/// <summary>
/// Process a command line to grant a user a privilege
/// </summary>
/// <param name="commandLine"></param>et
/// <returns></returns>
public static string GrantPrivilege(
string commandLine)
{
if (UserInfo == null || !IsAdministrator(UserInfo.UserName))
{
return("You must be an administrator to grant privileges");
}
Lex lex = new Lex();
lex.OpenString(commandLine);
string priv = lex.Get();
string userName = lex.Get();
if (Lex.Eq(userName, "to"))
{
userName = lex.Get();
}
if (priv == "" || userName == "")
{
return("Syntax: GRANT privilege TO userid");
}
if (!PrivilegesMx.IsValidPrivilegeName(priv))
{
return(priv + " is not a valid privilege");
}
if (!UserExists(userName))
{
return("User " + userName + " doesn't exist");
}
GrantPrivilege(userName, priv);
return("Privilege granted");
}
/// <summary>
/// Format internal form of advanced expression
/// </summary>
/// <param name="advExpr"></param>
/// <param name="q"></param>
string FormatAdvancedExpr(
string advExpr,
out Query q)
{
QueryTable qt;
QueryColumn qc;
MetaTable mt;
MetaColumn mc;
string extExpr = advExpr; // copy internal form to external
q = new Query();
Lex lex = new Lex();
lex.OpenString(advExpr);
while (true)
{
string tok = lex.Get();
if (tok == "")
{
break;
}
if (Lex.IsQuoted(tok, '"'))
{
tok = tok.Substring(1, tok.Length - 2).Trim();
mc = MetaColumn.ParseMetaTableMetaColumnName(tok);
if (mc == null)
{
continue; // not found, may be typo, ignore for now
}
mt = mc.MetaTable;
if (q.GetQueryTableByName(mt.Name) == null)
{
q.AddQueryTable(new QueryTable(mt));
}
string tok2 = mt.Name + "." + mc.Label;
extExpr = extExpr.Replace(tok, tok2);
}
}
// Add any other tables from base query for convenience
Query q2 = QueriesControl.BaseQuery;
if (q2 != null)
{
foreach (QueryTable qt0 in q2.Tables)
{
qt = q.GetQueryTableByName(qt0.MetaTable.Name);
if (qt == null)
{
q.AddQueryTable(qt0.Clone());
}
}
}
return(extExpr); // return external form
}
/// <summary>
/// Constructor given a string of numbers
/// </summary>
/// <param name="cnList"></param>
public CidList(
string cnList)
{
if (cnList == null)
{
return;
}
Lex lex = new Lex();
lex.SetDelimiters(",");
lex.OpenString(cnList);
while (true)
{
string tok = lex.Get();
if (tok == "")
{
break;
}
if (tok == ",")
{
continue;
}
this.Add(tok);
}
}
/// <summary>
/// Parse external format advanced expression into internal form
/// </summary>
/// <param name="advExprExt"></param>
/// <param name="mcList"></param>
/// <returns></returns>
string ParseAdvancedExpr(
string advExprExt,
out List <MetaColumn> mcList)
{
MetaTable mt;
MetaColumn mc;
string advExpr = advExprExt; // copy external to internal
mcList = new List <MetaColumn>();
Lex lex = new Lex();
lex.OpenString(advExprExt);
while (true)
{
string tok = lex.Get();
if (tok == "")
{
break;
}
if (Lex.IsQuoted(tok, '"'))
{
tok = tok.Substring(1, tok.Length - 2).Trim(); // remove quotes
int i1 = tok.IndexOf('.');
if (i1 < 0)
{
throw new Exception("Invalid table.field name: " + tok);
}
string table = tok.Substring(0, i1);
string column = tok.Substring(i1 + 1);
mt = MetaTableCollection.Get(table);
if (mt == null)
{
throw new Exception("Unknown table name: " + table);
}
mc = mt.GetMetaColumnByLabel(column);
if (mc == null)
{
mc = mt.GetMetaColumnByName(column);
}
if (mc == null)
