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  • How can I make the output from tapply() into a data.frame

    - by James Thompson
    I have a data.frame in R that looks like this: score rms template aln_id description 1 -261.410 4.951 2f22A.pdb 2F22A_1 S_00001_0000002_0 2 -231.987 21.813 1wb9A.pdb 1WB9A_4 S_00002_0000002_0 3 -263.722 4.903 2f22A.pdb 2F22A_3 S_00003_0000002_0 4 -269.681 17.732 1wbbA.pdb 1WBBA_6 S_00004_0000002_0 5 -258.621 19.098 1rxqA.pdb 1RXQA_3 S_00005_0000002_0 6 -246.805 6.889 1rxqA.pdb 1RXQA_15 S_00006_0000002_0 7 -281.300 16.262 1wbdA.pdb 1WBDA_11 S_00007_0000002_0 8 -271.666 4.193 2f22A.pdb 2F22A_2 S_00008_0000002_0 9 -277.964 13.066 1wb9A.pdb 1WB9A_5 S_00009_0000002_0 10 -261.024 17.153 1yy9A.pdb 1YY9A_2 S_00001_0000003_0 I can calculate summary statistics on the data.frame like this: > tapply( d$score, d$template, mean ) 1rxqA.pdb 1wb9A.pdb 1wbbA.pdb 1wbdA.pdb 1yy9A.pdb 2f22A.pdb -252.7130 -254.9755 -269.6810 -281.3000 -261.0240 -265.5993 Is there an easy way that I coerce this output back into a data.frame? I'd like for it to have these two columns: d$template mean I love tapply, but right now I'm cutting and pasting the results from tapply into a text file and hacking it up a bit to get the summary statistics that I want with appropriate names. This feels very wrong, and I'd like to do something better!

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  • What is the benefits and drawbacks of using header files?

    - by vodkhang
    I had some experience on programming languages like Java, C#, Scala as well as some lower level programming language like C, C++, Objective - C. My observation is that low level languages separate out header files and implementation files while other higher level programming language never separate it out. They use some identifiers like public, private, protected to do the jobs of header files. I saw one benefit of using header file (in some book like Code Complete), they talk about that using header files, people can never look at our implementation file and it helps with encapsulation. A drawback is that it creates too many files for me. Sometimes, it looks like verbose. It is just my thought and I don't know if there are any other benefits and drawbacks that people ever see and work with header file This question may not relate directly to programming but I think that if I can understand better about programming to interface, design software.

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  • [JavaScript] How can I load static configuration information

    - by Goro
    In my code, I use JavaScript for UI and PHP for back end. I also use PHP to store application settings and sometimes my UI code needs to access this information. My configuration file looks something like this (config.php): $resolution_x = 1920; $resolution_y = 1080; etc... When I need to access any of these settings form JavaScript, i simply use to substitute the value directly, but it just doesn't strike me as very robust. Are they any dangers of doing this that I am not aware of? Is there a better way of doing this? Thank you,

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  • Tag Cloud Data Backend

    - by Waldron
    I want to be able to generate tag clouds from free text that comes from any number of different sources. For clarity, I'm not talking about how to display a tag cloud once the critical tags/phrases are already discovered, I'm hoping to be able to discover the meaningful phrases themselves... preferable on a PHP/MySQL stack. If I had to do this myself, I'd start by establishing some kind of index for words/phrases that gives a "normal" frequency for any word/phrase. eg "Constantinople" occurs once in every 1,000,000 words on average (normal frequency "0.000001"). Then as I analyze a body of text, I'd find the individual words/phrases (another challenge!), find frequencies of each within the input, and measure against the expected freqeuncy. Words that have the highest ratio against expected frequency get boosted priority in the cloud. I'd like to believe someone else has already done this, WAY better than I could hope to, but I'll be damned if I can find it. Any recommendations??

