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  • 50 sequences in one line

    - by user343934
    I have Muttiple sequence alignment (clustal) file and i want to read this file and arrange sequences in a such a way that in looks more clear and precise in order. I am doing this from biopython using AlignIO object. My codes like this alignment = AlignIO.read("opuntia.aln", "clustal") print "Number of rows: %i" % len(align) for record in alignment: print "%s - %s" % (record.id, record.seq) My Output-- http://i48.tinypic.com/ae48ew.jpg , it looks messy and long scrolling. What i want to do is print only 50 sequences in each line and continue till the end of alignment file. I wish to have output like this---http://i45.tinypic.com/4vh5rc.jpg from --http://www.ebi.ac.uk/Tools/clustalw2/, sorry two links are just a text due to my reputation. Any suggestions, algorithm and sample code is appreciated Thanks in advance Br,

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  • Convert 12hour time to 24Hour time

    - by RwardBound
    I have hourly weather data. I've seen the function examples from here: http://casoilresource.lawr.ucdavis.edu/drupal/node/991 I'm altering the code to account for airport data, which has a different URL type. Another issue with the airport weather data is that the time data is saved in 12 hour format. Here is a sample of the data: 14 10:43 AM 15 10:54 AM 16 11:54 AM 17 12:07 PM 18 12:15 PM 19 12:54 PM 20 1:54 PM 21 2:54 PM Here's what I attempted: (I see that using just 'PM' isn't careful enough because any times between 12 and 1 pm will be off if they go through this alg) date<-Sys.Date() data$TimeEST<-strsplit(data$TimeEST, ' ') for (x in 1:35){ if('AM' %in% data$TimeEST[[x]]){ gsub('AM','',data$TimeEST[[x]]) data$TimeEST[[x]]<-str_trim(data$TimeEST[[x]]) data$TimeEST[[x]]<-str_c(date,' ',data$TimeEST[x],':',data$TimeEST[2]) } else if('PM' %in% data$TimeEST[[x]]){ data$TimeEST[[x]]<-gsub('PM', '',data$TimeEST[[x]]) data$TimeEST[[x]]<-strsplit(data$TimeEST[[x]], ':') data$TimeEST[[x]][[1]][1]<-as.integer(data$TimeEST[[x]][[1]][1])+12 data$TimeEST[[x]]<-str_trim(data$TimeEST[[x]][[1]]) data$TimeEST[[x]]<-str_c(date, " ", data$TimeEST[[x]][1],':',data$TimeEST[[x]][2]) } } Any help?

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  • Home key press behaviour

    - by Arnab
    While developing a sample android application i have constructed two activities 1)Activity 1 2)Activity 2 Now Activity 2 is the foreground activity whereas Activity 1 is the background one. Now user presses Home key. The application(i.e. both the activities) dissappear. Now is we relaunch the application we see Activity 1 as the foreground activity. My question is: 1)Does the platform maintain any history entry when pressed home key? 2)How do we take the user to the last launch activity on relaunching the application?

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  • JAXB Marshalling supply name space for root element dynamically

    - by Venkat
    I have to pass the namespace for root element dynamically while marshalling using jaxb (JAXB 2.1.10 - JDK 6). i will be using the genrated xml to call different webservices which is qualified with different namespaces but same input xml. here is my sample jaxb annotated class .....guide me with your valuable inputs. @XmlAccessorType(XmlAccessType.FIELD) @XmlType(name = "", propOrder = { "taskName", "taskType" }) @XmlRootElement(name = "TaskRequest") public class TaskRequest { @XmlElement(name = "TaskName", required = true) protected String taskName; @XmlElement(name = "TaskType", required = true) protected String taskType; public String getTaskName() { return taskName; } public void setTaskName(String value) { this.taskName = value; } public String getTaskType() { return taskType; } public void setTaskType(String value) { this.taskType = value; } }

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  • Using netlink to obtain arp entries only returns stale entries

