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  • jQuery ajax post of jpg image to .net webservice. Image results corrupted

    - by sosergio
    I have a phonegap jquery app that opens the camera and take a picture. I then POST this picture to a .net webservice, wich I've coded. I can't use phonegap FileTransfer because such isn't supported by Bada os, wich is a requirement. I believe I've successfully loaded the image from phonegap FileSystem API, I've attached it into an .ajax type:post, I've even received it from .net side, but when .net save the image into the server, the image results corrupted. It seems to me that two sides of the communication have different data type. Has anyone experience in this? Any help will be appreciated. This is my code: //PHONEGAP CAMERA ACCESS (summed up) navigator.camera.getPicture(onGetPictureSuccess, onGetPictureFail, { quality: 50, destinationType:Camera.DestinationType.FILE_URI }); window.resolveLocalFileSystemURI(imageURI, onResolveFileSystemURISuccess, onResolveFileSystemURIError); fileEntry.file(gotFileSuccess, gotFileError); new FileReader().readAsDataURL(file); //UPLOAD FILE function onDataReadSuccess(evt) { var image_data = evt.target.result; var filename = unique_id(); var filext = "jpg"; $.ajax({ type : 'POST', url : SERVICE_BASE_URL+"/fotos/"+filename+"?ext="+filext, cache: false, timeout: 100000, processData: false, data: image_data, contentType: 'image/jpeg', success : function(data) { console.log("Data Uploaded with success. Message: "+ data); $.mobile.hidePageLoadingMsg(); $.mobile.changePage("ok.html"); } }); } On my .net Web Service this is the method that gets invoked: public string FotoSave(string filename, string extension, Stream fileContent) { string filePath = HttpContext.Current.Server.MapPath("~/foto_data/") + "\\" + filename; FileStream writeStream = new FileStream(filePath, FileMode.OpenOrCreate, FileAccess.Write); int Length = 256; Byte[] buffer = new Byte[Length]; int bytesRead = readStream.Read(buffer, 0, Length); // write the required bytes while (bytesRead > 0) { writeStream.Write(buffer, 0, bytesRead); bytesRead = readStream.Read(buffer, 0, Length); } readStream.Close(); writeStream.Close(); }

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  • HTML5 audio object doesn't play on iPad (when called from a setTimeout)

    - by Dan Halliday
    I have a page with a hidden <audio> object which is being started and stopped using a custom button via javascript. (The reason being I want to customise the button, and that drawing an audio player seems to destroy rendering performance on iPad anyway). A simplified example (in coffeescript): // Works fine on all browsers constructor: (@_button, @_audio) -> @_button.on 'click', @_play // Bind button's click event with jQuery _play: (e) => @_audio[0].play() // Call play() on audio element The audio plays fine when triggered from a function bound to a click event, but I actually want an animation to complete before the file plays so I put .play() inside a setTimeout. However I just can't get this to work: // Will not play on iPad constructor: (@_button, @_audio) -> @_button.on 'click', @_play // Bind button's click event with jQuery _play: (e) => setTimeout (=> // Declare a 300ms timeout @_audio[0].play() // Call play() on audio element ), 300 I've checked that @_audio (this._audio) is in scope and that its play() method exists. Why doesn't this work on iPad?

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  • Sequential access to asynchronous sockets

    - by Lars A. Brekken
    I have a server that has several clients C1...Cn to each of which there is a TCP connection established. There are less than 10,000 clients. The message protocol is request/response based, where the server sends a request to a client and then the client sends a response. The server has several threads, T1...Tm, and each of these may send requests to any of the clients. I want to make sure that only one of these threads can send a request to a specific client at any one time, while the other threads wanting to send a request to the same client will have to wait. I do not want to block threads from sending requests to different clients at the same time. E.g. If T1 is sending a request to C3, another thread T2 should not be able to send anything to C3 until T1 has received its response. I was thinking of using a simple lock statement on the socket: lock (c3Socket) { // Send request to C3 // Get response from C3 } I am using asynchronous sockets, so I may have to use Monitor instead: Monitor.Enter(c3Socket); // Before calling .BeginReceive() And Monitor.Exit(c3Socket); // In .EndReceive I am worried about stuff going wrong and not letting go of the monitor and therefore blocking all access to a client. I'm thinking that my heartbeat thread could use Monitor.TryEnter() with a timeout and throw out sockets that it cannot get the monitor for. Would it make sense for me to make the Begin and End calls synchronous in order to be able to use the lock() statement? I know that I would be sacrificing concurrency for simplicity in this case, but it may be worth it. Am I overlooking anything here? Any input appreciated.