{
throw new Exception("Unknown column name: " + column);
}
string tok2 = mt.Name + "." + mc.Name; // store as internal name
advExpr = advExpr.Replace(tok, tok2);
if (!mcList.Contains(mc))
{
mcList.Add(mc);
}
}
}
return(advExpr); // return internal form
}
static bool GetKeyValuePair(
Lex lex,
out string key,
out string value)
{
key = lex.Get();
value = null;
if (String.IsNullOrEmpty(key))
{
return(false);
}
lex.GetExpected("=");
value = lex.Get();
key = Lex.RemoveAllQuotes(key).Trim();
value = Lex.RemoveAllQuotes(value).Trim();
return(true);
}
/// <summary>
/// Return list of MetaColumns
/// </summary>
/// <returns></returns>
public List <MetaColumn> GetInputMetaColumnList()
{
int mci;
List <MetaColumn> mcList = new List <MetaColumn>();
if (CalcType == CalcTypeEnum.Basic)
{
foreach (CalcFieldColumn cfc in CfCols)
{
if (cfc != null && cfc.MetaColumn != null)
{
mcList.Add(cfc.MetaColumn);
}
}
}
else if (CalcType == CalcTypeEnum.Advanced)
{
Lex lex = new Lex();
lex.OpenString(AdvancedExpr);
while (true)
{
string tok = lex.Get();
if (tok == "")
{
break;
}
if (!Lex.IsQuoted(tok, '"'))
{
continue;
}
tok = Lex.RemoveDoubleQuotes(tok);
MetaColumn mc = MetaColumn.ParseMetaTableMetaColumnName(tok);
if (mc == null)
{
continue;
}
for (mci = 0; mci < mcList.Count; mci++)
{
if (mcList[mci] == mc)
{
break;
}
}
if (mci >= mcList.Count)
{
mcList.Add(mc);
}
}
}
return(mcList);
}
bool Cancelled = false; // set to true if processing cancelled
/// <summary>
/// Main entrypoint for plugin
/// </summary>
/// <param name="args"></param>
/// <returns></returns>
public string Run(
string args)
{
DialogResult dr;
try
{
Lex lex = new Lex();
if (args == null)
{
args = "";
}
lex.OpenString(args);
string cmd = lex.Get();
string args2 = lex.GetRestOfLine().Trim();
if (cmd == "" || Lex.Eq(cmd, "ShowDialog"))
{
QbUtil.SetMode(QueryMode.Build); // be sure in build mode
dr = Instance.ShowDialog(args2);
if (dr == DialogResult.OK)
{
cmd = "Command RunQuery"; // pass command back to main level
return(cmd);
}
else
{
return("");
}
}
else if (Lex.Eq(cmd, "ShowPopup"))
{
if (Lex.IsUndefined(args2))
{
throw new Exception("Syntax: TargetResultsViewer ShowPopup <CorpId>");
}
ShowPopup(args2);
return("");
}
else
{
throw new Exception("Invalid command: " + cmd);
}
}
catch (Exception ex)
{
throw new Exception(ex.Message, ex);
}
}
/// <summary>
/// Disable user
/// </summary>
/// <param name="commandLine"></param>
/// <returns></returns>
public static string DisableUser(
string commandLine)
{
string tok, msg;
UserInfo ui = new UserInfo();
Lex lex = new Lex();
lex.OpenString(commandLine);
string userName = lex.Get();
bool interactive = Lex.IsNullOrEmpty(userName);
while (true)
{
if (interactive)
{
userName = InputBoxMx.Show("Enter the Username of the user to disable:", "Disable User", userName);
if (Lex.IsNullOrEmpty(userName))
{
return("");
}
}
userName = userName.ToUpper();
if (Security.ReadUserInfo(userName) == null)
{
msg = "User doesn't exist: " + userName;
if (!interactive)
{
return(msg);
}
MessageBoxMx.ShowError(msg);
continue;
}
try
{
Security.RevokePrivilege(userName, "Logon");
msg = "User disabled: " + userName;
}
catch (Exception ex) { msg = "Disable user failed for: " + userName; }
if (!interactive)
{
return(msg);
}
MessageBoxMx.Show(msg);
userName = "";
continue;