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  • Ensuring Updated CSS/JavaScript on Client Side

    - by Alex
    I'm trying to ensure that visitors of my ASP.NET MVC website always have the most-current CSS and Javascript (and not some older cached version). I tried to realize this by generating a seed value when the application domain starts, and automatically append it to the CSS and Javascript URLs (so now instead of /Content/All.js the link is /Content/All.js?549238 etc.). Unfortunately I just found out by debugging via Firebug that this causes now a full download request every time (the new "seeded" response is no longer cached at all, but I only wanted the first check to download the 'updated' version, but then cache again/only check if there is a difference). How can I achieve my goal, is there a better way of doing this? I need the client to always request the newest version, but then cache if no change happened. Edit: This appears to be related to the fact that my page is served over SSL. I asked a follow up question here regarding enabling clientside caching with SSL.

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  • What is the best way to read files in an EventMachine-based app?

    - by Theo
    In order not to block the reactor I would like to read files asynchronously, but I've found no obvious way of doing it using EventMachine. I've tried a few different approaches, but none of them feels right: Just read the file, it'll block the reactor, but what the hell, it's not that slow (unless it's a big file, and then it definitely is). Open the file for reading and read a chunk on each tick (but how much to read? too much and it'll block the reactor, too little and reading will get slower than necessary). EM.popen('cat some/file', FileReader) feels really weird, but works better than the alternatives above. In combination with the LineAndTextProtocol it reads lines pretty swiftly. EM.attach, but I haven't found any examples of how to use it, and the only thing I've found on the mailing list is that it's deprecated in favour of… EM.watch, which I've found no examples of how to use for reading files. How do you read files within a EventMachine reactor loop?

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  • Why is the base class being called?

    - by oneBelizean
    I'm new to c# so bare with me. But here's my situation. interface Icontainer{ string name(); } abstract class fuzzyContainer : Icontainer{ string name(){ return "Fuzzy Container"; } } class specialContainer: fuzzyContainer{ string name(){ return base.name() + " Special Container"; } } Icontainer cont = new SpecialContainer(); cont.name(); // I expected "Fuzzy Container Special Container" as the output. When I run my code as described above the output is simply "Fuzzy Container". What am i missing here? Is there a better way to get the desired results?

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  • ASP.NET MVC / Linq-to-SQL classes: Can I get it to infer readable display names?

    - by Gary McGill
    If I have a table Orders with fields CustomerID, OrderID and OrderDate, then the "Linq-to-SQL classes" generated class will be called Orders, with members called CustomerID, OrderID and OrderDate. So far so good. However, if I then do Html.LabelFor(m => m.OrderDate) then the generated text will be "OrderDate" instead of "Order Date". I tried using Order_Date as the field name, but that didn't work. Is there any way to get it to infer a better display name? [I know that I can use data annotations to specify the display name explicitly, but I really don't want to do that for all my classes/members - I just want it to work by convention.]

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  • file_operations Question, how do i know if a process that opened a file for writing has decided to c

    - by djTeller
    Hi Kernel Gurus, I'm currently writing a simple "multicaster" module. Only one process can open a proc filesystem file for writing, and the rest can open it for reading. To do so i use the inode_operation .permission callback, I check the operation and when i detect someone open a file for writing I set a flag ON. i need a way to detect if a process that opened a file for writing has decided to close the file so i can set the flag OFF, so someone else can open for writing. Currently in case someone is open for writing i save the current-pid of that process and when the .close callback is called I check if that process is the one I saved earlier. Is there a better way to do that? Without saving the pid, perhaps checking the files that the current process has opened and it's permission... Thanks!

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  • Given a word, how do I get the list of all words, that differ by one letter?

    - by user187809
    Let's say I have the word "CAT". These words differ from "CAT" by one letter (not the full list) CUT CAP PAT FAT COT etc. Is there an elegant way to generate this? Obviously, one way to do it is through brute force. pseduo code: while (0 to length of word) while (A to Z) replace one letter at a time, and check if the resulting word is a valid word If I had a 10 letter word, the loop would run 26 * 10 = 260 times. Is there a better, elegant way to do this?

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  • Quartz 2D animating text?