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  • PHP post request to retrieve JSON

    - by Brian
    I'm trying to write some simple php code that will make a post request and then retrieve a JSON result from the server. It seemed simple to me, but the below code simply doesn't open a connection. $port = 2057; $path = "/validate/"; $request = "value1=somevalue&value2=somevalue&value3=somevalue"; $http_request = "POST $path HTTP/1.0\r\n"; $http_request .= "Host: $server\r\n"; $http_request .= "Content-Type: application/x-www-form-urlencoded;\r\n"; $http_request .= "Content-Length: " . strlen($request) . "\r\n"; $http_request .= "\r\n"; $http_request .= $request; $response = ''; if( false == ( $fs = @fsockopen($server, $port) ) ) { die ('Could not open socket'); } fwrite($fs, $http_request); while ( !feof($fs) ) { $response .= fgets($fs, 1160); } fclose($fs); In addition I've tried a more simple approach with: $handle = fopen('http://localhost:2057/validate/?'.$request, "r"); or $response = file_get_contents('http://localhost:2057/validate/' . $request); but both of these approaches just time out. I'm trying to connect to a development server I'm running in Visual Studio, so I'm not sure if that has anything to do with the timeout/connection issues. Open to any suggestions here as long as they are built in PHP.

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  • Testing approach for multi-threaded software

    - by Shane MacLaughlin
    I have a piece of mature geospatial software that has recently had areas rewritten to take better advantage of the multiple processors available in modern PCs. Specifically, display, GUI, spatial searching, and main processing have all been hived off to seperate threads. The software has a pretty sizeable GUI automation suite for functional regression, and another smaller one for performance regression. While all automated tests are passing, I'm not convinced that they provide nearly enough coverage in terms of finding bugs relating race conditions, deadlocks, and other nasties associated with multi-threading. What techniques would you use to see if such bugs exist? What techniques would you advocate for rooting them out, assuming there are some in there to root out? What I'm doing so far is running the GUI functional automation on the app running under a debugger, such that I can break out of deadlocks and catch crashes, and plan to make a bounds checker build and repeat the tests against that version. I've also carried out a static analysis of the source via PC-Lint with the hope of locating potential dead locks, but not had any worthwhile results. The application is C++, MFC, mulitple document/view, with a number of threads per doc. The locking mechanism I'm using is based on an object that includes a pointer to a CMutex, which is locked in the ctor and freed in the dtor. I use local variables of this object to lock various bits of code as required, and my mutex has a time out that fires my a warning if the timeout is reached. I avoid locking where possible, using resource copies where possible instead. What other tests would you carry out?

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  • Jquery cycle plugin and image tag from code behind

    - by Geetha
    Hi All, I am using cycle plugin to show images. I am binding the html code for image from code behind. Problem: Images are not getting displayed. If i hard coded the image tag it is working. Code: $(window).load(function() { $.ajax({ type: "POST", contentType: "application/json; charset=utf-8", data: "{}", url: "Default.aspx/GetImage", dataType: "json", success: function(data) { alert(data.d); $("#sample").html(data.d); $('#sample').cycle({ fx: 'fade', continuous: true, speed: 7500, timeout: 55000, pause: 1, sync: 1 }); } }); }); Data.d will give: <img src="Images/Frontbanner/s0.jpg" width="664" height="428" border="0" /> <img src="Images/Frontbanner/s111.jpg" width="664" height="428" border="0" /> <img src="Images/Frontbanner/s112.jpg" width="664" height="428" border="0" /> <img src="Images/Frontbanner/s113.jpg" width="664" height="428" border="0" /> <img src="Images/Frontbanner/s114.jpg" width="664" height="428" border="0" /> <img src="Images/Frontbanner/s115.jpg" width="664" height="428" border="0" /> <img src="Images/Frontbanner/s116.jpg" width="664" height="428" border="0" />

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  • Javascript changing source of an image

    - by Pete Herbert Penito
    Hi Everyone! I have some javascript which runs a timer that animates something on the website. It all works perfectly but I want to get an image to change when the animation is run, It uses jquery: if(options.auto && dir=="next" && !clicked) { timeout = setTimeout(function(){ if (document.images['bullet1'].src == "img/bulletwhite.png") { document.images['bullet1'].src = "img/bullet.png"; document.images['bullet2'].src = "img/bulletwhite.png"; } animate("next",false); },diff*options.speed+options.pause); } options.auto means that its automatically cycling, dir is the direction of the motion and clicked is whether or not the user clicked it. Is there something wrong with my syntax here? I ran firebug with it, and it doesn't throw any errors, it simply won't work. Any advice would help! I should mention that the src of bullet1 starts at bulletwhite.png and then I was hoping for it to change to bullet.png and have bullet2 change to bulletwhite.png.

