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  • Can anyone tell me why these lines are not working?

    - by user343934
    I am trying to generate tree with fasta file input and Alignment with MuscleCommandline import sys,os, subprocess from Bio import AlignIO from Bio.Align.Applications import MuscleCommandline cline = MuscleCommandline(input="c:\Python26\opuntia.fasta") child= subprocess.Popen(str(cline), stdout = subprocess.PIPE, stderr=subprocess.PIPE, shell=(sys.platform!="win32")) align=AlignIO.read(child.stdout,"fasta") outfile=open('c:\Python26\opuntia.phy','w') AlignIO.write([align],outfile,'phylip') outfile.close() I always encounter with these problems Traceback (most recent call last): File "", line 244, in run_nodebug File "C:\Python26\muscleIO.py", line 11, in align=AlignIO.read(child.stdout,"fasta") File "C:\Python26\Lib\site-packages\Bio\AlignIO_init_.py", line 423, in read raise ValueError("No records found in handle") ValueError: No records found in handle

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  • Projects with browsable source using dependency injection w/ guice?

    - by André
    I often read about dependency injection and I did research on google and I understand in theory what it can do and how it works, but I'd like to see an actual code base using it (Java/guice would be preferred). Can anyone point me to an open source project, where I can see, how it's really used? I think browsing the code and seeing the whole setup shows me more than the ususal snippets in the introduction articles you find around the web. Thanks in advance!

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  • How to set image on EAGL VIEW

    - by Viral
    hi, I want to put images from my photo library in to the EAGL view for some further processing. The image that are already in our resources folder will be taken by itself but mltiple or images from photo library can't. So any one knows how to put image on EAGL view in open GLES. Regtards viral

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  • Is it possible to include JButton in a JTable?

    - by Benjamin Confino
    I have a JTable that stores the results of a database query, so far so good. What I want is for the last column in each table to have a clickible JButton that will open the edit screen for the object represented in that row, and that means the button will need to know the details of the first column in the table from its own row (the ID from the database). Any advice? I already tried just adding JButtons but they turned into Text when I tried to run it.

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  • Load a 6 MB binary file in a SQL Server 2005 VARBINARY(MAX) column using ADO/VC++?

    - by Feroz Khan
    How to load a binary file(.bin) of size 6 MB in a varbinary(MAX) column of SQL Server 2005 database using ADO in a VC++ application. This is the code I am using to load the file which I used to load a .bmp file: BOOL CSaveView::PutECGInDB(CString strFilePath, FieldPtr pFileData) { //Open File CFile fileImage; CFileStatus fileStatus; fileImage.Open(strFilePath,CFile::modeRead); fileImage.GetStatus(fileStatus); //Alocating memory for data ULONG nBytes = (ULONG)fileStatus.m_size; HGLOBAL hGlobal = GlobalAlloc(GPTR,nBytes); LPVOID lpData = GlobalLock(hGlobal); //Putting data into file fileImage.Read(lpData,nBytes); HRESULT hr; _variant_t varChunk; long lngOffset = 0; UCHAR chData; SAFEARRAY FAR *psa = NULL; SAFEARRAYBOUND rgsabound[1]; try { //Create a safe array to store the BYTES rgsabound[0].lLbound = 0; rgsabound[0].cElements = nBytes; psa = SafeArrayCreate(VT_UI1,1,rgsabound); while(lngOffset<(long)nBytes) { chData = ((UCHAR*)lpData)[lngOffset]; hr = SafeArrayPutElement(psa,&lngOffset,&chData); if(hr != S_OK) { return false; } lngOffset++; } lngOffset = 0; //Assign the safe array to a varient varChunk.vt = VT_ARRAY|VT_UI1; varChunk.parray = psa; hr = pFileData->AppendChunk(varChunk); if(hr != S_OK) { return false; } } catch(_com_error &e) { //get info from _com_error _bstr_t bstrSource(e.Source()); _bstr_t bstrDescription(e.Description()); _bstr_t bstrErrorMessage(e.ErrorMessage()); _bstr_t bstrErrorCode(e.Error()); TRACE("Exception thrown for classes generated by #import"); TRACE("\tCode= %08lx\n",(LPCSTR)bstrErrorCode); TRACE("\tCode Meaning = %s\n",(LPCSTR)bstrErrorMessage); TRACE("\tSource = %s\n",(LPCSTR)bstrSource); TRACE("\tDescription = %s\n",(LPCSTR)bstrDescription); } catch(...) { TRACE("***Unhandle Exception***"); } //Free Memory GlobalUnlock(lpData); return true; } But when I read the same file using Getchunk function it gives me all 0s but the size of the file I get is same as the one uploaded. Your help will be highly appreciated.