    - by Ben
    I'm currently trying to retrieve reachable neighbors from the arp table in a user space program written in c. I've looked through the source code to the "ip neigh" command (ipneigh.c) and it appears that I should use the flag NUD_REACHABLE. struct { struct nlmsghdr n; struct ndmsg r; } req; memset(&req, 0, sizeof(req)); req.n.nlmsg_len = NLMSG_LENGTH(sizeof(struct ndmsg)); req.n.nlmsg_flags = NLM_F_REQUEST | NLM_F_ROOT; req.n.nlmsg_type = RTM_GETNEIGH; req.r.ndm_state = NUD_REACHABLE; However, when I look at the data returned from the kernel, I only have stale entries. In fact, no matter what I put for req.r.ndm_state it seems to return only entries marked as stale by ip neigh. The remainder of my code is modeled after this example: http://linux-hacks.blogspot.com/2009/01/sample-code-to-learn-netlink.html

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  • How to get a list of names + a count of occurrences relating to the name from another table

    - by Jacob Degeling
    Hi, Hope my subject line was descriptive enough. Basically, I have a table called Students, and one called Absences. The Students table contains student information (Name, DOB, StudentID etc.), the Absences table contains any absences (Date, Reason, related by StudentID). I want to get a full list of the students, plus a count of their absences. Sample results would be: StudentName Absences ------------- ----------- Johnny 3 Mark 2 James 1 Anthony 0 Sharon 0 Can someone suggest a way I should tackle this problem? I would prefer to have a single SQL statement, possibly incorporating some views etc. Thanks, Jacob.

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  • iPhone: Using a Singleton with Tabview Controller and Navigation Controller

    - by malleswar
    Hi Friends, I have developed a small iPhone application by using singleton that I use to navigate through the views. Here is a sample method from my singleton class. + (void) loadMenuController:(NSMutableArray *)menuItems{ MenuViewController *menuViewControler = [[MenuViewController alloc] initWithNibName:@"MenuViewController" bundle:nil]; [menuViewControler setMenuItems:menuItems]; RootViewController *root = ( P2MAppDelegate *appDelegate = (P2MAppDelegate*) [[UIApplication sharedApplication] delegate]; UINavigationController *navController = [appDelegate navigationController]; [navController pushViewController:menuViewControler animated:YES]; [menuViewControler release]; } Now my requirement has changed to require a tab view controller . I could change my application delegate to a tabview controller but I still need to navigate inside each tab. I am unable get a clue how to navigate from my singleton class. Please guide me. Please let me know if my query is not clear. Thanks in advance. Regards, Malleswar

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  • Cannot play a recorded sound on device.

    - by B_
    I'm using the exact code from the iPhone Application Programming Guide Multimedia Support to use AVAudioRecorder to record a file to the disk and then AVAudioPlayer to load and play that file. This is working fine in the simulator but is not working on the device. The file gets loaded (we can see the NSTimeInterval) but does not play (play returns false). After it didn't work with the sample code from the website, we tried changing to a bunch of different codecs with no success. And of course, the sound is on. Thanks a bunch.

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  • submit form problem

    - by basma
    hi I have a problem with "all" of my form submition "search form, login form, regester form,.." the problem shows when I submit the form it doesnt take me to the action page, insted it tack me to my root page :"http://localhost/project/Home/" this is a sample of my search form witch search members or groups as the user choose and it can be submitted by clicking search.jpg <form name="searchform" action='Searchb.php' method='GET' > <a href=""><img src="img/search.jpg" width="60" height="49" onClick="searchform.submit()" style="border-style: none"></a> <input type="text" name="Search" />&nbsp;<label>member</label><input name="radio1" type="radio" value="Member" />&nbsp;<label>Group</label> &nbsp; <input name="radio1" type="radio" value="Group" /> </form>"

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  • Handle leaks with .NET System.Threading.Thread class

    - by Mahno
    I've a problem that number of Handles in my app is continuously growing. I did the debugging and recognize that this is caused by System.Threading.Thread class which is used for some routine. To simplify the debugging I’ve created a sample .NET application: ... private void button1_Click(object sender, EventArgs e) { Thread t = new Thread(DoWork); t.Start(); } public void DoWork(object parameter) { // Do something... } ... Each time I’m clicking the button, a thread is created using System.Threading.Thread class. The problem is that looks like the thread do not frees Handles because each click cause number of Handles growing by ~5. The question is: how can I manually free all Handles created by System.Threading.Thread class? Thanks in advance.

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  • What is the best strategy for populating a TableView from a service?