}
}
/// <summary>
/// Process command line to revoke a user privilege
/// </summary>
/// <param name="commandLine"></param>
/// <returns></returns>
public static string RevokePrivilege(
string commandLine)
{
if (UserInfo == null || !IsAdministrator(UserInfo.UserName))
{
return("You must be an administrator to revoke privileges");
}
Lex lex = new Lex();
lex.OpenString(commandLine);
string priv = lex.Get();
string userName = lex.Get();
if (Lex.Eq(userName, "from"))
{
userName = lex.Get();
}
if (priv == "" || userName == "")
{
return("Syntax: REVOKE privilege FROM userid");
}
if (!PrivilegesMx.IsValidPrivilegeName(priv))
{
return(priv + " is not a valid privilege");
}
if (!UserExists(userName))
{
return("User " + userName + " doesn't exist");
}
if (!HasPrivilege(userName, priv))
{
return("User " + userName + " doesn't have this privilege");
}
RevokePrivilege(userName, priv);
return("Privilege revoked");
}
/// <summary>
/// Commandline command to analyse usage data
/// </summary>
/// <param name="commandLine"></param>
/// <returns></returns>
public static string AnalyzeUsageData(
string commandArgs)
{
string currentUserid = "";
DateTime startTime = DateTime.MinValue, finishTime;
int count, pass, n, rowCount = 0;
int i1, i2;
string txt, rec, buf;
string sql, sqlmsg, stmt, table;
int objid, curobj, emp_id;
int noMatchingBegin = 0;
DbCommandMx drd;
Lex lex = new Lex();
lex.OpenString(commandArgs);
string startDate = lex.Get();
string endDate = lex.Get();
string startDate2 = DateTimeMx.Normalize(startDate);
string endDate2 = DateTimeMx.Normalize(endDate);
if (startDate2 == null || endDate2 == null)
{
throw new Exception("Syntax: Analyze Usage Data <start_date> <end_date>");
}
startDate2 = "to_date('" + startDate2 + "','YYYYMMDD')";
endDate2 = "to_date('" + endDate2 + " 235959','YYYYMMDD HH24MISS')";
string where = "where crt_dt between " + startDate2 + " and " + endDate2;
string arg = lex.Get();
if (Lex.Eq(arg, "DumpUsageData"))
{
return(DumpUsageData(where));
}
// Init data
TableData = new Hashtable(); // number of times each table accessed
CommandData = new Hashtable(); // number of times each command accessed
TransactionData = new Hashtable(); // count for each transaction type
UserDataHash = new Hashtable(); // info on each user, site, department
// Process usage log records. Find the users for the time period,
// how many times each user accessed app and the average
// session time in minutes for each user
string orderBy = "order by ownr_id, crt_dt";
drd = UsageDao.Select(where, orderBy);
UserObject beginUo = new UserObject();
while (true)
{
UserObject uo = UsageDao.Read(drd);
if (uo == null)
{
drd.Dispose();
if (rowCount > 0)
{
break;
}
throw new Exception("No data found for specified for time period");
}
if (uo.Owner == null || uo.Owner.Trim().Length == 0)
{
continue; // skip if owner not specified
}
if (rowCount % 1000 == 0)
{
UAL.Progress.Show("Analyzing Usage Data, rows: " + rowCount + " ...", UmlautMobius.String, false);
}
rowCount++;
string eventName = uo.Description;
string eventData = uo.Content;
// Increment count on event type
object o = TransactionData[eventName];
if (o == null)
{
TransactionData.Add(eventName, 0);
count = 0;
}
else
{
count = (int)o;
}
TransactionData[eventName] = count + 1;
// Beginning of session?