    - by coure06
    i have to animate text around a circle. The text will also scale up/down. Whats the best approach to accomplish this? (i am using Quartz 2D) My approach is: -- Calculate point using sin and cos methods. -- Move Pen there and draw text with alpha and size. -- Clear the screen -- Calculate next point using sin and cos methods. -- Move pen there and draw text with alpha and size. -- clear the screen so on... any better way?

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  • CoreData and many NSArrayController

    - by unixo
    In my CoreData Application, I've an outline view on left of main window, acting as source list (like iTunes); on the right I display a proper view, based on outline selection. Each view has its components, such as table view, connected to array controller, owned by the specific view. Very often different views display same data, for example, a table view of the same entity. From a performance point of view, is better to have a single array controller per entity and share it between all views or does CoreData cache avoid memory waste?

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  • Is there a Java Descriptor like thing in .Net?

    - by Sun Liwen
    I'm working on a static analysis tool for .NET assembly. In Java, there is a Descriptor which can be used to represent method or field in a string with specified grammar. for field: double d[][][]; will be [[[D It's useful especially when doing bytecode analysis. Coz it's easy to describe. If there a similar thing in .NET CLR? Or is there a better way to achieve this? Thanks!

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  • Bit conversion operations in PHP

    - by Goro
    Hello, I find myself in need of performing bit-level conversion on variables in PHP. In more detail, I have a bit stream that is read as an integer by hardware, and I need to do some operations on the bits to make it into what its actually supposed to be (a float). I have to do this a few times for different formats, and the functionality I need is Being able to select and move individual bits in a variable Being able to cast statically one type of variable to the other (ie. int to float) I know php natively supports bitwise AND, OR, etc, and shift operations, but I was wondering if: there may already be a library in php that does this sort of thing I would be better off with delegating the calculations to some other language Thanks,

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  • Microsoft Access vs Native SQL

    - by ktm5124
    Hypothetical: Let's say you are writing complex queries to a database and it is very important that the data you extracted is the correct result set (e.g., that you didn't mess up a JOIN by not using all the correct keys, and all the other things that can go wrong, et cetera). What would you rather use to do this? Would you write the query using Microsoft Access and its Design View, or would you write it in native SQL using a SQL IDE? What is the better professional choice? Thanks in advance your feedback!

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  • Android: Best way/library to write an app that simply gets/sets your Facebook status, sends Facebook

    - by D.
    I have the Android Facebook-Connect library running in my emulator and I'm able to set my status with the Facebook API I have setup. However, I don't know where to go from there? Am I supposed to use the session key that this library allows me to get and make some Facebook API calls? I haven't found any code examples to even see what the proper syntax is. Am I better off using another library? I tried fbrocket with limited luck(I get a "server error 104 - Incorrect signature"). Thanks for any help.

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  • C++ build systems

    - by flo
    I will start a new C++ project (it may have some C components as well) soon and I am looking for a modern, industrial-strength (i.e. non-beta) build system. The software will be created by several developers in 3-5 years and will run on Linux (Mac OS X and Windows might be supported later). I am looking for something that has better comprehensibility, ease-of-use and maintainability than e.g. make but is still powerful enough to handle a complex project. Open source software is preferred. I started looking into Boost.Build, CMake, Maven and SCons so far and liked features and concepts of all of those, but I'm lacking the experience to make a decision for a large project.

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  • Newbie question about file formatting in Python

    - by user568041
    I'm writing a simple program in Python 2.7 using pycURL library to submit file contents to pastebin. Here's the code of the program: #!/usr/bin/env python2 import pycurl, os def send(file): print "Sending file to pastebin...." curl = pycurl.Curl() curl.setopt(pycurl.URL, "http://pastebin.com/api_public.php") curl.setopt(pycurl.POST, True) curl.setopt(pycurl.POSTFIELDS, "paste_code=%s" % file) curl.setopt(pycurl.NOPROGRESS, True) curl.perform() def main(): content = raw_input("Provide the FULL path to the file: ") open = file(content, 'r') send(open.readlines()) return 0 main() The output pastebin looks like standard Python list: ['string\n', 'line of text\n', ...] etc. Is there any way I could format it so it looks better and it's actually human-readable? Also, I would be very happy if someone could tell me how to use multiple data inputs in POSTFIELDS. Pastebin API uses paste_code as its main data input, but it can use optional things like paste_name that sets the name of the upload or paste_private that sets it private.