    - by alrutherford
    I have an application which has a potentially long running background process. I want this process to populate a TableView as results objects are generated. The results objects are added to an observableList and have properties which are bound to the columns in the usual fashion for JavaFX. As an example of this consider the following sample code Main Application import java.util.LinkedList; import javafx.application.Application; import javafx.collections.FXCollections; import javafx.collections.ObservableList; import javafx.event.ActionEvent; import javafx.event.EventHandler; import javafx.geometry.Insets; import javafx.scene.Group; import javafx.scene.Scene; import javafx.scene.control.Button; import javafx.scene.control.TableColumn; import javafx.scene.control.TableView; import javafx.scene.control.cell.PropertyValueFactory; import javafx.scene.layout.VBox; import javafx.stage.Stage; public class DataViewTest extends Application { private TableView<ServiceResult> dataTable = new TableView<ServiceResult>(); private ObservableList<ServiceResult> observableList; private ResultService resultService; public static void main(String[] args) { launch(args); } @Override public void start(Stage stage) { observableList = FXCollections.observableArrayList(new LinkedList<ServiceResult>()); resultService = new ResultService(observableList); Button refreshBtn = new Button("Update"); refreshBtn.setOnAction(new EventHandler<ActionEvent>() { @Override public void handle(ActionEvent arg0) { observableList.clear(); resultService.reset(); resultService.start(); } }); TableColumn<ServiceResult, String> nameCol = new TableColumn<ServiceResult, String>("Value"); nameCol.setCellValueFactory(new PropertyValueFactory<ServiceResult, String>("value")); nameCol.setPrefWidth(200); dataTable.getColumns().setAll(nameCol); // productTable.getItems().addAll(products); dataTable.setItems(observableList); Scene scene = new Scene(new Group()); stage.setTitle("Table View Sample"); stage.setWidth(300); stage.setHeight(500); final VBox vbox = new VBox(); vbox.setSpacing(5); vbox.setPadding(new Insets(10, 0, 0, 10)); vbox.getChildren().addAll(refreshBtn, dataTable); ((Group) scene.getRoot()).getChildren().addAll(vbox); stage.setScene(scene); stage.show(); } } Service public class ResultService extends Service<Void> { public static final int ITEM_COUNT = 100; private ObservableList<ServiceResult> observableList; /** * Construct service. * */ public ResultService(ObservableList<ServiceResult> observableList) { this.observableList = observableList; } @Override protected Task<Void> createTask() { return new Task<Void>() { @Override protected Void call() throws Exception { process(); return null; } }; } public void process() { for (int i = 0; i < ITEM_COUNT; i++) { observableList.add(new ServiceResult(i)); } } } Data public class ServiceResult { private IntegerProperty valueProperty; /** * Construct property object. * */ public ServiceResult(int value) { valueProperty = new SimpleIntegerProperty(); setValue(value); } public int getValue() { return valueProperty.get(); } public void setValue(int value) { this.valueProperty.set(value); } public IntegerProperty valueProperty() { return valueProperty; } } Both the service and the TableView share a reference to the observable list? Is this good practise in JavaFx and if not what is the correct strategy? If you hit the the 'Update' button the list will not always refresh to the ITEM_COUNT length. I believe this is because the observableList.clear() is interfering with the update which is running in the background thread. Can anyone shed some light on this?

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  • Overriding constructors

    - by demas
    Here is sample code: class One def initialize(*args) case args.size when 0 puts "one initialize" when 1 puts "one initialize #{args[0]}" end end end class Two def initialize(*args) if args.size == 2 then puts "two initialize #{args[0]} and #{args[1]}" else super(args) end end end one = One.new one = One.new("thing") two = Two.new("some", "other") two = Two.new("some") Now I'm launching the code and getting the error message: [[email protected]][~/temp]% ruby test2.rb one initialize one initialize thing two initialize some and other test2.rb:17:in `initialize': wrong number of arguments(1 for 0) (ArgumentError) from test2.rb:17:in `initialize' from test2.rb:26:in `new' from test2.rb:26:in `<main>' How can I call parent's constructor from class Two ?

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  • Extract a sentence out of sentences separated by delimitors

    - by Laura
    Below is a sample line I have extracted from a website: below a satisfactory level; &quot;an off year for tennis&quot;; &quot;his performance was off&quot; The output displays as: below a satisfactory level; "an off year for tennis"; "his performance was off" I want to get only the first sentence "below a satisfactory level"; Here is the code I have tried after exploring many stackoverflow posts: $data=explode('; ',$str); echo $data[0]; But somehow it is not working. Thanks in advance.