if (Lex.Eq(eventName, "Begin"))
{
beginUo = uo;
currentUserid = uo.Owner;
startTime = uo.UpdateDateTime;
UserData(currentUserid).Count++;
}
else if (Lex.Eq(eventName, "SSS") ||
eventName.ToLower().StartsWith("strsrch sss"))
{
UserData(uo.Owner).SsCount++;
}
else if (Lex.Eq(eventName, "MSimilar") ||
eventName.ToLower().StartsWith("strsrch msimilar"))
{
UserData(uo.Owner).SimCount++;
}
else if (eventName.StartsWith("QueryGrid")) // get QueryGridAnd, Complex & Or
{
UserData(uo.Owner).QueryCount++;
}
else if (Lex.Eq(eventName, "TableStats") && uo.Content != null)
{
string[] sa = uo.Content.Split('\n');
for (i1 = 0; i1 < sa.Length; i1++)
{
if (sa[i1] == null || sa[i1] == "" || sa[i1] == "")
{
continue;
}
string[] sa2 = sa[i1].Split('\t'); // split into table name & count
if (sa2.Length != 2)
{
continue;
}
o = TableData[sa2[0]]; // lookup table
if (o == null)
{
TableData.Add(sa2[0], null);
count = 0;
}
else
{
count = (int)o;
}
TableData[sa2[0]] = count + Int32.Parse(sa2[1]);
}
}
else if (Lex.Eq(eventName, "CommandStats") && uo.Content != null)
{
string[] sa = uo.Content.Split('\n');
for (i1 = 0; i1 < sa.Length; i1++)
{
if (sa[i1] == null || sa[i1] == "" || sa[i1] == "")
{
continue;
}
string[] sa2 = sa[i1].Split('\t'); // split into table name & count
if (sa2.Length != 2)
{
continue;
}
o = CommandData[sa2[0]]; // lookup table
if (o == null)
{
CommandData.Add(sa2[0], null);
count = 0;
}
else
{
count = (int)o;
}
CommandData[sa2[0]] = count + Int32.Parse(sa2[1]);
}
}
else if (Lex.Eq(eventName, "End"))
{
if (uo.Owner == currentUserid) // same user?
{
UserData(currentUserid).Ended++;
TimeSpan elapsed = uo.UpdateDateTime.Subtract(startTime);
UserData(currentUserid).TotalTime += elapsed.Minutes;
}
else
{
noMatchingBegin++;
}
currentUserid = "";
}
} // end of main loop
// Calculate totals
UserDataVo totalVo = UserData("=Total=");
foreach (UserDataVo vo in UserDataHash.Values)
{
if (vo.Userid == totalVo.Userid)
{
continue;
}
totalVo.Users++;
totalVo.Count += vo.Count;
totalVo.Ended += vo.Ended;
totalVo.SsCount += vo.SsCount;
totalVo.SimCount += vo.SimCount;
totalVo.QueryCount += vo.QueryCount;
totalVo.TotalTime += vo.TotalTime;
}
// Calculate site totals
foreach (UserDataVo vo in UserDataHash.Values)
{
if (vo.Users > 0)
{
continue; // just individuals
}
if (vo.Site == "")
{
continue; // ignore if no site info
}
totalVo.Users++;
totalVo.Count += vo.Count;
totalVo.Ended += vo.Ended;
totalVo.SsCount += vo.SsCount;
totalVo.SimCount += vo.SimCount;
totalVo.QueryCount += vo.QueryCount;
totalVo.TotalTime += vo.TotalTime;
}
// Order user data by descending usage count
ArrayList UserDataList = new ArrayList(UserDataHash.Values);
UserDataVo ud1, ud2;
for (i1 = 1; i1 < UserDataList.Count; i1++)
{
ud1 = (UserDataVo)UserDataList[i1];
for (i2 = i1 - 1; i2 >= 0; i2--)
{
ud2 = (UserDataVo)UserDataList[i2];
if (ud1.Count < ud2.Count)
{
break;
}
UserDataList[i2 + 1] = UserDataList[i2];
}
UserDataList[i2 + 1] = ud1;
}
// Output user info
StringBuilder sb = new StringBuilder();
sb.AppendLine("Mobius Usage Statistics for " + startDate + " through " + endDate);
sb.AppendLine("");
string format, s;
object[] args;
format = "{0,-38} {1,5} {2,4} {3,7} {4,4} {5,4}";
args = new object[] { "User", "Uses", "Time", "Queries", "SSS", "Sim" };
s = String.Format(format, args);
sb.AppendLine(s);
args = new object[] { "--------------------------------------", "-----", "----", "-------", "----", "----" };
s = String.Format(format, args);
