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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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  • Android: make a scrollable custom view

    - by Martyn
    Hey, I've rolled my own custom view and can draw to the screen alright, but what I'd really like to do is set the measuredHeigh of the screen to, say, 1000px and let the user scroll on the Y axis, but I'm having problems doing this. Can anyone help? Here's some code: public class TestScreen extends Activity { CustomDrawableView mCustomDrawableView; @Override public void onCreate(Bundle savedInstanceState) { super.onCreate(savedInstanceState); mCustomDrawableView = new CustomDrawableView(this); setContentView(mCustomDrawableView); } } and public class CustomDrawableView extends View { public CustomDrawableView(Context context) { super(context); setVerticalScrollBarEnabled(true); setMinimumHeight(1000); } @Override protected void onDraw(Canvas canvas) { canvas.drawLine(...); // more drawing } } I've tried to override scrollTo, scrollBy, awakenScrollBars etc with a call to super but to no avail. Am I missing something silly, or am I making some fundamental mistake? Thank you in advance, Martyn

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  • One fix for all IE6 problems

    - by Victor
    Is there a one fix solution for all IE6 problems? One HTC/jQuery file that fixes IE6 problems like PNG, background position, hover, (even) rounded corners... I'm just tired to look for all fixes, test them and put them seperately.

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  • Should I move from Java programming to Delphi programming?

    - by Everyone
    over the years i have been employed in a permanent position with firms that did their development work in Windows SDK, VC++, and most recently Java; in my own eyes, I am language independent. Should I move from Java to Delphi (assuming pay-scale remains unchanged)? I'm concerned because, for the most part, the net presents a relatively bleak picture for this particular skill.

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  • Converting a list into a select with jquery

    - by Davemof
    I'm trying to convert the following list into a select list so it can be submitted via a form - the element within the lists will become the value of each option: <ul class="selected connected-list ui-sortable" style="height: 279px;"> <li class="ui-helper-hidden-accessible" style=""></li> <li title="Owner Name 1 - " class="ui-state-default ui-element ui-draggable" style="display: block; position: relative; top: 0px; left: 0px;"><span class="ui-icon-arrowthick-2-n-s ui-icon"></span>Owner Name 1 - <em class="thenumber">4.4796E+11</em><a class="action" href="#"><span class="ui-corner-all ui-icon ui-icon-minus"></span></a></li> <li title="David Moffat - " class="ui-state-default ui-element" style="display: block; position: relative; top: 0px; left: 0px;"><span class="ui-icon ui-icon-arrowthick-2-n-s"></span>David Moffat - <em class="thenumber">07730423005</em><a class="action" href="#"><span class="ui-corner-all ui-icon ui-icon-minus"></span></a></li> </ul> This should convert to the following format: <select style="display:none" class="selectoption" name="p_num[]" multiple="multiple"> <option value="">4.4796E+11</option> <option value="">07730423007</option> </select> I have tried the following jquery code, but after many hours I'm pulling my hair out: $('a.sendform').click(function(){ $('ul.selected').each(function() { var $select = $('<select />'); $(this).find('li').each(function() { var $option = $('<option />'); $option.attr('value', $(this).('em')).html($(this).html()); $select.append($option); }); $(this).replaceWith($select); }); }); Any help might save my remaining hair. Many thanks David

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  • The framerate of one movieclip slowly declines over time. What could cause this? [Flash CS3]

    - by Miles
    I'm creating a flash rhythm game. I have a looping (at a certain frame I have a gotoAndPlay) movieclip that represents the notes that scroll by, which plays for about three minutes. As the level progresses, the movieclip's framerate begins to lag and stutter. I have no idea how this could occur. It is also worth mentioning that the notes are represented by text, if that makes any difference. As far as posting my code goes, I think it would be far too convoluted to be worth your time. And I think it could be a simple problem. I just don't understand how the framerate of this movieclip could drop independent of the rest of the game.

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  • Enabling scrollbar in EditText Android

    - by Sammm
    I have an EditText on my layout. Below are the attributes I currently have: <EditText android:id="@+id/entryIdea" android:layout_width="fill_parent" android:layout_height="225sp" android:gravity="top" android:background="@android:drawable/editbox_background" android:scrollbars="vertical"/> However, I can see the scrollbar but can't scroll it with mouse/touch. I thought that it may works if I put the corresponding listener since it works on TextView. Apparently, it isn't. EditText et = (EditText)findViewById(R.id.entryIdea); et.setMovementMethod(new ScrollingMovementMethod()); Can you guys help me on this? Thank you so much in advance. Sammy

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  • How to invert alternate bits of a number

    - by Cupidvogel
    The problem is how to invert alternate bits of a number, starting from the LSB. Currently what I am doing is first doing a count = -1 while n: n >>= 1 count += 1 to first find the position of the leftmost set bit, then running a loop to invert every alternate bit: i = 0 while i <= count: num ^= 1<<i i += 2 Is there a quick hack solution instead of this rather boring loop solution? Of course, the solution can't make any asumption about the size of the integer.

