqlParameter(title));
sqlParameters.add(new SqlParameter(instructions));
sqlParameters.add(new SqlParameter(subtitle));
// sqlParameters.add(new SqlParameter(pageNumber));
QueryObject qo = new QueryObject();
qo.setSql(sql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
}
// end for loop
} else if (sheetName.equalsIgnoreCase("CRF")) {
logger.debug("read crf");
// one row, four cells, all strings
if (sheet == null || sheet.getRow(1) == null || sheet.getRow(1).getCell((short) 0) == null) {
throw new CRFReadingException("Blank row found in sheet CRF.");
}
HSSFCell cell = sheet.getRow(1).getCell((short) 0);
crfName = getValue(cell);
crfName = crfName.replaceAll("<[^>]*>", "");
if (StringUtil.isBlank(crfName)) {
// htmlErrors.put(j + ",1,0", "REQUIRED FIELD");
throw new CRFReadingException("The CRF_NAME column was blank in the CRF worksheet.");
}
if (crfId > 0) {
CRFBean checkName = (CRFBean) cdao.findByPK(crfId);
if (!checkName.getName().equals(crfName)) {
throw new CRFReadingException(resPageMsg.getString("the") + " " + resPageMsg.getString("CRF_NAME_column") + " '" + crfName + "' " + resPageMsg.getString("did_not_match_crf_name") + " '" + checkName.getName() + "'.");
}
}
if (crfName.length() > 255) {
errors.add(resPageMsg.getString("crf_name_length_error"));
}
CRFBean existingCRFWithSameName = (CRFBean) cdao.findByName(crfName);
if (this.getCrfId() == 0) {
if (existingCRFWithSameName.getName() != null && existingCRFWithSameName.getName().equals(crfName)) {
errors.add(resPageMsg.getString("crf_name_already_used"));
}
}
// try {
// CRFBean checkName = (CRFBean) cdao.findByPK(crfId);
// if (!checkName.getName().equals(crfName)) {
// logger.debug("crf name is mismatch");
// //errors.add("The CRF_NAME column did not match the
// intended CRF version "
// // + "you want to upload. Make sure this reads '" +
// checkName.getName()
// // + "' before you continue.");
// //htmlErrors.put(j + ",1,0", "DID NOT MATCH CRF");
// errors.add(resPageMsg.getString("the") + " " +
// resPageMsg.getString("CRF_NAME_column") +
// resPageMsg.getString("did_not_match_crf_version") + " '"
// + checkName.getName()
// + "' " + resPageMsg.getString("before_you_continue"));
// htmlErrors.put(j + ",1,0",
// resPageMsg.getString("DID_NOT_MATCH_CRF"));
// }
// } catch (Exception pe) {
// logger.warn("Exception happened when check CRF name" +
// pe.getMessage());
// }
cell = sheet.getRow(1).getCell((short) 1);
String version = getValue(cell);
version = version.replaceAll("<[^>]*>", "");
ncrf.setVersionName(version);
if (version != null && version.length() > 255) {
errors.add(resPageMsg.getString("version_length_error"));
}
// YW, 08-22-2007, since versionName is now obtained from
// spreadsheet,
// blank check has been moved to
// CreateCRFVersionServlet.java
// and mismatch check is not necessary
// if (StringUtil.isBlank(version)) {
// errors.add("The VERSION column was blank in the CRF
// worksheet.");
// htmlErrors.put(j + ",1,1", "REQUIRED FIELD");
// }else if (!version.equals(versionName)) {
// errors.add("The VERSION column did not match the intended
// version name "
// + "you want to upload. Make sure this reads '" +
// versionName
// + "' before you continue.");
// htmlErrors.put(j + ",1,1", "DID NOT MATCH VERSION");
// }
cell = sheet.getRow(1).getCell((short) 2);
String versionDesc = getValue(cell);
versionDesc = versionDesc.replaceAll("<[^>]*>", "");
if (versionDesc != null && versionDesc.length() > 4000) {
errors.add(resPageMsg.getString("version_description_length_error"));
}
cell = sheet.getRow(1).getCell((short) 3);
String revisionNotes = getValue(cell);
revisionNotes = revisionNotes.replaceAll("<[^>]*>", "");
if (revisionNotes != null && revisionNotes.length() > 255) {
errors.add(resPageMsg.getString("revision_notes_length_error"));
}
if (StringUtil.isBlank(revisionNotes)) {
// errors.add("The REVISION_NOTES column was blank in
// the CRF worksheet.");
// htmlErrors.put(j + ",1,3", "REQUIRED FIELD");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("REVISION_NOTES_column") + " " + resPageMsg.getString("was_blank_in_the_CRF_worksheet"));
htmlErrors.put(j + ",1,3", resPageMsg.getString("required_field"));
}
// Generating query string for the new CRF
Connection con = null;
String crfOid = null;
if (crfId == 0) {
crfOid = cdao.getValidOid(new CRFBean(), crfName);
int nextCRFId;
try {
con = ds.getConnection();
/*
* We are selecting the crf id which will be used to
* save the new CRF. Selecting the crf id in advance
* will not cause any problem in a multi threaded
* environment because the nextVal() method always
* returns unique values. So there is no chance of
* processing two CRF simultaneously with same crf
* id.
*/
ResultSet nextIdRs;
if (dbName.equals("oracle")) {
nextIdRs = con.createStatement().executeQuery("select crf_id_seq.nextval from dual");
} else {
nextIdRs = con.createStatement().executeQuery("select nextval('crf_crf_id_seq')");
}
nextIdRs.next();
nextCRFId = nextIdRs.getInt(1);
crfId = nextCRFId;
ncrf.setCrfId(crfId);
String createCRFSql;
if (dbName.equals("oracle")) {
/* createCRFSql =
"INSERT INTO CRF (CRF_ID, STATUS_ID, NAME, DESCRIPTION, OWNER_ID, DATE_CREATED, OC_OID, SOURCE_STUDY_ID) VALUES (" + crfId
+ ", 1,'" + stripQuotes(crfName) + "','" + stripQuotes(versionDesc) + "'," + ub.getId() + ",sysdate" + ",'" + crfOid
+ "'," + studyId + ")";*/
createCRFSql = "INSERT INTO CRF (CRF_ID, STATUS_ID, NAME, DESCRIPTION, OWNER_ID, DATE_CREATED, OC_OID, SOURCE_STUDY_ID) VALUES (" + crfId + ", 1, ? ,?," + ub.getId() + ",sysdate" + ",'" + crfOid + "'," + studyId + ")";
} else {
/* createCRFSql =
"INSERT INTO CRF (CRF_ID, STATUS_ID, NAME, DESCRIPTION, OWNER_ID, DATE_CREATED, OC_OID, SOURCE_STUDY_ID) VALUES (" + crfId
+ ", 1,'" + stripQuotes(crfName) + "','" + stripQuotes(versionDesc) + "'," + ub.getId() + ",NOW()" + ",'" + crfOid
+ "'," + studyId + ")";*/
createCRFSql = "INSERT INTO CRF (CRF_ID, STATUS_ID, NAME, DESCRIPTION, OWNER_ID, DATE_CREATED, OC_OID, SOURCE_STUDY_ID) VALUES (" + crfId + ", 1, ? ,?," + ub.getId() + ",NOW()" + ",'" + crfOid + "'," + studyId + ")";
}
// queries.add(createCRFSql);
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(crfName));
sqlParameters.add(new SqlParameter(versionDesc));
QueryObject qo = new QueryObject();
qo.setSql(createCRFSql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
} catch (SQLException e) {
logger.warn("Exception encountered with query select nextval('crf_crf_id_seq'), Message-" + e.getMessage());
} finally {
if (con != null) {
try {
con.close();
} catch (SQLException e) {
logger.warn("Connection can't be closed");
}
}
}
}
// check for instrument existence here??? tbh 7/28
// engaging in new validation, tbh, 6-4-04
// modify nib.getinstversions to look for version name and
// description
// need to stop uploads of same name-description pairs
HashMap checkCRFVersions = ncrf.getCrfVersions();
// this now returns a hash map of key:version_name
// ->value:version_description
boolean overwrite = false;
if (checkCRFVersions.containsKey(version)) {
logger.debug("found a matching version name..." + version);
/*
* errors.add("The VERSION column is not unique. This
* can cause confusion in " + "selecting the correct
* CRF. Please make sure you change the " + "version
* name so that it can be uniquely identified by users
* in the system. " + "Otherwise, the previous same
* version will be deleted from database.");
* htmlErrors.put(j + ",1,2", "NOT UNIQUE");
*/
errors.add(resPageMsg.getString("version_not_unique_cause_confusion"));
htmlErrors.put(j + ",1,2", resPageMsg.getString("NOT_UNIQUE"));
}
// Create oid for Crf Version
String oid;
if (crfOid != null) {
oid = cvdao.getValidOid(new CRFVersionBean(), crfOid, version);
} else {
CRFBean crfBean = (CRFBean) cdao.findByName(crfName);
oid = cvdao.getValidOid(new CRFVersionBean(), crfBean.getOid(), version);
}
String sql = "";
if (dbName.equals("oracle")) {
if (crfId == 0) {
/*sql =
"INSERT INTO CRF_VERSION (NAME, DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) "
+ "VALUES ('" + stripQuotes(version) + "','" + stripQuotes(versionDesc) + "'," + "(SELECT CRF_ID FROM CRF C WHERE C.NAME='"
+ crfName + "'),1,sysdate," + ub.getId() + ",'" + stripQuotes(revisionNotes) + "','" + oid + "')";*/
sql = "INSERT INTO CRF_VERSION (NAME, DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + "VALUES (?,?," + "(SELECT CRF_ID FROM CRF C WHERE C.NAME='" + crfName + "'),1,sysdate," + ub.getId() + ",?,'" + oid + "')";
} else {
/* sql =
"INSERT INTO CRF_VERSION (NAME,DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + "VALUES ('"
+ version + "','" + stripQuotes(versionDesc) + "'," + crfId + ",1,sysdate," + ub.getId() + ",'"
+ stripQuotes(revisionNotes) + "','" + oid + "')";*/
sql = "INSERT INTO CRF_VERSION (NAME,DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + "VALUES (?,?," + crfId + ",1,sysdate," + ub.getId() + ",?,'" + oid + "')";
}
} else {
if (crfId == 0) {
/*sql =
"INSERT INTO CRF_VERSION (NAME, DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) "
+ "VALUES ('" + stripQuotes(version) + "','" + stripQuotes(versionDesc) + "'," + "(SELECT CRF_ID FROM CRF WHERE NAME='"
+ crfName + "'),1,NOW()," + ub.getId() + ",'" + stripQuotes(revisionNotes) + "','" + oid + "')";*/
sql = "INSERT INTO CRF_VERSION (NAME, DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + "VALUES (?,?," + "(SELECT CRF_ID FROM CRF WHERE NAME='" + crfName + "'),1,NOW()," + ub.getId() + ",?,'" + oid + "')";
} else {
/* sql =
"INSERT INTO CRF_VERSION (NAME,DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + "VALUES ('"
+ version + "','" + stripQuotes(versionDesc) + "'," + crfId + ",1,NOW()," + ub.getId() + ",'" + stripQuotes(revisionNotes)
+ "','" + oid + "')";*/
sql = "INSERT INTO CRF_VERSION (NAME,DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + "VALUES (?,?," + crfId + ",1,NOW()," + ub.getId() + ",?,'" + oid + "')";
}
}
// queries.add(sql);
