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  • How can I save BioPerl sequence nested features in genbank or embl format?

    - by Ryan Thompson
    In BioPerl, a sequence object can have any number of features, and each of these can have subfeatures nested within them. For example, a feature may be a complete coding sequence of a gene, and its subfeatures might be individual exons that are concatenated to form the full coding sequence. However, when I use BioPerl to write a sequence object to a file in genbank or embl format, only the top-level features are written to the file, not the sub-features nested within the top-level features. How can I store my subfeatures in sequence files? Should I just convert all my subfeatures into top-level features, and then reconstruct the tree structure next time I read in the sequence?

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  • Call asp.net web service from php

    - by SamB09
    Hi im calling an aps.net web service from a php service. The service searches both databases with a search parameter. Im not sure how to pass a search parameter to the asp.net service. Code is below. ( there is no search paramter currently but im just interested in how it would be passed to the asp.net service) $link = mysql_connect($host, $user, $passwd); mysql_select_db($dbName); $query = 'SELECT firstname, surname, phone, location FROM staff ORDER BY surname'; $result = mysql_query($query,$link); // if there is a result if ( mysql_num_rows($result) > 0 ) { // set up a DOM object $xmlDom1 = new DOMDocument(); $xmlDom1->appendChild($xmlDom1->createElement('directory')); $xmlRoot = $xmlDom1->documentElement; // loop over the rows in the result while ( $row = mysql_fetch_row($result) ) { $xmlPerson = $xmlDom1->createElement('staff'); $xmlFname = $xmlDom1->createElement('fname'); $xmlText = $xmlDom1->createTextNode($row[0]); $xmlFname->appendChild($xmlText); $xmlPerson->appendChild($xmlFname); $xmlSname = $xmlDom1->createElement('sname'); $xmlText = $xmlDom1->createTextNode($row[1]); $xmlSname->appendChild($xmlText); $xmlPerson->appendChild($xmlSname); $xmlTel = $xmlDom1->createElement('phone'); $xmlText = $xmlDom1->createTextNode($row[2]); $xmlTel->appendChild($xmlText); $xmlPerson->appendChild($xmlTel); $xmlLoc = $xmlDom1->createElement('loc'); $xmlText = $xmlDom1->createTextNode($row[3]); $xmlLoc->appendChild($xmlText); $xmlPerson->appendChild($xmlLoc); $xmlRoot->appendChild($xmlPerson); } } // // instance a SOAP client to the dotnet web service and read it into a DOM object // (this really should have an exception handler) // $client = new SoapClient('http://stuiis.cms.gre.ac.uk/mk05/dotnet/dataBind01/phoneBook.asmx?WSDL'); $xmlString = $client->getDirectoryDom()->getDirectoryDomResult->any; $xmlDom2 = new DOMDocument(); $xmlDom2->loadXML($xmlString); // merge the second DOM object into the first foreach ( $xmlDom2->documentElement->childNodes as $staffNode ) { $xmlPerson = $xmlDom1->createElement($staffNode->nodeName); foreach ( $staffNode->childNodes as $xmlNode ) { $xmlElement = $xmlDom1->createElement($xmlNode->nodeName); $xmlText = $xmlDom1->createTextNode($xmlNode->nodeValue); $xmlElement->appendChild($xmlText); $xmlPerson->appendChild($xmlElement); } $xmlRoot->appendChild($xmlPerson); } // return result echo $xmlDom

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  • Drupal Views pulling Data Fields

    - by askon
    I'm a little new to drupal but have been using things like devel module and theme developer to speed up the learning process. My question, is it possible to theme an entire views BLOCK from a single views tpl.php page OR even a preprocess? When I'm grabbing the $view object I can see results $node-result, it has all of the results, but it doesn't have all my views fields. I'm missing things like, node path, taxonomy titles and paths, etc. From my understanding, Drupal wants you to individually theme EACH output field. It seems rather superfluous to create so many extra templates when I've already got over HALF of my results coming through the $view object Would outputting node over field make this easier? Or am going in the wrong direction with $view-result? Thanks!

