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  • Imputing missing data in aligned sequences

    - by Kwame Oduro
    I want a simple perl script that can help me impute missing nucleotides in aligned sequences: As an example, my old_file contains the following aligned sequences: seq1 ATGTC seq2 ATGTC seq3 ATNNC seq4 NNGTN seq5 CTCTN So I now want to infer all Ns in the file and get a new file with all the Ns inferred based on the majority nucleotide at a particular position. My new_file should look like this: seq1 ATGTC seq2 ATGTC seq3 ATGTC seq4 ATGTC seq5 CTCTC A script with usage: "impute_missing_data.pl old_file new_file" or any other approach will be helpful to me. Thank you.

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  • I have a feeling that adding fields marked with @Transient annotation to entity is very bug-prone. A

    - by Roman
    I have some philosophical feeling that adding to an entity fields which doesn't mapped to the DB is a wrong way of solving problems. But are there any concrete situations where using @Transient fields leads to implicit and hard fixing problems? For example, is it possible that adding/removing 2nd level cache will break our app when there are @Transient fields in our entities?

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  • Store address dynamic array in c

    - by user280642
    I'm trying to save the address of a dynamic array index. struct sstor *dlist; struct node *q; q->item = &(dlist->item[(dlist->sz)-1]); // Problem? This is my node struct node { char **item; struct node *next; struct node *prev; }; This is my array struct sstor { int sz; int maxsz; char item[][1024]; }; I'm still new to pointers. The line below gives the error: assignment from incompatible pointer type q->item = &(dlist->item[(dlist->sz)-1]);

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  • using Hibernate to loading 20K products, modifying the entity and updating to db

    - by Blankman
    I am using hibernate to update 20K products in my database. As of now I am pulling in the 20K products, looping through them and modifying some properties and then updating the database. so: load products foreach products session begintransaction productDao.MakePersistant(p); session commit(); As of now things are pretty slow compared to your standard jdbc, what can I do to speed things up? I am sure I am doing something wrong here.

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  • Linq Query - Average Time (DateTime data types)

    - by Jade
    I have a database that has the following records in a DateTime field: 2012-04-13 08:31:00.000 2012-04-12 07:53:00.000 2012-04-11 07:59:00.000 2012-04-10 08:16:00.000 2012-04-09 15:11:00.000 2012-04-08 08:28:00.000 2012-04-06 08:26:00.000 I want to run a linq to sql query to get the average time from the records above. I tried the following: (From o In MYDATA Select o.SleepTo).Average() Since "SleepTo" is a datetime field I get an error on Average(). If I was trying to get the average of say an integer, the above linq query works. What do I need to do to get it to work for datetimes?

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  • NSData in CoreData is not saving properly

    - by abisson
    I am currently trying to store images I download from the web into an NSManagedObject class so that I don't have to redownload it every single time the application is opened. I currently have these two classes. Plant.h @property (nonatomic, retain) NSString * name; @property (nonatomic, retain) PlantPicture *picture; PlantPicture.h @property (nonatomic, retain) NSString * bucketName; @property (nonatomic, retain) NSString * creationDate; @property (nonatomic, retain) NSData * pictureData; @property (nonatomic, retain) NSString * slug; @property (nonatomic, retain) NSString * urlWithBucket; Now I do the following: - (UICollectionViewCell *)collectionView:(UICollectionView *)collectionView cellForItemAtIndexPath:(NSIndexPath *)indexPath { PlantCollectionCell *cell = [collectionView dequeueReusableCellWithReuseIdentifier:CellIdentifier forIndexPath:indexPath]; Plant *plant = [self.fetchedResultsController objectAtIndexPath:indexPath]; cell.plantLabel.text = plant.name; if(plant.picture.pictureData == nil) { NSLog(@"Downloading"); NSMutableString *pictureUrl = [[NSMutableString alloc]initWithString:amazonS3BaseURL]; [pictureUrl appendString:plant.picture.urlWithBucket]; NSURLRequest *request = [NSURLRequest requestWithURL:[NSURL URLWithString:pictureUrl]]; AFImageRequestOperation *imageOperation = [AFImageRequestOperation imageRequestOperationWithRequest:request success:^(UIImage *image) { cell.plantImageView.image = image; plant.picture.pictureData = [[NSData alloc]initWithData:UIImageJPEGRepresentation(image, 1.0)]; NSError *error = nil; if (![_managedObjectContext save:&error]) { NSLog(@"Unresolved error %@, %@", error, [error userInfo]); } }]; [imageOperation start]; } else { NSLog(@"Already"); cell.plantImageView.image = [UIImage imageWithData:plant.picture.pictureData]; } NSLog(@"%@", plant.name); return cell; } The plant information is present, as well as the picture object. However, the NSData itself is NEVER saved throughout the application opening and closing. I always have to REDOWNLOAD the image! Any ideas!? [Very new to CoreData... sorry if it is easy!] thanks!

