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  • lapply slower than for-loop when used for a BiomaRt query. Is that expected?

    - by ptocquin
    I would like to query a database using BiomaRt package. I have loci and want to retrieve some related information, let say description. I first try to use lapply but was surprise by the time needed for the task to be performed. I thus tried a more basic for-loop and get a faster result. Is that expected or is something wrong with my code or with my understanding of apply ? I read other posts dealing with *apply vs for-loop performance (Here, for example) and I was aware that improved performance should not be expected but I don't understand why performance here is actually lower. Here is a reproducible example. 1) Loading the library and selecting the database : library("biomaRt") athaliana <- useMart("plants_mart_14") athaliana <- useDataset("athaliana_eg_gene",mart=athaliana) 2) Querying the database : loci <- c("at1g01300", "at1g01800", "at1g01900", "at1g02335", "at1g02790", "at1g03220", "at1g03230", "at1g04040", "at1g04110", "at1g05240" ) I create a function for the use in lapply : foo <- function(loci) { getBM("description","tair_locus",loci,athaliana) } When I use this function on the first element : > system.time(foo(cwp_loci[1])) utilisateur système écoulé 0.020 0.004 1.599 When I use lapply to retrieve the data for all values : > system.time(lapply(loci, foo)) utilisateur système écoulé 0.220 0.000 16.376 I then created a new function, adding a for-loop : foo2 <- function(loci) { for (i in loci) { getBM("description","tair_locus",loci[i],athaliana) } } Here is the result : > system.time(foo2(loci)) utilisateur système écoulé 0.204 0.004 10.919 Of course, this will be applied to a big list of loci, so the best performing option is needed. I thank you for assistance. EDIT Following recommendation of @MartinMorgan Simply passing the vector loci to getBM greatly improves the query efficiency. Simpler is better. > system.time(lapply(loci, foo)) utilisateur système écoulé 0.236 0.024 110.512 > system.time(foo2(loci)) utilisateur système écoulé 0.208 0.040 116.099 > system.time(foo(loci)) utilisateur système écoulé 0.028 0.000 6.193

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  • Updating iOS application content which include images

    - by azamsharp
    I am working on a Vegetable gardening application. Apart from the vegetable name and description I also have vegetable image. Currently, I have all the images in the Supported Files folder in the Xcode project. But later on I want to update the application dynamically without having the user download a new version. When the user updates the application or downloads new data from the server that data will include the images. Can I store those images in the supporting file folder or somewhere where they can be references by just the name. RELATED QUESTION: I will also allow the user to take pictures of their vegetables and then write notes about the vegetables like "just planted", "about to harvest" etc. What is the recommended approach for storing pictures/photos. I can always store them in the user's photo library and then store the reference in the local database and then fetch and display the picture using the reference. The problem with that approach might be that if the user accidentally deletes the picture from the library then it will no longer be displayed in my application. The only way I see if to store the picture in the app local database as a BLOB.

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  • Why isn't it possible to update an ObservableCollection from a different thread?

    - by MainMa
    In a multi-threaded WPF application, it is not possible to update an ObservableCollection from a thread other than WPF window thread. I know there are workarounds, so my question is not how to avoid the "This type of CollectionView does not support changes to its SourceCollection from a thread different from the Dispatcher thread" exception. My question is, why there is such an exception? Why wasn't it possible to allow collection updates from any thread? Personally, I don't see any reason to block UI update when ObservableCollection is changed from other threads. If two threads (including parallel ones) are accessing the same object, one listening for changes of object properties through events, the other one doing changes, it will always work, at least if locks are used properly. So, what are the reasons?

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  • Is it possible to use components derived from TWinControl in a service?

    - by M Schenkel
    I am creating a Delphi service. Is there any way to use controls derived from TWinControl within services? Ultimately the control and any controls I place on it will be saved to a bitmap. But anything I try I get "control has no parent window" error. I have successfully created a TBitMap and can accomplish the same functionality. But having all the functionality built into the VCL would greatly simplify the task.