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  • How to read some bytes from BYTE*

    - by chekalin-v
    I have BYTE pointer. For example the length of this BYTE array is 10. How can I read 4 bytes from 3 position BYTE array? Now I doing it so BYTE *source = "1234567890\0"; BYTE* tmp = new BYTE[4+1](); for(int i=0; i<4; i++) { tmp[i] = source[i+3]; }

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  • jquery scrollpane and scrollTo at same time

    - by steve
    Current demo here: http://www.studioimbrue.com/sites/eliotdudik I have the tabs system working wonderfully. I'm trying to get it so that if you're down a ways on the gallery and then click "foreword" or any menu item, it scrolls you back to 0,0. The current sliding code is as follows: $('#wrapper ul li').click(function() { $(window).scrollTo($(this).next('li'), 500, {offset: {top:0, left:-50}}, {easing:'easeOutExpo'} ); }); And I'm trying to add something like this under it: $('#menu li').click(function() { $(window).scrollTo(0,0, 500, {offset: {top:0, left:-50}}, {easing:'easeOutExpo'} ); }); It continues switching tabs, but it won't scroll back to the beginning!

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  • PDF Viewer Showing Last Page...

    - by steve
    I have a asp.net app that writes a pdf to file. Then, later that file is opened into a window (standard acrobat reader) for viewing. No problems there. The weird part... The entire document loads as it should, but the Reader initially shows the last page in the document on the screen. The user must then scroll up to the first page. It doesn't happen all the time (about 50%) and occurs across several test computers. Is there a switch in the code I'm suppose to use in creating the file or displaying the file to tell the reader to "start displaying the document on the first page?" Environment particulars: asp.net 3.5 vb, websupergoo's abcpdf.net pro 7 (assembly that creates the pdf file), Windows 2008 Server, IIS7 Thanks

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  • RaphaelJS HTML5 Library pathIntersection() bug or alternative optimisation (screenshots)

    - by user1236048
    I have a chart generated using RaphaelJS library. It is just on long path: M 50 122 L 63.230769230769226 130 L 76.46153846153845 130 L 89.6923076923077 128 L 102.92307692307692 56 L 116.15384615384615 106 L 129.3846153846154 88 L 142.6153846153846 114 L 155.84615384615384 52 L 169.07692307692307 30 L 182.3076923076923 62 L 195.53846153846152 130 L 208.76923076923077 74 L 222 130 L 235.23076923076923 66 L 248.46153846153845 102 L 261.6923076923077 32 L 274.9230769230769 130 L 288.15384615384613 130 L 301.38461538461536 32 L 314.6153846153846 86 L 327.8461538461538 130 L 341.07692307692304 70 L 354.30769230769226 130 L 367.53846153846155 102 L 380.7692307692308 120 L 394 112 L 407.2307692307692 68 L 420.46153846153845 48 L 433.6923076923077 92 L 446.9230769230769 128 L 460.15384615384613 110 L 473.38461538461536 78 L 486.6153846153846 130 L 499.8461538461538 56 L 513.0769230769231 116 L 526.3076923076923 80 L 539.5384615384614 58 L 552.7692307692307 40 L 566 130 L 579.2307692307692 94 L 592.4615384615385 64 L 605.6923076923076 122 L 618.9230769230769 98 L 632.1538461538461 120 L 645.3846153846154 70 L 658.6153846153845 82 L 671.8461538461538 76 L 685.0769230769231 124 L 698.3076923076923 110 L 711.5384615384615 94 L 724.7692307692307 130 L 738 130 L 751.2307692307692 66 L 764.4615384615385 118 L 777.6923076923076 70 L 790.9230769230769 130 L 804.1538461538461 44 L 817.3846153846154 130 L 830.6153846153845 36 L 843.8461538461538 92 L 857.076923076923 130 L 870.3076923076923 76 L 883.5384615384614 130 L 896.7692307692307 60 L 910 88 Also below these chart I have a jqueryUI slider of the same width (860px) and centered with the chart. I want when I move the slider to move a dot on the chart accordingly with the slider position. See attached screenshot: As you can see it seems to work fine. I've implemented this behaviour using the pathIntersection() method. On the slide event at each ui.value (x coordinate) I intersect my chartPath (the one from above) with a vertical straight line at the x coordinate. But still there are some problems. One of them is that it runs very hard, and it kinda freezes sometimes.. and very weird sometimes it doesn't seem to intersect at all even it should.. I'll example below 2 cases I identified: M 499.8461538461538 0 L 499.8461538461538 140 M 910 0 L 910 140 Could you please explain why this intersect behaviour happens (it should return a dot).. and the worst part it seems like it happens randomly.. if I use another chartdata. Also if you can identify another (better) solution to syncronise the slider position with the dot on the chart.. would be perfect. I thought about using Element.getPointAtLength(length), but I don't know how. I think I should save the pathSegments and for each to compute the start Length and the finish Length.

