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• How should we serve files in a small bioinformatics cluster?

  - by cespinoza

  We have a small cluster of six ubuntu servers. We run bioinformatics analyses on these clusters. Each analysis takes about 24 hours to complete, each core i7 server can handle 2 at a time, takes as input about 5GB data and outputs about 10-25GB of data. We run dozens of these a week. The software is a hodgepodge of custom perl scripts and 3rd party sequence alignment software written in C/C++. Currently, files are served from two of the compute nodes (yes, we're using compute nodes as file servers)-- each node has 5 1TB sata drives mounted separately (no raid) and is pooled via glusterfs 2.0.1. They each have as 3 bonded intel ethernet pci gigabit ethernet cards, attached to a d-link DGS-1224T switch ($300 24 port consumer-level). We are not currently using jumbo frames (not sure why, actually). The two file-serving compute nodes are then mirrored via glusterfs. Each of the four other nodes mounts the files via glusterfs. The files are all large (4gb+), and are stored as bare files (no database/etc) if that matters. As you can imagine, this is a bit of a mess that grew organically without forethought and we want to improve it now that we're running out of space. Our analyses are I/O intensive and it is a bottle neck-- we're only getting 140mB/sec between the two fileservers, maybe 50mb/sec from the clients (which only have single NICs). We have a flexible budget which I can probably get up $5k or so. How should we spend our budget? We need at least 10TB of storage fast enough to serve all nodes. How fast/big does the cpu/memory of such a file server have to be? Should we use NFS, ATA over Ethernet, iSCSI, Glusterfs, or something else? Should we buy two or more servers and create some sort of storage cluster, or is 1 server enough for such a small number of nodes? Should we invest in faster NICs (say, PCI-express cards with multiple connectors)? The switch? Should we use raid, if so, hardware or software? and which raid (5, 6, 10, etc)? Any ideas appreciated. We're biologists, not IT gurus.

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• Making many network shares appear as one

  - by jimbojw

  Givens: disk is cheap, and there's plenty lying around on various computers around the corporate intranet redundant contiguous large storage volumes are expensive Problem: It would be fantastic to have a single entry point (drive letter, network path) that presents all this space as one contiguous filesystem, effectively abstracting the disk and network architecture from the paths presented to users. Does anyone know how to implement such a solution? I'm open to Windows and non-windows solutions, free and proprietary.

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• System.ComponentModel.Win32Exception Message: Not enough storage is available to process this comman

  - by george9170

  short of restarting our server, is there anyway we can get this memory released and our website up and running. Below is a trace from the event viewer An unhandled exception occurred and the process was terminated. Application ID: /LM/W3SVC/17/ROOT Process ID: 14352 Exception: System.ComponentModel.Win32Exception Message: Not enough storage is available to process this command StackTrace: at MS.Win32.UnsafeNativeMethods.RegisterClassEx(WNDCLASSEX_D wc_d) at MS.Win32.HwndWrapper..ctor(Int32 classStyle, Int32 style, Int32 exStyle, Int32 x, Int32 y, Int32 width, Int32 height, String name, IntPtr parent, HwndWrapperHook[] hooks) at MS.Win32.MessageOnlyHwndWrapper..ctor() at System.Windows.Threading.Dispatcher..ctor() at System.Windows.Threading.Dispatcher.get_CurrentDispatcher() at ISC.MapDotNetServer.MapPrintSupport.BaseTileRequestorResolver.b__0() at System.Threading.ExecutionContext.Run(ExecutionContext executionContext, ContextCallback callback, Object state) at System.Threading.ThreadHelper.ThreadStart()

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• Stack data storage order

  - by Jamie Dixon

  When talking about a stack in either computing or "real" life we usually assume a "first on, last off" type of functionality. Because the idea of a stack is based around something in the physical world, does it matter how the data in the stack is stored? I notice in a lot of examples that the storage of the stack data is quite often done using an array and the newest item added to the stack is placed at the bottom of the array. (like adding a new plate to an existing stack of plates except putting it underneath the other plates rather than on top). As a paradigm, does it matter in what order the data is stored within the stack as long as the operation of the stack acts as expected?

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• Azure Table Storage data Consistency

  - by SeeR

  Let say I have Table in Azure Table Storage public class MyTable { public string PK {get; set;} public string RowPK {get; set;} public double Amount {get; set;} } And message in Azure Queue which says Add 10 to Amount. Now let say one worker role Takes this message from queue Takes row from table Amount += 10 Updates Row in Table And Fails After a while message is available in queue again. So next worker role: Takes this message from queue Takes row from table Amount += 10 Updates Row in Table Removes message from queue Those actions results in Amount += 20 instead of Amount += 10. How can I avoid such situations?