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  • very simple WebForm with masterpage

    - by Ryan
    I use method=get to send my data from one webform to the other. But I don't want to have in the URL querry things like: Search.aspx?_EVENTTARGET=&_EVENTARGUMENT=&_VIEWSTATE=%2FwEPDwUKLTYwODIwNTg5MQ9kFgJmD2QWAgIDDxYCHgZtZXRob2QFA2dldGRkGOirvzjoAxt%2BfOb915%2FpsYZXmAxLZZdpnK6UW7A9%2Fk83D&_PREVIOUSPAGE=cog5Yzt_1GerH9r2ERTIPbLWMCwMFYteZjmDYCbBO3vobCG4C_mWM7GZMNuBesyAjw77cvuNKl_aSUYzeajiW6W0CjI0tLB6ikjcM4t5Kbg1&__EVENTVALIDATION=%2FwEWAgKYsPjPDQKY24%2FQBBH4CPejKl3spy0A%2BtpMxb%2BCGVGJf73dYtmaEnIFF4IR&name=Amy&state=24&ctl00%24MainContent%24submit=Searchbut i only want the name and the state to be in the Get querry like: ?name=Amy&state=24 <configuration> <authentication mode="Forms"> <forms loginUrl="~/Account/Login.aspx" timeout="2880" /> </authentication> <membership> <providers> <clear/> <add name="AspNetSqlMembershipProvider" type="System.Web.Security.SqlMembershipProvider" connectionStringName="ApplicationServices" enablePasswordRetrieval="false" enablePasswordReset="true" requiresQuestionAndAnswer="false" requiresUniqueEmail="false" maxInvalidPasswordAttempts="5" minRequiredPasswordLength="6" minRequiredNonalphanumericCharacters="0" passwordAttemptWindow="10" applicationName="/" /> </providers> </membership> <profile> <providers> <clear/> <add name="AspNetSqlProfileProvider" type="System.Web.Profile.SqlProfileProvider" connectionStringName="ApplicationServices" applicationName="/"/> </providers> </profile> <roleManager enabled="false"> <providers> <clear/> <add name="AspNetSqlRoleProvider" type="System.Web.Security.SqlRoleProvider" connectionStringName="ApplicationServices" applicationName="/" /> <add name="AspNetWindowsTokenRoleProvider" type="System.Web.Security.WindowsTokenRoleProvider" applicationName="/" /> </providers> </roleManager> </system.web> <system.webServer> <modules runAllManagedModulesForAllRequests="true"/> </system.webServer> </configuration>

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  • Threading calls to web service in a web service - (.net 2.0)

    - by Ryan Ternier
    Got a question regarding best practices for doing parallel web service calls, in a web service. Our portal will get a message, split that message into 2 messages, and then do 2 calls to our broker. These need to be on separate threads to lower the timeout. One solution is to do something similar to (pseudo code): XmlNode DNode = GetaGetDemoNodeSomehow(); XmlNode ENode = GetAGetElNodeSomehow(); XmlNode elResponse; XmlNode demResponse; Thread dThread = new Thread(delegate { //Web Service Call GetDemographics d = new GetDemographics(); demResponse = d.HIALRequest(DNode); }); Thread eThread = new Thread(delegate { //Web Service Call GetEligibility ge = new GetEligibility(); elResponse = ge.HIALRequest(ENode); }); dThread.Start(); eThread.Start(); dThread.Join(); eThread.Join(); //combine the resulting XML and return it. //Maybe throw a bit of logging in to make architecture happy Another option we thought of is to create a worker class, and pass it the service information and have it execute. This would allow us to have a bit more control over what is going on, but could add additional overhead. Another option brought up would be 2 asynchronous calls and manage the returns through a loop. When the calls are completed (success or error) the loop picks it up and ends. The portal service will be called about 50,000 times a day. I don't want to gold plate this sucker. I'm looking for something light weight. The services that are being called on the broker do have time out limits set, and are already heavily logged and audited, so I'm not worried on that part. This is .NET 2.0 , and as much as I would love to upgrade I can't right now. So please leave all the goodies of 2.0 out please.