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(version));
sqlParameters.add(new SqlParameter(versionDesc));
sqlParameters.add(new SqlParameter(revisionNotes));
QueryObject qo = new QueryObject();
qo.setSql(sql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
pVersion = version;
pVerDesc = versionDesc;
}
versionIdString = "(SELECT CRF_VERSION_ID FROM CRF_VERSION WHERE NAME ='" + pVersion + "' AND CRF_ID=" + crfId + ")";
versionIdStringWithParameter = "(SELECT CRF_VERSION_ID FROM CRF_VERSION WHERE NAME ='" + pVersion + "' AND CRF_ID=?)";
// move html creation to here, include error creation as well,
// tbh 7/28
buf.append(sheetName + "<br>");
buf.append("<div class=\"box_T\"><div class=\"box_L\"><div class=\"box_R\"><div class=\"box_B\"><div class=\"box_TL\"><div class=\"box_TR\"><div class=\"box_BL\"><div class=\"box_BR\">");
buf.append("<div class=\"textbox_center\">");
buf.append("<table border=\"0\" cellpadding=\"0\" cellspacing=\"0\" width=\"100%\"");
buf.append("caption=\"" + wb.getSheetName(j) + "\"" + ">");
for (int i = 0; i < numRows; i++) {
buf.append("<tr>");
if (sheet.getRow(i) == null) {
continue;
}
int numCells = sheet.getRow(i).getLastCellNum();
for (int y = 0; y < numCells; y++) {
HSSFCell cell = sheet.getRow(i).getCell((short) y);
int cellType = 0;
String error = " ";
String errorKey = j + "," + i + "," + y;
if (htmlErrors.containsKey(errorKey)) {
error = "<span class=\"alert\">" + htmlErrors.get(errorKey) + "</span>";
}
if (cell == null) {
cellType = HSSFCell.CELL_TYPE_BLANK;
} else {
cellType = cell.getCellType();
}
switch(cellType) {
case HSSFCell.CELL_TYPE_BLANK:
buf.append("<td class=\"table_cell\">" + error + "</td>");
break;
case HSSFCell.CELL_TYPE_NUMERIC:
buf.append("<td class=\"table_cell\">" + cell.getNumericCellValue() + " " + error + "</td>");
break;
case HSSFCell.CELL_TYPE_STRING:
buf.append("<td class=\"table_cell\">" + cell.getStringCellValue() + " " + error + "</td>");
break;
default:
buf.append("<td class=\"table_cell\">" + error + "</td>");
}
}
buf.append("</tr>");
}
buf.append("</table>");
buf.append("<br></div>");
buf.append("</div></div></div></div></div></div></div></div>");
buf.append("</div><br>");
}
// end of the else sheet loop
}
// end of the for loop for sheets
// queries.addAll(groupItemMapQueries);
// added at the end so that items and groups already exist, tbh 5.15.07
ncrf.setQueries(queries);
ncrf.setItemQueries(openQueries);
ncrf.setBackupItemQueries(backupItemQueries);
ncrf.setItems(items);
if (!errors.isEmpty()) {
ncrf.setErrors(errors);
}
// logger.debug("html table:" + buf.toString());
ncrf.setHtmlTable(buf.toString());
return ncrf;
}
Also used :
HashMap(java.util.HashMap)
LinkedHashMap(java.util.LinkedHashMap)
ItemDAO(org.akaza.openclinica.dao.submit.ItemDAO)
ArrayList(java.util.ArrayList)
ItemGroupDAO(org.akaza.openclinica.dao.submit.ItemGroupDAO)
LinkedHashMap(java.util.LinkedHashMap)
ResultSet(java.sql.ResultSet)
CRFDAO(org.akaza.openclinica.dao.admin.CRFDAO)
CRFVersionDAO(org.akaza.openclinica.dao.submit.CRFVersionDAO)
HSSFWorkbook(org.apache.poi.hssf.usermodel.HSSFWorkbook)
NewCRFBean(org.akaza.openclinica.bean.admin.NewCRFBean)
CRFBean(org.akaza.openclinica.bean.admin.CRFBean)
NewCRFBean(org.akaza.openclinica.bean.admin.NewCRFBean)
HSSFCell(org.apache.poi.hssf.usermodel.HSSFCell)
ScoreValidator(org.akaza.openclinica.logic.score.ScoreValidator)
Map(java.util.Map)
HashMap(java.util.HashMap)
LinkedHashMap(java.util.LinkedHashMap)
OnChangeSheetValidator(org.akaza.openclinica.control.form.spreadsheet.OnChangeSheetValidator)
SQLException(java.sql.SQLException)
OnChangeSheetValidationCell(org.akaza.openclinica.control.form.spreadsheet.OnChangeSheetValidationCell)
CRFReadingException(org.akaza.openclinica.exception.CRFReadingException)
ItemFormMetadataDAO(org.akaza.openclinica.dao.submit.ItemFormMetadataDAO)
PatternSyntaxException(java.util.regex.PatternSyntaxException)
Pattern(java.util.regex.Pattern)
SqlParameter(org.akaza.openclinica.bean.admin.SqlParameter)
Connection(java.sql.Connection)
MeasurementUnitOidGenerator(org.akaza.openclinica.bean.oid.MeasurementUnitOidGenerator)
QueryObject(org.akaza.openclinica.bean.admin.QueryObject)
PatternSyntaxException(java.util.regex.PatternSyntaxException)
CRFReadingException(org.akaza.openclinica.exception.CRFReadingException)
SQLException(java.sql.SQLException)
IOException(java.io.IOException)
SheetValidationContainer(org.akaza.openclinica.control.form.spreadsheet.SheetValidationContainer)
HSSFSheet(org.apache.poi.hssf.usermodel.HSSFSheet)
Example 24 with ItemGroupDAO
use of org.akaza.openclinica.dao.submit.ItemGroupDAO in project OpenClinica by OpenClinica.
the class SpreadSheetTableClassic method toNewCRF.
public NewCRFBean toNewCRF(javax.sql.DataSource ds, ResourceBundle resPageMsg) throws IOException, CRFReadingException {
String dbName = SQLInitServlet.getDBName();
NewCRFBean ncrf = new NewCRFBean(ds, crfId);
// set crf id
ncrf.setCrfId(crfId);
StringBuffer buf = new StringBuffer();
HSSFWorkbook wb = new HSSFWorkbook(fs);
int numSheets = wb.getNumberOfSheets();
ArrayList queries = new ArrayList();
ArrayList errors = new ArrayList();
ArrayList repeats = new ArrayList();
HashMap tableNames = new HashMap();
HashMap items = new HashMap();
String pVersion = "";
String pVerDesc = "";
int parentId = 0;
// default is ST(String) type
int dataTypeId = 5;
HashMap itemCheck = ncrf.getItemNames();
HashMap GroupCheck = ncrf.getItemGroupNames();
HashMap openQueries = new LinkedHashMap();
// save all the item
HashMap backupItemQueries = new LinkedHashMap();
// queries if
// deleting item happens
// check for dupes, also
ArrayList secNames = new ArrayList();
// YW 1-30-2008
HashMap<String, String> allItems = new HashMap<String, String>();
ArrayList<String> itemGroupOids = new ArrayList<String>();
ArrayList<String> itemOids = new ArrayList<String>();
CRFDAO cdao = new CRFDAO(ds);
CRFBean crf = (CRFBean) cdao.findByPK(crfId);
ItemDataDAO iddao = new ItemDataDAO(ds);
ItemDAO idao = new ItemDAO(ds);
CRFVersionDAO cvdao = new CRFVersionDAO(ds);
ItemGroupDAO itemGroupDao = new ItemGroupDAO(ds);
int validSheetNum = 0;
for (int j = 0; j < numSheets; j++) {
// sheetIndex);
HSSFSheet sheet = wb.getSheetAt(j);
String sheetName = wb.getSheetName(j);
if (sheetName.equalsIgnoreCase("CRF") || sheetName.equalsIgnoreCase("Sections") || sheetName.equalsIgnoreCase("Items")) {
validSheetNum++;
}
}
if (validSheetNum != 3) {
// errors.add("The excel spreadsheet doesn't have required valid
// worksheets. Please check whether it contains" +
// " sheets of CRF, Sections and Items.");
errors.add(resPageMsg.getString("excel_not_have_valid_worksheet"));
}
// 7/30
for (int j = 0; j < numSheets; j++) {
// sheetIndex);
HSSFSheet sheet = wb.getSheetAt(j);
String sheetName = wb.getSheetName(j);
if (sheetName.equalsIgnoreCase("Instructions")) {
// totally ignore instructions
} else {
/*
* current strategem: build out the queries by hand and revisit
* this as part of the data loading module. We begin to check
* for errors here and look for blank cells where there should
* be data, tbh, 7/28
*/
int numRows = sheet.getPhysicalNumberOfRows();
int lastNumRow = sheet.getLastRowNum();
// logger.info("PhysicalNumberOfRows" +
// sheet.getPhysicalNumberOfRows());
logger.info("PhysicalNumberOfRows" + sheet.getPhysicalNumberOfRows());
// logger.info("LastRowNum()" + sheet.getLastRowNum());
String secName = "";
String page = "";
// records all the
ArrayList resNames = new ArrayList();
// response_labels
HashMap htmlErrors = new HashMap();
// the above two need to persist across mult. queries,
// and they should be created FIRST anyway, since instrument is
// first
// also need to add to VERSIONING_MAP, tbh, 6-6-3
// try to count how many blank rows, if 5 concective blank rows
// found, stop reading
int blankRowCount = 0;
if (sheetName.equalsIgnoreCase("Items")) {
logger.info("read an item in sheet" + sheetName);
Map labelWithType = new HashMap<String, String>();
// let's insert the default group first
ItemGroupBean defaultGroup = new ItemGroupBean();
defaultGroup.setName("Ungrouped");
defaultGroup.setCrfId(crfId);
defaultGroup.setStatus(Status.AVAILABLE);
// Create oid for Item Group
String defaultGroupOid = itemGroupDao.getValidOid(defaultGroup, crfName, defaultGroup.getName(), itemGroupOids);
itemGroupOids.add(defaultGroupOid);
String defaultSql = "";
if (dbName.equals("oracle")) {
/*defaultSql =
"INSERT INTO ITEM_GROUP ( " + "name, crf_id, status_id, date_created ,owner_id,oc_oid)" + "VALUES ('" + defaultGroup.getName()
+ "', " + defaultGroup.getCrfId() + "," + defaultGroup.getStatus().getId() + "," + "sysdate," + ub.getId() + ",'"
+ defaultGroupOid + "')";*/
defaultSql = "INSERT INTO ITEM_GROUP ( name, crf_id, status_id, date_created ,owner_id,oc_oid)" + " VALUES (?, ?, ?,sysdate, ?, ?)";
} else {
/* defaultSql =
"INSERT INTO ITEM_GROUP ( " + "name, crf_id, status_id, date_created ,owner_id,oc_oid)" + "VALUES ('" + defaultGroup.getName()
+ "', " + defaultGroup.getCrfId() + "," + defaultGroup.getStatus().getId() + "," + "now()," + ub.getId() + ",'"
+ defaultGroupOid + "')";*/
defaultSql = "INSERT INTO ITEM_GROUP ( name, crf_id, status_id, date_created ,owner_id,oc_oid)" + " VALUES (?, ?, ?,now(), ?, ?)";
}
if (!GroupCheck.containsKey("Ungrouped")) {
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(defaultGroup.getName()));
sqlParameters.add(new SqlParameter(defaultGroup.getCrfId().toString(), JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(defaultGroup.getStatus().getId() + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(ub.getId() + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(defaultGroupOid + "", JDBCType.INTEGER));
QueryObject qo = new QueryObject();
qo.setSql(defaultSql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
}
// Adding itemnames for further use
HashMap itemNames = new HashMap();
for (int k = 1; k < numRows; k++) {