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  • Visual Studio 2008 having problems with namespaces when used as type in Generic coolection

    - by patrick
    I just upgraded last week from Visual Studio 2005 to 2008. I am having an issue with compiler resolving namespaces when I use a class as a type in a Generic collection. Intellisense recognizes the class and the compiler generates no errors when I use the class except when it is a type in a Generic collection declaration either as return type for a Property or as a parameter to a method. This is happening in my only project that is targeting the 3.5 framework, but changing the project containing the class to use the 3.5 framework doesn't fix the problem. Examples Compile fine MyClass myClass = new MyClass(); SortedList <DateTime,MyClass> listOfClasses = new SortedList<DateTime,MyClass> Compile error - Namespace could not be found public SortedList<DateTime,MyClass> ClassList { get; set; } private void DoSomethingToLists(SortedList<DateTime,MyClass> classList) Intellisense has no problem resolving the namespace, only the compiler. Is this a known bug or am I missing something obvious? Will SP1 fix it? I was able to create a new library containing just this class targeting 3.5 and am now able to successfully use this in both 3.5 and 2.0 projects. My guess is that even though I tried to change the target of my original library, since it was still referencing 2.0 projects there was some conflict.

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  • Javascript Graph Layout Engine

    - by GJK
    I'm looking for a Javascript library/engine that can do graph layouts. (And when I say layouts, I mean logically position vertices nicely.) The graphs I'm working with are all m-ary trees. M is usually no more than 5 or 6, but it can be greater in some cases. I do have something that I use now, Graphviz's node program, and it works perfectly. The problem is, when running a web app, I have to send a request to the server every time I want a layout. Preferably, I would like something written in Javascript that can be quickly run on the client side. All it needs to do is provide layout information (relative positioning and whatnot). I don't need it to draw to a canvas or use SVG or anything, all I'm interested in is the layout. Library use like jQuery or RaphaelJS is fine by me. I'll work with it. I'm just looking for something to speed things along a little. Also, I'd consider writing my own if I could find a nice description of an algorithm to do the layouts. But I really don't want to spend too much time. I have something that works now, so getting it on the client side is just a bonus, not a necessity.

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  • Programmatically setup a PEAP connection in Windows Mobile

    - by tomlog
    I have been working on this for a few days and this is doing my head in: Our application is built using the .NET Compact Framework 2.0 and running on Windows Mobile 5 & 6 devices. We can set the WLAN connection of the device programmatically using the Wireless Zero Config functions (described here: msdn.microsoft.com/en-us/library/ms894771.aspx), most notably the WZCSetInterface function which we pinvoke from our application. This works fine for WEP and WPA-PSK connections. In a recent effort to add support for WPA2 networks we decided to modify the code. We have successfully added support for WPA2 which uses a certificate for the 802.1x authentication by setting the correct registry settings before calling WZCSetInterface. Now we want to do the same for WPA2 using PEAP (MS-CHAPv2) authentication. When manually creating such a connection in Windows Mobile the user will be prompted to enter the domain/user/password details. In our application we will have those details stored locally and want to do this all programmatically without any user intervention. So I thought going along the same route as the certificate authentication, setting the correct registry entries before calling WZCSetInterface. The registry settings we set are: \HKCU\Comm\EAP\Config\[ssid name] Enable8021x = 1 (DWORD) LastAuthSuccessful = 1 (DWORD) EapTypeId = 25 (DWORD) Identity = "domain\username" (string) Password = binary blob containing the password that is encrypted using the CryptProtectData function (described here: msdn.microsoft.com/en-us/library/ms938309.aspx) But when these settings are set and I call WZCSetInterface with the correct parameters, it still prompts me with the User Logon dialog asking for the domain/username/password. Has anyone got an idea what I need to do to prevent the password dialog from appearing and connect straight away with the settings stored in the registry?

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  • How to move file pointer to a particular location using fseek()?