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• Can't create blob container on Azure Blob Storage

  - by desautelsj

  The following code throws an error on the "CreateIfNotExist" method call. I am attempting to connect to my Azure Blob storage and create a new container called "images" var storageAccount = new CloudStorageAccount( new StorageCredentialsAccountAndKey("my_account_name", "... my shared key ..."), "https://blob.core.windows.net/", "https://queue.core.windows.net/", "https://table.core.windows.net/" ); var blobClient = storageAccount.CreateCloudBlobClient(); var blobContainer = blobClient.GetContainerReference("images"); blobContainer.CreateIfNotExist(); The error is: [StorageClientException: The requested URI does not represent any resource on the server.] The "images" container does not exist but I was expecting it to be created instead of an error to be thrown. What am I doing wrong? I have tried HTTP instead of HTTPS but the result is the same error.

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• Boost Thread Specific Storage Question (boost/thread/tss.hpp)

  - by Hassan Syed

  The boost threading library has an abstraction for thread specific (local) storage. I have skimmed over the source code and it seems that the TSS functionality can be used in an application with any existing thread regardless of weather it was created from boost::thread --i.e., this implies that certain callbacks are registered with the kernel to hook in a callback function that may call the destructor of any TSS objects when the thread or process is going out of scope. I have found these callbacks. I need to cache HMAC_CTX's from OpenSSL inside the worker threads of various web-servers (see this, detailed, question for what I am trying to do), and as such I do not controll the life-time of the thread -- the web-server does. Therefore I will use the TSS functionality on threads not created by boost::thread. I just wanted to validate my assumptions before I started implementing the caching logic, are there any flaws in my logic ?

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• iCloud + Storage of media in iPhone Documents folder

  - by Michael Morrison

  I, like many developers, got an email from Apple recently that stated we should move our data from the documents directory into another folder to permit more streamlined backup to iCloud. In recent testing it appears that [your app] stores a fair amount of data in its Documents folder. Since iCloud backups are performed daily over Wi-Fi for each user's iOS device, it's important to ensure the best possible user experience by minimizing the amount of data being stored by your app. Marco Arment, of instapaper fame, has a good take on the issue, which is that the recommended location for storing downloadable files is in /Library/Caches. However, the problem is that both /tmp and /Caches can be 'cleaned' anytime the OS decides that the device is running low on storage. If your app is cleaned then the data downloaded by your app and stored by your user is gone. Naturally, the user will blame you and not Apple. What to do?

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• Does a version control database storage engine exist?

  - by Zak

  I was just wondering if a storage engine type existed that allowed you to do version control on row level contents. For instance, if I have a simple table with ID, name, value, and ID is the PK, I could see that row 354 started as (354, "zak", "test")v1 then was updated to be (354, "zak", "this is version 2 of the value")v2 , and could see a change history on the row with something like select history (value) where ID = 354. It's kind of an esoteric thing, but it would beat having to keep writing these separate history tables and functions every time a change is made...

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• Thread Local Storage and local method variables

  - by miguel

  In c#, each thread has its own stack space. If this is the case, why is the following code not thread-safe? (It is stated that this code is thread-safe on this post: Locking in C# class Foo { private int count = 0; public void TrySomething() { count++; } } As count is an int (stack variable), surely this value would be isolated to an individual thread, on its own stack, and therefore thread-safe? I am probably missing something here, but I dont understand what is actually in Thread Local Storage if not stack-based variables for the thread?

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• Thread local storage with __declspec(thread) fails in C++/CLI

  - by EFrank

  I'm working on a project where we mix .NET code and native C++ code via a C++/CLI layer. In this solution I want to use Thread Local Storage via the __declspec(thread) declaration: __declspec(thread) int lastId = 0; However, at the first access of the variable, I get a NullReferenceException. To be more precise, the declaration is done within a ref class (a .NET class implemented in C++/CLI). I have already read something about __declspec(thread) does not work with delay loaded DLLs. Am I using delay loaded DLLs automatically if I use .NET?