HSSFCell cell = sheet.getRow(k).getCell((short) 0);
String itemName = getValue(cell);
itemName = itemName.replaceAll("<[^>]*>", "");
itemNames.put(k, itemName);
}
for (int k = 1; k < numRows; k++) {
// logger.info("hit row "+k);
if (blankRowCount == 5) {
logger.info("hit end of the row ");
break;
}
if (sheet.getRow(k) == null) {
blankRowCount++;
continue;
}
HSSFCell cell = sheet.getRow(k).getCell((short) 0);
String itemName = getValue(cell);
itemName = itemName.replaceAll("<[^>]*>", "");
// regexp to make sure it is all word characters, '\w+' in regexp terms
if (!Utils.isMatchingRegexp(itemName, "\\w+")) {
// different item error to go here
errors.add(resPageMsg.getString("item_name_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ". " + resPageMsg.getString("you_can_only_use_letters_or_numbers"));
htmlErrors.put(j + "," + k + ",0", resPageMsg.getString("INVALID_FIELD"));
}
if (StringUtil.isBlank(itemName)) {
// errors.add("The ITEM_NAME column was blank at row
// " + k + ", Items worksheet.");
// htmlErrors.put(j + "," + k + ",0", "REQUIRED
// FIELD");
errors.add(resPageMsg.getString("item_name_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ". ");
htmlErrors.put(j + "," + k + ",0", resPageMsg.getString("required_field"));
}
if (itemName != null && itemName.length() > 255) {
errors.add(resPageMsg.getString("item_name_length_error"));
}
if (repeats.contains(itemName)) {
// errors.add("A duplicate ITEM_NAME of " + itemName
// + " was detected at row " + k
// + ", Items worksheet.");
// htmlErrors.put(j + "," + k + ",0", "DUPLICATE
// FIELD");
errors.add(resPageMsg.getString("duplicate") + " " + resPageMsg.getString("item_name_column") + " " + itemName + " " + resPageMsg.getString("was_detected_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",0", resPageMsg.getString("required_field"));
} else if (itemName.length() > 0) {
allItems.put(itemName, "Ungrouped");
}
repeats.add(itemName);
cell = sheet.getRow(k).getCell((short) 1);
String descLabel = getValue(cell);
descLabel = descLabel.replaceAll("<[^>]*>", "");
if (StringUtil.isBlank(descLabel)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("DESCRIPTION_LABEL_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + "," + resPageMsg.getString("items_worksheet") + ".");
// errors.add("The DESCRIPTION_LABEL column was
// blank at row " + k + "," +
// resPageMsg.getString("items_worksheet") +".");
htmlErrors.put(j + "," + k + ",1", resPageMsg.getString("required_field"));
}
if (descLabel != null && descLabel.length() > 4000) {
errors.add(resPageMsg.getString("item_desc_length_error"));
}
cell = sheet.getRow(k).getCell((short) 2);
String leftItemText = getValue(cell);
if (leftItemText != null && leftItemText.length() > 4000) {
errors.add(resPageMsg.getString("left_item_length_error"));
}
// Commented out to resolve issue-2413
// if (StringUtil.isBlank(leftItemText)) {
// errors.add(resPageMsg.getString("the") + " " +
// resPageMsg.getString("LEFT_ITEM_TEXT_column") + " "
// + resPageMsg.getString("was_blank_at_row") + k + ","
// + resPageMsg.getString("items_worksheet") + ".");
// htmlErrors.put(j + "," + k + ",2",
// resPageMsg.getString("required_field"));
// }
cell = sheet.getRow(k).getCell((short) 3);
String unit = getValue(cell).trim();
if (unit != null && unit.length() > 0) {
String muSql = "";
if (this.existingUnits.size() > 0) {
} else {
this.existingUnits = this.measurementUnitDao.findAllNamesInUpperCase();
if (this.existingUnits == null) {
this.existingUnits = new TreeSet<String>();
}
}
if (this.existingOIDs.size() > 0) {
} else {
this.existingOIDs = this.measurementUnitDao.findAllOIDs();
if (this.existingOIDs == null) {
this.existingOIDs = new TreeSet<String>();
}
}
if (this.existingUnits.contains(unit.toUpperCase())) {
this.logger.error("unit=" + unit + " existed.");
} else {
String oid = "";
try {
oid = new MeasurementUnitOidGenerator().generateOidNoValidation(unit);
} catch (Exception e) {
throw new RuntimeException("CANNOT GENERATE OID");
}
if (this.existingOIDs.contains(oid)) {
if (oid.length() > 40) {
oid = oid.substring(0, 35);
}
oid = new MeasurementUnitOidGenerator().randomizeOid(oid);
}
this.existingOIDs.add(oid);
this.existingUnits.add(unit.toUpperCase());
muSql = this.getMUInsertSqlParameters();
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(oid));
sqlParameters.add(new SqlParameter(unit));
QueryObject qo = new QueryObject();
qo.setSql(muSql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
}
}
cell = sheet.getRow(k).getCell((short) 4);
String rightItemText = getValue(cell);
if (rightItemText != null && rightItemText.length() > 2000) {
errors.add(resPageMsg.getString("right_item_length_error"));
}
cell = sheet.getRow(k).getCell((short) 5);
if (cell != null) {
secName = getValue(cell);
secName = secName.replaceAll("<[^>]*>", "");
}
if (secName != null && secName.length() > 2000) {
errors.add(resPageMsg.getString("section_label_length_error"));
}
if (!secNames.contains(secName)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SECTION_LABEL_column") + " " + resPageMsg.getString("not_valid_section_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ". " + resPageMsg.getString("check_to_see_that_there_is_valid_LABEL"));
htmlErrors.put(j + "," + k + ",5", resPageMsg.getString("NOT_A_VALID_LABEL"));
}
cell = sheet.getRow(k).getCell((short) 6);
String header = getValue(cell);
if (header != null && header.length() > 2000) {
errors.add(resPageMsg.getString("item_header_length_error"));
}
cell = sheet.getRow(k).getCell((short) 7);
String subHeader = getValue(cell);
if (subHeader != null && subHeader.length() > 240) {
errors.add(resPageMsg.getString("item_subheader_length_error"));
}
cell = sheet.getRow(k).getCell((short) 8);
String parentItem = getValue(cell);
parentItem = parentItem.replaceAll("<[^>]*>", "");
// Checking for a valid paren item name
if (!StringUtil.isBlank(parentItem)) {
if (!itemNames.containsValue(parentItem)) {
errors.add("the Parent item specified on row " + k + " does not exist in the CRF template. Please update the value. ");
}
}
// BWP>>Prevent parent names that equal the Item names
if (itemName != null && itemName.equalsIgnoreCase(parentItem)) {
parentItem = "";
}
cell = sheet.getRow(k).getCell((short) 9);
int columnNum = 0;
String column = getValue(cell);
if (!StringUtil.isBlank(column)) {
try {
columnNum = Integer.parseInt(column);
} catch (NumberFormatException ne) {
columnNum = 0;
}
}
cell = sheet.getRow(k).getCell((short) 10);
if (cell != null) {
page = getValue(cell);
}
cell = sheet.getRow(k).getCell((short) 11);
String questionNum = getValue(cell);
cell = sheet.getRow(k).getCell((short) 12);
String responseType = getValue(cell);
int responseTypeId = 1;
if (StringUtil.isBlank(responseType)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_TYPE_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",12", resPageMsg.getString("required_field"));
} else {
if (!ResponseType.findByName(responseType.toLowerCase())) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_TYPE_column") + " " + resPageMsg.getString("was_invalid_at_row") + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",12", resPageMsg.getString("INVALID_FIELD"));
} else {
responseTypeId = ResponseType.getByName(responseType.toLowerCase()).getId();
}
}
cell = sheet.getRow(k).getCell((short) 13);
String responseLabel = getValue(cell);
// "");
if (StringUtil.isBlank(responseLabel) && responseTypeId != ResponseType.TEXT.getId() && responseTypeId != ResponseType.TEXTAREA.getId()) {
// << tbh #4180
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_LABEL_column") + " " + resPageMsg.getString("was_blank_at_row") + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",13", resPageMsg.getString("required_field"));
} else if ("file".equalsIgnoreCase(responseType) && !"file".equalsIgnoreCase(responseLabel)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_LABEL_column") + " " + resPageMsg.getString("should_be_file") + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",13", resPageMsg.getString("should_be_file"));
}
cell = sheet.getRow(k).getCell((short) 14);
String resOptions = getValue(cell);
// resOptions = resOptions.replaceAll("<[^>]*>", "");
if (responseLabel.equalsIgnoreCase("text") || responseLabel.equalsIgnoreCase("textarea")) {
resOptions = "text";
}
if ("file".equalsIgnoreCase(responseType)) {
resOptions = "file";
}
// YW 2-5-2008 << set default resOptions for calculation
// and group-calculation type
// if(responseTypeId==8 || responseTypeId==9) {
// resOptions = resOptions.length()>0 ? resOptions :
// "can not calculate";
// }
// YW >>
int numberOfOptions = 0;
if (!resNames.contains(responseLabel) && StringUtil.isBlank(resOptions) && responseTypeId != ResponseType.TEXT.getId() && responseTypeId != ResponseType.TEXTAREA.getId()) {
// << tbh #4180
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_OPTIONS_TEXT_column") + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",14", resPageMsg.getString("required_field"));
}
if (!resNames.contains(responseLabel) && !StringUtil.isBlank(resOptions)) {
// old template
if (responseTypeId == 8 || responseTypeId == 9) {
numberOfOptions = 1;
// YW >>
} else {
// String[] resArray = resOptions.split(",");
String text1 = resOptions.replaceAll("\\\\,", "##");
String[] resArray = text1.split(",");
numberOfOptions = resArray.length;
}
}
cell = sheet.getRow(k).getCell((short) 15);
String resValues = getValue(cell);
String value1 = resValues.replaceAll("\\\\,", "##");
String[] resValArray = value1.split(",");
if (responseLabel.equalsIgnoreCase("text") || responseLabel.equalsIgnoreCase("textarea")) {
resValues = "text";
}
if ("file".equalsIgnoreCase(responseType)) {
resValues = "file";
}
if (!resNames.contains(responseLabel) && StringUtil.isBlank(resValues) && responseTypeId != ResponseType.TEXT.getId() && responseTypeId != ResponseType.TEXTAREA.getId()) {
// << tbh, #4180, add textarea too?