    - by Noge
    My intention is to read every elements in the 2nd column into a buffer[] from the following .txt file: 9992891234 09.920 15.771 11.909 9992345971 07.892 12.234 09.234 9992348971 64.567 70.456 50.987 9992348231 89.234 85.890 58.982 I have know of a way to do it by using fscanf(): for (int i=0;i<4;i++) { fscanf(pFile, "%lld", &junk); fscanf(pFile, "%f", &buffer[i]); fscanf(pFile, "%f", &junk); fscanf(pFile, "%f", &junk); } However, since I'm doing parallel programing which requires me to use different Windows Threads to read different columns, so I'll need to read the elements in the 2nd column directly using fseek(). The question here is, what should I put in the 2nd argument in fseek() in the code below to move my file pointer to read the 2nd element of the 2nd line? fscanf(pFile, "%llf", &junk);//<------this is used to skip the 1st data for (int i=0;i<4;i++) { fscanf(pFile, "%f", &buffer[i]); fseek ( pFile , ??, SEEK_CUR );//<----how do I calculate this offset? }

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  • Detect modification of variable at runtime in C/C++

    - by YuppieNetworking
    Hello, I am developing a library in C++ where users/programmer will extend a class BaseClass that has a method initArray. This method should be implemented by the user/programmer and it should normally initialize all elements of the array m_arr. Here is a snipplet, modified to this example: class BaseClass { public: BaseClass(int n) { m_arr = new double[n]; size = n; }; virtual ~BaseClass(); int size; double* m_arr; virtual int initArray(); }; Sometimes, the user/programmer implements a initArray that does not initialize some elements of m_arr. What I would like is to create a function in my library that checks if initArray did initialize all elements of m_arr. This function should be called by a sanity-check rutine at runtime. My question: is it possible to detect changes on this array? I can only think of initializing the array with some invalid values (like NaN or Inf), call initArray and check that all values have changed. Thanks for your ideas, David

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  • What factors could cause the scalability issue on a 10-core CPU?

    - by JackWM
    I am tuning the performance of parallel Java programs. And want to check the impacts from the Architecture. I'm look into the Intel 10-core CPU, Intel(R) Xeon(R) CPU E7-L8867. I found my program only scales up to 5 cores. What could be the causes? I'm considering the Architecture effects. e.g. memory contention? More specifically, Are the 10 cores symmetric to each other? How many memory controllers does it have?

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  • Query performs poorly unless a temp table is used

    - by Paul McLoughlin
    The following query takes about 1 minute to run, and has the following IO statistics: SELECT T.RGN, T.CD, T.FUND_CD, T.TRDT, SUM(T2.UNITS) AS TotalUnits FROM dbo.TRANS AS T JOIN dbo.TRANS AS T2 ON T2.RGN=T.RGN AND T2.CD=T.CD AND T2.FUND_CD=T.FUND_CD AND T2.TRDT<=T.TRDT JOIN TASK_REQUESTS AS T3 ON T3.CD=T.CD AND T3.RGN=T.RGN AND T3.TASK = 'UPDATE_MEM_BAL' GROUP BY T.RGN, T.CD, T.FUND_CD, T.TRDT (4447 row(s) affected) Table 'TRANSACTIONS'. Scan count 5977, logical reads 7527408, physical reads 0, read-ahead reads 0, lob logical reads 0, lob physical reads 0, lob read-ahead reads 0. Table 'TASK_REQUESTS'. Scan count 1, logical reads 11, physical reads 0, read-ahead reads 0, lob logical reads 0, lob physical reads 0, lob read-ahead reads 0. SQL Server Execution Times: CPU time = 58157 ms, elapsed time = 61437 ms. If I instead introduce a temporary table then the query returns quickly and performs less logical reads: CREATE TABLE #MyTable(RGN VARCHAR(20) NOT NULL, CD VARCHAR(20) NOT NULL, PRIMARY KEY([RGN],[CD])); INSERT INTO #MyTable(RGN, CD) SELECT RGN, CD FROM TASK_REQUESTS WHERE TASK='UPDATE_MEM_BAL'; SELECT T.RGN, T.CD, T.FUND_CD, T.TRDT, SUM(T2.UNITS) AS TotalUnits FROM dbo.TRANS AS T JOIN dbo.TRANS AS T2 ON T2.RGN=T.RGN AND T2.CD=T.CD AND T2.FUND_CD=T.FUND_CD AND T2.TRDT<=T.TRDT JOIN #MyTable AS T3 ON T3.CD=T.CD AND T3.RGN=T.RGN GROUP BY T.RGN, T.CD, T.FUND_CD, T.TRDT (4447 row(s) affected) Table 'Worktable'. Scan count 5974, logical reads 382339, physical reads 0, read-ahead reads 0, lob logical reads 0, lob physical reads 0, lob read-ahead reads 0. Table 'TRANSACTIONS'. Scan count 4, logical reads 4547, physical reads 0, read-ahead reads 0, lob logical reads 0, lob physical reads 0, lob read-ahead reads 0. Table '#MyTable________________________________________________________________000000000013'. Scan count 1, logical reads 2, physical reads 0, read-ahead reads 0, lob logical reads 0, lob physical reads 0, lob read-ahead reads 0. SQL Server Execution Times: CPU time = 1420 ms, elapsed time = 1515 ms. The interesting thing for me is that the TASK_REQUEST table is a small table (3 rows at present) and statistics are up to date on the table. Any idea why such different execution plans and execution times would be occuring? And ideally how to change things so that I don't need to use the temp table to get decent performance? The only real difference in the execution plans is that the temp table version introduces an index spool (eager spool) operation.