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  • Android Development - Conversion to Dalvik format failed with error 1

    - by KP65
    So I'm dipping my toes into this area for the first time - i followed instructions to install the android SDK and eclipse plug in. I created a blank new android project and I get the following build errors: [2011-01-08 16:34:55 - xxx]: Dxno classfiles specified [2011-01-08 16:34:55 - xxx] Conversion to Dalvik format failed with error 1 I've googled the problem and tried to clean and rebuild, or hitting F5 on the project in the explorer but the issue remains. I've verified the build paths and the libraries to make sure only Android 2.3 is there but still get this issue. I have also tried to load a sample project and I get the same error. Any ideas?

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  • Is there a version of postActionEvent for KeyEvent (specifically for a JTextArea)?

    - by Brian Pelc
    I'm writing a program that contains multiple JTextFields and 2 JTextAreas within an input panel. I have a submit button on the bottom. I have it set up so when a user types something into each field (including the JTextAreas) and hits the Enter key, it updates a text file, and when they press the submit button it updates the file then outputs a new version of it in the local directory. If the user presses Enter in any of the fields, it validates their input, however, I want to re-validate all fields when they press the submit button. Each field (again, JTextAreas included) has it's own validation check within its ActionListener or KeyListener (for the JTextAreas). It's easy enough to use postActionEvent() for the JTextFields, but is there a similar method for the JTextAreas to force fire a KeyEvent? I don't want to duplicate code and consume memory by re-writing the validation for those 2 Components inside the ActionEvent for the JButton. Unfortunately, I can't provide a sample because I'm writing the program on a classified machine (PC).

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  • How can I submit a DOM table to php?

    - by Jemma Diampuan
    Hi, I have a <table in a web page that I populate using JavaScript code like this: var cellBarcode = row.insertCell(1); var textNode = document.createTextNode(barcode); cellBarcode.appendChild(textNode); var cellItemName = row.insertCell(2); var textNode = document.createTextNode(itemName); cellItemName.appendChild(textNode); I need to save its data to my database... So I need to know how I can submit it to php... Is it possible...? If yes, please provide some sample codes that are easy to understand for a beginner like me... thanks...

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  • XML Parsing in Groovy strips attribute new lines

    - by Bill James
    I'm writing code where I retrieve XML from a web api, then parse that XML using Groovy. Unfortunately, it seems that both XmlParser and XmlSlurper for Groovy strip newline characters from the attributes of nodes when .text() is called. How can I get at the text of the attribute including the newlines? Sample code: def xmltest = ''' <snippet> <preSnippet att1="testatt1" code="This is line 1 This is line 2 This is line 3" > <lines count="10" /> </preSnippet> </snippet>''' def parsed = new XmlParser().parseText( xmltest ) println "Parsed" parsed.preSnippet.each { pre -> println pre.attribute('code'); } def slurped = new XmlSlurper().parseText( xmltest ) println "Slurped" slurped.children().each { preSnip -> println [email protected]() } the output of which is: Parsed This is line 1 This is line 2 This is line 3 Slurped This is line 1 This is line 2 This is line 3

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  • TabPage Validating event firing when clicked on the currently selected tab

    - by Ismail S
    I'm doing things as said in How do I prevent the user from changing the selected tab page in a TabControl? Things are working fine. But the validating event of tabpage1 occurs if I've tabpage1 is currently selected and user clicks on tabpage1 itself. and later when user clicks on tabpage2 validating event for tabpage1 doesn't fire. What happens is if I do e.Cancel in validating event of tabpage1, in the above case, when user clicks on tabpage1 by mistake having tabpage1 already selected, it will prompt user that "Do you want to stay on current tab to save data or move from the current tab?". and if user clicks Stay but doesn't do any changes. And then when he correctly clicks tabpage2, Validating event of tabpage1 is not firing. I've uploaded the sample application here. You can run and see the behavior to properly understand the problem

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  • Can't correctly stream x264 video to mobile via RTSP

    - by Andrew
    Hello! I'm trying to stream video compressed with x264 and NeroAAC and hinted with MP4Box. When i'm playing it with VLC player streaming works fine, as expected. When i'm trying to open URL with my HTC Hero, it switches to player mode, then starts "loading video" animation, then after some time it shows "unable to connect to server". Sample movies provided with DSS streamed fine regardless bitrate. I tried few encoding options, but always the same result. I suspect nocabac and level=11 but it didn't changed nothing. Is there some more specific encoding options for such type? Thank You!