sb.AppendLine(s);
for (pass = 1; pass <= 2; pass++) // do summary values first, then users
{
for (int ui = 0; ui < UserDataList.Count; ui++)
{
UserDataVo vo = (UserDataVo)UserDataList[ui];
if (pass == 1 && vo.Users == 0)
{
continue; // skip users on first past
}
else if (pass == 2 && vo.Users > 0)
{
continue; // skip totals on 2nd pass
}
if (vo.Ended == 0)
{
vo.AverageTime = 0;
}
else
{
vo.AverageTime = vo.TotalTime / vo.Ended; // avg. Time (min) for properly ended sessions
}
if (vo.Users > 0) // summary
{
txt = vo.Userid + " (" + vo.Users.ToString() + " users)";
}
else
{ // single user
try
{
UserInfo sui = Security.GetUserInfo(vo.Userid);
txt = sui.LastName + ", " + sui.FirstName;
txt += " (" + vo.Userid + ")";
}
catch (Exception ex) { txt = vo.Userid; }
if (vo.Site != "")
{
txt += " (" + vo.Site + ")";
}
}
args = new object[] { txt, vo.Count, vo.AverageTime, vo.QueryCount, vo.SsCount, vo.SimCount };
s = String.Format(format, args);
sb.AppendLine(s);
}
}
// Output table usage stats
sb.AppendLine("");
format = "{0,-18} {1,8}";
s = String.Format(format, "MetaTable", "Accesses");
sb.AppendLine(s);
s = String.Format(format, "------------------", "--------");
sb.AppendLine(s);
ArrayList al = new ArrayList();
foreach (string key in TableData.Keys)
{
s = String.Format(format, key, TableData[key]);
al.Add(s);
}
al.Sort();
foreach (string s2 in al)
{
sb.AppendLine(s2);
}
// Output command usage stats
sb.AppendLine("");
format = "{0,-18} {1,8}";
s = String.Format(format, "Command", "Accesses");
sb.AppendLine(s);
s = String.Format(format, "------------------", "--------");
sb.AppendLine(s);
al = new ArrayList();
foreach (string key in CommandData.Keys)
{
s = String.Format(format, key, CommandData[key]);
al.Add(s);
}
al.Sort();
foreach (string s2 in al)
{
sb.AppendLine(s2);
}
// Output transaction counts
sb.AppendLine("");
format = "{0,-18} {1,8}";
s = String.Format(format, "Transaction", "Count");
sb.AppendLine(s);
s = String.Format(format, "------------------", "--------");
sb.AppendLine(s);
al = new ArrayList();
foreach (string key in TransactionData.Keys)
{
s = String.Format(format, key, TransactionData[key]);
al.Add(s);
}
al.Sort();
foreach (string s2 in al)
{
sb.AppendLine(s2);
}
return(sb.ToString());
}
/// <summary>
/// Delete all user account information and user objects
/// </summary>
/// <param name="commandLine"></param>
/// <returns></returns>
public static string DeleteUser(
string commandLine)
{
string tok, msg;
Lex lex = new Lex();
lex.OpenString(commandLine);
string userName = lex.Get();
bool interactive = Lex.IsNullOrEmpty(userName);
while (true)
{
if (interactive)
{
userName = InputBoxMx.Show("Enter the Username of the user to delete:", "Delete User", userName);
if (Lex.IsNullOrEmpty(userName))
{
return("");
}
}
userName = userName.ToUpper();
UserInfo ui = Security.ReadUserInfo(userName);
if (ui == null)
{
msg = "User doesn't exist: " + userName;
if (!interactive)
{
return(msg);
}
MessageBoxMx.ShowError(msg);
continue;
}
msg = "Are you sure you want to delete user: "******" (" + ui.FullName + ")";
DialogResult dr = MessageBoxMx.Show(msg, "Delete User", MessageBoxButtons.YesNoCancel, MessageBoxIcon.Warning);
if (dr != DialogResult.Yes)
{
if (!interactive)
{
return("");
}
else
{
continue;
}
}
bool result = Security.DeleteUser(userName);
if (result == true)
{
msg = "User deleted: " + userName;
}
else
{
msg = "Delete user failed for: " + userName;
}
if (!interactive)
{