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  • javax.xml.ws.soap.SOAPFaultException: Could not send Message - at JaxWsClientProxy.invoke - caused by HTTP response code: 401 for URL

    - by Mikkis
    I moved a working code from dev to test and encountered the following error(s) in test: javax.xml.ws.soap.SOAPFaultException: Could not send Message. at org.apache.cxf.jaxws.JaxWsClientProxy.invoke(JaxWsClientProxy.java:143) ...... at org.apache.cxf.interceptor.MessageSenderInterceptor$MessageSenderEndingInterceptor.handleMessage(MessageSenderInterceptor.java:64) at org.apache.cxf.phase.PhaseInterceptorChain.doIntercept(PhaseInterceptorChain.java:236) at org.apache.cxf.endpoint.ClientImpl.invoke(ClientImpl.java:472) at org.apache.cxf.endpoint.ClientImpl.invoke(ClientImpl.java:302) at org.apache.cxf.endpoint.ClientImpl.invoke(ClientImpl.java:254) at org.apache.cxf.frontend.ClientProxy.invokeSync(ClientProxy.java:73) at org.apache.cxf.jaxws.JaxWsClientProxy.invoke(JaxWsClientProxy.java:123) at $Proxy739.copyIntoItems(Unknown Source) Caused by: java.io.IOException: Server returned HTTP response code: 401 for URL: http:///_vti_bin/Copy.asmx at sun.net.www.protocol.http.HttpURLConnection.getInputStream(HttpURLConnection.java:1436) at java.net.HttpURLConnection.getResponseCode(HttpURLConnection.java:379) at org.apache.cxf.transport.http.HTTPConduit$WrappedOutputStream.handleResponseInternal(HTTPConduit.java:2046) Environment specs: Java 1.6 Tomcat 6 Eclipse Helios Maven2 CXF 2.2.3 As a background work, tried to explore about the error in similar category bad URL (ruled out as i am using same URL in dev and test. and the url, userid, password are all accessible from both the machines), connection timeout( error is not 404 or it doesnt specify connection timed out... it says 401 response code for url) Checked if all the jars and same versions are included in the test environment. Can someone shed some light to understand and resolve the error? please let me know if any more details are to be included.

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  • Rescuing a failed WCF call

    - by illdev
    Hello, I am happily using Castle's WcfFacility. From Monorail I know the handy concept of Rescues - consumer friendly results that often, but not necessarily, contain Data about what went wrong. I am creating a Silverlight application right now, doing quite a few WCF service calls. All these request return an implementation of public class ServiceResponse { private string _messageToUser = string.Empty; private ActionResult _result = ActionResult.Success; public ActionResult Result // Success, Failure, Timeout { get { return _result; } set { _result = value; } } public string MessageToUser { get { return _messageToUser; } set { _messageToUser = value; } } } public abstract class ServiceResponse<TResponseData> : ServiceResponse { public TResponseData Data { get; set; } } If the service has trouble responding the right way, I would want the thrown Exception to be intercepted and converted to the expected implementation. base on the thrown exception, I would want to pass on a nice message. here is how one of the service methods looks like: [Transaction(TransactionMode.Requires)] public virtual SaveResponse InsertOrUpdate(WarehouseDto dto) { var w = dto.Id > 0 ? _dao.GetById(dto.Id) : new Warehouse(); w.Name = dto.Name; _dao.SaveOrUpdate(w); return new SaveResponse { Data = new InsertData { Id = w.Id } }; } I need the thrown Exception for the Transaction to be rolled back, so i cannot actually catch it and return something else. Any ideas, where I could hook in?

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  • Handling Corrupted JPEGs in C#

    - by ddango
    We have a process that pulls images from a remote server. Most of the time, we're good to go, the images are valid, we don't timeout, etc. However, every once and awhile we see this error similar to this: Unhandled Exception: System.Runtime.InteropServices.ExternalException: A generic error occurred in GDI+. at System.Drawing.Image.Save(Stream stream, ImageCodecInfo encoder, EncoderPa rameters encoderParams) at ConsoleApplication1.Program.Main(String[] args) in C:\images\ConsoleApplic ation1\ConsoleApplication1\Program.cs:line 24 After not being able to reproduce it locally, we looked closer at the image, and realized that there were artifacts, making us suspect corruption. Created an ugly little unit test with only the image in question, and was unable to reproduce the error on Windows 7 as was expected. But after running our unit test on Windows Server 2008, we see this error every time. Is there a way to specify non-strictness for jpegs when writing them? Some sort of check/fix we can use? Unit test snippet: var r = ReadFile("C:\\images\\ConsoleApplication1\\test.jpg"); using (var imgStream = new MemoryStream(r)) { using (var ms = new MemoryStream()) { var guid = Guid.NewGuid(); var fileName = "C:\\images\\ConsoleApplication1\\t" + guid + ".jpg"; Image.FromStream(imgStream).Save(ms, ImageFormat.Jpeg); using (FileStream fs = File.Create(fileName)) { fs.Write(ms.GetBuffer(), 0, ms.GetBuffer().Length); } } }

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  • sql server mdf file database attachment