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_VALUES_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + "," + k + ",15", resPageMsg.getString("required_field"));
}
// YW 1-25-2008 << validate scoring expression
if (responseTypeId == 8 || responseTypeId == 9) {
// func, it must be correctly spelled
if (resValues.contains(":")) {
String[] s = resValues.split(":");
if (!"func".equalsIgnoreCase(s[0].trim())) {
errors.add(resPageMsg.getString("expression_not_start_with_func_at") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ". ");
htmlErrors.put(j + "," + k + ",15", resPageMsg.getString("INVALID_FIELD"));
}
}
String exp = resValues;
// make both \\, and , works for functions
exp = exp.replace("\\\\,", "##");
exp = exp.replace("##", ",");
exp = exp.replace(",", "\\\\,");
resValues = exp;
if (exp.startsWith("func:")) {
exp = exp.substring(5).trim();
}
exp = exp.replace("\\\\,", "##");
StringBuffer err = new StringBuffer();
ArrayList<String> variables = new ArrayList<String>();
ScoreValidator scoreValidator = new ScoreValidator(locale);
if (!scoreValidator.isValidExpression(exp, err, variables)) {
errors.add(resPageMsg.getString("expression_invalid_at") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ": " + err);
htmlErrors.put(j + "," + k + ",15", resPageMsg.getString("INVALID_FIELD"));
}
String group = "Ungrouped";
for (String v : variables) {
if (!allItems.containsKey(v)) {
errors.add(resPageMsg.getString("item") + v + resPageMsg.getString("must_listed_before_item") + itemName + resPageMsg.getString("item_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ". ");
htmlErrors.put(j + "," + k + ",15", resPageMsg.getString("INVALID_FIELD"));
}
}
} else if (numberOfOptions > 0) {
// YW >>
if (resValArray.length != numberOfOptions) {
errors.add(resPageMsg.getString("incomplete_option_value_pair") + " " + resPageMsg.getString("RESPONSE_OPTIONS_column") + " " + resPageMsg.getString("and") + " " + resPageMsg.getString("RESPONSE_VALUES_column") + " " + resPageMsg.getString("at_row") + k + " " + resPageMsg.getString("items_worksheet") + "; " + resPageMsg.getString("perhaps_missing_comma"));
htmlErrors.put(j + ", " + k + ", 14", resPageMsg.getString("number_option_not_match"));
htmlErrors.put(j + ", " + k + ", 15", resPageMsg.getString("number_value_not_match"));
}
}
cell = sheet.getRow(k).getCell((short) 16);
String dataType = getValue(cell);
dataType = dataType.replaceAll("<[^>]*>", "");
String dataTypeIdString = "1";
if (StringUtil.isBlank(dataType)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("DATA_TYPE_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet"));
htmlErrors.put(j + ", " + k + ", 16", resPageMsg.getString("required_field"));
} else {
if (!ItemDataType.findByName(dataType.toLowerCase())) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("DATA_TYPE_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + ", " + k + ", 16", resPageMsg.getString("INVALID_FIELD"));
} else {
if ("file".equalsIgnoreCase(responseType) && !"FILE".equalsIgnoreCase(dataType)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("DATA_TYPE_column") + " " + resPageMsg.getString("should_be_file") + " " + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + ", " + k + ", 16", resPageMsg.getString("should_be_file"));
}
// dataTypeId =
// (ItemDataType.getByName(dataType)).getId();
dataTypeIdString = "(SELECT ITEM_DATA_TYPE_ID From ITEM_DATA_TYPE Where CODE='" + dataType.toUpperCase() + "')";
}
}
if (responseTypeId == 3 || responseTypeId == 5 || responseTypeId == 6 || responseTypeId == 7) {
// make sure same responseLabels have same datatype
if (labelWithType.containsKey(responseLabel)) {
logger.debug("in label=" + responseLabel);
if (!dataType.equalsIgnoreCase(labelWithType.get(responseLabel).toString())) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("DATA_TYPE_column") + " " + resPageMsg.getString("does_not_match_the_item_data_type_with_the_same_response_label") + " " + k + ", " + resPageMsg.getString("items_worksheet"));
htmlErrors.put(j + "," + k + ",16", resPageMsg.getString("INVALID_FIELD"));
}
} else {
labelWithType.put(responseLabel, dataType);
// make sure response values matching datatype
if (resValArray.length > 0) {
boolean wrongType = false;
if ("int".equalsIgnoreCase(dataType)) {
for (String s : resValArray) {
String st = s != null && s.length() > 0 ? s.trim() : "";
if (st.length() > 0) {
try {
Integer I = Integer.parseInt(s.trim());
// but 2.3 is not integer
if (!I.toString().equals(s.trim())) {
wrongType = true;
}
} catch (Exception e) {
wrongType = true;
}
}
}
if (wrongType) {
wrongType = false;
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_VALUES_column") + " " + resPageMsg.getString("should_be_integer") + " " + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + ", " + k + ", 15", resPageMsg.getString("should_be_integer"));
}
} else if ("real".equalsIgnoreCase(dataType)) {
for (String s : resValArray) {
String st = s != null && s.length() > 0 ? s.trim() : "";
if (st.length() > 0) {
try {
Double I = Double.parseDouble(s.trim());
} catch (Exception e) {
wrongType = true;
}
}
}
if (wrongType) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("RESPONSE_VALUES_column") + " " + resPageMsg.getString("should_be_real") + " " + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ".");
htmlErrors.put(j + ", " + k + ", 15", resPageMsg.getString("should_be_real"));
}
}
}
}
}
cell = sheet.getRow(k).getCell((short) 17);
String regexp = getValue(cell);
String regexp1 = "";
if (!StringUtil.isBlank(regexp)) {
// parse the string and get reg exp eg. regexp:
// /[0-9]*/
regexp1 = regexp.trim();
if (regexp1.startsWith("regexp:")) {
String finalRegexp = regexp1.substring(7).trim();
if (finalRegexp.contains("\\\\")) {
// \\ in the regular expression it should
// not be allowed
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("VALIDATION_column") + " " + resPageMsg.getString("has_an_invalid_regular_expression_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ". " + resPageMsg.getString("regular_expression_contained") + " '\\\\', " + resPageMsg.getString("it_should_only_contain_one") + "'\\'. ");
htmlErrors.put(j + "," + k + ",17", resPageMsg.getString("INVALID_FIELD"));
} else {
if (finalRegexp.startsWith("/") && finalRegexp.endsWith("/")) {
finalRegexp = finalRegexp.substring(1, finalRegexp.length() - 1);
try {
Pattern p = Pattern.compile(finalRegexp);
// YW 11-21-2007 << add another \ if
// there is \ in regexp
char[] chars = regexp1.toCharArray();
regexp1 = "";
for (char c : chars) {
if (c == '\\' && !dbName.equals("oracle")) {
regexp1 += c + "\\";
} else {
regexp1 += c;
}
}
// YW >>
} catch (PatternSyntaxException pse) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("VALIDATION_column") + resPageMsg.getString("has_an_invalid_regular_expression_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ". " + resPageMsg.getString("Example:") + " regexp: /[0-9]*/ ");
htmlErrors.put(j + "," + k + ",17", resPageMsg.getString("INVALID_FIELD"));
}
} else {
// errors.add("The VALIDATION column has
// an invalid regular expression at row
// " + k
// + ", Items worksheet. Example:
// regexp: /[0-9]*/ ");
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("VALIDATION_column") + " " + resPageMsg.getString("has_an_invalid_regular_expression_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ". " + resPageMsg.getString("Example") + " regexp: /[0-9]*/ ");
htmlErrors.put(j + "," + k + ",17", resPageMsg.getString("INVALID_FIELD"));
}
}
} else if (regexp1.startsWith("func:")) {
boolean isProperFunction = false;
try {
Validator.processCRFValidationFunction(regexp1);
isProperFunction = true;
} catch (Exception e) {
errors.add(e.getMessage() + ", " + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ". ");
htmlErrors.put(j + "," + k + ",17", resPageMsg.getString("INVALID_FIELD"));
}
} else {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("VALIDATION_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ". ");
htmlErrors.put(j + "," + k + ",17", resPageMsg.getString("INVALID_FIELD"));
}
}
cell = sheet.getRow(k).getCell((short) 18);
String regexpError = getValue(cell);
regexpError = regexpError.replaceAll("<[^>]*>", "");
if (!StringUtil.isBlank(regexp) && StringUtil.isBlank(regexpError)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("VALIDATION_ERROR_MESSAGE_column") + resPageMsg.getString("was_blank_at_row") + k + ", " + resPageMsg.getString("items_worksheet") + ". " + resPageMsg.getString("cannot_be_blank_if_VALIDATION_not_blank"));
htmlErrors.put(j + "," + k + ",18", resPageMsg.getString("required_field"));
}
if (regexpError != null && regexpError.length() > 255) {
errors.add(resPageMsg.getString("regexp_errror_length_error"));
}
boolean phiBoolean = false;
cell = sheet.getRow(k).getCell((short) 19);
// String phi = getValue(cell);
String phi = "";
if (cell.getCellType() == HSSFCell.CELL_TYPE_NUMERIC) {
double dphi = cell.getNumericCellValue();
if ((dphi - (int) dphi) * 1000 == 0) {
phi = (int) dphi + "";
}
}
if (!"0".equals(phi) && !"1".equals(phi)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("PHI_column") + resPageMsg.getString("was_invalid_at_row") + k + ", " + resPageMsg.getString("items_worksheet") + ". " + resPageMsg.getString("PHI_column") + " " + resPageMsg.getString("can_only_be_either_0_or_1"));
htmlErrors.put(j + "," + k + ",19", resPageMsg.getString("INVALID_VALUE"));
} else {
phiBoolean = "1".equals(phi) ? true : false;
}
boolean isRequired = false;
cell = sheet.getRow(k).getCell((short) 20);
String required = getValue(cell);
logger.info(getValue(cell));
// String required = "";
if (StringUtil.isBlank(required)) {