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  • CreateChildControls AFTER Postback

    - by Francois
    I'm creating my own CompositeControl: a collection of MyLineWebControl and a "add" button. When the user press the "add" button, a new MyLineWebControl is added. In CreateChildControls(), I run through my model (some object MyGridOfLines which has a collection of MyLine) and add one MyLineWebControl for each MyLine. In addButton.Click, I add a new MyLine to my object MyGridOfLines. But, since the Click event method is called after CreateChildControls(), the new MyLineWebControl will be only displayed on the next postback. What can I do to "redraw" immediately my control, without loosing values that I've entered in each input?

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  • How To use Simple Html Video Player Also Have Rewind Forward Capability For The Next Video ?? PHP HTML

    - by Syed Raza
    i am trying to use this code for video in html but fistle it is for flash videos and second thing is that it do not have rewind forward capability for the next video clip my code is, <object classid="clsid:d27cdb6e-ae6d-11cf-96b8-444553540000" codebase="http://download.macromedia.com/pub/shockwave/cabs/flash/swflash.cab#version=8,0,0,0" width="250" height="250" align="middle"> <param name="allowScriptAccess" value="sameDomain"/> <param name="movie" value="Pro Tools Tutorials.swf"/> <param name="quality" value="high"/> <param name="bgcolor" value="#000000"/> <param name="allowFullScreen" value="true"/> <embed src="/unknittingmouse1.swf" quality="high" align="middle" bgcolor="#ffffff" width="250" height="230" allowFullScreen="true" allowScriptAccess="sameDomain" type="application/x-shockwave-flash" pluginspage="http://www.macromedia.com/go/getflashplayer"> </embed> </object> we have to also be carefull that that video code will run on internet explorer Hopes to listen from you soon, thanks in advance

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  • Rails - Override primary key on has_one

    - by Ben Hall
    I have the following associations, basically I want to link via userid and not the id of the object. class Tweet < ActiveRecord::Base has_one :user_profile, :primary_key = 'userid', :foreign_key = 'twitter_userid' class UserProfile < ActiveRecord::Base belongs_to :tweet, :foreign_key = 'userid' However the following spec fails as twitter_userid is reset to the id of the object it "should have the user's twitter id set on their user profile" do t = Tweet.new(:twitter_id = 1, :status = 'Tester', :userid = 'personA', :user_profile = UserProfile.new(:twitter_userid = 'personA', :avatar = 'abc')) t.save! t.user_profile.twitter_userid.should == 'personA' end should have the user's twitter id set on their user profile expected: "personA", got: 216 (using ==) However, the following does pass: it "should return the correct avatar after being saved" do t = Tweet.new(:twitter_id = 1, :status = 'Tester', :userid = 'personA', :user_profile = UserProfile.new(:twitter_userid = 'personA', :avatar = 'abc')) t.save! t.user_profile.avatar.should == 'abc' end How can I force it to use userid and not id? Thanks Ben

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  • Testing objects for changes

    - by David Veeneman
    I have an application that needs to determine whether a user has made a change to an object. So, when the object is first loaded, I create a deep copy (using serialization/deserialization) and save the copy to a separate field. The copy becomes myCurrentObject, and the original becomes myOriginalObject. Now I need to test myCurrentObject for changes, which I plan to do by comparing it to myOriginalObject. All I need is a boolean result indicating whether any changes have been made. I have already determined that a simple hashcode comparison won't work. GetHashCode() generates different results for the two objects, even when there are no changes. I am getting ready to write a method to do a property-by-property comparison, but before I do, I thought I would check to see if there is a simpler and more reusable way to test myCurrentObject to see if it has changed from myOriginalObject. Any suggestions? Thanks for your help.