    - by jnsohnumr
    hello all i'm having a bear of a time getting visual studio 2010 (ultimate i think) to properly attach to my database. it was moved from original spot to #MYAPP#/#MYAPP#.Web/App_Data/#MDF_FILE#.mdf. I have three instances of sql server running on this machine. i have tried to replace the old mdf file with my new one and cannot get the connectionstring right for it. what i'm really wanting to do is to just open some DB instance, run a DB create script. Then I can have a DB that was generated via my edmx (generate database from model) in silverlight business application (c#) right now, when i go to server explorer in VS, choose add new connection, choose MS SQL Server Database FIle (SqlClient), choose my file location (app_data directory), use windows authentication, and hit the Test Connection button I get the following error: Unable to open the physical file "". Operating system error 5: "5(Access Denied.)". An attempt to attach to an auto-named database for file"" failed. A database with the same name exists, or specified file cannot be opened, or it is located on UNC share. The mdf file was created on the same machine by connecting to (local) on the sql server management studio, getting a new query, pasting in the SQL from the generated ddl file, adding a CREATE DATABASE [NcrCarDatabase]; GO before the pasted SQL, and executing the query. I then disconnected from the DB in management studio, closed management studio, navigated to the DATA directory for that instance, and copying the mdf and ldf files to my application's app_data folder. I am then trying to connect to the same file inside visual studio. I hope that gives more clarity to my problems :). Connection string is: Data Source=.\SQLEXPRESS;AttachDbFilename=C:\SourceCode\NcrCarDatabase\NcrCarDatabase.Web\App_Data\NcrCarDatabase.mdf;Integrated Security=True;Connect Timeout=30;User Instance=True

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  • WP7 - correctly timeing out an observable?

    - by Gaz83
    WP7 APP Using an observable from event, I download the lateset weather from a web service. I tested this out on the phone and emulator at home and it works fine. I brought the project with me to work and ran it using the emulator there. Now i'm not sure it its a firewall or what but it doesn't seem to get the weather, it just sits there for ever trying. So it got me thinking that if there was ever to happen on a phone then I need some kind of timeout in that if it can't get the weather in say 10 - 15 seconds then just give up. Here is the example code so far IObservable<IEvent<MyWeather.GetWeatherCompletedEventArgs>> observable = Observable.FromEvent<MyWeather.GetWeatherCompletedEventArgs>(Global.WeatherService, "MyWeather.GetWeatherCompleted").Take(1); observable.Subscribe(w => { if (w.EventArgs.Error == null) { // Do something with the weather } }); Global.WeatherService.GetWeatherAsync(location); How can I get this to time out safely after a given time if nothing is happening?

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  • AppFabric caching's local cache isnt working for us... What are we doing wrong?

    - by Olly
    We are using appfabric as the 2ndlevel cache for an NHibernate asp.net application comprising a customer facing website and an admin website. They are both connected to the same cache so when admin updates something, the customer facing site is updated. It seems to be working OK - we have a CacheCLuster on a seperate server and all is well but we want to enable localcache to get better performance, however, it dosnt seem to be working. We have enabled it like this... bool UseLocalCache = int LocalCacheObjectCount = int.MaxValue; TimeSpan LocalCacheDefaultTimeout = TimeSpan.FromMinutes(3); DataCacheLocalCacheInvalidationPolicy LocalCacheInvalidationPolicy = DataCacheLocalCacheInvalidationPolicy.TimeoutBased; if (UseLocalCache) { configuration.LocalCacheProperties = new DataCacheLocalCacheProperties( LocalCacheObjectCount, LocalCacheDefaultTimeout, LocalCacheInvalidationPolicy ); // configuration.NotificationProperties = new DataCacheNotificationProperties(500, TimeSpan.FromSeconds(300)); } Initially we tried using a timeout invalidation policy (3mins) and our app felt like it was running faster. HOWEVER, we noticed that if we changed something in the admin site, it was immediatley updated in the live site. As we are using timeouts not notifications, this demonstrates that the local cache isnt being queried (or is, but is always missing). The cache.GetType().Name returns "LocalCache" - so the factory has made a local cache. Running "Get-Cache-Statistics MyCache" in PS on my dev environment (asp.net app running local from vs2008, cache cluster running on a seperate w2k8 machine) show a handful of Request Counts. However, on the Production environment, the Request Count increases dramaticaly. We tried following the method here to se the cache cliebt-server traffic... http://blogs.msdn.com/b/appfabriccat/archive/2010/09/20/appfabric-cache-peeking-into-client-amp-server-wcf-communication.aspx but the log file had nothing but the initial header in it - i.e no loggin either. I cant find anything in SO or Google. Have we done something wrong? Have we got a screwy install of AppFabric - we installed it via WebPlatform Installer - I think? (note: the IIS box running ASp.net isnt in yhe cluster - it is just the client). Any insights greatfully received!