required = "0";
} else if (cell.getCellType() == HSSFCell.CELL_TYPE_NUMERIC) {
double dr = cell.getNumericCellValue();
if ((dr - (int) dr) * 1000 == 0) {
required = (int) dr + "";
}
}
if (!"0".equals(required) && !"1".equals(required)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("REQUIRED_column") + " " + resPageMsg.getString("was_invalid_at_row") + " " + k + ", " + resPageMsg.getString("items_worksheet") + ". " + resPageMsg.getString("REQUIRED_column") + resPageMsg.getString("can_only_be_either_0_or_1"));
htmlErrors.put(j + "," + k + ",20", resPageMsg.getString("INVALID_VALUE"));
} else {
isRequired = "1".equals(required) ? true : false;
}
// Create oid for Item Bean
String itemOid = idao.getValidOid(new ItemBean(), crfName, itemName, itemOids);
itemOids.add(itemOid);
// better spot for checking item might be right here,
// tbh 7-25
String vlSql = "";
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
QueryObject qo = new QueryObject();
if (dbName.equals("oracle")) {
/* vlSql =
"INSERT INTO ITEM (NAME,DESCRIPTION,UNITS,PHI_STATUS,"
+ "ITEM_DATA_TYPE_ID, ITEM_REFERENCE_TYPE_ID,STATUS_ID,OWNER_ID,DATE_CREATED,OC_OID) " + "VALUES ('"
+ stripQuotes(itemName) + "','" + stripQuotes(descLabel) + "','" + stripQuotes(unit) + "'," + (phiBoolean == true ? 1 : 0)
+ "," + dataTypeIdString + ",1,1," + ub.getId() + ", sysdate" + ",'" + itemOid + "')";*/
vlSql = "INSERT INTO ITEM (NAME,DESCRIPTION,UNITS,PHI_STATUS," + "ITEM_DATA_TYPE_ID, ITEM_REFERENCE_TYPE_ID,STATUS_ID,OWNER_ID,DATE_CREATED,OC_OID) " + "VALUES (?,?,?," + (phiBoolean == true ? 1 : 0) + "," + dataTypeIdString + ",1,1," + ub.getId() + ", sysdate" + ",?)";
} else {
/*vlSql =
"INSERT INTO ITEM (NAME,DESCRIPTION,UNITS,PHI_STATUS,"
+ "ITEM_DATA_TYPE_ID, ITEM_REFERENCE_TYPE_ID,STATUS_ID,OWNER_ID,DATE_CREATED,OC_OID) " + "VALUES ('"
+ stripQuotes(itemName) + "','" + stripQuotes(descLabel) + "','" + stripQuotes(unit) + "'," + phiBoolean + ","
+ dataTypeIdString + ",1,1," + ub.getId() + ", NOW()" + ",'" + itemOid + "')";*/
vlSql = "INSERT INTO ITEM (NAME,DESCRIPTION,UNITS,PHI_STATUS," + "ITEM_DATA_TYPE_ID, ITEM_REFERENCE_TYPE_ID,STATUS_ID,OWNER_ID,DATE_CREATED,OC_OID) " + "VALUES (?, ?, ?," + phiBoolean + "," + dataTypeIdString + ",1,1," + ub.getId() + ", NOW()" + ",?)";
}
// backupItemQueries.put(itemName, vlSql);
sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(itemName));
sqlParameters.add(new SqlParameter(descLabel));
sqlParameters.add(new SqlParameter(unit));
sqlParameters.add(new SqlParameter(itemOid));
qo = new QueryObject();
qo.setSql(vlSql);
qo.setSqlParameters(sqlParameters);
backupItemQueries.put(itemName, qo);
// to compare items from DB later, if two items have the
// same name,
// but different units or phiStatus, they are different
ItemBean ib = new ItemBean();
ib.setName(itemName);
ib.setUnits(unit);
ib.setPhiStatus(phiBoolean);
ib.setDescription(descLabel);
ib.setDataType(ItemDataType.getByName(dataType.toLowerCase()));
// put metadata into item
ResponseSetBean rsb = new ResponseSetBean();
// notice that still "\\," in options - jxu-08-31-06
String updatedResOptions = resOptions.replaceAll("\\\\,", "\\,");
String updatedResValues = resValues.replaceAll("\\\\,", "\\,");
// following rsb used in isResponseValid in CreateCRFVersionServlet for comparing response
// options text and values between form versions. Please keep as is. - Z 19-Jun-2020
rsb.setOptions(stripQuotes(updatedResOptions), stripQuotes(updatedResValues));
ItemFormMetadataBean ifmb = new ItemFormMetadataBean();
ifmb.setResponseSet(rsb);
ib.setItemMeta(ifmb);
items.put(itemName, ib);
int ownerId = ub.getId();
if (!itemCheck.containsKey(itemName)) {
// item not in
// the DB
// openQueries.put(itemName, vlSql);
openQueries.put(itemName, qo);
} else {
// item in the DB
ItemBean oldItem = (ItemBean) idao.findByNameAndCRFId(itemName, crfId);
if (oldItem.getOwnerId() == ub.getId()) {
// update
if (!cvdao.hasItemData(oldItem.getId())) {
// no
// item
// data
String upSql = "";
if (dbName.equals("oracle")) {
/* upSql =
"UPDATE ITEM SET DESCRIPTION='" + stripQuotes(descLabel) + "'," + "UNITS='" + stripQuotes(unit) + "',"
+ "PHI_STATUS=" + (phiBoolean ? 1 : 0) + "," + "ITEM_DATA_TYPE_ID=" + dataTypeIdString
+ " WHERE exists (SELECT versioning_map.item_id from versioning_map, crf_version where"
+ " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id= " + crfId
+ " AND item.item_id = versioning_map.item_id)" + " AND item.name='" + stripQuotes(itemName)
+ "' AND item.owner_id = " + ownerId;*/
upSql = "UPDATE ITEM SET DESCRIPTION= ?,UNITS= ?, " + "PHI_STATUS=" + (phiBoolean ? 1 : 0) + "," + "ITEM_DATA_TYPE_ID=" + dataTypeIdString + " WHERE exists (SELECT versioning_map.item_id from versioning_map, crf_version where" + " versioning_map.crf_version_id = crf_version.crf_version_id AND crf_version.crf_id= " + crfId + " AND item.item_id = versioning_map.item_id) AND item.name= ? " + "' AND item.owner_id = ?";
} else {
/* upSql =
"UPDATE ITEM SET DESCRIPTION='" + stripQuotes(descLabel) + "'," + "UNITS='" + stripQuotes(unit) + "',"
+ "PHI_STATUS=" + phiBoolean + "," + "ITEM_DATA_TYPE_ID=" + dataTypeIdString
+ " FROM versioning_map, crf_version" + " WHERE item.name='" + stripQuotes(itemName) + "' AND item.owner_id = "
+ ownerId + " AND item.item_id = versioning_map.item_id AND"
+ " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id = " + crfId;*/
upSql = "UPDATE ITEM SET DESCRIPTION= ?, UNITS= ?," + "PHI_STATUS=" + phiBoolean + "," + "ITEM_DATA_TYPE_ID=" + dataTypeIdString + " FROM versioning_map, crf_version" + " WHERE item.name= ? AND item.owner_id =? " + " AND item.item_id = versioning_map.item_id AND" + " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id = " + crfId;
}
// end of if dbname
// openQueries.put(itemName, upSql);
sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(descLabel));
sqlParameters.add(new SqlParameter(unit));
sqlParameters.add(new SqlParameter(itemName));
sqlParameters.add(new SqlParameter(ownerId + "", JDBCType.INTEGER));
qo = new QueryObject();
qo.setSql(upSql);
qo.setSqlParameters(sqlParameters);
openQueries.put(itemName, qo);
} else {
String upSql = "";
if (dbName.equals("oracle")) {
upSql = "UPDATE ITEM SET DESCRIPTION= ?," + "PHI_STATUS=" + (phiBoolean ? 1 : 0) + " WHERE exists (SELECT versioning_map.item_id from versioning_map, crf_version where" + " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id= " + crfId + " AND item.item_id = versioning_map.item_id)" + " AND item.name= ? " + " AND item.owner_id = ?";
} else {
upSql = "UPDATE ITEM SET DESCRIPTION= ?," + "PHI_STATUS=" + phiBoolean + " FROM versioning_map, crf_version" + " WHERE item.name= ? AND item.owner_id = ? " + ownerId + " AND item.item_id = versioning_map.item_id AND " + " versioning_map.crf_version_id = crf_version.crf_version_id" + " AND crf_version.crf_id = " + crfId;
}
// end of if dbName
// openQueries.put(itemName, upSql);
sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(descLabel));
sqlParameters.add(new SqlParameter(itemName));
sqlParameters.add(new SqlParameter(ownerId + "", JDBCType.INTEGER));
qo = new QueryObject();
qo.setSql(upSql);
qo.setSqlParameters(sqlParameters);
openQueries.put(itemName, qo);
}
} else {
ownerId = oldItem.getOwner().getId();
}
}
String sql = "";
sqlParameters = new ArrayList<>();
if (dbName.equals("oracle")) {
// resOptions = resOptions.replaceAll("\\\\,",
// "\\,");
/* sql =
"INSERT INTO RESPONSE_SET (LABEL, OPTIONS_TEXT, OPTIONS_VALUES, " + "RESPONSE_TYPE_ID, VERSION_ID)" + " VALUES ('"
+ stripQuotes(responseLabel) + "', '" + stripQuotes(resOptions.replaceAll("\\\\,", "\\,")) + "','"
+ stripQuotes(resValues.replace("\\\\", "\\")) + "'," + "(SELECT RESPONSE_TYPE_ID From RESPONSE_TYPE Where NAME='"
+ stripQuotes(responseType.toLowerCase()) + "')," + versionIdString + ")";*/
sql = "INSERT INTO RESPONSE_SET (LABEL, OPTIONS_TEXT, OPTIONS_VALUES, RESPONSE_TYPE_ID, VERSION_ID)" + " VALUES (?, ?, ?,(SELECT RESPONSE_TYPE_ID From RESPONSE_TYPE Where NAME=?)," + versionIdString + ")";
sqlParameters.add(new SqlParameter(responseLabel));
sqlParameters.add(new SqlParameter(resOptions.replaceAll("\\\\,", "\\,")));
sqlParameters.add(new SqlParameter(resValues.replace("\\\\", "\\")));
sqlParameters.add(new SqlParameter(responseType.toLowerCase()));
// in versionIdString there is one parameter:crfId
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
} else {
/* sql =
"INSERT INTO RESPONSE_SET (LABEL, OPTIONS_TEXT, OPTIONS_VALUES, " + "RESPONSE_TYPE_ID, VERSION_ID)" + " VALUES ('"
+ stripQuotes(responseLabel) + "', E'" + stripQuotes(resOptions) + "', E'" + stripQuotes(resValues) + "',"
+ "(SELECT RESPONSE_TYPE_ID From RESPONSE_TYPE Where NAME='" + stripQuotes(responseType.toLowerCase()) + "'),"
+ versionIdString + ")";*/
sql = "INSERT INTO RESPONSE_SET (LABEL, OPTIONS_TEXT, OPTIONS_VALUES, RESPONSE_TYPE_ID, VERSION_ID)" + " VALUES (?, ?, ?,(SELECT RESPONSE_TYPE_ID From RESPONSE_TYPE Where NAME=?)," + versionIdString + ")";
sqlParameters.add(new SqlParameter(responseLabel));
sqlParameters.add(new SqlParameter(updatedResOptions));
sqlParameters.add(new SqlParameter(updatedResValues));
sqlParameters.add(new SqlParameter(responseType.toLowerCase()));
// in versionIdString there is one parameter:crfId
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
}
if (!resNames.contains(responseLabel)) {
qo = new QueryObject();
qo.setSql(sql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
resNames.add(responseLabel);
// this will have to change since we have some data
// in the actual
// spreadsheet
// change it to caching response set names in a
// collection?
// or just delete the offending cells from the
// spreadsheet?