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• Festival TTS showing SIOD:ran out off storage message

  - by Peeyush

  Hello i am designing a front end for Festival TTS using it's C++ API Everything is working fine in my programme but i have a problem that i am giving a drop down option to user to select other languages when user select a language from drop down then festival tts shows a message on console saying: SIOD:ran out of storage This message only shows if the text given to festival TTS is greater then 5 or 6 lines. i think this message comes because SIOD's heap is not free when i am going to call a new language. So please tell me the solution of this problem. Thanks

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• Python: Unpack arbitary length bits for database storage

  - by sberry2A

  I have a binary data format consisting of 18,000+ packed int64s, ints, shorts, bytes and chars. The data is packed to minimize it's size, so they don't always use byte sized chunks. For example, a number whose min and max value are 31, 32 respectively might be stored with a single bit where the actual value is bitvalue + min, so 0 is 31 and 1 is 32. I am looking for the most efficient way to unpack all of these for subsequent processing and database storage. Right now I am able to read any value by using either struct.unpack, or BitBuffer. I use struct.unpack for any data that starts on a bit where (bit-offset % 8 == 0 and data-length % 8 == 0) and I use BitBuffer for anything else. I know the offset and size of every packed piece of data, so what is going to be the fasted way to completely unpack them? Many thanks.

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• Core data storage is repeated...

  - by Kamlesh

  Hi all, I am trying to use Core Data in my application and I have been succesful in storing data into the entity.The data storage is done in the applicationDidFinishLaunchingWithOptions() method.But when I run the app again,it again gets saved.So how do I check if the data is already present or not?? Here is the code(Saving):-`NSManagedObjectContext *context = [self managedObjectContext]; NSManagedObject *failedBankInfo = [NSEntityDescription insertNewObjectForEntityForName:@"FailedBankInfo" inManagedObjectContext:context]; [failedBankInfo setValue:@"Test Bank" forKey:@"name"]; [failedBankInfo setValue:@"Testville" forKey:@"city"]; [failedBankInfo setValue:@"Testland" forKey:@"state"]; NSError *error; if (![context save:&error]) { NSLog(@"Whoops, couldn't save: %@", [error localizedDescription]); } (Retrieving):- NSFetchRequest *fetchRequest = [[NSFetchRequest alloc] init]; NSEntityDescription *entity = [NSEntityDescription entityForName:@"FailedBankInfo" inManagedObjectContext:context]; [fetchRequest setEntity:entity]; NSArray *fetchedObjects = [context executeFetchRequest:fetchRequest error:&error]; for (NSManagedObject *info in fetchedObjects) { NSLog(@"Name: %@", [info valueForKey:@"name"]); } `

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• Storage drives is causting system crash

  - by Chad

  I'm running Centos 5.4 with 750GB(ntfs) and 2TB drives for storage. Originally I installed the 750, everything seemed fine and then I installed the 2TB drive with NTFS already partitioned. I noticed when I would copy a lot of videos it would crash (no mouse or response from server) about 20min into it. After doing some troubleshooting I noticed the 750 would also crash when doing the same task so I decided that NTFS may be the problem. I unmounted the 2TB drive and tried to partition and format it using ext2 but when using parted it would crash at this point "writing inode tables". Looking at the dmesg logs I believe this is the error "mtrr: type mismatch for e0000000,10000000 old: write-back new: write-combining". Any idea as to what could be causing this?

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• Using memcached/APC for session storage?

  - by Industrial

  Hi everybody, I had some thoughts back ago about using memcached for session storage, but came to the conclusion that it wouldn't be sufficient in the event of one or more of the servers in the memcached pool were about to go down. A hybrid version is to save the main database (mySQL) from load caused by reads would be to work out a function that tries to fetch the data from the cache pool, and if that fails gets it from the database. After putting some more thought into it, I started to think about using APC cache for session related data. If our web server would go down, sessions would be lost either way, so storing them in a local APC or a localhost memcached server maybe isn't that bad? What's your experiences?

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• How should my main web application (A) securely retrieve data from my content storage web applicatio

  - by fonacule

  I have two web applications (A) and (B). (A) is my primary web application. (B) is purely for content storage, such as file uploads by users of (A). What's best way to securely retrieve data from (B) into (A) but in a way that does not expose the data in (B) to potential discovery by third-parties over the public internet or nosy users of (A)? For example, if I use a HTML form POST from (A) to (B) to retrieve user data, and have a hidden form field called user_id=1, then someone could simply change this to user_id=2 and see the content owned by another user of the application. That would be a problem.

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• 1030 Got error 28 from storage engine

  - by ScoRpion...

