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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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  • sqlite3.OperationalError: database is locked - non-threaded application

    - by James C
    Hi, I have a Python application which throws the standard sqlite3.OperationalError: database is locked error. I have looked around the internet and could not find any solution which worked (please note that there is no multiprocesses/threading going on, and as you can see I have tried raising the timeout parameter). The sqlite file is stored on the local hard drive. The following function is one of many which accesses the sqlite database, and runs fine the first time it is called, but throws the above error the second time it is called (it is called as part of a for loop in another function): def update_index(filepath): path = get_setting('Local', 'web') stat = os.stat(filepath) modified = stat.st_mtime index_file = get_setting('Local', 'index') connection = sqlite3.connect(index_file, 30) cursor = connection.cursor() head, tail = os.path.split(filepath) cursor.execute('UPDATE hwlive SET date=? WHERE path=? AND name=?;', (modified, head, tail)) connection.commit() connection.close() Many thanks.

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  • Quick and easy flood protection?

    - by James P
    I have a site where a user submits a message using AJAX to a file called like.php. In this file the users message is submitted to a database and it then sends a link back to the user. In my Javascript code I disabled the text box the user types into when they submit the AJAX request. The only problem is, a malicious user can just constantly send POST requests to like.php and flood my database. So I would like to implement simple flood protection. I don't really want the hassle of another database table logging users IPs and such... as if they are flooding my site there will be a lot of database read/writes slowing it down. I thought about using sessions, like have a session that contains a timestamp that gets checked every time they send data to like.php, and if the current time is before the timestamp let them add data to the database, otherwise send out an error and block them. If they are allowed to enter something into the database, update their session with a new timestamp. What do you think? Would this be the best way to go about it or are there easier alternatives? Thanks for any help. :)

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  • Loading large amounts of data to an Oracle SQL Database

    - by James
    Hey all, I was wondering if anyone had any experience with what I am about to embark on. I have several csv files which are all around a GB or so in size and I need to load them into a an oracle database. While most of my work after loading will be read-only I will need to load updates from time to time. Basically I just need a good tool for loading several rows of data at a time up to my db. Here is what I have found so far: I could use SQL Loader t do a lot of the work I could use Bulk-Insert commands Some sort of batch insert. Using prepared statement somehow might be a good idea. I guess I was wondering what everyone thinks is the fastest way to get this insert done. Any tips?

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  • Rendering a CGPDFPage into a UIImage

    - by James Antrobus
    I'm trying to render a CGPDFPage (selected from a CGPDFDocument) into a UIImage to display on a view. I have the following code in MonoTouch which gets me part way there. RectangleF PDFRectangle = new RectangleF(0, 0, UIScreen.MainScreen.Bounds.Width, UIScreen.MainScreen.Bounds.Height); public override void ViewDidLoad () { UIGraphics.BeginImageContext(new SizeF(PDFRectangle.Width, PDFRectangle.Height)); CGContext context = UIGraphics.GetCurrentContext(); context.SaveState(); CGPDFDocument pdfDoc = CGPDFDocument.FromFile("test.pdf"); CGPDFPage pdfPage = pdfDoc.GetPage(1); context.DrawPDFPage(pdfPage); UIImage testImage = UIGraphics.GetImageFromCurrentImageContext(); pdfDoc.Dispose(); context.RestoreState(); UIImageView imageView = new UIImageView(testImage); UIGraphics.EndImageContext(); View.AddSubview(imageView); } A section of the CGPDFPage is displayed but rotated back-to-front and upside down. My question is, how do I select the full pdf page and flip it round to display correctly. I have seen a few examples using ScaleCTM and TranslateCTM but couldn't seem to get them working. Any examples in ObjectiveC are fine, I'll take all the help I can get :) Thanks

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  • How to define RequestMapping prioritization

    - by James Skidmore
    I have a situation where I need the following RequestMapping: @RequestMapping(value={"/{section}"}) ...method implementation here... @RequestMapping(value={"/support"}) ...method implementation here... There is an obvious conflict. My hope was that Spring would resolve this automatically and map /support to the second method, and everything else to the first, but it instead maps /support to the first method. How can I tell Spring to allow an explicit RequestMapping to override a RequestMapping with a PathVariable in the same place? (Edit - this is simplified, I know that having those two RequestMapping alone wouldn't make much sense)

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  • finding N contiguous zero bits in an integer to the left of the MSB from another