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  • C++ multidimensional dynamic array

    - by dmessf
    Let's say I have this to create a multidimensional array dynamically: int* *grid = new int*[gridSizeX]; for (int i=0; i<gridSizeX; i++) { grid[i] = new int[gridSizeY]; } Shouldn't be possible now to access elements like grid[x][y] = 20?

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  • ASP.net C# Add controls automatically to a data form

    - by user333817
    I am using ASP.net with C# and am looking for a tool that given a SQL table name, reads the table columns and populates an aspx form with controls (textboxes with matching labels). Something like ComponentOne InputPanel, except that this product only works for WinForms. See demo of ComponentOne InputPanel: http://www.componentone.com/newimages/Products/Videos/StudioEnterprise/InputPanel/ComponentOneInputPanel.html

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  • how to change headers data

    - by Moayyad Yaghi
    hello i have the following class class AssetTableModel(QtCore.QAbstractTableModel): def init(self,filename=''): super(AssetTableModel,self).init() self.fileName=filename self.dirty = False self.assets = [] self.setHeaderData(0,QtCore.Qt.Horizontal,QtCore.QVariant('moayyad'),QtCore.Qt.EditRole) and i need to change the headers of the columns or the rows ,i used ( self.setHeaderdata()) but its not working ,i have a table that consistes of 2 columns and 2 rows only. is there any other function that changes headers ??. please help thanx in adnvance

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  • mySql Delete only removes the data not the entire entry

    - by Mick
    Hi all I have this line in my php code $insert = "DELETE FROM allocation_table WHERE job = '$jobnumber' " ; Mysql_query ($insert) ; The problem is it will remove all the values from the the one line in my table but not the entry itself. as you can see in the picture if I delete where job = 315 , it does not delete the line but does delete all the entries Yet in this code that preceeds it (a different table) . it works fine and the whole line is removed $insert = "DELETE FROM event WHERE jobnumber = '$jobnumber' " ; mysql_query ($insert) ;enter code here can anyone offer some advice please ??

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  • I have data about deadlocks, but I can't understand why they occur

    - by Alex
    I am receiving a lot of deadlocks in my big web application. http://stackoverflow.com/questions/2941233/how-to-automatically-re-run-deadlocked-transaction-asp-net-mvc-sql-server Here I wanted to re-run deadlocked transactions, but I was told to get rid of the deadlocks - it's much better, than trying to catch the deadlocks. So I spent the whole day with SQL Profiler, setting the tracing keys etc. And this is what I got. There's a Users table. I have a very high usable page with the following query (it's not the only query, but it's the one that causes troubles) UPDATE Users SET views = views + 1 WHERE ID IN (SELECT AuthorID FROM Articles WHERE ArticleID = @ArticleID) And then there's the following query in ALL pages: User = DB.Users.SingleOrDefault(u => u.Password == password && u.Name == username); That's where I get User from cookies. Very often a deadlock occurs and this second Linq-to-SQL query is chosen as a victim, so it's not run, and users of my site see an error screen. I read a lot about deadlocks... And I don't understand why this is causing a deadlock. So obviously both of this queries run very often. At least once a second. Maybe even more often (300-400 users online). So they can be run at the same time very easily, but why does it cause a deadlock? Please help. Thank you

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  • converting date data type into varchar