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  • GAE messaging service

    - by cometta
    let say i want my corporate server to communicate with google app engine vise verse. I know that gae do not support JMS,RMI etc. what is the best alternative for this kind of communication?(i think http get is not suitable for this kind of communicate) use task queue? both my corporate server and gae application using spring framework

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  • C# How to execute an application from windows service

    - by Jhone
    I have window XP 2003 server, which is placed in a room where no one can enter to logon it. for monitoring some applications I created a consol application myServer.exe, which dont have any UI, I want that this application (e.g., myServer.exe) start automatically as window bootup (e.g., before window logon) and I need to do this work using windows service. need your help. (note: please dont suggest me any other solution, I need to use windows service to accompalish this task)

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  • How do I pull `static final` constants from a Java class into a Clojure namespace?

    - by Joe Holloway
    I am trying to wrap a Java library with a Clojure binding. One particular class in the Java library defines a bunch of static final constants, for example: class Foo { public static final int BAR = 0; public static final int SOME_CONSTANT = 1; ... } I had a thought that I might be able to inspect the class and pull these constants into my Clojure namespace without explicitly def-ing each one. For example, instead of explicitly wiring it up like this: (def *foo-bar* Foo/BAR) (def *foo-some-constant* Foo/SOME_CONSTANT) I'd be able to inspect the Foo class and dynamically wire up *foo-bar* and *foo-some-constant* in my Clojure namespace when the module is loaded. I see two reasons for doing this: A) Automatically pull in new constants as they are added to the Foo class. In other words, I wouldn't have to modify my Clojure wrapper in the case that the Java interface added a new constant. B) I can guarantee the constants follow a more Clojure-esque naming convention I'm not really sold on doing this, but it seems like a good question to ask to expand my knowledge of Clojure/Java interop. Thanks

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  • Magento order status change events

    - by Christian
    Hi people, I want to change via web service a remote inventory, I know that via Event Observer Method can triger my code, but I don't know which event is useful to complete my task, like on_order_complete, is there an updated list of events or more documentation?