}
String parentItemString = "0";
if (!StringUtil.isBlank(parentItem)) {
if (dbName.equals("oracle")) {
parentItemString = "(SELECT MAX(ITEM_ID) FROM ITEM WHERE NAME='" + parentItem + "' AND owner_id = " + ownerId + " )";
} else {
parentItemString = "(SELECT ITEM_ID FROM ITEM WHERE NAME='" + parentItem + "' AND owner_id = " + ownerId + " ORDER BY OC_OID DESC LIMIT 1)";
}
}
String selectCorrectItemQueryPostgres = " (SELECT I.ITEM_ID FROM ITEM I LEFT OUTER JOIN ITEM_FORM_METADATA IFM ON I.ITEM_Id = IFM.ITEM_ID LEFT OUTER JOIN CRF_VERSION CV ON IFM.CRF_VERSION_ID = CV.CRF_VERSION_ID WHERE " + " ( I.NAME='" + itemName + "'" + " AND I.owner_id = " + ownerId + " AND CV.CRF_VERSION_ID is null )" + " OR " + " ( I.NAME='" + itemName + "'" + " AND I.owner_id = " + ownerId + " AND CV.CRF_VERSION_ID is not null AND CV.CRF_ID =" + crfId + " ) " + " ORDER BY I.OC_ID DESC LIMIT 1) ";
String selectCorrectItemQueryOracle = " (SELECT MAX(I.ITEM_ID) FROM ITEM I LEFT OUTER JOIN ITEM_FORM_METADATA IFM ON I.ITEM_Id = IFM.ITEM_ID LEFT OUTER JOIN CRF_VERSION CV ON IFM.CRF_VERSION_ID = CV.CRF_VERSION_ID WHERE " + " ( I.NAME='" + itemName + "'" + " AND I.owner_id = " + ownerId + " AND CV.CRF_VERSION_ID is null )" + " OR " + " ( I.NAME='" + itemName + "'" + " AND I.owner_id = " + ownerId + " AND CV.CRF_VERSION_ID is not null AND CV.CRF_ID =" + crfId + " )) ";
String sql2 = "";
sqlParameters = new ArrayList<>();
if (dbName.equals("oracle")) {
/* sql2 =
"INSERT INTO ITEM_FORM_METADATA (CRF_VERSION_ID, RESPONSE_SET_ID," + "ITEM_ID,SUBHEADER,header,LEFT_ITEM_TEXT,"
+ "RIGHT_ITEM_TEXT,PARENT_ID,SECTION_ID,ORDINAL,PARENT_LABEL,COLUMN_NUMBER,PAGE_NUMBER_LABEL,question_number_label,"
+ "REGEXP,REGEXP_ERROR_MSG,REQUIRED)" + " VALUES ("
+ versionIdString
+ ",(SELECT RESPONSE_SET_ID FROM RESPONSE_SET WHERE LABEL='"
+ stripQuotes(responseLabel)
+ "'"
+ " AND VERSION_ID="
+ versionIdString
+ "),"
+ selectCorrectItemQueryOracle
+ ",'"
+ stripQuotes(subHeader)
+ "','"
+ stripQuotes(header)
+ "','"
+ stripQuotes(leftItemText)
+ "','"
+ stripQuotes(rightItemText)
+ "',"
+ parentItemString
+ ", (SELECT SECTION_ID FROM SECTION WHERE LABEL='"
+ secName
+ "' AND "
+ "CRF_VERSION_ID IN "
+ versionIdString
+ "), "
+ k
+ ",'"
+ parentItem
+ "',"
+ columnNum
+ ",'"
+ stripQuotes(page)
+ "','"
+ stripQuotes(questionNum)
+ "','"
+ stripQuotes(regexp1) + "','" + stripQuotes(regexpError) + "', " + (isRequired ? 1 : 0) + ")";
*/
sql2 = "INSERT INTO ITEM_FORM_METADATA (CRF_VERSION_ID, RESPONSE_SET_ID," + "ITEM_ID,SUBHEADER,header,LEFT_ITEM_TEXT," + "RIGHT_ITEM_TEXT,PARENT_ID,SECTION_ID,ORDINAL,PARENT_LABEL,COLUMN_NUMBER,PAGE_NUMBER_LABEL,question_number_label," + "REGEXP,REGEXP_ERROR_MSG,REQUIRED)" + " VALUES (" + versionIdString + // responseLabel
",(SELECT RESPONSE_SET_ID FROM RESPONSE_SET WHERE LABEL=?" + " AND VERSION_ID=" + versionIdString + ")," + selectCorrectItemQueryPostgres + // subHeader, header, leftItemText, rightItemText
",?, ?, ?, ?, " + parentItemString + ", (SELECT SECTION_ID FROM SECTION WHERE LABEL='" + secName + "' AND " + "CRF_VERSION_ID IN " + versionIdString + "), " + k + ",'" + parentItem + "'," + columnNum + // page, questionNum, regexp1, regexpError
",?,?,?,?, " + (isRequired ? 1 : 0) + ")";
} else {
/* sql2 =
"INSERT INTO ITEM_FORM_METADATA (CRF_VERSION_ID, RESPONSE_SET_ID," + "ITEM_ID,SUBHEADER,HEADER,LEFT_ITEM_TEXT,"
+ "RIGHT_ITEM_TEXT,PARENT_ID,SECTION_ID,ORDINAL,PARENT_LABEL,COLUMN_NUMBER,PAGE_NUMBER_LABEL,question_number_label,"
+ "REGEXP,REGEXP_ERROR_MSG,REQUIRED)" + " VALUES ("
+ versionIdString
+ ",(SELECT RESPONSE_SET_ID FROM RESPONSE_SET WHERE LABEL='"
+ stripQuotes(responseLabel)
+ "'"
+ " AND VERSION_ID="
+ versionIdString
+ "),"
+ selectCorrectItemQueryPostgres
+ ",'"
+ stripQuotes(subHeader)
+ "','"
+ stripQuotes(header)
+ "','"
+ stripQuotes(leftItemText)
+ "','"
+ stripQuotes(rightItemText)
+ "',"
+ parentItemString
+ ", (SELECT SECTION_ID FROM SECTION WHERE LABEL='"
+ secName
+ "' AND "
+ "CRF_VERSION_ID IN "
+ versionIdString
+ "), "
+ k
+ ",'"
+ parentItem
+ "',"
+ columnNum
+ ",'"
+ stripQuotes(page)
+ "','"
+ stripQuotes(questionNum)
+ "','"
+ stripQuotes(regexp1) + "','" + stripQuotes(regexpError) + "', " + isRequired + ")";*/
sql2 = "INSERT INTO ITEM_FORM_METADATA (CRF_VERSION_ID, RESPONSE_SET_ID," + "ITEM_ID,SUBHEADER,HEADER,LEFT_ITEM_TEXT," + "RIGHT_ITEM_TEXT,PARENT_ID,SECTION_ID,ORDINAL,PARENT_LABEL,COLUMN_NUMBER,PAGE_NUMBER_LABEL,question_number_label," + "REGEXP,REGEXP_ERROR_MSG,REQUIRED)" + " VALUES (" + versionIdString + // responseLabel
",(SELECT RESPONSE_SET_ID FROM RESPONSE_SET WHERE LABEL=?" + " AND VERSION_ID=" + versionIdString + ")," + selectCorrectItemQueryPostgres + // subHeader, header, leftItemText, rightItemText
",?, ?, ?, ?, " + parentItemString + ", (SELECT SECTION_ID FROM SECTION WHERE LABEL='" + secName + "' AND " + "CRF_VERSION_ID IN " + versionIdString + "), " + k + ",'" + parentItem + "'," + columnNum + // page, questionNum, regexp1, regexpError
",?,?,?,?, " + isRequired + ")";
}
// in versionIdString there one parameter:crfId
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(responseLabel));
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(subHeader));
sqlParameters.add(new SqlParameter(header));
sqlParameters.add(new SqlParameter(leftItemText));
sqlParameters.add(new SqlParameter(rightItemText));
// in versionIdString there one parameter:crfId
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(page));
sqlParameters.add(new SqlParameter(questionNum));
sqlParameters.add(new SqlParameter(regexp1));
sqlParameters.add(new SqlParameter(regexpError));
qo = new QueryObject();
qo.setSql(sql2);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
// link version with items now
String sql3 = "";
if (dbName.equals("oracle")) {
sql3 = "INSERT INTO VERSIONING_MAP (CRF_VERSION_ID, ITEM_ID) VALUES ( " + versionIdString + "," + selectCorrectItemQueryOracle + ")";
} else {
sql3 = "INSERT INTO VERSIONING_MAP (CRF_VERSION_ID, ITEM_ID) VALUES ( " + versionIdString + "," + selectCorrectItemQueryPostgres + ")";
}
sqlParameters = new ArrayList<>();
// in versionIdString there one parameter:crfId
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
qo = new QueryObject();
qo.setSql(sql3);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
// this item doesn't have group, so put it into
// 'Ungrouped' group
String sqlGroupLabel = "";
if (dbName.equals("oracle")) {
sqlGroupLabel = "INSERT INTO ITEM_GROUP_METADATA (" + "item_group_id,header," + "subheader, layout, repeat_number, repeat_max," + " repeat_array,row_start_number, crf_version_id," + "item_id , ordinal, borders) VALUES (" + "(SELECT MAX(ITEM_GROUP_ID) FROM ITEM_GROUP WHERE NAME='Ungrouped' AND crf_id = " + crfId + " ),'" + "" + "', '" + "" + "', '" + "" + "', " + 1 + ", " + 1 + ", '', 1," + versionIdString + "," + // + itemName + "' ),"
"(SELECT MAX(ITEM.ITEM_ID) FROM ITEM,ITEM_FORM_METADATA,CRF_VERSION WHERE ITEM.NAME='" + itemName + "' " + "AND ITEM.ITEM_ID = ITEM_FORM_METADATA.ITEM_ID and ITEM_FORM_METADATA.CRF_VERSION_ID=CRF_VERSION.CRF_VERSION_ID " + "AND CRF_VERSION.CRF_ID= " + crfId + " )," + k + ",0)";
} else {
sqlGroupLabel = "INSERT INTO ITEM_GROUP_METADATA (" + "item_group_id,HEADER," + "subheader, layout, repeat_number, repeat_max," + " repeat_array,row_start_number, crf_version_id," + "item_id , ordinal, borders) VALUES (" + "(SELECT ITEM_GROUP_ID FROM ITEM_GROUP WHERE NAME='Ungrouped' AND crf_id = " + crfId + " ORDER BY oc_oid DESC LIMIT 1),'" + "" + "', '" + "" + "', '" + "" + "', " + 1 + ", " + 1 + ", '', 1," + versionIdString + "," + // LIMIT 1),"
"(SELECT ITEM.ITEM_ID FROM ITEM,ITEM_FORM_METADATA,CRF_VERSION WHERE ITEM.NAME='" + itemName + "' " + "AND ITEM.ITEM_ID = ITEM_FORM_METADATA.ITEM_ID and ITEM_FORM_METADATA.CRF_VERSION_ID=CRF_VERSION.CRF_VERSION_ID " + "AND CRF_VERSION.CRF_ID= " + crfId + " ORDER BY ITEM.OC_OID DESC LIMIT 1)," + k + ",0)";
}
sqlParameters = new ArrayList<>();
// in versionIdString there one parameter:crfId
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
qo = new QueryObject();
qo.setSql(sqlGroupLabel);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
}
} else if (sheetName.equalsIgnoreCase("Sections")) {
logger.info("read sections");
// multiple rows, six cells, last one is number
for (int k = 1; k < numRows; k++) {
if (blankRowCount == 5) {
logger.info("hit end of the row ");
break;
}
if (sheet.getRow(k) == null) {
blankRowCount++;
continue;
}