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  • Sql Server SMO connection timeout not working

    - by Uros Calakovic
    I have the following PowerShell code: function Get-SmoConnection { param ([string] $serverName = "", [int] $connectionTimeout = 0) if($serverName.Length -eq 0) { $serverConnection = New-Object ` Microsoft.SqlServer.Management.Common.ServerConnection } else { $serverConnection = New-Object ` Microsoft.SqlServer.Management.Common.ServerConnection($serverName) } if($connectionTimeout -ne 0) { $serverConnection.ConnectTimeout = $connectionTimeout } try { $serverConnection.Connect() $serverConnection } catch [system.Management.Automation.MethodInvocationException] { $null } } $connection = get-smoconnection "ServerName" 2 if($connection -ne $null) { Write-Host $connection.ServerInstance Write-Host $connection.ConnectTimeout } else { Write-Host "Connection could not be established" } It seems to work, except for the part that attempts to set the SMO connection timeout. If the connection is successful, I can verify that ServerConnection.ConnectTimeout is set to 2 (seconds), but when I supply a bogus name for the SQL Server instance, it still attempts to connect to it for ~ 15 seconds (which is I believe the default timeout value). Does anyone have experience with setting SMO connection timeout? Thank you in advance.

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  • Ruby Equivalent of Python Requests Library (HTTP Client)

    - by Hartator
    There is a library in python that I love called requests. requests is a http client build on urllib3, top-notch :) (http://docs.python-requests.org/en/latest/) I am looking for something similar in ruby, basically what I need is : Upload files support (multipart/form-data) Easy get/post Cookies can be passed from a response object to a request object (build manually login script) Stable and Flexible Sessions support (to not have to handle cookies manually if we don't have too) I've looked at Typhoeus, but the code example in the home page doesn't work (they have moved code along and the get method is not longer directly accessible like that), so it's not starting well! :) Curb seems nice and I like curl, there is alson RestClient which seems popular and em-http seems pretty fast according to benchmark. There is a aso Patron and CurlFu which I haven't have the time to try. And of course Net:Http. But it doesn't seems to have a main stream solution that everyone point. I think a lot of people have been in my situation and I wonder what they have choosen and why?

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  • Marshal a list of objects from VB6 to C#

    - by Andrew
    I have a development which requires the passing of objects between a VB6 application and a C# class library. The objects are defined in the C# class library and are used as parameters for methods exposed by other classes in the same library. The objects all contain simple string/numeric properties and so marshaling has been relatively painless. We now have a requirement to pass an object which contains a list of other objects. If I was coding this in VB6 I might have a class containing a collection as a member variable. In C# I might have a class with a List member variable. Is it possible to construct a C# class in such a way that the VB6 application could populate this inner list and marshal it successfully? I don't have a lot of experience here but I would guess Id have to use an array of Object types.

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  • Anything wrong with this code?

    - by ct2k7
    I am using this to determine which view to go to next, from the result as input from UITableView. The following code isn't working, but I think it should be! Do you see anything wrong with it? NSString *option = [menuArray objectAtIndex:indexPath.row]; if (option == @"New Transaction"){ NTItems *nTItemsController = [[NTItems alloc] initWithNibName:@"NTItems" bundle:nil]; // Pass the selected object to the new view controller. [self.navigationController pushViewController:nTItemsController animated:YES]; [NTItems release];} else if (option == @"Previous Transactions"){} else if (option == @"Reprint a reciept"){} else if (option == @"Settings"){} else if (option == @"Logout"){ LoginViewController *nTItemsController = [[LoginViewController alloc] initWithNibName:@"LoginViewController" bundle:nil]; // Pass the selected object to the new view controller. [self.navigationController pushViewController:nTItemsController animated:YES]; [LoginViewController release]; }

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  • AVAudioPlayer Memory Leak - Media Player Framework

    - by Krishnan
    Hi Friends, I am using AVAudioPlayer object to play an audio. I create an audioPlayer object initially. I play an animation and when ever animation starts I play the audio and pause the audio when the animation is finished. I initially found three memory Leaks using Instruments. (The responsible caller mentioned was RegisterEmbedCodecs). After suggestion from a "ahmet emrah" in this forum to add MediaPlayer framework, the number of leaks reduced to one. And is there any way to completely get rid of it? Thanks and regards, krishnan.

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  • What is a good platform for building a game framework targetting both web and native languages?