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  • Multithreading A Function in VB.Net

    - by Ben
    I am trying to multi thread my application so as it is visible while it is executing the process, this is what I have so far: Private Sub SendPOST(ByVal URL As String) Try Dim DataBytes As Byte() = Encoding.ASCII.GetBytes("") Dim Request As HttpWebRequest = TryCast(WebRequest.Create(URL.Trim & "/webdav/"), HttpWebRequest) Request.Method = "POST" Request.ContentType = "application/x-www-form-urlencoded" Request.ContentLength = DataBytes.Length Request.Timeout = 1000 Request.ReadWriteTimeout = 1000 Dim PostData As Stream = Request.GetRequestStream() PostData.Write(DataBytes, 0, DataBytes.Length) Dim Response As WebResponse = Request.GetResponse() Dim ResponseStream As Stream = Response.GetResponseStream() Dim StreamReader As New IO.StreamReader(ResponseStream) Dim Text As String = StreamReader.ReadToEnd() PostData.Close() Catch ex As Exception If ex.ToString.Contains("401") Then TextBox2.Text = TextBox2.Text & URL & "/webdav/" & vbNewLine End If End Try End Sub Public Sub G0() Dim siteSplit() As String = TextBox1.Text.Split(vbNewLine) For i = 0 To siteSplit.Count - 1 Try If siteSplit(i).Contains("http://") Then SendPOST(siteSplit(i).Trim) Else SendPOST("http://" & siteSplit(i).Trim) End If Catch ex As Exception End Try Next End Sub Private Sub Form1_Load(ByVal sender As System.Object, ByVal e As System.EventArgs) Handles MyBase.Load Dim t As Thread t = New Thread(AddressOf Me.G0) t.Start() End Sub However, the 'G0' sub code is not being executed at all, and I need to multi thread the 'SendPOST' as that is what slows the application.

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  • Parse large XML file w/ script or use BioPython API ?

    - by jeremy04
    Hey guys this is my first question on here. I'm trying to make a local copy of the UniprotKB in SQL. The UniprotKB is 2.1GB, and it comes in XML and a special text format used by SwissProt Here are my options: 1) Use a SAX parser (XML) - I chose Ruby, and Nokogiri. I started writing the parser, but my initial reaction: how would I map the XML schema to the SAX parser? 2) BioPython - I already have BioSQL/Biopython installed, which literally created my SQL schema for me, and I was able to successfully insert one SwissProt/Uniprot txt file into the database. I'm running it right now (crosses fingers) on the entire 2.1gb. Here is the code I'm running: from Bio import SeqIO from BioSQL import BioSeqDatabase from Bio import SwissProt server = BioSeqDatabase.open_database(driver = "MySQLdb", user = "root", passwd = "", host="localhost", db = "bioseqdb") db = server["uniprot"] iterator = SeqIO.parse(open("/path/to/uniprot_sprot.dat", "r"), "swiss") db.load(iterator) server.commit() Edit: it's now crashing because the transactions are getting locked (since the tables are Innodb) Error Number: 1205 Lock wait timeout exceeded; try restarting transaction. I'm using MySQL version: 5.1.43 Should I switch my database to Postgrelsql ?

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  • Checking if an SSH tunnel is up and running

    - by Jarmund
    I have a perl script which, when destilled a bit, looks like this: my $randport = int(10000 + rand(1000)); # Random port as other scripts like this run at the same time my $localip = '192.168.100.' . ($port - 4000); # Don't ask... backwards compatibility system("ssh -NL $randport:$localip:23 root\@$ip -o ConnectTimeout=60 -i somekey &"); # create the tunnel in the background sleep 10; # Give the tunnel some time to come up # Create the telnet object my $telnet = new Net::Telnet( Timeout => 10, Host => 'localhost', Port => $randport, Telnetmode => 0, Errmode => \&fail, ); # SNIPPED... a bunch of parsing data from $telnet The thing is that the target $ip is on a link with very unpredictable bandwidth, so the tunnel might come up right away, it might take a while, it might not come up at all. So a sleep is necessary to give the tunnel some time to get up and running. So the question is: How can i test if the tunnel is up and running? 10 seconds is a really undesirable delay if the tunnel comes up straight away. Ideally, i would like to check if it's up and continue with creating the telnet object once it is, to a maximum of, say, 30 seconds.