HSSFCell cell = sheet.getRow(k).getCell((short) 0);
String secLabel = getValue(cell);
secLabel = secLabel.replaceAll("<[^>]*>", "");
if (StringUtil.isBlank(secLabel)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SECTION_LABEL_column") + " " + resPageMsg.getString("was_blank_at_row") + k + " " + ", " + resPageMsg.getString("sections_worksheet") + ".");
htmlErrors.put(j + "," + k + ",0", resPageMsg.getString("required_field"));
}
if (secLabel != null && secLabel.length() > 2000) {
errors.add(resPageMsg.getString("section_label_length_error"));
}
if (secLabel.contains("'")) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SECTION_LABEL_column") + " value " + secLabel + " " + resPageMsg.getString("has_invalid_character") + "\" ' \"" + ". " + resPageMsg.getString("remove_invalid_character"));
}
if (secNames.contains(secLabel)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SECTION_LABEL_column") + resPageMsg.getString("was_a_duplicate_of") + secLabel + " " + resPageMsg.getString("at_row") + " " + k + ", " + resPageMsg.getString("sections_worksheet") + ".");
htmlErrors.put(j + "," + k + ",0", resPageMsg.getString("DUPLICATE_FIELD"));
}
// logger.info("section name:" + secLabel + "row num:"
// +k);
secNames.add(secLabel);
cell = sheet.getRow(k).getCell((short) 1);
String title = getValue(cell);
title = title.replaceAll("<[^>]*>", "");
if (StringUtil.isBlank(title)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("SECTION_TITLE_column") + " " + resPageMsg.getString("was_blank_at_row") + " " + k + ", " + resPageMsg.getString("sections_worksheet") + ".");
htmlErrors.put(j + "," + k + ",1", resPageMsg.getString("required_field"));
}
if (title != null && title.length() > 2000) {
errors.add(resPageMsg.getString("section_title_length_error"));
}
cell = sheet.getRow(k).getCell((short) 2);
String subtitle = getValue(cell);
if (subtitle != null && subtitle.length() > 2000) {
errors.add(resPageMsg.getString("section_subtitle_length_error"));
}
cell = sheet.getRow(k).getCell((short) 3);
String instructions = getValue(cell);
if (instructions != null && instructions.length() > 2000) {
errors.add(resPageMsg.getString("section_instruction_length_error"));
}
cell = sheet.getRow(k).getCell((short) 4);
String pageNumber = getValue(cell);
if (pageNumber != null && pageNumber.length() > 5) {
errors.add(resPageMsg.getString("section_page_number_length_error"));
}
cell = sheet.getRow(k).getCell((short) 5);
String parentSection = getValue(cell);
parentSection = parentSection.replaceAll("<[^>]*>", "");
if (!StringUtil.isBlank(parentSection)) {
try {
parentId = Integer.parseInt(parentSection);
} catch (NumberFormatException ne) {
parentId = 0;
}
}
String sql = "";
if (dbName.equals("oracle")) {
/* sql =
"INSERT INTO SECTION (CRF_VERSION_ID," + "STATUS_ID,LABEL, TITLE, INSTRUCTIONS, SUBTITLE, PAGE_NUMBER_LABEL,"
+ "ORDINAL, PARENT_ID, OWNER_ID, DATE_CREATED) " + "VALUES (" + versionIdString + ",1,'" + secLabel + "','"
+ stripQuotes(title) + "', '" + stripQuotes(instructions) + "', '" + stripQuotes(subtitle) + "','" + pageNumber + "'," + k
+ "," + parentId + "," + ub.getId() + ",sysdate)";*/
sql = "INSERT INTO SECTION (CRF_VERSION_ID," + "STATUS_ID,LABEL, TITLE, INSTRUCTIONS, SUBTITLE, PAGE_NUMBER_LABEL," + "ORDINAL, PARENT_ID, OWNER_ID, DATE_CREATED) " + "VALUES (" + versionIdString + ", 1, ? ,?, ?, ?, ?, ?, ?, ?,sysdate)";
} else {
/* sql =
"INSERT INTO SECTION (CRF_VERSION_ID," + "STATUS_ID,LABEL, TITLE, INSTRUCTIONS, SUBTITLE, PAGE_NUMBER_LABEL,"
+ "ORDINAL, PARENT_ID, OWNER_ID, DATE_CREATED) " + "VALUES (" + versionIdString + ",1,'" + secLabel + "','"
+ stripQuotes(title) + "', '" + stripQuotes(instructions) + "', '" + stripQuotes(subtitle) + "','" + pageNumber + "'," + k
+ "," + parentId + "," + ub.getId() + ",NOW())";*/
sql = "INSERT INTO SECTION (CRF_VERSION_ID," + "STATUS_ID,LABEL, TITLE, INSTRUCTIONS, SUBTITLE, PAGE_NUMBER_LABEL," + "ORDINAL, PARENT_ID, OWNER_ID, DATE_CREATED) " + "VALUES (" + versionIdString + ", 1, ? ,?, ?, ?, ?, ?, ?, ?,NOW())";
}
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
// in versionIdString there one parameter:crfId
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(secLabel));
sqlParameters.add(new SqlParameter(title));
sqlParameters.add(new SqlParameter(instructions));
sqlParameters.add(new SqlParameter(subtitle));
sqlParameters.add(new SqlParameter(pageNumber));
sqlParameters.add(new SqlParameter(k + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(parentId + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(ub.getId() + "", JDBCType.INTEGER));
QueryObject qo = new QueryObject();
qo.setSql(sql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
}
// end for loop
} else if (sheetName.equalsIgnoreCase("CRF")) {
logger.info("read crf");
// one row, four cells, all strings
if (sheet == null || sheet.getRow(1) == null || sheet.getRow(1).getCell((short) 0) == null) {
throw new CRFReadingException("Blank row found in sheet CRF.");
}
HSSFCell cell = sheet.getRow(1).getCell((short) 0);
crfName = getValue(cell);
crfName = crfName.replaceAll("<[^>]*>", "");
if (StringUtil.isBlank(crfName)) {
// resPageMsg.getString("required_field"));
throw new CRFReadingException("The CRF_NAME column was blank in the CRF worksheet.");
}
if (crfName.length() > 255) {
errors.add(resPageMsg.getString("crf_name_length_error"));
}
CRFBean existingCRFWithSameName = (CRFBean) cdao.findByName(crfName);
if (this.getCrfId() == 0) {
if (existingCRFWithSameName.getName() != null && existingCRFWithSameName.getName().equals(crfName)) {
errors.add(resPageMsg.getString("crf_name_already_used"));
}
}
// TODO Why the following codes are commented out? -jxu
// try {
// CRFBean checkName = (CRFBean) cdao.findByPK(crfId);
// if (!checkName.getName().equals(crfName)) {
// logger.info("crf name is mismatch");
// errors.add(resPageMsg.getString("the") + " " +
// resPageMsg.getString("CRF_NAME_column") +
// resPageMsg.getString("did_not_match_crf_version") + " '"
// + checkName.getName()
// + "' " + resPageMsg.getString("before_you_continue"));
// htmlErrors.put(j + ",1,0",
// resPageMsg.getString("DID_NOT_MATCH_CRF"));
// }
// } catch (Exception pe) {
// logger.warn("Exception happened when check CRF name" +
// pe.getMessage());
// }
cell = sheet.getRow(1).getCell((short) 1);
String version = getValue(cell);
version = version.replaceAll("<[^>]*>", "");
ncrf.setVersionName(version);
if (version != null && version.length() > 255) {
errors.add(resPageMsg.getString("version_length_error"));
}
// YW, 08-22-2007, since versionName is now obtained from
// spreadsheet,
// blank check has been moved to
// CreateCRFVersionServlet.java
// and mismatch check is not necessary
// if (StringUtil.isBlank(version)) {
// errors.add("The VERSION column was blank in the CRF
// worksheet.");
// htmlErrors.put(j + ",1,1", "REQUIRED FIELD");
// }else if (!version.equals(versionName)) {
// errors.add("The VERSION column did not match the intended
// version name "
// + "you want to upload. Make sure this reads '" +
// versionName
// + "' before you continue.");
// htmlErrors.put(j + ",1,1", "DID NOT MATCH VERSION");
// }
cell = sheet.getRow(1).getCell((short) 2);
String versionDesc = getValue(cell);
versionDesc = versionDesc.replaceAll("<[^>]*>", "");
if (versionDesc != null && versionDesc.length() > 4000) {
errors.add(resPageMsg.getString("version_description_length_error"));
}
cell = sheet.getRow(1).getCell((short) 3);
String revisionNotes = getValue(cell);
revisionNotes = revisionNotes.replaceAll("<[^>]*>", "");
if (revisionNotes != null && revisionNotes.length() > 255) {
errors.add(resPageMsg.getString("revision_notes_length_error"));
}
if (StringUtil.isBlank(revisionNotes)) {
errors.add(resPageMsg.getString("the") + " " + resPageMsg.getString("REVISION_NOTES_column") + " " + resPageMsg.getString("was_blank_in_the_CRF_worksheet"));
htmlErrors.put(j + ",1,3", resPageMsg.getString("required_field"));
}
// Generating query string for the new CRF
Connection con = null;
String crfOid = null;
if (crfId == 0) {
crfOid = cdao.getValidOid(new CRFBean(), crfName);
int nextCRFId;
try {
con = ds.getConnection();
/*
* We are selecting the crf id which will be used to
* save the new CRF. Selecting the crf id in advance
* will not cause any problem in a multi threaded
* environment because the nextVal() method always
* returns unique values. So there is no chance of
* processing two CRF simultaneously with same crf
* id.