    - by James Morris
    First we find the MSB of the first integer, and then try to find a region of N contiguous zero bits within the second number which is to the left of the MSB from the first integer. Here is the C code for my solution: typedef unsigned int t; unsigned const t_bits = sizeof(t) * CHAR_BIT; _Bool test_fit_within_left_of_msb( unsigned width, t val1, t val2, unsigned* offset_result) { unsigned offbit = 0; unsigned msb = 0; t mask; t b; while(val1 >>= 1) ++msb; while(offbit + width < t_bits - msb) { mask = (((t)1 << width) - 1) << (t_bits - width - offbit); b = val2 & mask; if (!b) { *offset_result = offbit; return true; } if (offbit++) /* this conditional bothers me! */ b <<= offbit - 1; while(b <<= 1) offbit++; } return false; } Aside from faster ways of finding the MSB of the first integer, the commented test for a zero offbit seems a bit extraneous, but necessary to skip the highest bit of type t if it is set. I have also implemented similar algorithms but working to the right of the MSB of the first number, so they don't require this seemingly extra condition. How can I get rid of this extra condition, or even, are there far more optimal solutions?

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  • FileNotFoundException when cropping a photo

    - by James G
    I'm trying to crop a photo to use in a Live Wallpaper but I'm getting a FileNotFoundException when the crop activity tries to save my new cropped image. This is the code I'm using: File file = new File(getFilesDir(), "wallpaper.jpg"); Intent intent = new Intent("com.android.camera.action.CROP"); intent.setData(uri); DisplayMetrics metrics = new DisplayMetrics(); getWindowManager().getDefaultDisplay().getMetrics(metrics); intent.putExtra("outputX", metrics.widthPixels * 2); intent.putExtra("outputY", metrics.heightPixels); intent.putExtra("aspectX", metrics.widthPixels * 2); intent.putExtra("aspectY", metrics.heightPixels); intent.putExtra("scale", true); intent.putExtra("noFaceDetection", true); intent.putExtra("output", Uri.parse("file:/" + file.getAbsolutePath())); startActivityForResult(intent, REQUEST_CROP_IMAGE); The wallpaper.jpg file seems to exist on DDMS file explorer so I'm not sure what I'm doing wrong. Any advice is greatly appreciated.

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  • CakePHP HABTM Filtering

    - by James Haigh
    Hi, I've got two tables - users and servers, and for the HABTM relationship, users_servers. Users HABTM servers and vice versa. I'm trying to find a way for Cake to select the servers that a user is assigned to. I'm trying things like $this->User->Server->find('all'); which just returns all the servers, regardless of whether they belong to the user. $this->User->Server->find('all', array('conditions' => array('Server.user_id' => 1))) just gives an unknown column SQL error. I'm sure I'm missing something obvious but just need someone to point me in the right direction. Thanks!

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  • How to create relationship mapping via Entity framework

    - by James
    I have following domain model: User { int Id; } City { int Id; } UserCity { int UserId, int CityId, dateTime StartDate } In the function where I have to attach a user to a city, the following code is working for me: UserCity uc = new UserCity(); //This is a db hit uc.User = MyEntityFrameworkDBContext.User.FirstOrDefault(u => u.ID == currentUserId); //this is a db hit uc.City = MyEntityFrameworkDBContext.City.FirstOrDefault(c => c.ID == currentCityId); uc.StartDate = userCityStartDate; //this is a db hit MyEntityFrameworkDBContext.SaveChanges(); Is there any way I can create relationships with just one single DB hit? The first two db hits are not required, actually.

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  • Configure ERP conectivity to a Flex application via a web service

    - by James
    I am developing a Flex application that will need to 'pull' information from an ERP system such as SAP or Peoplesoft via the clients web service. My application will need to pass credentials & query to a Query_URL and receive the returned data. I saw a Flash Builder 4 presentation where the Adobe evangelist created a similar application using Twitter. Insights or links to example code would be appreciated.

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  • how to diff / align Python lists using arbitrary matching function?

    - by James Tauber
    I'd like to align two lists in a similar way to what difflib.Differ would do except I want to be able to define a match function for comparing items, not just use string equality, and preferably a match function that can return a number between 0.0 and 1.0, not just a boolean. So, for example, say I had the two lists: L1 = [('A', 1), ('B', 3), ('C', 7)] L2 = ['A', 'b', 'C'] and I want to be able to write a match function like this: def match(item1, item2): if item1[0] == item2: return 1.0 elif item1[0].lower() == item2.lower(): return 0.5 else: return 0 and then do: d = Differ(match_func=match) d.compare(L1, L2) and have it diff using the match function. Like difflib, I'd rather the algorithm gave more intuitive Ratcliff-Obershelp type results rather than a purely minimal Levenshtein distance.