    - by Sheetal Inani
    I have some dates fields in table. These columns contain dates in the following format: mmddyy For example: 31/12/2010 00:00:00:0000 I need to import these values into a table which is set to varchar and numeric and formats dates like this: monthName varchar Year numeric(4,0) currently I'm using INSERT INTO [School].[dbo].[TeacherAttendenceDet] ([TeacherCode], [MonthName], [Year]) (SELECT MAX(employeecode), Datename(MONTH, dateofjoining) AS MONTH, Datepart(YEAR, dateofjoining) AS DATE FROM employeedet GROUP BY dateofjoining) but datename() gives result in date format.. I have to save it in varchar format How can I do this? this is employeemast table: EmployeeCode numeric(5, 0) PayScaleCode numeric(7, 0) DesignationCode varchar(50) CityCode numeric(5, 0) EmployeeName varchar(50) FatherName varchar(50) BirthDate varchar(50) DateOfJoining varchar(50) Address varchar(150) this is TeacherAttendenceDet table TeacherCode numeric(5, 0) Unchecked Year numeric(4, 0) Unchecked MonthName varchar(12) Unchecked i have to insert in teacherattendencedet table the monthname and year from employeemast

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  • Extracting data form XML file with SimpleXML in PHP

    - by Cudos
    Introduction: I want to loop through XML files with flexible categories structure. Problem: I don't know to loop through a theoretical infinte subcategories without having to make x amount of "for each" statements (See coding example in the bottom). How do I dynamically traverse the categories structure? What I have now: I have no problem looping through XML files with a set structure: <catalog> <category name="Category - level 1"> <category name="Category - level 2"> <category name="Category - level 3" /> </category> <category name="Category - level 2"> <category name="Category - level 3" /> </category> </category> </catalog> Coding example: //$xml holds the XML file foreach ( $xml AS $category_level1 ) { echo $category_level1['name']; foreach ( $category_level1->category AS $category_level2 ) { echo $category_level2['name']; foreach ( $category_level2->category AS $category_level3 ) { echo $category_level3['name']; } } }

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  • Infopath data submit into sharepoint form library

    - by yreddy
    Hi getting the following error message while submitting InfoPath form to Sharepoint forum Library. Please give step by step answer how to resove the bellow issue. **InfoPath cannot submit the form. An error occurred while the form was being submitted. The form cannot be submitted to the following location: The folder does not exist****** Thanks

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  • c++ normalizing data sizes across systems

    - by Bocochoco
    I have a struct with three variables: two unsigned ints and an unsigned char. From my understanding, a c++ char is always 1 byte regardless of what operating system it is on. The same can't be said for other datatypes. I am looking for a way to normalize POD's so that when saved into a binary file, the resulting file is readable on any operating system that the code is compiled for. I changed my struct to use a 1-byte alignment by adding #pragma as follows: #pragma pack(push, 1) struct test { int a; } #pragma pack(pop) but that doesn't necessarily mean that int a is exactly 4 bytes on every os, I don't think? Is there a way to ensure that a file saved from my code will always be readable?

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  • Correct handling of return data

    - by Serhiy
    Hello, I have a question related to correct handling of returns of the DAO library I'm writing for one project. This library probably is going to be used by another people and I want to do it correctly. So I would like to know, how I should deal with return statements of the functions of my DAO. Example 1 I have function to getCustomer which should return String. In case query doesn't return any result should I return null, empty string or throw some kind of Exception? Example 2 I have function getCutomerList which return ArrayList. In case query doesn't return any result should I return null, empty ArrayList or throw some Exception? Example 3 Some sql exception was detected, what should I do: throw exception or do try..catch of the block where it can occur? What is the "good" practice or "best" practice to apply in my case? Thanks on advance, Serhiy.

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  • Java Download Concurrent Data

    - by xger86x
    Hi, i'm developing an app which download map tiles around different places in a city. To do this, i have one thread for each place in which i select the tiles and create a thread to download each. Well, the question is how to avoid creating a thread for a tile that already exists in the thread pool. Should not just check if the file exists, since it is possible that the thread for that tile already exists (other place already need that tile) but the file has not been created- Any idea? Thanks

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  • Remove objects from different environments

    - by Fred
    I have an R script file that executes a second R script via: source("../scripts/second_file.R") That second file has the following lines: myfiles <- list.files(".",pattern = "*.csv") ... rm(myfiles) When I run the master R file I get: > source("../scripts/second_file.R") Error in file.remove(myfiles) : object 'myfiles' not found and the program aborts. I think this has something to do with the environment. I looked at ?rm() pages but less than illuminating. I figure I have to give it a position argument, but not sure which.