*/
ResultSet nextIdRs;
if (dbName.equals("oracle")) {
nextIdRs = con.createStatement().executeQuery("select crf_id_seq.nextval from dual");
} else {
nextIdRs = con.createStatement().executeQuery("select nextval('crf_crf_id_seq')");
}
nextIdRs.next();
nextCRFId = nextIdRs.getInt(1);
crfId = nextCRFId;
ncrf.setCrfId(crfId);
String createCRFSql = "";
if (dbName.equals("oracle")) {
/*createCRFSql =
"INSERT INTO CRF (CRF_ID, STATUS_ID, NAME, DESCRIPTION, OWNER_ID, DATE_CREATED, OC_OID, SOURCE_STUDY_ID) VALUES (" + crfId
+ ", 1,'" + stripQuotes(crfName) + "','" + stripQuotes(versionDesc) + "'," + ub.getId() + ",sysdate" + ",'" + crfOid
+ "'," + studyId + ")";*/
createCRFSql = "INSERT INTO CRF (CRF_ID, STATUS_ID, NAME, DESCRIPTION, OWNER_ID, DATE_CREATED, OC_OID, SOURCE_STUDY_ID) VALUES " + "(?, 1, ?, ?, ?, sysdate,? ,?)";
} else {
/* createCRFSql =
"INSERT INTO CRF (CRF_ID, STATUS_ID, NAME, DESCRIPTION, OWNER_ID, DATE_CREATED, OC_OID, SOURCE_STUDY_ID) VALUES (" + crfId
+ ", 1,'" + stripQuotes(crfName) + "','" + stripQuotes(versionDesc) + "'," + ub.getId() + ",NOW()" + ",'" + crfOid
+ "'," + studyId + ")";*/
createCRFSql = "INSERT INTO CRF (CRF_ID, STATUS_ID, NAME, DESCRIPTION, OWNER_ID, DATE_CREATED, OC_OID, SOURCE_STUDY_ID) VALUES " + "(?, 1, ?, ?, ?, NOW(),? ,?)";
}
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(crfName));
sqlParameters.add(new SqlParameter(versionDesc));
sqlParameters.add(new SqlParameter(ub.getId() + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(crfOid));
sqlParameters.add(new SqlParameter(studyId + "", JDBCType.INTEGER));
QueryObject qo = new QueryObject();
qo.setSql(createCRFSql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
} catch (SQLException e) {
logger.warn("Exception encountered with query select nextval('crf_crf_id_seq'), Message-" + e.getMessage());
} finally {
if (con != null) {
try {
con.close();
} catch (SQLException e) {
logger.warn("Connectin can't be closed");
}
}
}
}
// check for instrument existence here??? tbh 7/28
// engaging in new validation, tbh, 6-4-04
// modify nib.getinstversions to look for version name and
// description
// need to stop uploads of same name-description pairs
HashMap checkCRFVersions = ncrf.getCrfVersions();
// this now returns a hash map of key:version_name
// ->value:version_description
boolean overwrite = false;
if (checkCRFVersions.containsKey(version)) {
logger.info("found a matching version name..." + version);
errors.add(resPageMsg.getString("version_not_unique_cause_confusion"));
htmlErrors.put(j + ",1,2", resPageMsg.getString("NOT_UNIQUE"));
}
// Create oid for Crf Version
String oid;
if (crfOid != null) {
oid = cvdao.getValidOid(new CRFVersionBean(), crfOid, version);
} else {
CRFBean crfBean = (CRFBean) cdao.findByName(crfName);
oid = cvdao.getValidOid(new CRFVersionBean(), crfBean.getOid(), version);
}
String sql = "";
ArrayList<SqlParameter> sqlParameters = new ArrayList<>();
if (dbName.equals("oracle")) {
logger.warn("TEST 2");
if (crfId == 0) {
/*sql =
"INSERT INTO CRF_VERSION (NAME, DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) "
+ "VALUES ('" + stripQuotes(version) + "','" + stripQuotes(versionDesc) + "'," + "(SELECT CRF_ID FROM CRF WHERE NAME='"
+ crfName + "'),1,sysdate," + ub.getId() + ",'" + stripQuotes(revisionNotes) + "','" + oid + "')";*/
sql = "INSERT INTO CRF_VERSION (NAME,DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + "VALUES (?, ?, (SELECT CRF_ID FROM CRF WHERE NAME=?), 1, sysdate, ?, ?, ?)";
sqlParameters.add(new SqlParameter(version + ""));
sqlParameters.add(new SqlParameter(versionDesc));
sqlParameters.add(new SqlParameter(crfName));
sqlParameters.add(new SqlParameter(ub.getId() + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(revisionNotes));
sqlParameters.add(new SqlParameter(oid + ""));
} else {
/* sql =
"INSERT INTO CRF_VERSION (NAME,DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + "VALUES ('"
+ version + "','" + stripQuotes(versionDesc) + "'," + crfId + ",1,sysdate," + ub.getId() + ",'"
+ stripQuotes(revisionNotes) + "','" + oid + "')";*/
sql = "INSERT INTO CRF_VERSION (NAME,DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + "VALUES (?, ?, ?, 1, sysdate, ?, ?, ?)";
sqlParameters.add(new SqlParameter(version + ""));
sqlParameters.add(new SqlParameter(versionDesc));
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(ub.getId() + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(revisionNotes));
sqlParameters.add(new SqlParameter(oid + ""));
}
} else {
if (crfId == 0) {
/*sql =
"INSERT INTO CRF_VERSION (NAME, DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) "
+ "VALUES ('" + stripQuotes(version) + "','" + stripQuotes(versionDesc) + "'," + "(SELECT CRF_ID FROM CRF WHERE NAME='"
+ crfName + "'),1,NOW()," + ub.getId() + ",'" + stripQuotes(revisionNotes) + "','" + oid + "')";*/
sql = "INSERT INTO CRF_VERSION (NAME,DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + " VALUES (?, ?, (SELECT CRF_ID FROM CRF WHERE NAME=?), 1, NOW(), ?, ?, ?)";
sqlParameters.add(new SqlParameter(version + ""));
sqlParameters.add(new SqlParameter(versionDesc));
sqlParameters.add(new SqlParameter(crfName));
sqlParameters.add(new SqlParameter(ub.getId() + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(revisionNotes));
sqlParameters.add(new SqlParameter(oid + ""));
} else {
/* sql =
"INSERT INTO CRF_VERSION (NAME,DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + "VALUES ('"
+ version + "','" + stripQuotes(versionDesc) + "'," + crfId + ",1,NOW()," + ub.getId() + ",'" + stripQuotes(revisionNotes)
+ "','" + oid + "')";*/
sql = "INSERT INTO CRF_VERSION (NAME,DESCRIPTION, CRF_ID, STATUS_ID,DATE_CREATED," + "OWNER_ID,REVISION_NOTES,OC_OID) " + " VALUES (?, ?, ?, 1, NOW(), ?, ?, ?)";
sqlParameters.add(new SqlParameter(version + ""));
sqlParameters.add(new SqlParameter(versionDesc));
sqlParameters.add(new SqlParameter(crfId + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(ub.getId() + "", JDBCType.INTEGER));
sqlParameters.add(new SqlParameter(revisionNotes));
sqlParameters.add(new SqlParameter(oid + ""));
}
}
QueryObject qo = new QueryObject();
qo.setSql(sql);
qo.setSqlParameters(sqlParameters);
queries.add(qo);
for (int i = 0; i < queries.size(); i++) {
String s = (String) queries.get(i);
logger.info("====================" + s);
}
pVersion = version;
pVerDesc = versionDesc;
}
/*versionIdString = "(SELECT CRF_VERSION_ID FROM CRF_VERSION WHERE NAME ='" + pVersion + "' AND CRF_ID=" + crfId + ")";*/
versionIdString = "(SELECT CRF_VERSION_ID FROM CRF_VERSION WHERE NAME ='" + pVersion + "' AND CRF_ID=?)";
// move html creation to here, include error creation as well,
// tbh 7/28
buf.append(sheetName + "<br>");
buf.append("<div class=\"box_T\"><div class=\"box_L\"><div class=\"box_R\"><div class=\"box_B\"><div class=\"box_TL\"><div class=\"box_TR\"><div class=\"box_BL\"><div class=\"box_BR\">");
buf.append("<div class=\"textbox_center\">");
buf.append("<table border=\"0\" cellpadding=\"0\" cellspacing=\"0\" width=\"100%\"");
buf.append("caption=\"" + wb.getSheetName(j) + "\"" + ">");
for (int i = 0; i < numRows; i++) {
buf.append("<tr>");
if (sheet.getRow(i) == null) {
continue;
}
int numCells = sheet.getRow(i).getLastCellNum();
for (int y = 0; y < numCells; y++) {
HSSFCell cell = sheet.getRow(i).getCell((short) y);
int cellType = 0;
String error = " ";
String errorKey = j + "," + i + "," + y;
if (htmlErrors.containsKey(errorKey)) {
error = "<span class=\"alert\">" + htmlErrors.get(errorKey) + "</span>";
}
if (cell == null) {
cellType = HSSFCell.CELL_TYPE_BLANK;
} else {
cellType = cell.getCellType();
}
switch(cellType) {
case HSSFCell.CELL_TYPE_BLANK:
buf.append("<td class=\"table_cell\">" + error + "</td>");
break;
case HSSFCell.CELL_TYPE_NUMERIC:
buf.append("<td class=\"table_cell\">" + cell.getNumericCellValue() + " " + error + "</td>");
break;
case HSSFCell.CELL_TYPE_STRING:
buf.append("<td class=\"table_cell\">" + cell.getStringCellValue() + " " + error + "</td>");
break;
default:
buf.append("<td class=\"table_cell\">" + error + "</td>");
}
}
buf.append("</tr>");
}
buf.append("</table>");
buf.append("<br></div>");
buf.append("</div></div></div></div></div></div></div></div>");
buf.append("</div><br>");
}
// end of the else sheet loop
}
// end of the for loop for sheets
ncrf.setQueries(queries);
ncrf.setItemQueries(openQueries);
ncrf.setBackupItemQueries(backupItemQueries);
ncrf.setItems(items);
if (!errors.isEmpty()) {
ncrf.setErrors(errors);
}
// logger.info("html table:" + buf.toString());
ncrf.setHtmlTable(buf.toString());
return ncrf;
}
Also used :
ItemBean(org.akaza.openclinica.bean.submit.ItemBean)
ItemDAO(org.akaza.openclinica.dao.submit.ItemDAO)
SQLException(java.sql.SQLException)
ItemGroupDAO(org.akaza.openclinica.dao.submit.ItemGroupDAO)
CRFReadingException(org.akaza.openclinica.exception.CRFReadingException)
ItemDataDAO(org.akaza.openclinica.dao.submit.ItemDataDAO)
ResultSet(java.sql.ResultSet)
PatternSyntaxException(java.util.regex.PatternSyntaxException)
Pattern(java.util.regex.Pattern)
CRFDAO(org.akaza.openclinica.dao.admin.CRFDAO)
SqlParameter(org.akaza.openclinica.bean.admin.SqlParameter)
CRFVersionDAO(org.akaza.openclinica.dao.submit.CRFVersionDAO)
Connection(java.sql.Connection)
MeasurementUnitOidGenerator(org.akaza.openclinica.bean.oid.MeasurementUnitOidGenerator)
QueryObject(org.akaza.openclinica.bean.admin.QueryObject)
HSSFWorkbook(org.apache.poi.hssf.usermodel.HSSFWorkbook)
SQLException(java.sql.SQLException)
PatternSyntaxException(java.util.regex.PatternSyntaxException)
CRFReadingException(org.akaza.openclinica.exception.CRFReadingException)
IOException(java.io.IOException)
NewCRFBean(org.akaza.openclinica.bean.admin.NewCRFBean)
CRFBean(org.akaza.openclinica.bean.admin.CRFBean)
NewCRFBean(org.akaza.openclinica.bean.admin.NewCRFBean)
HSSFCell(org.apache.poi.hssf.usermodel.HSSFCell)
ScoreValidator(org.akaza.openclinica.logic.score.ScoreValidator)
HSSFSheet(org.apache.poi.hssf.usermodel.HSSFSheet)
CRFVersionBean(org.akaza.openclinica.bean.submit.CRFVersionBean)
ResponseSetBean(org.akaza.openclinica.bean.submit.ResponseSetBean)
ItemGroupBean(org.akaza.openclinica.bean.submit.ItemGroupBean)
ItemFormMetadataBean(org.akaza.openclinica.bean.submit.ItemFormMetadataBean)
Aggregations
ItemGroupDAO (org.akaza.openclinica.dao.submit.ItemGroupDAO)24
ItemGroupBean (org.akaza.openclinica.bean.submit.ItemGroupBean)23
ArrayList (java.util.ArrayList)18
SectionBean (org.akaza.openclinica.bean.submit.SectionBean)13
ItemDAO (org.akaza.openclinica.dao.submit.ItemDAO)12
SectionDAO (org.akaza.openclinica.dao.submit.SectionDAO)12
DisplayItemGroupBean (org.akaza.openclinica.bean.submit.DisplayItemGroupBean)11
DisplaySectionBean (org.akaza.openclinica.bean.submit.DisplaySectionBean)11
ItemBean (org.akaza.openclinica.bean.submit.ItemBean)11
CRFVersionDAO (org.akaza.openclinica.dao.submit.CRFVersionDAO)11
CRFVersionBean (org.akaza.openclinica.bean.submit.CRFVersionBean)10
CRFBean (org.akaza.openclinica.bean.admin.CRFBean)9
CRFDAO (org.akaza.openclinica.dao.admin.CRFDAO)9
EventDefinitionCRFBean (org.akaza.openclinica.bean.managestudy.EventDefinitionCRFBean)8
StudyBean (org.akaza.openclinica.bean.managestudy.StudyBean)8
StudyEventDefinitionBean (org.akaza.openclinica.bean.managestudy.StudyEventDefinitionBean)8
ItemFormMetadataBean (org.akaza.openclinica.bean.submit.ItemFormMetadataBean)8
StudyEventDefinitionDAO (org.akaza.openclinica.dao.managestudy.StudyEventDefinitionDAO)8
HashMap (java.util.HashMap)7
EventCRFBean (org.akaza.openclinica.bean.submit.EventCRFBean)7