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  • How to Execute Page_Load() in Page's Base Class?

    - by DaveDev
    I have the following PerformanceFactsheet.aspx.cs page class public partial class PerformanceFactsheet : FactsheetBase { protected void Page_Load(object sender, EventArgs e) { // do stuff with the data extracted in FactsheetBase divPerformance.Controls.Add(this.Data); } } where FactsheetBase is defined as public class FactsheetBase : System.Web.UI.Page { public MyPageData Data { get; set; } protected void Page_Load(object sender, EventArgs e) { // get data that's common to all implementors of FactsheetBase // and store the values in FactsheetBase's properties this.Data = ExtractPageData(Request.QueryString["data"]); } } The problem is that FactsheetBase's Page_Load is not executing. Can anyone tell me what I'm doing wrong? Is there a better way to get the result I'm after? Thanks

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  • Multiple sections on landing page only

    - by RDRAO
    Hi every one, I am very much new to Drupal but am loving it to start with. I got struck at a point with respect to theaming. I have a region called 'footer-teaser' just above footer. Its width is 800px. its been split into 3 equal size columns. Each column has the following. Image of size 120x120 Some teaser text Link to 'read more' The design requirement is all the above should be editable by the admin from the admin interface. If its static i would have hardcoded this but since the requirement is dynamic, i am not aware of how to achieve this. I have customised page.tpl for other sections of the page except this. I am sure someone else would have faced this issue before and was wondering if anyone can direct me in the right direction? Even better if an example is provided. Cheers RD

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  • How to open connection to local network path protected by password in smart way? (Whith C#)

    - by lfx
    Hi, I developing program witch have to write some data in file whom are stored in network computer witch are protected by password. Now I'm doing this way - open connection with cmd then write data. static bool ConnectToSrv() { String myUser = "domain.local\\user"; String myPass = "pwd"; String cmdString = "net use \\\\otherPC\\folder\\ /user:" + myUser + " " + myPass; try { ManagementClass processClass = new ManagementClass("Win32_Process"); object[] methodArgs = { cmdString, null, null, 0 }; object result = processClass.InvokeMethod("Create", methodArgs); return true; } catch (System.Exception error) { return false; } } public void writeDate(string data){ } I believe there must by better way. I mean the .NET way. Does anybody know how to do it? :) Thanks

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  • Display constantly updating information in-place in command-line window using python?

    - by AndyL
    I am essentially building a timer. I have a python script that monitors for an event and then prints out the seconds that have elapsed since that event. Instead of an ugly stream of numbers printed to the command line, I would like to display only the current elapsed time "in-place"-- so that only one number is visible at any given time. Is there a simple way to do this? If possible I'd like to use built-in python modules. I'm on Windows, so simpler the better. (E.g. no X11).

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  • Is it kEatSpeed or kSpeedEat?

    - by bobobobo
    I have a bunch of related constants that are not identical. What's the better way to name them? way #1 kWalkSpeed kRunSpeed kEatSpeed kDrinkSpeed Or, way #2 kSpeedWalk kSpeedRun kSpeedEat kSpeedDrink If we evaluate these based on readability understandability not bug prone with subtle errors due to using wrong variable name I think way #1 wins readability, they tie for understandability, and way #2 wins for not bug prone. I'm not sure how often it happens to others, but when variable names like this get long, then its easy to write kSpeedEatingWhenInAHurry when you really meant kSpeedEatingWhenInHome, especially when using autocomplete. Any perspectives?

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  • How can I keep my MVC Views, models, and model binders as clean as possible?