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  • How to launch java application from Dock, Mac

    - by Sunil Kumar Sahoo
    I have created a Java Swing application. It works fine. I have created application file (.app) for that application using jar bundler. But the main problem is that my application does not open if I click it on the Dock. I am using Mac OS. How I can launch my application by clicking on Dock Thanks Sunil Kumar Sahoo

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  • Doubt with c# handlers?

    - by aF
    I have this code in c# public void startRecognition(string pName) { presentationName = pName; if (WaveNative.waveInGetNumDevs() > 0) { string grammar = System.Environment.GetEnvironmentVariable("PUBLIC") + "\\SoundLog\\Presentations\\" + presentationName + "\\SpeechRecognition\\soundlog.cfg"; /* if (File.Exists(grammar)) { File.Delete(grammar); } executeCommand();*/ recContext = new SpSharedRecoContextClass(); recContext.CreateGrammar(0, out recGrammar); if (File.Exists(grammar)) { recGrammar.LoadCmdFromFile(grammar, SPLOADOPTIONS.SPLO_STATIC); recGrammar.SetGrammarState(SPGRAMMARSTATE.SPGS_ENABLED); recGrammar.SetRuleIdState(0, SPRULESTATE.SPRS_ACTIVE); } recContext.Recognition += new _ISpeechRecoContextEvents_RecognitionEventHandler(handleRecognition); //recContext.RecognitionForOtherContext += new _ISpeechRecoContextEvents_RecognitionForOtherContextEventHandler(handleRecognition); //System.Windows.Forms.MessageBox.Show("olari"); } } private void handleRecognition(int StreamNumber, object StreamPosition, SpeechLib.SpeechRecognitionType RecognitionType, SpeechLib.ISpeechRecoResult Result) { System.Windows.Forms.MessageBox.Show("entrei"); string temp = Result.PhraseInfo.GetText(0, -1, true); _recognizedText = ""; foreach (string word in recognizedWords) { if (temp.Contains(word)) { _recognizedText = word; } } } public void run() { if (File.Exists(System.Environment.GetEnvironmentVariable("PUBLIC") + "\\SoundLog\\Serialization\\Voices\\identifiedVoicesDLL.txt")) { deserializer = new XmlSerializer(_identifiedVoices.GetType()); FileStream fs = new FileStream(System.Environment.GetEnvironmentVariable("PUBLIC") + "\\SoundLog\\Serialization\\Voices\\identifiedVoicesDLL.txt", FileMode.Open); Object o = deserializer.Deserialize(fs); fs.Close(); _identifiedVoices = (double[])o; } if (File.Exists(System.Environment.GetEnvironmentVariable("PUBLIC") + "\\SoundLog\\Serialization\\Voices\\deletedVoicesDLL.txt")) { deserializer = new XmlSerializer(_deletedVoices.GetType()); FileStream fs = new FileStream(System.Environment.GetEnvironmentVariable("PUBLIC") + "\\SoundLog\\Serialization\\Voices\\deletedVoicesDLL.txt", FileMode.Open); Object o = deserializer.Deserialize(fs); fs.Close(); _deletedVoices = (ArrayList)o; } myTimer.Interval = 5000; myTimer.Tick += new EventHandler(clearData); myTimer.Start(); if (WaveNative.waveInGetNumDevs() > 0) { _waveFormat = new WaveFormat(_samples, 16, 2); _recorder = new WaveInRecorder(-1, _waveFormat, 8192 * 2, 3, new BufferDoneEventHandler(DataArrived)); _scaleHz = (double)_samples / _fftLength; _limit = (int)((double)_limitVoice / _scaleHz); SoundLogDLL.MelFrequencyCepstrumCoefficients.calculateFrequencies(_samples, _fftLength); } } startRecognition is a method for Speech Recognition that load a grammar and makes the recognition handler here: recContext.Recognition += new _ISpeechRecoContextEvents_RecognitionEventHandler(handleRecognition); Now I have a problem, when I call the method startRecognition before method run, both handlers (the recognition one and the handler for the Tick) work well. If a word is recognized, handlerRecognition method is called. But, when I call the method run before the method startRecognition, both methods seem to run well but then the recognition Handler is never executed! Even when I see that words are recognized (because they happear on the Windows Speech Recognition app). What can I do for the recognition handler be allways called?