  I am working on a project where i need to create a database with 300 tables for each user who wants to see the demo application. it was working fine but today when i was testing with a new user to see a demo it showed me this error message 1030 Got error 28 from storage engine After spending some time googling i found it is an error that is related to space of database or temporary files. I tried to fix it but i failed. now i am not even able to start mysql. How can i fix this and i would also like to increase the size to maximum so that i won't face the same issue again and again.

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• Building a JMX client in a servlet installed on the Deployment Manager

  - by Trevor

  Hi guys, I'm building a monitoring application as a servlet running on my websphere 7 ND deployment manager. The tool uses JMX to query the deployment manager for various data. Global Security is enabled on the dmgr. I'm having problems getting this to work however. My first attempt was to use the websphere client code: String sslProps = "file:" + base +"/properties/ssl.client.props"; System.setProperty("com.ibm.SSL.ConfigURL", sslProps); String soapProps = "file:" + base +"/properties/soap.client.props"; System.setProperty("com.ibm.SOAP.ConfigURL", pp); Properties connectProps = new Properties(); connectProps.setProperty(AdminClient.CONNECTOR_TYPE, AdminClient.CONNECTOR_TYPE_SOAP); connectProps.setProperty(AdminClient.CONNECTOR_HOST, dmgrHost); connectProps.setProperty(AdminClient.CONNECTOR_PORT, soapPort); connectProps.setProperty(AdminClient.CONNECTOR_SECURITY_ENABLED, "true"); AdminClient adminClient = AdminClientFactory.createAdminClient(connectProps) ; This results in the following exception: Caused by: com.ibm.websphere.management.exception.ConnectorNotAvailableException: ADMC0016E: The system cannot create a SOAP connector to connect to host ssunlab10.apaceng.net at port 13903. at com.ibm.ws.management.connector.soap.SOAPConnectorClient.getUrl(SOAPConnectorClient.java:1306) at com.ibm.ws.management.connector.soap.SOAPConnectorClient.access$300(SOAPConnectorClient.java:128) at com.ibm.ws.management.connector.soap.SOAPConnectorClient$4.run(SOAPConnectorClient.java:370) at com.ibm.ws.security.util.AccessController.doPrivileged(AccessController.java:118) at com.ibm.ws.management.connector.soap.SOAPConnectorClient.reconnect(SOAPConnectorClient.java:363) ... 22 more Caused by: java.net.ConnectException: Connection refused at java.net.PlainSocketImpl.socketConnect(Native Method) at java.net.PlainSocketImpl.doConnect(PlainSocketImpl.java:333) at java.net.PlainSocketImpl.connectToAddress(PlainSocketImpl.java:195) at java.net.PlainSocketImpl.connect(PlainSocketImpl.java:182) at java.net.SocksSocketImpl.connect(SocksSocketImpl.java:366) at java.net.Socket.connect(Socket.java:519) at java.net.Socket.connect(Socket.java:469) at java.net.Socket.<init>(Socket.java:366) at java.net.Socket.<init>(Socket.java:209) at com.ibm.ws.management.connector.soap.SOAPConnectorClient.getUrl(SOAPConnectorClient.java:1286) ... 26 more So, I then tried to do it via RMI, but adding in the sas.client.properties to the environment, and setting the connectort type in the code to CONNECTOR_TYPE_RMI. Now though I got a NameNotFoundException out of CORBA: Caused by: javax.naming.NameNotFoundException: Context: , name: JMXConnector: First component in name JMXConnector not found. [Root exception is org.omg.CosNaming.NamingContextPackage.NotFound: IDL:omg.org/CosNaming/NamingContext/NotFound:1.0] To see if it was an IBM issue, I tried using the standard JMX connector as well with the same result (substitute AdminClient for JMXConnector in the above error) * JMXServiceURL url = new JMXServiceURL("service:jmx:rmi:///jndi/JMXConnector"); Hashtable h = new Hashtable(); String providerUrl = "corbaloc:iiop:" + dmgrHost + ":" + rmiPort + "/WsnAdminNameService"; h.put(Context.PROVIDER_URL, providerUrl); // Specify the user ID and password for the server if security is enabled on server. String[] credentials = new String[] { "***", "***" }; h.put("jmx.remote.credentials", credentials); // Establish the JMX connection. JMXConnector jmxc = JMXConnectorFactory.connect(url, h); // Get the MBean server connection instance. mbsc = jmxc.getMBeanServerConnection(); At this point, in desperation I wrote a wsadmin sccript to run both the RMI and SOAP methods. To my amazement, this works fine. So my question is, why does the code not work in a servlet installed on the dmgr ? regards, Trevor

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• MySQL: What happens if my server loses power and I'm using the MEMORY engine?