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  • Multiple File upload doesnot work in CI

    - by sabuj
    Hi I have used Jquery Plugin to upload multiple file with CI. It works fine for one file but if i try to upload more than one file it doesnot work it gives the result like this"menu_back9.pngmenu_back9.png.jpg". function do_upload() { $config['upload_path'] = './uploads/'; // server directory $config['allowed_types'] = 'gif|jpg|png'; // by extension, will check for whether it is an image $config['max_size'] = '1000'; // in kb $config['max_width'] = '1024'; $config['max_height'] = '768'; $this-load-library('upload', $config); $this-load-library('Multi_upload'); $files = $this-multi_upload-go_upload(); if ( ! $files ) { $error = array('error' => $this->upload->display_errors()); $this->load->view('admin/add_digital_product', $error); } else { foreach($files as $file) { $pic_name = $file['name']; echo $pic_name; } exit; $data = array( 'dg_image_1'=$picture, 'dgproduct_name'=$this-input-post('dgproduct_name',TRUE), 'dgproduct_description'=$this-input-post('dgproduct_description',TRUE), 'url_additional'=$this-input-post('url_additional',TRUE), 'url_stored'=$this-input-post('url_stored',TRUE), 'delivery_format'=$this-input-post('delivery_format',TRUE), 'item_size'=$this-input-post('item_size',TRUE), 'price'=$this-input-post('price',TRUE), 'item_code'=$this-input-post('item_code',TRUE), 'payment_pro_code'=$this-input-post('payment_pro_code',TRUE), 'delivery_time'=$this-input-post('delivery_time',TRUE), 'thankyou_message'=$this-input-post('thankyou_message',TRUE), ); $this-db-insert('sm_digital_product',$data); redirect(site_url().'admin/admins'); } } I used avobe code If any body know please tell me. I am stack there.

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  • Problems with usually short solutions to test in a programming language

    - by sub
    I'm currently creating an experimental programming language for fun and educational purpose and in search for some tasks beyond the classical "Hello, World!"-program. I've already come up with these ideas: Print out the program's input Calculator Generate Prime numbers, Fibonacci series What other interesting programming problems do you have for me to test? It would be good if they required the language to solve a broad spectrum of task, take prime numbers for example: You need variables, increment them, divide them, perform actions under certain conditions, etc.

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  • what is the purpose of getEventType() method in XMLStreamReader Class

    - by KItis
    I have sample code written for parsing xml file using javax.xml package. it uses the method called getEventType() , but I can not understand the purpose of this method. i wrote simple application to understand its usefulness, but it output only some random numbers for which I can not make any sense, could some one help me to get this point right. Here is the sample code I have written. public List parseXML(File f) throws XMLStreamException{ xmlInputFactory = new WstxInputFactory(); xmlInputFactory.setProperty(XMLInputFactory2.IS_REPLACING_ENTITY_REFERENCES, Boolean.FALSE); xmlInputFactory.setProperty(XMLInputFactory2.IS_SUPPORTING_EXTERNAL_ENTITIES, Boolean.FALSE); xmlInputFactory.setProperty(XMLInputFactory2.IS_COALESCING,Boolean.FALSE); xmlInputFactory.setProperty(XMLInputFactory2.IS_VALIDATING,Boolean.FALSE); xmlInputFactory.configureForSpeed(); List<Task> tasks = new LinkedList<Task>(); //xmlStreamReader = xmlInputFactory.createXMLStreamReader(new StringReader(dmml)); xmlStreamReader = xmlInputFactory.createXMLStreamReader(f); int eventType = xmlStreamReader.getEventType(); eventType = xmlStreamReader.next(); System.out.println(eventType); eventType = xmlStreamReader.next(); System.out.println(eventType); eventType = xmlStreamReader.next(); System.out.println(eventType); eventType = xmlStreamReader.next(); System.out.println(eventType); eventType = xmlStreamReader.next(); System.out.println(eventType); eventType = xmlStreamReader.next(); System.out.println(eventType); eventType = xmlStreamReader.next(); System.out.println(eventType); eventType = xmlStreamReader.next(); System.out.println(eventType); eventType = xmlStreamReader.next(); System.out.println(eventType); eventType = xmlStreamReader.next(); System.out.println(eventType); eventType = xmlStreamReader.next(); System.out.println(eventType); /*String currentElement = ""; String currentElementText = ""; }

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