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  • Refresh displayed Camera Roll contents

    - by zoul
    Hello! I use the UIImagePickerController class to display the Camera Roll contents. I have a second thread that saves an image to the Camera Roll. When the images has finished saving, it does not appear in the Camera Roll that’s open. Is there a way to force the Camera Roll to refresh? (Other than dismissing and displaying it again.)

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  • SSL encrpytion, SHA1 and SHA2

    - by Hellnar
    Hello, I am trying to implement SHA2 encryption instead SHA1. For this, I know that bit number between these two hash algorithms are different and it confuses me. How can this be achieved and at what parts do I need to make required changes. I can use any open source library from Java, Python and any other major programming language. Regards

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  • Powder Physics Games

    - by frinkz
    Does anyone have any experience with this sort of thing? I'm talking about applets like this http://dan-ball.jp/en/javagame/dust/ I'm really interested in how they work, it seems more like fluid-dynamics than regular game physics. Does anyone know any open source variations, or any hints on how they might work? I think it would be really fun and challenging to work on something like this, but I'm not sure where to start researching... Thanks :)

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  • Using R to download zipped data file, extract, and import data

    - by Jeromy Anglim
    @EZGraphs on Twitter writes: "Lots of online csvs are zipped. Is there a way to download, unzip the archive, and load the data to a data.frame using R? #Rstats" I was also trying to do this today, but ended up just downloading the zip file manually. I tried something like: fileName <- "http://www.newcl.org/data/zipfiles/a1.zip" con1 <- unz(fileName, filename="a1.dat", open = "r") but I feel as if I'm a long way off. Any thoughts?

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  • Use html page in lightbox?

    - by qulzam
    I have 2 html files. I want to use one html form in light box. so that when i clink a button on form the other form open in lightbox. Plz share any informative link. I search google but not find correctly.

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  • file output in python giving me garbage

    - by Richard
    When I write the following code I get garbage for an output. It is just a simple program to find prime numbers. It works when the first for loops range only goes up to 1000 but once the range becomes large the program fail's to output meaningful data output = open("output.dat", 'w') for i in range(2, 10000): prime = 1 for j in range(2, i-1): if i%j == 0: prime = 0 j = i-1 if prime == 1: output.write(str(i) + " " ) output.close() print "writing finished"

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  • jQuery to hide and show divs with an indicator

    - by songdogtech
    Using the jQuery below to toggle the hiding and showing of divs of text: how would I add some sort of indicator - like an up and down arrow as a graphic - to the titles when the divs are either open and closed? What's the best way to do that? Two images? A CSS sprite? And most importantly: how would that be integrated into the JS? I've looked at other jQuery that assigns a random number to each div and then determines which are open and which are closed and toggles one of two images. But I'm using php in a WordPress loop to show a posts, and that gives problems with incrementing in the loop, so there must be an easier way that doesn't require changes in the name of the title div. Thanks.... This JS fires the showing and hiding. Each div can be expanded and collapsed independently. $(document).ready(function() { $('div.demo-show:eq(0)> div').hide(); $('div.demo-show:eq(0)> h3').click(function() { $(this).next().slideToggle('fast'); }); }); This is the HTML it works with: <div class="collapser"> <p class="title">Header-1 </p> <div class="contents">Lorem ipsum</div> <p class="title">Header-2</p> <div class="contents">Lorem ipsum </div> <p class="title">Header-3</p> <div class="contents">Lorem ipsum</div> </div> The CSS is arbitrary: .collapser { margin: 0; padding: 0; width: 500px; } .title { margin: 1px; color: #fff; padding: 3px 10px; cursor: pointer; position: relative; background-color:#c30; } .contents { padding: 5px 10px; background-color:#fafafa; }

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  • Auto run appilication while plug in USB drive

    - by BhrKamal
    Hello I am trying to find out for auto run application's while plug in my USB pen drive .so is there any way that while i plug in the USB Pen drive it automatically open myappilication.exe while already there in USB root file.Instead of showing the option for running i want directly it will run the exe file .

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  • How significant are JPA lazy loading performance benefits?

    - by Robert
    I understand that this is highly specific to the concrete application, but I'm just wondering what's the general opinion, or at least some personal experiences on the issue. I have an aversion towards the 'open session in view' pattern, so to avoid it, I'm thinking about simply fetching everything small eagerly, and using queries in the service layer to fetch larger stuff. Has anyone used this and regretted it? And is there maybe some elegant solution to lazy loading in the view layer that I'm not aware of?

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