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  • Decoding and caching json every 60 minutes

    - by Gary
    Hi, How do I do this on a php webpage? I want to get and decode a json string and display the results as html on my page, however, I don't want it hotlinking back to the source. If I could write the decoded string to a txt file say weather.txt on the server and keep the html formatting and do it so that the page won't fetch the json script until 60 minutes has passed since the last time it was fetched regardless of how many times the page is opened during that 60 minute period and the weather.txt is viewed. All I can come up with is a simple script that hotlinks, everything else I have tried simply failed. $file = file_get_contents('http://sample.com/weather'); $out = (json_decode($file)); echo $out-mainText; Will appreciate any help with this.

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  • How GPS works in iPhone ?

    - by Krishnan
    Hi Friends, I am using a iPhone 3g. I am in India(I got it in India). I just tried to check my location using the Google Maps. My location was spotted when I had sim in my phone. But when I took out the SIM from iPhone, I did not get my location. I tried the same with the Locate me Sample Application . So can someone explain how GPS works in iPhone, and how to fix my problem(to get my location when there is no SIM). Thanks and Regards, krishnan

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  • Rails: Accessing previous loop in Populator (rake db:populate)

    - by sscirrus
    I am populating my Rails database using populator, and I have a case where I would like to build a series of records where fields start_date and end_date follow seamlessly from each other (from today back into the past). Here is a sample of what I'm doing: Chain.populate 1 do |ch| ch.date_end = DateTime.now ch.date_start = DateTime.civil(DateTime.now.year-rand(40)-1, rand(12)+1, rand(31)+1) end Chain.populate 0..10 do |chs| chs.date_end = Chain.find(:last).date_start chs.date_start = DateTime.civil(chs.date_end.year-rand(10)-1, rand(12)+1, rand(31)+1) end Problem? undefined method 'date_start' for nil:NilClass. I assume the problem is the first Chain record hasn't been saved, so I added: Chain.save # in between the two loops This didn't work either. How can I make this work? Thank you!

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  • C# to Java: What is a [DefaultProperty("value")]?

    - by Shiftbit
    I do not understand how the DefaultProperty Metadata tag work or what it signifies. I've read the MSDN and went through the sample but I find it confusing. DefaultPropertyAttribute Class I've read a few blogs and they seem to refer to the indexers. I'm not sure why you would want metadata for your properties? I am coming from a Java background, perhaps a Java analogy would help. [DefaultProperty("Value")] public abstract class FOO<T> : ANY, IBAR<T> { public FOO() { } public FOO(T value) { this.Value = value; } public virtual T Value { get; set; } } Follow up: Property Grid

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  • How to parse a Zend URL for parameters?

    - by wizzard
    I am trying to extract the GET parameters from a ZF REST URL. It's not the current request and I don't want to call the URL or execute the route, I just need the parameters. I'm looking for a utility function like parse_url(), but for the Zend REST format. Is there one, or do I have to reinvent the wheel? I've tried a few things like creating a new Zend_Controller_Request_Http but the parameters aren't being populated. It is a valid HTTP URL. Edit: Upon request, a sample Zend URL: http://localhost/index/index/param1/foo/param2/bar So I am just trying to get param1 and param2 out of this URL.

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  • Is it possible to expose an API for my own WebSite ... but use oAuth for the api authentication?

    - by Pure.Krome
    Hi Folks, currently I expose an api for my website. Works great .. and i use Basic Authentication to authenticate users to get access to the data. eg. http://www.MyWebSite.com <-- main site. http://api.MyWebSite.com <-- my api website. sample api RESTful url http://user1:[email protected]/games?type=battlefield2 (yes yes i know browsers stop people from putting in user1:pass1 (Basic Auth) into the url directly .. cause of security . but it's to highlight that we're using Basic Auth)). So .. how can i do this with oAuth?

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