    - by fuzzyTew
    I would like to develop (or find, if one is already in development) a framework with support for accelerated graphics and sound built on a system flexible enough to compile to the following: native ppc/x86/x86_64/arm binaries or a language which compiles to them javascript actionscript bytecode or a language which compiles to it (actionscript 3, haxe) optionally java I imagine, for example, creating an API where I can open windows and make OpenGL-like calls and the framework maps this in a relatively efficient manner to either WebGL with a canvas object, 3d graphics in Flash, OpenGL ES 2 with EGL, or desktop OpenGL in an X11, Windows, or Cocoa window. I have so far looked into these avenues: Building the game library in haXe Pros: Targets exist for php, javascript, actionscript bytecode, c++ High level, object oriented language Cons: No support for finally{} blocks or destructors, making resource cleanup difficult C++ target does not allow room for producing highly optimized libraries -- the foreign function interface requires all primitive types be boxed in a wrapper object, as if writing bindings for a scripting language; these feel unideal for real-time graphics and audio, especially exporting low-level functions. Doesn't seem quite yet mature Using the C preprocessor to create a translator, writing programs entirely with macros Pros: CPP is widespread and simple to use Cons: This is an arduous task and probably the wrong tool for the job CPP implementations differ widely in support for features (e.g. xcode cpp has no variadic macros despite claiming C99 compliance) There is little-to-no room for optimization in this route Using llvm's support for multiple backends to target c/c++ to web languages Pros: Can code in c/c++ LLVM is a very mature highly optimizing compiler performing e.g. global inlining Targets exist for actionscript (alchemy) and javascript (emscripten) Cons: Actionscript target is closed source, unmaintained, and buggy. Javascript targets do not use features of HTML5 for appropriate optimization (e.g. linear memory with typed arrays) and are immature An LLVM target must convert from low-level bytecode, so high-level constructs are lost and bloated unreadable code is created from translating individual instructions, which may be more difficult for an unprepared JIT to optimize. "jump" instructions cause problems for languages with no "goto" statements. Using libclang to write a translator from C/C++ to web languages Pros: A beautiful parsing library providing easy access to the code structure Can code in C/C++ Has sponsored developer effort from Apple Cons: Incomplete; current feature set targets IDEs. Basic operators are unexposed and must be manually parsed from the returned AST element to be identified. Translating code prior to compilation may forgo optimizations assumed in c/c++ such as inlining. Creating new code generators for clang to translate into web languages Pros: Can code in C/C++ as libclang Cons: There is no API; code structure is unstable A much larger job than using libclang; the innards of clang are complex Building the game library in Common Lisp Pros: Flexible, ancient, well-developed language Extensive introspection should ease writing translators Translators exist for at least javascript Cons: Unfamiliar language No standardized library functions, widely varying implementations Which of these avenues should I pursue? Do you know of any others, or any systems that might be useful? Does a general project like this exist somewhere already? Thank you for any input.

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  • How to get equivalent of ResultSetMetaData without ResultSet

    - by javanix
    Hey Guys - I need to resolve a bunch of column names to column indexes (so as to use some of the nice ResultSetMetaData methods). However, the only way that I know how to get a ResultSetMetaData object is by calling getMetaData() on some ResultSet. The problem I have with that is that grabbing a ResultSet takes up uneccesary resources in my mind - I don't really need to query the data in the table, I just want some information about the table. Does anyone know of any way to get a RSMD object without getting a ResultSet (from a potentially huge table) first? Thanks!

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  • Powershell GUI: Adding multiple instances of .tooltipseperate to menu

    - by obious
    So, I'm having a problem whereby for some reason I can only add one instance of a .tooltipseperator to a drop down menu. E.g. I have to create a new .tooltipseperator if I want to add another to a different menu list. I have this: $seperator = new-object System.Windows.Forms.Toolstripseparator $seperator1 = new-object System.Windows.Forms.Toolstripseparator which correlates to this: [Void]$packages_menu_bar.DropDownItems.Add($seperator1) [Void]$packages_menu_bar.DropDownItems.Add($Remove_from_AD) [Void]$process.DropDownItems.Add($Kill_process) [Void]$process.DropDownItems.Add($seperator) My question is this: how can I add the same instance on a .tooltipseperater to different menu items? Some sort of array? Thanks

