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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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  • How can I securely check if a username is already taken?

    - by Geo
    I have a form where someone can create a new user. I'd like to add some AJAX to check if a username is taken, as soon as the input field loses focus. I'm not really sure how to go about this, as this could pave the way to bruteforce attack, since you could check for any username and see whether or not it exists. Any suggestions?

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  • Entity Framework foreign relationship issue

    - by Doug Hope
    I've had an entity framework model working for some time. Yesterday, it suddenly started complaining about a foreign key relationship issue during an insert. I've checked the fields and can do a manual insert using the exact field values. But the EF continues to complain. Any ideas what could have happened?

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  • how can i set the key 'blob-key' about BlobStore?

    - by pyleaf
    I use the jquery plugin "uploadify" to upload multiple files to My App(GAE), and then save them with blobstore, but it failed. I debug the code into get_uploads, it seems field.type_options is empty and of course has 'blob-key'. Q: where does the key 'blob-key' come from? thank you!

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  • how can i loop through all of the columns of the OracleDataReader

    - by ooo
    I have the following code and i want to loop through all the fields in the result of this query and populate the dictionary called field. Given a datareader is this possible? OracleCommand command = connection.CreateCommand(); string sql = "Select * from MYTABLE where ID = " + id; command.CommandText = sql; Dictionary<string, string> fields = new Dictionary<string, string>(); OracleDataReader reader = command.ExecuteReader();

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  • Converting string to datetime

    - by duder
    I'm trying to enter a date in a mysql table `ssdate` datetime The function that produces the date can output it in 3 formats: 1276142400000 Thu Jun 10 00:00:00 GMT-0400 2010 Fri Jun 4 2010 I'm wondering which of these would be easiest to convert to this field format? Since I'm trying to save only the date, is there a better option than datetime that would work with one of these output formats?

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  • Tool to create UI for Linux (Gnome) shell scripts

    - by stwissel
    I'm writing a bunch of Linux shell scripts with complex selections. For now I use zenity for prompts. I'd rather use something where I can show more than one UI element at a time and query it in a script (e.g. a list and some checkboxed and a file picker and an entry field. What are my options?

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  • SQL Server unique constraint problem

    - by b0x0rz
    How to create a unique constraint on a varchar(max) field in visual studio, visually. the problem is when i try it: manage indexes and keys add columns I can only chose the bigint columns, but not any of the varchar(max) ones. Do I maybe have to use check constraints? If yes, what to put in the expression? Thnx for the info

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  • How to apply Data Mining (Association Rule) to a huge database ?

    - by stckvrflw
    Hello What I want to do is to apply Association method of data mining on my SQL Server 2000 database. Association rule is something like "finding the most frequent items that appear together in database." For those who don't know or who want to remember what is association method is like, take a look at this presentation about Association rule in Data Mining. www.authorstream.com/Presentation/a.besimi-233030-data-mining-intro-seeu-education-ppt-powerpoint 17th slide gives a nice example of applying association rule on a database. So Can you help me about how should I write my SQL codes (If they will be sufficient of course) Thanks.

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  • date representation in user interface

    - by Samuel
    Most of the sites capture the date (e.g. birth date) information as either a single entity (i.e via a calendar control) or instead as separate fields (date, month, year). Are there any benefits in showing them as separate fields? Are they represented in the database as DATE data type or as separate fields. I am just trying to understand the pros & cons of representing the date field.

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  • One way Has-Many-Through

    - by Hock
    Hello, I have a Category, a Subcategory and a Product model. I have: Category has_many Subcategories Subcategory has_many Products Subcategory belongs_to Category Product belongs_to Subcategory Is there a way to have something like Category has_many Projects through Subcategories ? The 'normal' rails way wouldn't work because "subcategory" doesn't belongs to product so product does not have a subcategory_id field. Instead, I need the query to be something like SELECT * FROM products WHERE id IN category.subcategory_ids Is there a way to do that? Thanks, Nicolás Hock Isaza

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  • Should HTML be encoded before being persisted?

    - by Sir Psycho
    Should HTML be encoded before being stored in say, a database? Or is it normal practice to encode on its way out to the browser? Should all my text based field lengths be quadrupled in the database to allow for extra storage? Looking for best practice rather than a solid yes or no :-)

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  • WinForms / .Net interactive world map - how?

    - by FerretallicA
    In a CD collection program, I have each artist's country of origin stored in the main database and want to display a map of the world which: Colour-codes each country depending on the number of CDs by artists in that country Allows clicking on each country to filter a list of CDs to only ones by artists in that country This is a heavily simplified version of what I'm trying to do, but if I can at least get this far the rest should be easy enough to figure out. So far the closest thing I've found to what I'm trying to do is here: http://www.synergetechsolutions.com/blog/analytics-world-map-control Ideally I don't want to be embedding Flash in my program though, and the only other solutions I've found all involve SVG which I haven't managed to get working in practice outside of a web browser control (and I DEFINITELY don't want to be embedding a browser in the forms). Something in pure managed code and either GDI+ or WPF would be preferable. Are there any existing components that would get me started, or can anyone suggest how to approach it from scratch?