return(msg);
}
MessageBoxMx.Show(msg);
userName = "";
continue;
}
}
/// <summary>
/// Process command line to create a user
/// </summary>
/// <param name="commandLine"></param>
/// <returns></returns>
public static string CreateUser(
string commandLine)
{
string tok, msg;
Lex lex = new Lex();
lex.OpenString(commandLine);
if (!Security.IsAdministrator(SS.I.UserName))
{
return("You must be a Mobius administrator to create users");
}
string userName = lex.GetUpper(); // get user name
bool interactive = Lex.IsNullOrEmpty(userName);
while (true)
{
UserInfo ui = new UserInfo();
int i1 = userName.IndexOf(@"\");
if (i1 < 0)
{
i1 = userName.IndexOf(@"/"); // try forward slash
}
if (i1 < 0) // domain not specified, default is AM
{
ui.UserName = userName;
}
else if (i1 > 0)
{
ui.UserDomainName = userName.Substring(0, i1);
ui.UserName = userName.Substring(i1 + 1);
}
if (interactive) // prompt
{
DialogResult dr = CreateUserDialog.ShowDialog(ui, "Create User");
if (dr == DialogResult.Cancel)
{
return("");
}
}
else
{ // Syntax: CREATE USER [domain\]userid firstname [mi] lastname [emailAddress] [company] [site] [department]
ui.FirstName = Lex.CapitalizeFirstLetters(Lex.RemoveAllQuotes(lex.Get()));
tok = Lex.CapitalizeFirstLetters(Lex.RemoveAllQuotes(lex.Get()));
if (tok.Length == 1)
{
ui.MiddleInitial = tok;
}
else
{
lex.Backup();
}
ui.LastName = Lex.CapitalizeFirstLetters(Lex.RemoveAllQuotes(lex.Get()));
ui.EmailAddress = Lex.CapitalizeFirstLetters(Lex.RemoveAllQuotes(lex.Get()));
ui.Company = Lex.CapitalizeFirstLetters(Lex.RemoveAllQuotes(lex.Get()));
ui.Site = Lex.CapitalizeFirstLetters(Lex.RemoveAllQuotes(lex.Get()));
ui.Department = Lex.CapitalizeFirstLetters(Lex.RemoveAllQuotes(lex.Get()));
}
UserInfo existingUi = Security.ReadUserInfo(ui.UserName);
try
{
Security.CreateUser(ui);
if (existingUi == null)
{
msg = "User successfully created";
}
else
{
msg = "User information updated";
}
msg += "\n\n" +
"User: "******"\n" +
"Domain: " + ui.UserDomainName + "\n" +
"First Name: " + ui.FirstName + "\n" +
"Middle Initial: " + ui.MiddleInitial + "\n" +
"Last Name: " + ui.LastName;
}
catch (Exception ex) { msg = "User creation failed: " + ex.Message; }
if (!interactive)
{
return(msg);
}
MessageBoxMx.Show(msg);
userName = "";
}
}
public static string Process(
string command)
{
string tok;
Lex lex = new Lex();
lex.OpenString(command);
tok = lex.Get();
if (Lex.Eq(tok, "List"))
{
tok = lex.Get();
}
string arg = Lex.RemoveAllQuotes(lex.Get());
if (Lex.Eq(tok, "New"))
{
return(CreateNewList());
}
else if (Lex.Eq(tok, "EditSaved"))
{
return(EditSaved());
}
else if (Lex.Eq(tok, "EditTemp"))
{
return(EditTemp(arg));
}
else if (Lex.Eq(tok, "SaveCurrent"))
{
return(SaveCurrentCommand());
}
else if (Lex.Eq(tok, "SaveCurrentToTemp"))
{
return(SaveCurrentToTempCommand(arg));
}
else if (Lex.Eq(tok, "SaveCurrentToNewTemp"))
{
return(SaveCurrentToNewTempCommand());
}
else if (Lex.Eq(tok, "CopySavedToCurrent"))
{
return(CopySavedToCurrentCommand());
}
else if (Lex.Eq(tok, "CopyTempToCurrent"))
{
return(CopyTempToCurrentCommand(arg));
}
else if (Lex.Eq(tok, "Delete"))
{
return(DeleteList());
}
else if (Lex.Eq(tok, "Logic"))
{
return(LogicallyCombineLists(""));
}
else if (Lex.Eq(tok, "Export"))
{
return(ExportList());
}
else if (Lex.Eq(tok, "Import"))
{
return(ImportList());
}
else if (Lex.Eq(tok, "Subset"))
{
return(SubsetDatabase(arg));
}
else
{
return(tok + " is not a valid List command");
}
}
/// <summary>