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  • jQuery sortable: Revert changes if update callback makes an AJAX call that fails?

    - by Seth Petry-Johnson
    I am using the jQuery sortable() feature to re-order a list of items. After an item is drug to a new location, I kick off an AJAX form post to the server to save the new order. How can I undo the sort (e.g. return the drug item to its original position in the list) if I receive an error message from the server? Basically, I only want the re-order to "stick" if the server confirms that the changes were saved.

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  • Google Maps API - Marker not showing

    - by popnbrown
    I'm trying to add markers for every single row from a table, that sits on the page. The page is http://www.sravanks.com/first/2013ftcmap.php This is the JS code that's loading the markers: $(document).ready(function() { var mapOptions = { center: new google.maps.LatLng(39.740, -89.503), zoom: 7 }; var map = new google.maps.Map(document.getElementById("map-canvas"), mapOptions); var infowindow = new google.maps.InfoWindow(); /* City Markers */ var cityCircle = new Array(); var i = 0; $.each($('.events tr'), function(index, value) { var name = $(this).find('td:first()').html(); var address = $(this).find('.address').html(); var linkUrl = "http://www.sravanks.com/first/geocode.php?address=" + address; $.ajax({ url: linkUrl }).done(function(data){ var json = $.parseJSON(data.substring(0, data.length-1)); lat = json.results[0].geometry.location.lat; lng = json.results[0].geometry.location.lng; var latlng = new google.maps.LatLng(lat, lng); var marker = new google.maps.Marker({ position: latlng, map: map, icon: 'map-pointer-medium.gif' }); google.maps.event.addListener(marker, 'click', function() { infowindow.setContent(name); infowindow.open(map, marker); cityCircle[i] = new google.maps.Circle({strokeColor: '#00FF00', strokeOpacity: 0.8, strokeWeight: 2, fillColor: '#00FF00', fillOpacity: 0.35, map: map, center: latlng, radius: 144841}); i++; }); }); }); /*Team Markers*/ var markers = {}; var teamName, teamNumber, lat, lng, content; $.each($('.list tr'), function(index, value) { teamName = $(this).find('td.name').html(); teamNumber = $(this).find('td.number').html(); markers[teamNumber] = {}; lat = parseFloat($(this).find('td.lat').html()); lng = parseFloat($(this).find('td.lng').html()); content = "Name: " + teamName + "<br />Number: " + teamNumber; markers[teamNumber]['latlng'] = new google.maps.LatLng(lat, lng); markers[teamNumber]['marker'] = new google.maps.Marker({ position: markers[teamNumber]['latlng'], map: map }); google.maps.event.addListener(markers[teamNumber]['marker'], 'click', function() { infowindow.setContent(content); infowindow.open(map, markers[teamNumber]['marker']); }); }); google.maps.event.addListener(infowindow, 'closeclick', function() { for(var i=0;i<cityCircle.length;i++){ cityCircle[i].setMap(null); } }); }); I've got no errors, but the Team Markers do not show up. The strange thing is that the City Markers do show up. Some more info, the City Markers ajax call is just to a proxy that calls the google geocoding api. Again the link's at http://www.sravanks.com/first/2013ftcmap.php

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  • sIFR load before rest of page?

    - by hfidgen
    Hiya, Is it possible to have sIFR "preload" or load before the rest of the page content? At present it is the last thing to load (due to the text position) and as it's quite an obvious part of the page I get a huge mash-up of text replacement all in a quick flurry which is not very appealing. It looks like the site is having an epileptic fit. Once loaded, all is fine though :) Any work-arounds to the load-fitting? Cheers Hugh

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  • Using rendrer in list in flex

    - by Anshuman Jaiswal
    Hi all I am using list component in flex & using custom itemRenderer i.e I have made a component named frameRenrer(there are two controls ImageControl and label control) where I set the image source and label text on creationComplete event.And I providing the data using dataProvider function in List component.But actually problem is that when I scroll this list only 4 items are displayed repeatedly and to check it I make a function on mouseOver of image control in this I am using Alert.show(data.label); then it shows the correct data but it is not displayed in the list.In data provider I am using ArrayCollection. What is the problem anyone????