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  • Making Django ignore string literals

    - by James
    UPDATE: It turns out this is a deeper question than I thought at first glance - the issue is that python is replacing the string literals before they ever get to django. I will do more investigating and update this if I find a solution. I'm using django to work with LaTeX templates for report generation, and am running into a lot of problems with the way Django replaces parts of strings. Specficially, I've run into two problems where I try to insert a variable containing latex code. The first was that it would replace HTML characters, such as the less than symbol, with their HTML codes, which are of course gibberish to a LaTeX interpreter. I fixed this by setting the context to never autoescape, like so: c = Context(inputs) c.autoescape = False However, I still have my second issue, which is that Django replaces string literals with their corresponding characers, so a double backslash becomes \, and \b becomes a backspace. How can I force Django to leave these characters in place, so inputs['variable'] = '{\bf this is code} \\' won't get mangled when I use {{variable}} to reference it in the django template?

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  • Code refactoring c# question around several if statements performing the same check

    - by James Radford
    I have a method that has a load of if statements that seems a bit silly although I'm not sure how to improve the code. Here's an example. This logic was inside the view which is now in the controller which is far better but is there something I'm missing, maybe a design pattern that stops me having to check against panelCount < NumberOfPanelsToShow and handling the panelCount every condition? Maybe not, just feels ugly! Many thanks if (model.Train && panelCount < NumberOfPanelsToShow) { panelTypeList.Add(TheType.Train); panelCount++; } if (model.Car && panelCount < NumberOfPanelsToShow) { panelTypeList.Add(TheType.Car); panelCount++; } if (model.Hotel && panelCount < NumberOfPanelsToShow) { panelTypeList.Add(TheType.Hotel); panelCount++; } ...

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  • How do I write recursive anonymous functions?

    - by James T Kirk
    In my continued effort to learn scala, I'm working through 'Scala by example' by Odersky and on the chapter on first class functions, the section on anonymous function avoids a situation of recursive anonymous function. I have a solution that seems to work. I'm curious if there is a better answer out there. From the pdf: Code to showcase higher order functions def sum(f: Int => Int, a: Int, b: Int): Int = if (a > b) 0 else f(a) + sum(f, a + 1, b) def id(x: Int): Int = x def square(x: Int): Int = x * x def powerOfTwo(x: Int): Int = if (x == 0) 1 else 2 * powerOfTwo(x-1) def sumInts(a: Int, b: Int): Int = sum(id, a, b) def sumSquares(a: Int, b: Int): Int = sum(square, a, b) def sumPowersOfTwo(a: Int, b: Int): Int = sum(powerOfTwo, a, b) scala> sumPowersOfTwo(2,3) res0: Int = 12 from the pdf: Code to showcase anonymous functions def sum(f: Int => Int, a: Int, b: Int): Int = if (a > b) 0 else f(a) + sum(f, a + 1, b) def sumInts(a: Int, b: Int): Int = sum((x: Int) => x, a, b) def sumSquares(a: Int, b: Int): Int = sum((x: Int) => x * x, a, b) // no sumPowersOfTwo My code: def sumPowersOfTwo(a: Int, b: Int): Int = sum((x: Int) => { def f(y:Int):Int = if (y==0) 1 else 2 * f(y-1); f(x) }, a, b) scala> sumPowersOfTwo(2,3) res0: Int = 12

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  • Image rotate to mouse using Jquery and CSS

    - by James
    I have a compass image and am trying to get the needle to follow the mouse around the page, exactly how the images are rotated in the following demo but without having to shift and click. I'm having trouble breaking down that code however, so any help would be most appreciated. Thanks in advance. http://www.elated.com/res/File/articles/development/javascript/jquery/smooth-rotatable-images-css3-jquery/ The images are simply wrapped in a div <div id="content"> <img id="compass" src="compass.png"/> <img id="needle" src="needle.png"/> </div>

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  • Facebook dialog appears but always says "An error has occurred"

    - by Conor James
    <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd"> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:fb="http://www.facebook.com/2008/fbml"> ... <head> ... <script src="http://connect.facebook.net/en_US/all.js#xfbml=1"></script> </head> <body> <div id="fb-root"></div> <fb:like id="fb-like" href="http://www.example.com" layout="button_count" show_faces="false" width="100"></fb:like> ... myscript.js: FB.ui( { method: 'stream.publish', message: 'getting educated about Facebook Connect', attachment: { name: 'Connect', caption: 'The Facebook Connect JavaScript SDK', description: ( 'A small JavaScript library that allows you to harness ' + 'the power of Facebook, bringing the user\'s identity, ' + 'social graph and distribution power to your site.' ), href: 'http://github.com/facebook/connect-js' }, action_links: [ { text: 'Code', href: 'http://github.com/facebook/connect-js' } ], user_message_prompt: 'Share your thoughts about Connect' }, function(response) { if (response && response.post_id) { alert('Post was published.'); } else { alert('Post was not published.'); } } ); I have Facebook like button on my page which works fine. But when I call the FB.ui method above from my JavaScript source, the Facebook dialog pops up but displays this error message: **An error occurred. Please try again later.** This has happened repeatedly for two days since I started trying to implement it. Not a very helpful error message. Any idea what might cause it or how to narrow down the problem?