/// Reorder the rows in all annotation tables that haven't been reordered since last call
/// </summary>
public static string ReorderRows(string singleAnnotTableId)
{
long methodId = 0, rowCnt = 0, rowCnt2 = 0, totalRows = 0;
int failCnt = 0, skipCnt = 0;
Lex lex = new Lex();
lex.OpenString(singleAnnotTableId);
string singleMvId = lex.Get(); // item to set
string sql = @"
select mthd_vrsn_id, count from
(
select mthd_vrsn_id, count(mthd_vrsn_id) count
FROM MBS_OWNER.mbs_adw_rslt
WHERE mthd_vrsn_id > 0
group by mthd_vrsn_id)
order by mthd_vrsn_id
" ;
if (Lex.IsDefined(singleMvId)) // single annot table
{
if (!Lex.IsLong(singleMvId))
{
throw new ArgumentException();
}
sql = Lex.Replace(sql, "> 0", "= " + singleMvId);
}
Mobius.UAL.Progress.Show("Getting list of annotation tables to update...");
DbCommandMx cmd = DbCommandMx.PrepareAndExecuteReader(sql);
List <long> methodIds = new List <long>();
List <long> methodRowCounts = new List <long>();
while (cmd.Read())
{
methodId = cmd.GetLong(0);
methodIds.Add(methodId);
rowCnt = cmd.GetLong(1);
methodRowCounts.Add(rowCnt);
}
cmd.Dispose();
totalRows = 0;
int vmIdCnt = 0;
for (int mi = 0; mi < methodIds.Count; mi++)
{
methodId = methodIds[mi];
//if (methodId <= 442290) continue; // continue where left off
rowCnt = methodRowCounts[mi];
string msg = "Table Id: " + methodId + " (" + (mi + 1) + " / " + methodIds.Count + "), Rows: " + rowCnt + ", Total Rows Reordered: " + totalRows + ", Failed: " + failCnt + ", Skipped: " + skipCnt;
if (rowCnt > 1000000 && Lex.IsUndefined(singleMvId)) // skip if > 1000000 rows and not a specific single annot table
{
skipCnt++;
DebugLog.Message("Skipping " + msg);
continue;
}
Mobius.UAL.Progress.Show(msg);
DebugLog.Message(msg);
try
{
rowCnt2 = ReorderRows(methodId);
}
catch (Exception ex)
{
DebugLog.Message(DebugLog.FormatExceptionMessage(ex));
failCnt++;
continue;
}
vmIdCnt++;
totalRows += rowCnt;
}
return("Annotation tables reordered: " + vmIdCnt + ", Failed: " + failCnt + ", Skipped: " + skipCnt + ", Total rows reordered: " + totalRows);
}
/// <summary>
/// ExportToPyMolMethod
/// </summary>
/// <param name="url"></param>
/// <param name="qm"></param>
void ExportToPyMolMethod(
string url,
string densityMapUrl,
string target,
QueryManager qm)
{
StreamWriter sw;
string rec, msg, scriptSourceFile, pluginSourceFile, script;
bool includeProtein = true; // always include protein
//bool includeElectronDensity = IncludeElectronDensityPyMol.Checked;
if (!IncludeElectronDensityPyMol.Checked)
{
_qcDensity = null;
}
pluginSourceFile = CommonConfigInfo.MiscConfigDir + @"\CorpView.py"; // the PyMOL plugin
CopyToReadLockedFile(pluginSourceFile, CommonConfigInfo.MiscConfigDir + @"\CorpView2.py"); // move CorpView2.py to CorpView.py
if (!File.Exists(pluginSourceFile))
{
throw new Exception("Plugin file not found: " + pluginSourceFile);
}
scriptSourceFile = CommonConfigInfo.MiscConfigDir + @"\CorpView.pml"; // the script that starts pymol & hands it the .csv file
CopyToReadLockedFile(scriptSourceFile, CommonConfigInfo.MiscConfigDir + @"\CorpView2.pml");
if (!File.Exists(scriptSourceFile))
{
throw new Exception("Script file not found: " + scriptSourceFile);
}
string csvFile = ClientDirs.TempDir + @"\PyMolBatchLoad.csv"; // the .csv file to write
WriteCsvFile(csvFile, ExportSingle.Checked, _qcProtein, _qcDensity, _qcTarget, qm, url, densityMapUrl, target);
//qm.Query.Tables[0].MetaTable.Name
try // Read the CorpView2.pml that gets edited.