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  • Data Model Evolution

    - by redleafong
    Hey guys, When writing code I am seeing requirements to change data models (e.g. adding/changing/removing data members from a class). When these data models belong to an interface, it seems difficult to change without breaking the existing client codes. So I am wondering if there is any best practice of designing interfaces/data models in a way to minimize the impact during evolution. The closest thing I can find from google is data contract versioning. But that seems to be a .net specific topic. I am wondering if the same practice applies to the Java world, or there is a different or generic way to deal with data model evolution. Thanks

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  • Scalable Database Tagging Schema

    - by Longpoke
    EDIT: To people building tagging systems. Don't read this. It is not what you are looking for. I asked this when I wasn't aware that RDBMS all have their own optimization methods, just use a simple many to many scheme. I have a posting system that has millions of posts. Each post can have an infinite number of tags associated with it. Users can create tags which have notes, date created, owner, etc. A tag is almost like a post itself, because people can post notes about the tag. Each tag association has an owner and date, so we can see who added the tag and when. My question is how can I implement this? It has to be fast searching posts by tag, or tags by post. Also, users can add tags to posts by typing the name into a field, kind of like the google search bar, it has to fill in the rest of the tag name for you. I have 3 solutions at the moment, but not sure which is the best, or if there is a better way. Note that I'm not showing the layout of notes since it will be trivial once I get a proper solution for tags. Method 1. Linked list tagId in post points to a linked list in tag_assoc, the application must traverse the list until flink=0 post: id, content, ownerId, date, tagId, notesId tag_assoc: id, tagId, ownerId, flink tag: id, name, notesId Method 2. Denormalization tags is simply a VARCHAR or TEXT field containing a tab delimited array of tagId:ownerId. It cannot be a fixed size. post: id, content, ownerId, date, tags, notesId tag: id, name, notesId Method 3. Toxi (from: http://www.pui.ch/phred/archives/2005/04/tags-database-schemas.html, also same thing here: http://stackoverflow.com/questions/20856/how-do-you-recommend-implementing-tags-or-tagging) post: id, content, ownerId, date, notesId tag_assoc: ownerId, tagId, postId tag: id, name, notesId Method 3 raises the question, how fast will it be to iterate through every single row in tag_assoc? Methods 1 and 2 should be fast for returning tags by post, but for posts by tag, another lookup table must be made. The last thing I have to worry about is optimizing searching tags by name, I have not worked that out yet. I made an ASCII diagram here: http://pastebin.com/f1c4e0e53

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  • Does clustered index on foreign key column increase join performance vs non-clustered ?

    - by alpav
    In many places it's recommended that clustered indexes are better utilized when used to select range of rows using BETWEEN statement. When I select joining by foreign key field in such a way that this clustered index is used, I guess, that clusterization should help too because range of rows is being selected even though they all have same clustered key value and BETWEEN is not used. Considering that I care only about that one select with join and nothing else, am I wrong with my guess ?

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  • Cognos 8.3: Can I use parameters in conditional style expressions?

    - by Jacob
    Hi, I have Start Date and End date parameters that work fine as filters on a query, as follows: [EMR Reporting].[Appointments].[Appointment Date] between ?Start Date? and ?End Date? But when I attempt to apply conditional styles to a field based on ?Start Date?, the report blows up. Should I be able to use parameter values in conditional style expressions, or is this not supported for some reason? Thanks!

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  • Storing dynamic fields in Django forms

    - by hekevintran
    Django's form library has a feature of form sets that allow you to process dynamically added forms. For example you would use form sets if your application has a list of bookmarks you could use form sets to process multiple forms that each represent a bookmark. What about if you want to dynamically add a field to a form? An example would be a survey creation page where you can dynamically add an unlimited number of questions. How do you handle this in Django?

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  • how to display fixed dropdown in django admin?

    - by FurtiveFelon
    Hi all, I would like to display priority information in a drop down. Currently i am using a integer field to store the priority, but i would like to display high/medium/low instead of letting user type in a priority. A way to approximate this is to use a Priority database which stores 3 elements, 1:high, 2:medium, 3:low, but it seems like an overkill. Any easier way would be much appreciated! Jason

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  • JQuery username validation - Ajax call

    - by Denise
    Hi, I am currently using JQuery's validation plugin for basic form validation such as required fields. I want to add functionality so that when the user types in the username field, an ajax call is triggered to check whether the username is already taken. My requirements are: Preferably integrate with JQuery Validation plugin, rather than writing a custom function I want the lookup to occur on the nkeyup event I want the lookup to be triggered approx 0.5 seconds after the keyup event has occurred. Thanks!

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