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  • Google App-Engine Java Batch Update

    - by Manjoor
    I need to upload a .csv file and save the records in bigtable. My application successfully parse 200 the records in the csv files and save to table. Here is my code to save the data. for (int i=0;i<lines.length -1;i++) //lines hold total records in csv file { String line = lines[i]; //The record have 3 columns integer,integer,Text if(line.length() > 15) { int n = line.indexOf(","); if (n>0) { int ID = lInteger.parseInt(ine.substring(0,n)); int n1 = line.indexOf(",", n + 2); if(n1 > n) { int Col1 = Integer.parseInt(line.substring(n + 1, n1)); String Col2 = line.substring(n1 + 1); myTable uu = new myTable(); uu.setId(ID); uu.setCol1(MobNo); Text t = new Text(Col2); uu.setCol2(t); PersistenceManager pm = PMF.get().getPersistenceManager(); pm.makePersistent(uu); pm.close(); } } } } But when no of records grow it gives timeout error. The csv file may have upto 800 records. Is it possible to do that in App-Engine? (something like batch update)

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  • How do i set the proxy and SOCKs in libcurl?

    - by acidzombie24
    I am trying to configure my .NET app to use a proxy. My source is in C# but i learned CURL via C++. My question is where do i put the SOCKs IP and port? i looked through the documentation and didnt see it. I believe that is what is causing me these problems. When i run this code it will quiet literally timeout and not call my header function or writer function. If i comment out the first two curlopt lines (the two proxy lines) my code runs with no problems. In firefox i set the http proxy and SOCKs host separately, they are different IPs and ports. How do i set the sock part, the below has the dummy proxy set but i cant figure out the socks part. static void Main(string[] args) { SeasideResearch.LibCurlNet.Curl.GlobalInit((int)SeasideResearch.LibCurlNet.CURLinitFlag.CURL_GLOBAL_ALL); var curl = new Easy(); { curl.SetOpt(CURLoption.CURLOPT_PROXY, "http://127.0.0.1:1234"); curl.SetOpt(CURLoption.CURLOPT_PROXYTYPE, CURLproxyType.CURLPROXY_SOCKS5); curl.SetOpt(CURLoption.CURLOPT_URL, "http://whatismyipaddress.com/ip-lookup"); curl.SetOpt(CURLoption.CURLOPT_FOLLOWLOCATION, 1); curl.SetOpt(CURLoption.CURLOPT_USERAGENT, @"Mozilla/5.0 (Windows; U; Windows NT 6.1; en-US; rv:1.9.2b5) Gecko/20091204 Firefox/3.6b5"); curl.SetOpt(CURLoption.CURLOPT_HEADERFUNCTION, hf); curl.SetOpt(CURLoption.CURLOPT_HEADERDATA, data); curl.SetOpt(CURLoption.CURLOPT_WRITEFUNCTION, wf); curl.SetOpt(CURLoption.CURLOPT_WRITEDATA, sw); curl.SetOpt(CURLoption.CURLOPT_SSL_VERIFYPEER, 0); curl.Perform(); var sz = sw.ToString(); var myrealip = sz.IndexOf("12.34.56.78") !=-1; } //Console.WriteLine(sz); SeasideResearch.LibCurlNet.Curl.GlobalCleanup(); }

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  • Entity Framework + MySQL - Why is the performance so terrible?

    - by Cyril Gupta
    When I decided to use an OR/M (Entity Framework for MySQL this time) for my new project I was hoping it would save me time, but I seem to have failed it (for the second time now). Take this simple SQL Query SELECT * FROM POST ORDER BY addedOn DESC LIMIT 0, 50 It executes and gives me results in less than a second as it should (the table has about 60,000 rows). Here's the equivalent LINQ To Entities query that I wrote for this var q = (from p in db.post orderby p.addedOn descending select p).Take(50); var q1 = q.ToList(); //This is where the query is fetched and timed out But this query never even executes it times out ALWAYS (without orderby it takes 5 seconds to run)! My timeout is set to 12 seconds so you can imagine it is taking much more than that. Why is this happening? Is there a way I can see what is the actual SQL Query that Entity Framework is sending to the db? Should I give up on EF+MySQL and move to standard SQL before I lose all eternity trying to make it work? I've recalibrated my indexes, tried eager loading (which actually makes it fail even without the orderby clause) Please help, I am about to give up OR/M for MySQL as a lost cause.

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  • jquery fail to retrieve accurate data from sibling field.

    - by i need help
    wonder what's wrong <table id=tblDomainVersion> <tr> <td>Version</td> <td>No of sites</td> </tr> <tr> <td class=clsversion>1.25</td> <td><a id=expanddomain>3 sites</a><span id=spanshowall></span></td> </tr> <tr> <td class=clsversion>1.37</td> <td><a id=expanddomain>7 sites</a><span id=spanshowall></span></td> </tr> </table> $('#expanddomain').click(function() { //the siblings result incorrect //select first row will work //select second row will no response var versionforselected= $('#expanddomain').parent().siblings("td.clsversion").text(); alert(versionforselected); $.ajax({ url: "ajaxquery.php", type: "POST", data: 'version='+versionforselected, timeout: 900000, success: function(output) { output= jQuery.trim(output); $('#spanshowall').html(output); }, }); });