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  • Storing Arbitrary Contact Information in Ruby on Rails

    - by Anthony Chivetta
    Hi, I am currently working on a Ruby on Rails app which will function in some ways like a site-specific social networking site. As part of this, each user on the site will have a profile where they can fill in their contact information (phone numbers, addresses, email addresses, employer, etc.). A simple solution to modeling this would be to have a database column per piece of information I allow users to enter. However, this seems arbitrary and limited. Further, to support allowing users to enter as many phone numbers as they would like requires the addition of another database table and joins. It seems to me that a better solution would be to serialize all the contact information entered by a user into a single field in their row. Since I will never be conditioning a SQL query on this information, such a solution wouldn't be any less efficient. Ideally, I would like to use a vCard as my serialization format. vCards are the standard solution to storing contact information across the web, and reusing tested solutions is a Good Thing. Alternative serialization formats would include simply marshaling a ruby hash, or YAML. Regardless of serialization format, supporting the reading and updating of this information in a rails-like way seems to be a major implementation challenge. So, here's the question: Has anyone seen this approach used in a rails application? Are there any rails plugins or gems that make such a system easy to implement? Ideally what I would like is an acts_as_vcard to add to my model object that would handle editing the vcard for me and saving it back to the database.

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  • Check if BigDecimal is integer value

    - by Adamski
    Can anyone recommend an efficient way of determining whether a BigDecimal is an integer value in the mathematical sense? At present I have the following code: private boolean isIntegerValue(BigDecimal bd) { boolean ret; try { bd.toBigIntegerExact(); ret = true; } catch (ArithmeticException ex) { ret = false; } return ret; } ... but would like to avoid the object creation overhead if necessary. Previously I was using bd.longValueExact() which would avoid creating an object if the BigDecimal was using its compact representation internally, but obviously would fail if the value was too big to fit into a long. Any help appreciated.

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  • How to Eliminate Black Bars from Powerpoint videos ?

    - by appu
    Hi, I am running a digital signage system for my client. The basic installation is a vertically oriented 42" LCD TV with a 1920x1080 screen resolution (reverse of 1920x1080 when setup normally, i.e. landscaped). Please check out the following link for a basic screen divisions layout I want to setup. http://flickr.com/photos/55097319@N03/5410208856 In the division labeled "ppt" I plan to run a powerpoint presentation. The screen division is 360x1476 resolution. As there isn't an option in powerpoint to specify slide size in terms of resolution so according to this article on indezine http://indezine.com/products/powerpoint/books/perfectmedicalpres02.html to get a screen resolution of my preference I divided 360 and 1476 each by 72 which gives me 5"x 20.5" as the slide size for my ppt. After setting up slide size as per above dimensions, I used sizer (http://brianapps.net) to resize my ppt window to 360x1476 so that when I record I do not get any black bars. But after launching recording there are side black bars visible which camtasia records and brings-inside cam studio with black bars. http://www.flickr.com/photos/55097319@N03/5409597049 My question is that after doing the above and as explained in the following video link why do I still get black bars. http://feedback.techsmith.com/techsmith/topics/eliminate_black_bars_in_your_powerpoint_recordings Is there an option in camtasia to stretch the recording to cover up black bars or any other alternative way I can get rid of those black bars while I get a ppt recorded as per my preferred dimensions. Notes: In the techsmith video above it asks to adjust my desktop screen resolution which my display chipset does not allow me to set. I set up show in powerpoint to be "browsed by an individual(window)". Also signage software only supports swf's and video file formats natively and not ppt, pptx etc. Thanks bhavani.