    - by MBonig
    I'm rather new to MVC and as I'm getting into the whole framework more and more I'm finding the modelbinders are becoming tough to maintain. Let me explain... I am writing a basic CRUD-over-database app. My domain models are going to be very rich. In an attempt to keep my controllers as thin as possible I've set it up so that on Create/Edit commands the parameter for the action is a richly populated instance of my domain model. To do this I've implemented a custom model binder. As a result, though, this custom model binder is very specific to the view and the model. I've decided to just override the DefaultModelBinder that ships with MVC 2. In the case where the field being bound to my model is just a textbox (or something as simple), I just delegate to the base method. However, when I'm working with a dropdown or something more complex (the UI dictates that date and time are separate data entry fields but for the model it is one Property), I have to perform some checks and some manual data munging. The end result of this is that I have some pretty tight ties between the View and Binder. I'm architecturally fine with this but from a code maintenance standpoint, it's a nightmare. For example, my model I'm binding here is of type Log (this is the object I will get as a parameter on my Action). The "ServiceStateTime" is a property on Log. The form values of "log.ServiceStartDate" and "log.ServiceStartTime" are totally arbitrary and come from two textboxes on the form (Html.TextBox("log.ServiceStartTime",...)) protected override object GetPropertyValue(ControllerContext controllerContext, ModelBindingContext bindingContext, PropertyDescriptor propertyDescriptor, IModelBinder propertyBinder) { if (propertyDescriptor.Name == "ServiceStartTime") { string date = bindingContext.ValueProvider.GetValue("log.ServiceStartDate").ConvertTo(typeof (string)) as string; string time = bindingContext.ValueProvider.GetValue("log.ServiceStartTime").ConvertTo(typeof (string)) as string; DateTime dateTime = DateTime.Parse(date + " " + time); return dateTime; } if (propertyDescriptor.Name == "ServiceEndTime") { string date = bindingContext.ValueProvider.GetValue("log.ServiceEndDate").ConvertTo(typeof(string)) as string; string time = bindingContext.ValueProvider.GetValue("log.ServiceEndTime").ConvertTo(typeof(string)) as string; DateTime dateTime = DateTime.Parse(date + " " + time); return dateTime; } The Log.ServiceEndTime is a similar field. This doesn't feel very DRY to me. First, if I refactor the ServiceStartTime or ServiceEndTime into different field names, the text strings may get missed (although my refactoring tool of choice, R#, is pretty good at this sort of thing, it wouldn't cause a build-time failure and would only get caught by manual testing). Second, if I decided to arbitrarily change the descriptors "log.ServiceStartDate" and "log.ServiceStartTime", I would run into the same problem. To me, runtime silent errors are the worst kind of error out there. So, I see a couple of options to help here and would love to get some input from people who have come across some of these issues: Refactor any text strings in common between the view and model binders out into const strings attached to the ViewModel object I pass from controller to the aspx/ascx view. This pollutes the ViewModel object, though. Provide unit tests around all of the interactions. I'm a big proponent of unit tests and haven't started fleshing this option out but I've got a gut feeling that it won't save me from foot-shootings. If it matters, the Log and other entities in the system are persisted to the database using Fluent NHibernate. I really want to keep my controllers as thin as possible. So, any suggestions here are greatly welcomed! Thanks

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  • What's a good way to throw and handle events in PHP?

    - by techexpert
    Hi everyone, I am just trying to get a general idea about the event prcessing mechanism in PHP5 in as neat way as possible. First of all I understand that a PHP application is not exactly a persistent type, so the events may not make a lot of sense, but from the OO perspective it might be a very elegant way to "communicate" between the objects. So I am thinking that it would make sense to separate the events on the external events, such as $_POST & $_GET and the internal ones, i.e. function callbacks. As far as the external ones, is it a good idea to process the $_GETs and $_POSTs directly, or is it better to wrap them into an event of some sort? Also, in order to process the internal events, do you have to pass the reference to the event handler/dispatcher to each class so they know how to throw them? I was thinking to use the PEAR EventDispatcher to do the work, but I am open to other suggestions. Thank you!

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