  - by Hank

  Does the MEMORY storage engine ever write to disk the database contents? Meaning, if I'm using the MEMORY storage engine and my database server loses power - do I lose all of my database content or is it backed up to disk?

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• What happens if my server loses power and I'm using the MEMORY engine?

  - by Hank

  Does the MEMORY storage engine of MySQL ever write to disk the database contents? Meaning, if I'm using the MEMORY storage engine and my database server loses power - do I lose all of my database content or is it backed up to disk?

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• Task scheduler "hidden" only hides task, not process

  - by Brandi

  I am trying to make an application that acts like a desktop application for all the computers in our network. I have already got a windows forms app that works like I want it to, and I'm using the task scheduler to start it on login. We would really like it if the process as well as the task is hidden from the task manager in order to avoid accidental deletion. Selecting "Hidden" in the task scheduler hides the task (good!) but the process is still visible (not good enough). I tried using the option to run as "SYSTEM" or "LOCAL SERVICE" so that the user would get "access denied" when trying to delete or just wouldn't even view it by default. However, running as a service makes the process invisible on Vista and 7, and the point of my app is to display information interactively. (User can click, sort, etc). Is there any other alternatives to either run the process as someone/something besides the logged in user and still have the logged on user be able to see and interact with it? (Therefore it would list as someone else's app?) From what I've read on the internet, the only ways to actually hide something from the task manager seem hacky and/or difficult and rather involved. I don't really want to write a bunch of C or whatever only to maybe not have it work on Vista/7 anyway. Besides which, for a legitimate app with a legitimate use, I shouldn't have to go to those extremes... I see "Access Denied" all the time for system processes... why is it so hard for me to do the same? So does anyone have any simple solutions? Is it easier than I think to just list something in the task manager as another user? Thanks in advance for any replies.

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• Overlaying Firefox's new Addon Manager

  - by Erik Vold

  I'm trying to create a conditional overlay for firefox's new addon manager in minefield 3.7 (aka firefox 3.7) I'm trying the following: overlay chrome://mozapps/content/extensions/extensions.xul chrome://greasemonkey/content/addons.xul application={ec8030f7-c20a-464f-9b0e-13a3a9e97384} appversion<3.7 overlay chrome://mozapps/content/extensions/extensions.xul chrome://greasemonkey/content/addonstab.xul application={ec8030f7-c20a-464f-9b0e-13a3a9e97384} appversion>=3.7 And this works for firefox 3.6, but it does not work minefield.. y? Edit: even the following doesn't appear to work in minefield, but does in FF 3.6 (I just made the overlay add a blank css file, an dI can find the css file included in FF 3.6 but not Minefield): overlay chrome://mozapps/content/extensions/extensions.xul chrome://greasemonkey/content/addonstab.xul

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• football manager facebook application

  - by jeansymolanza

  hey guys i'm about to begin a football manager inspired facebook application in php/mysql and had a couple of questions: 1) where would be the best place to host the database? any services offered within great britain would be excellent! 2) does anyone have any ideas on how i could use player statistics as part of the in-game match engine? how would php accomodate this? i would like to make the matches as realistic as possible? 3) lastly i wanted to know whether php/mysql would be the best language to code this game in. i am quite confident within this language and can pick up new skills relatively quickly. but i am worried once again (in reference to number 2) about how i would simulate matches using the data from php. i'd appreciate any pointers. thanks for the help guys!

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• Authentication settings in IIS Manager versus web.config versus system.serviceModel

  - by Joe

  I'm new to ASP.NET :) I have a WCF web service, and I want to use Basic authentication. I am getting lost in the authentication options: In IIS 6 Manager, I can go in to the properties of the web site and set authentication options. In the web site's web.config file, under system.web, there is an <authentication mode="Windows"/> tag In the web site's web.config file, under system.serviceModel, I can configure: <wsHttpBinding <binding name="MyBinding" <security mode="Transport" <transport clientCredentialType="Basic"/ </security </binding </wsHttpBinding What is the difference between these three? How should each be configured? Some context: I have a simple web site project that contains a single .svc web service, and I want it to use Basic authentication over SSL. (Also, I want it to not use Windows accounts, but maybe that is another question.)

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