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  • Accessing elements from an array in objective c

    - by James
    I am trying to access individual elements of my array. This is an example of the contents of the array i am trying to access. <City: 0x4b77fd0> (entity: Spot; id: 0x4b7e580 <x-coredata://D902D50B-C945-42E2-8F71-EDB62222C0A7/Spot/p5> ; data: { CityToProvince = 0x4b7dbd0 <x-coredata://D902D50B-C945-42E2-8F71-EDB62222C0A7/County/p15>; Description = "Friend"; Email = "[email protected]"; Age = 21; Name = "Adam"; Phone = "+44175240"; }), The elements i am trying to access are Name, Phone, etc ... How would i go about doing this?

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  • client generated double submit cookie, cross site request forgery prevention

    - by james
    in a double-submitted cookie csrf prevention scheme, is it necessary for the server to provide the cookie? it seems i could have javascript on the clients page generate and set a cookie "anti_csrf", then double submit that (once as a cookie, done by the browser, and once in the body of the request). a foreign domain would not be able to read or write the "anti_csrf" cookie to include it in the body of a request. is this secure, or am i overlooking something?

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  • Variable loss in redirected bash while loop

    - by James Hadley
    I have the following code for ip in $(ifconfig | awk -F ":" '/inet addr/{split($2,a," ");print a[1]}') do bytesin=0; bytesout=0; while read line do if [[ $(echo ${line} | awk '{print $1}') == ${ip} ]] then increment=$(echo ${line} | awk '{print $4}') bytesout=$((${bytesout} + ${increment})) else increment=$(echo ${line} | awk '{print $4}') bytesin=$((${bytesin} + ${increment})) fi done < <(pmacct -s | grep ${ip}) echo "${ip} ${bytesin} ${bytesout}" >> /tmp/bwacct.txt done Which I would like to print the incremented values to bwacct.txt, but instead the file is full of zeroes: 91.227.223.66 0 0 91.227.221.126 0 0 127.0.0.1 0 0 My understanding of Bash is that a redirected for loop should preserve variables. What am I doing wrong?

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  • Dropdown not working in some IE 6 browsers

    - by James Thomas
    We unfortunately find ourselves having to support our product in IE 6 because some of our largest users use it. One of them called today and told me that one of the dropdowns doesn't work when he clicks on it - it simply selects the first item. I checked the markup and the entire contents of the select control are being sent: <select onchange="SDateFilter_S('#ctlDateRange')" size="1" name="ctlDateRange" style="width:100px;"> <option selected="selected" value="0"> All Dates </option><option value="1"> Within </option><option value="2"> Before </option><option value="3"> After </option><option value="4"> Between </option><option value="5"> Last </option><option value="6"> Since </option> </select> This is done in ASP .NET but I am fairly certain the issue isn't with ASP .NET as when I try it in my copy of IE 6, it works correctly. Do you have any idea what would cause a dropdown list in some copies of IE 6 to effectively not work?

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  • Copy of Access mdb database being updated by live database

    - by James
    I'm trying to compute statistics for data held in an Access .mdb database. In order to avoid interfering with the live database, I'm working from a copy which I made by simply using copy-paste in Windows Explorer. The copy resides in the same directory, but with a different name. I'm using R and RODBC to connect to the copy of the file. The strange thing is that new data that is being updated on the original live database is appearing in my queries. This is despite the file timestamps of the copy not changing at all. It is also causing some slowdown in the live database. My understanding is that the .mdb files are standalone, or is this not the case? Should I have copied the database in a different way?

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  • adding two variables together

    - by James Trusler
    I have been trying for... about 4 hours now lmao. currentCalc returns 50 currentSum returns 0 when i alert them. Yet I cannot add them together with parseInt???? what am i doing wrong :'( var identRow = $('tr.identRow'); identRow.each( function(){ var getIdentClass = $(this).attr('class').split(' ').slice(1); $('tr.ohp' + getIdentClass + ' td.EURm').each( function(index){ var currentCalc = parseInt($(this).text().replace('.',''), 10); var currentSum = $('tr.' + getIdentClass + ' td.totalEURm', this).text().replace('.',''); total = parseInt(currentCalc, 10) + parseInt(currentSum, 10); $('tr.' + getIdentClass + ' td.totalEURm').text(total); if (index==6){ alert(total); } } ); } );

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