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  • All possible combinations of length 8 in a 2d array

    - by CodeJunki
    Hi, I've been trying to solve a problem in combinations. I have a matrix 6X6 i'm trying to find all combinations of length 8 in the matrix. I have to move from neighbor to neighbor form each row,column position and i wrote a recursive program which generates the combination but the problem is it generates a lot of duplicates as well and hence is inefficient. I would like to know how could i eliminate calculating duplicates and save time. int a={{1,2,3,4,5,6}, {8,9,1,2,3,4}, {5,6,7,8,9,1}, {2,3,4,5,6,7}, {8,9,1,2,3,4}, {5,6,7,8,9,1}, } void genSeq(int row,int col,int length,int combi) { if(length==8) { printf("%d\n",combi); return; } combi = (combi * 10) + a[row][col]; if((row-1)>=0) genSeq(row-1,col,length+1,combi); if((col-1)>=0) genSeq(row,col-1,length+1,combi); if((row+1)<6) genSeq(row+1,col,length+1,combi); if((col+1)<6) genSeq(row,col+1,length+1,combi); if((row+1)<6&&(col+1)<6) genSeq(row+1,col+1,length+1,combi); if((row-1)>=0&&(col+1)<6) genSeq(row-1,col+1,length+1,combi); if((row+1)<6&&(row-1)>=0) genSeq(row+1,col-1,length+1,combi); if((row-1)>=0&&(col-1)>=0) genSeq(row-1,col-1,length+1,combi); } I was also thinking of writing a dynamic program basically recursion with memorization. Is it a better choice?? if yes than I'm not clear how to implement it in recursion. Have i really hit a dead end with approach??? Thankyou Edit Eg result 12121212,12121218,12121219,12121211,12121213. the restrictions are that you have to move to your neighbor from any point, you have to start for each position in the matrix i.e each row,col. you can move one step at a time, i.e right, left, up, down and the both diagonal positions. Check the if conditions. i.e if your in (0,0) you can move to either (1,0) or (1,1) or (0,1) i.e three neighbors. if your in (2,2) you can move to eight neighbors. so on...

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  • How to adjust a JScrollPane to its contained JTree

    - by spuas
    Hello, here I have a swing size question: I have a JTree which is contained inside a JScrollPane (which is contained in a custom component which extends JXPanel from swingx, but I think that has nothing to do with this question). Doesn't matter how many rows the tree has, the scrollpane is always bigger (the tree is dinamic but not designed to have many rows) but what I would like is the JScrollPane to adjust to the tree initial height and then show the vertical scroll when some of the nodes are expanded. I have tried without setting any size at all, setting tree preferred size to null and setting scrollpane preferred size to null as well but nothing changes. I DO NOT WANT to set the size manually... Is there a way to do this? Thanks

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  • Java: Calculate distance between a large number of locations and performance

    - by Ally
    I'm creating an application that will tell a user how far away a large number of points are from their current position. Each point has a longitude and latitude. I've read over this article http://www.movable-type.co.uk/scripts/latlong.html and seen this post http://stackoverflow.com/questions/837872/calculate-distance-in-meters-when-you-know-longitude-and-latitude-in-java There are a number of calculations (50-200) that need carried about. If speed is more important than the accuracy of these calculations, which one is best?

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  • Internet explore is unresponsive while loading a large page

    - by kdhamane
    We have a html page being rendered in the browser (IE) that causes the browser to hang. The page is generated through server side script (ASP.NET and viewstate is disabled). The page while loading takes a long time (its not a b\w issue since we can reproduce it on local machine) and sometimes results in script unresponsive error. On debugging the issue we found that the html size on the client side is 4.73 MB. There's also a lot of DOM traversal (using JQuery) after document is ready (jquery-document.ready). After loading as well, the page simply hangs on any user interaction (scroll, mouseover) etc. A CPU usage spike (25-50% usage) is seen during loading and on any user interaction

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  • Simple prolog program. Getting error: >/2: Arguments are not sufficiently instantiated

    - by user1279812
    I made a prolog program posAt(List1,P,List2) that tests whether the element at position P of List1 and List2 are equal: posAt([X|Z],1,[Y|W]) :- X=Y. posAt([Z|X],K,[W|Y]) :- K1, Kr is K - 1, posAt(X,Kr,Y). When testing: ?- posAt([1,2,3],X,[a,2,b]). I expected an output of X=2 but instead I got the following error: ERROR: /2: Arguments are not sufficiently instantiated Why am I getting this error?

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