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  • Scala wont pattern match with java.lang.String and Case Class

    - by Stefan
    Hello fellow Scala Programmers I have been working with Scala for some month now, however I have a problem with some properly basic stuff, I am hoping you will help my out with it. case class PersonClass(name: String, age: Int) object CaseTester { def main(args:Array[String]) { val string = "hej" string match { case e:String => println(string) case PersonClass => println(string) } } } When I am doing like this I get error: pattern type is incompatible with expected type; found : object PersonClass required: java.lang.String case PersonClass = println(string) And if I then change the second line in the pattern matching to the following: case e:PersonClass => println(string) I then get the error: error: scrutinee is incompatible with pattern type; found : PersonClass required: java.lang.String case e:PersonClass = println(string) However if I change the string definition to the following it compiles fine in both cases. val string:AnyRef = "hej"

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  • How to read the response stream before the Http response completes

    - by Marwan Aouida
    When making a request using HttpWebRequest object, I need to call the method GetResponse() to send the request and get the response back. The problem with this method is that it doesn't return the response object until all data has been received. Say I am downloading a 100 MB file, I won't be able to read it until the response finish and all the 100 MB is downloaded. What I want is to be able to read the response stream bytes as soon as they arrive, without waiting for the response to complete. I know I can use the Range Http header, but it won't work on my situation.

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  • Problem with running c# application on another PC

    - by draghia-aurelian
    I wrote a Windows Form Application in C# and it works well for my computer. But on another PC, an error occurs when i try to do some stuff. code 1 private void rUNToolStripMenuItem_Click(object sender, EventArgs e) { MessageBox.Show("I'm in rUNToolStripMenuItem_Click!"); ... } code 2 private void dataPositionToolStripMenuItem_Click(object sender, EventArgs e) { MessageBox.Show("I'm in dataPositionToolStripMenuItem_Click!"); ... } Running on my computer: code1: MessageBox appears! code2: MessageBox appears! Running on another computer: code1: MessageBox doesn't appear and the error happens! code2: MessageBox appears! The error is: Method not found: "Void Microsoft.CSharp.RuntimeBinder.CSharpGetMemberBider..ctor(System.String.System.Type, System.Collections.Generic.IEnumerable'1)'. This is the PrintScreen with error: Please help me to solve the problem!

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  • Jquery - Errors only in Internet Explorer

    - by Gublooo
    Hey Guys I am getting several errors only on IE8 running on my vista OS. On the other browsers (Chrome, FF, Safari) everything works fine. Not sure where to begin looking. When I open a new IE8 browser and enter the homepage URL of my website - I get the following error and the page opens up blank: Line: 19 Character: 12043 Code: 0 Error Message: Object required URL: http://xyz.com/js/jquery.js Then in one other place - I have a modal form which has a text area - when I start typing - after typing every character - this error shows up Line: 19 Character: 30711 Code: 0 Error Message: 'this[...].style' is null or not an object URL: http://xyz.com/js/jquery.js Thanks for your help

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  • I want to embed my own video files in my page

    - by Vinu
    I used the following codes to embed my videos(swf and flv) in the following code with the player. But this is working fine in ie and not working in firefox. If anyone knows to correct this code for firefox too.. pls help me... <object type="application/x-shockwave-flash" width="400" height="350" wmode="transparent" data="flvplayer.swf?file=**video location**&autoStart=true"> <param name="movie" value="flvplayer.swf?file=**video location**&autoStart=true" /> <param name="wmode" value="transparent" /> </object>

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  • Why would it be a bad idea to have database connection open between client requests?

    - by AspOnMyNet
    1) Book I’m reading argues that connections shouldn’t be opened between client requests, since they are a finite resource. I realize that max pool size can quickly be reached and thus any further attempts to open a connection will be queued until connection becomes available and for that reason it would be imperative that we release connection as soon as possible. But assuming all request will open connection to the same DB, then I’m not sure how having a connection open between two client requests would be any less efficient than having each request first acquiring a connection from connection pool and later returning that object to connection pool? 2) Book also recommends that when database code is encapsulated in a dedicated data access class, then method M opening a database connection should also close that connection. a) I assume one reason why M should also close it, is because if method M opening the connection doesn’t also close it, but instead this connection object is used inside several methods, then it’s more likely that a programmer will forget to close it. b) Are there any other reasons why a method opening the connection should also close it? thanx

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