{
StreamReader sr = new StreamReader(scriptSourceFile);
script = sr.ReadToEnd();
sr.Close();
}
catch (Exception ex)
{ throw new Exception("Error reading " + scriptSourceFile + ": " + ex.Message); }
// Get the path to the plugin file
string pluginFile = null;
Lex lex = new Lex("=");
lex.OpenString(script);
while (true)
{
string tok = lex.Get();
if (tok == "")
{
break;
}
if (Lex.Ne(tok, "pluginLocation"))
{
continue;
}
pluginFile = lex.Get();
if (pluginFile == "=")
{
pluginFile = lex.Get();
}
pluginFile = Lex.RemoveSingleQuotes(pluginFile);
}
if (pluginFile == null)
{
throw new Exception("Can't find definition of plugin location");
}
// Get the proper plugin directory
string pluginFolder = Path.GetDirectoryName(pluginFile);
if (!Directory.Exists(pluginFolder))
{
string pluginFile2 = pluginFile;
pluginFile2 = Lex.Replace(pluginFile2, "Progra~1", "Progra~2"); // Win7 x86 folder using 8.3 names
pluginFile2 = Lex.Replace(pluginFile2, "Program Files", "Program Files (x86)"); // Win7 x86 folder with regular names
string pluginFolder2 = Path.GetDirectoryName(pluginFile2);
if (!Directory.Exists(pluginFolder2))
{
DebugLog.Message("Can't find PyMOL plugin folder: " + pluginFolder);
MessageBox.Show("Can't find PyMol plugin folder " + pluginFolder + ".\rContact Pymol Support team.");
Progress.Hide();
return;
}
script = Lex.Replace(script, pluginFile, pluginFile2); // substitute proper plugin file name in script
pluginFile = pluginFile2;
}
bool update = false;
bool pyMolInstalled = File.Exists(pluginFile);
ClientLog.Message("Checking for PyMol installation...");
if (pyMolInstalled)
{
DateTime dt1 = File.GetLastWriteTime(pluginSourceFile);
DateTime dt2 = File.GetLastWriteTime(pluginFile);
if (DateTime.Compare(dt1, dt2) > 0)
{
ClientLog.Message(" PyMol file is older than the Mobius version.");
update = true;
}
}
else
{
ClientLog.Message(" Could not find PyMol file: " + pluginFile);
update = true;
}
// Be sure the plugin is up to date
if (update)
{
try
{
File.Copy(pluginSourceFile, pluginFile, true); // copy CorpView.py to Pymol startup dir
}
catch (Exception ex)
{
ClientLog.Message(" Error copying CorpView.py to: " + pluginFile + ", " + ex.Message);
if (!pyMolInstalled)
{
MessageBox.Show("Unable to find Corp Plugin (CorpView.py) for Pymol.\rWindows 7 will not allow Mobius access to copy the plugin to your machine.\rContact Pymol Support team.");
Progress.Hide();
return;
}
}
}
DebugLog.Message("Error copying CorpView.py to: " + pluginFile);
// Plug the csv file name into the script
string csvFileNameParm = "<csv-file-name>";
if (!Lex.Contains(script, csvFileNameParm))
{
throw new Exception("<csv-file-name> not found in script");
}
string csvFileNameForScript = csvFile.Replace(@"\", "/"); // translate backslashes so they aren't interpreted as escapes
script = Lex.Replace(script, csvFileNameParm, csvFileNameForScript);
string scriptFile = ClientDirs.TempDir + @"\CorpView.pml";
sw = new StreamWriter(scriptFile);
sw.Write(script);
sw.Close();
Progress.Show("Passing data to PyMOL...");
try
{
//DebugLog.Message("startFile: " + startFile);
//DebugLog.Message("startArgs: " + startArgs);
Process p = Process.Start(scriptFile);
}
catch (Exception ex)
{
MessageBoxMx.ShowError("Failed to start PyMOL");
Progress.Hide();
return;
}
System.Threading.Thread.Sleep(3000); // leave message up a bit while PyMOL is starting/being activated
Progress.Hide();
}