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  • Using awk to return only certain chunks of data

    - by Koriar
    I'm not 100% certain how to phrase my question simply, so I apologize if this has been answered somewhere and I was just unable to find it. What I have are debug logs with authentication packets in them along with a bunch of other output. I need to search through about 2 million lines of logs to find every packet that contains a certain mac address. The packets look something like this (slightly censored): -----------------[ header ]----------------- Event: Authd-Response (1900) Sequence: -54 Timestamp: 1969-12-31 19:30:00 (0) ---------------[ attributes ]--------------- Auth-Result = Auth-Accept Service-Profile-SID = 53 Service-Profile-SID = 49 RADIUS-Access-Accept-Attr/WiMAX-Capability = 0x(numbers) Session-Timeout = 3600 Service-Profile-SID = 4 Service-Profile-SID = 29 Chargeable-User-Identity = "(Numbers)" User-Password = "(the MAC address I'm looking for)" -------------------------------------------- However there are about 10 different possible types with different possible lengths. They all start with the header line and end with the all-dashes line. I've had success using awk to get the code blocks themselves using this: awk '/-----------------\[ header \]-----------------/,/--------------------------------------------/' filename.txt But I was hoping to be able to use it to return only the packets which contain the MAC address that I need. I've been trying to figure this out for a few days now and I'm pretty stuck. I could try and write a bash script, but I could swear that I've used awk to do something like this before...

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  • Nginx , Apache , Mysql , Memcache with server 4G ram. How optimize to enoigh of memory?

    - by TomSawyer
    i have 1 dedicated server with Nginx proxy for Apache. Memcache, mysql, 4G Ram. These day, my visitor on my site wasn't increased, but my server get overload always in some specified time. (9AM - 15PM) Ram in use is increased second by second to full. that's moment, my server will get overload. i have to kill all apache , mysql service and reboot it to get free memory. and it'll full again. that's the terrible circle. here is my ram in use at the moment 160(nginx) 220(apache) 512(memcache) 924(mysql) here's process number 4(nginx) 14(apache) 5(memcache) 20(mysql) and here's my my.cnf config. someone can help me to optimize it? [mysqld] datadir=/var/lib/mysql socket=/var/lib/mysql/mysql.sock user=mysql skip-locking skip-networking skip-name-resolve # enable log-slow-queries log-slow-queries = /var/log/mysql-slow-queries.log long_query_time=3 max_connections=200 wait_timeout=64 connect_timeout = 10 interactive_timeout = 25 thread_stack = 512K max_allowed_packet=16M table_cache=1500 read_buffer_size=4M join_buffer_size=4M sort_buffer_size=4M read_rnd_buffer_size = 4M max_heap_table_size=256M tmp_table_size=256M thread_cache=256 query_cache_type=1 query_cache_limit=4M query_cache_size=16M thread_concurrency=8 myisam_sort_buffer_size=128M # Disabling symbolic-links is recommended to prevent assorted security risks symbolic-links=0 [mysqldump] quick max_allowed_packet=16M [mysql] no-auto-rehash [isamchk] key_buffer=256M sort_buffer=256M read_buffer=64M write_buffer=64M [myisamchk] key_buffer=256M sort_buffer=256M read_buffer=64M write_buffer=64M [mysqlhotcopy] interactive-timeout [mysql.server] user=mysql basedir=/var/lib [mysqld_safe] log-error=/var/log/mysqld.log pid-file=/var/run/mysqld/mysqld.pid

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  • Random problem connecting to MySQL

    - by CharlesLeaf
    Environment: RHEL 5 servers, MySQL 5.1.43, PHP 5.1.6 (using MySQLi). Currently only available within our internal VPN network. Servers ServerA: Webserver ServerB/C/D: Database server (1 master 2 slaves) The error (on ServerA) [Tue May 25 11:12:17 2010] [error] [client CLIENTIP] PHP Warning: mysqli::real_connect() [function.mysqli-real-connect]: (HY000/2003): Can't connect to MySQL server on 'ServerB' (4) in /home/**/Database.php on line 67, referer: [website] Problem description It appears that at completely random times, our website is unable to connect to one of the MySQL servers - usually the Master. Except for the forementioned error message, there is nothing to be found in any of the logs as far as I can see, and most of the times the connection is succesful and everything works as it should. It's just at completely random times, this error pops up. There's no firewall blocking any internal traffic, timeout value is 3 but it doesn't take 3 seconds before it fails to connect. With the default mysql client I can connect from ServerA to ServerB,C and D and haven't encountered a problem yet. Does anyone have a clue what I might be overlooking / could be the problem? Because I've run out of ideas myself.

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