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  • how to store data crawled from website

    - by Richard
    I want to crawl a website and store the content on my computer for later analysis. However my OS file system has a limit on the number of sub directories, meaning storing the original folder structure is not going to work. Suggestions? Map the URL to some filename so can store flatly? Or just shove it in a database like sqlite to avoid file system limitations?

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  • Webhook data for Orders Paid

    - by David Lazar
    A client recently requested some fancy processing based off of the Gateway attribute registered with a Paid order. When I receive, validate and inspect the JSON of the order, I am logging the gateway attribute and finding it is nil at times. When I check the order using the API after the Webhook, the gateway attribute is present and matches the one rendered in the Shop admin. Is there an explanation for why the gateway can at times be nil? This prevents me from taking care of the client's requested processing.

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  • Subclassing and adding data members

    - by Marius
    I have an hierarchy of classes that looks like the following: class Critical { public: Critical(int a, int b) : m_a(a), m_b(b) { } virtual ~Critical() { } int GetA() { return m_a; } int GetB() { return m_b; } void SetA(int a) { m_a = a; } void SetB(int b) { m_b = b; } protected: int m_a; int m_b; }; class CriticalFlavor : public Critical { public: CriticalFlavor(int a, int b, int flavor) : Critical(a, b), m_flavor(flavor) { } virtual ~CriticalFlavor() { } int GetFlavor() { return m_flavor; } void SetFlavor(int flavor) { m_flavor = flavor; } protected: int m_flavor; }; class CriticalTwist : public Critical { public: CriticalTwist(int a, int b, int twist) : Critical(a, b), m_twist(twist) { } virtual ~CriticalTwist() { } int GetTwist() { return m_twist; } void SetTwist(int twist) { m_twist = twist; } protected: int m_twist; }; The above does not seem right to me in terms of the design and what bothers me the most is the fact that the addition of member variables seems to drive the interface of these classes (the real code that does the above is a little more complex but still embracing the same pattern). That will proliferate when in need for another "Critical" class that just adds some other property. Does this feel right to you? How could I refactor such code? An idea would be to have just a set of interfaces and use composition when it comes to the base object like the following: class Critical { public: virtual int GetA() = 0; virtual int GetB() = 0; virtual void SetA(int a) = 0; virtual void SetB(int b) = 0; }; class CriticalImpl { public: CriticalImpl(int a, int b) : m_a(a), m_b(b) { } ~CriticalImpl() { } int GetA() { return m_a; } int GetB() { return m_b; } void SetA(int a) { m_a = a; } void SetB(int b) { m_b = b; } private: int m_a; int m_b; }; class CriticalFlavor { public: virtual int GetFlavor() = 0; virtual void SetFlavor(int flavor) = 0; }; class CriticalFlavorImpl : public Critical, public CriticalFlavor { public: CriticalFlavorImpl(int a, int b, int flavor) : m_flavor(flavor), m_critical(new CriticalImpl(a, b)) { } ~CriticalFlavorImpl() { delete m_critical; } int GetFlavor() { return m_flavor; } void SetFlavor(int flavor) { m_flavor = flavor; } int GetA() { return m_critical-GetA(); } int GetB() { return m_critical-GetB(); } void SetA(int a) { m_critical-SetA(a); } void SetB(int b) { m_critical-SetB(b); } private: int m_flavor; CriticalImpl* m_critical; };

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  • SSRS - Checking whether the data is null

    - by NLV
    Hello I've the following expression in my report. =FormatNumber(MAX(Fields!Reading.Value, "CellReading_Reading"),3) Now when the dataset is empty 'Fields!Reading.Value' becomes empty and finding their maximum is invalid. How can i check if the entire column is empty? I tried the following with no luck. =iif(IsNothing(Fields!.Reading.Value),"",FormatNumber(MAX(Fields!Reading.Value, "CellReading_Reading"),3)) But still i'm getting #Error in the report. I also checked out link and was not able to get a clue from it. I want to handle it in the report level. Thank you. NLV

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