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• Is there a way to get the PREMATCH ($`) and POSTMATCH ($') from pcrecpp?

  - by Eric Peers

  Is there a way to obtain the C++ equivalent of Perl's PREMATCH ($`) and POSTMATCH ($') from pcrecpp? I would be happy with a string, a char *, or pairs indices/startpos+length that point at this. StringPiece seems like it might accomplish part of this, but I'm not certain how to get it. in perl: $_ = "Hello world"; if (/lo\s/) { $pre = $`; #should be "Hel" $post = $'; #should be "world" } in C++ I would have something like: string mystr = "Hello world"; //do I need to map this in a StringPiece? if (pcrecpp::RE("lo\s").PartialMatch(mystr)) { //should I use Consume or FindAndConsume? //What should I do here to get pre+post matches??? } pcre plainjane c seems to have the ability to return the vector with the matches including the "end" portion of the string, so I could theoretically extract such a pre/post variable, but that seems like a lot of work. I like the simplicty of the pcrecpp interface. Suggestions? Thanks! --Eric

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• Entity Framework 5 Enum Naming

  - by Tyrel Van Niekerk

  I am using EF 5 with migrations and code first. It all works rather nicely, but there are some issues/questions I would like to resolve. Let's start with a simple example. Lets say I have a User table and a user type table. The user type table is an enum/lookup table in my app. So the user table has a UserTypeId column and a foreign key ref etc to UserType. In my poco, I have a property called UserType which has the enum type. To add the initial values to the UserType table (or add/change values later) and to create the table in the initial migrator etc. I need a UserType table poco to represent the actual table in the database and to use in the map files. I mapped the UserType property in the User poco to UserTypeId in the UserType poco. So now I have a poco for code first/migrations/context mapping etc and I have an enum. Can't have the same name for both, so do I have a poco called UserType and something else for the enum or have the poco for UserType be UserTypeTable or something? More importantly however, am I missing some key element in how code first works? I tried the example above, ran Add-Migration and it does not add the lookup table for the enum.

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• What could cause these Apache crash errors ?

  - by jacobanderssen

  Hello guys. I had a server crash several days ago. I use Cacti to keep stats: at the time when the server crashed, a huge spike from Load 1 to Load 200 occurred, with over 800 processes in the run queue ( from 300 average). Upon checking /var/log/httpd I notice this: * glibc detected /usr/sbin/httpd: double free or corruption (out): 0x00002b8f3142c2f0 ** Followed by alot of these: [Sat Mar 13 19:20:20 2010] [warn] child process 3090 still did not exit, sending a SIGTERM [Sat Mar 13 19:20:20 2010] [warn] child process 3091 still did not exit, sending a SIGTERM Followed by this: ======= Backtrace: ========= /lib64/libc.so.6[0x2b8f1463c2ef] /lib64/libc.so.6(cfree+0x4b)[0x2b8f1463c73b] /usr/lib64/libapr-1.so.0(apr_pool_destroy+0x131)[0x2b8f13f98821] /usr/sbin/httpd[0x2b8f126df47e] /usr/sbin/httpd[0x2b8f126df4ab] /lib64/libpthread.so.0[0x2b8f141b87c0] /etc/httpd/modules/mod_file_cache.so[0x2b8f1cdf00fb] ======= Memory map: ======== And finally a lot of these: [Sat Mar 13 19:20:27 2010] [error] could not make child process 733 exit, attempting to continue anyway [Sat Mar 13 19:20:27 2010] [error] could not make child process 24560 exit, attempting to continue anyway [Sat Mar 13 19:20:27 2010] [error] could not make child process 31384 exit, attempting to continue anyway I am also noticing one or two lines like this: [Mon Mar 15 01:17:26 2010] [notice] child pid 20765 exit signal Segmentation fault (11) Please help me shed some light on this. Thanks !

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• How to display recently view items in iphone

  - by Pugal Devan

  Hi friends, I have created tab bar and have three views. Tab-1 --> table view and it navigates to detail table view. Tab-2 --> map view. Tab-3 --> table view.(Recent view for Tab-1 items). Now i have displayed the names in the table view in tab-1. The names are changed dynamically and displayed using XML parsing. In tab-3 is the recent view. Now i want to display the details in recent view those who visit recently in tab-1 view. I want to display only 10 items in the recent view. So i have used NSMutableArray and i have set deleagtes due to get the items in recent view from tab-1 view. How to avoid the duplicate recent items and how to remove the older items and inserts the new recent items in recent view. Here my sample code, In Recent view class, stories = [[NSMutableArray alloc] initWithCapacity:10]; items = [[NSMutableDictionary alloc] init]; NSString *preferName = [devDelegate getCurrentAuthor]; //(get name dynamically) [items setObject:preferName forKey:@"preferName"]; [stories addObject:[items copy]]; cell.textLabel.text = [[stories objectAtIndex:storyIndex] objectForKey:@"preferName"]; So please guide me to how to achieve this. Thanks.

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• Why doesn't the Java Collections API include a Graph implementation?

  - by dvanaria

  I’m currently learning the Java Collections API and feel I have a good understanding of the basics, but I’ve never understood why this standard API doesn’t include a Graph implementation. The three base classes are easily understandable (List, Set, and Map) and all their implementations in the API are mostly straightforward and consistent. Considering how often graphs come up as a potential way to model a given problem, this just doesn’t make sense to me (it’s possible it does exist in the API and I’m not looking in the right place of course). Steve Yegge suggests in one of his blog posts that a programmer should consider graphs first when attacking a problem, and if the problem domain doesn’t fit naturally into this data structure, only then consider the alternative structures. My first guess is that there is no universal way to represent graphs, or that their interfaces may not be generic enough for an API implementation to be useful? But if you strip down a graph to its basic components (vertices and a set of edges that connect some or all of the vertices) and consider the ways that graphs are commonly constructed (methods like addVertex(v) and insertEdge(v1, v2)) it seems that a generic Graph implementation would be possible and useful. Thanks for helping me understand this better.

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• Can I use foreign key restrictions to return meaningful UI errors with PHP

  - by Shane

  I want to start by saying that I am a big fan of using foreign keys and have a tendency to use them even on small projects to keep my database from being filled with orphaned data. On larger projects I end up with gobs of keys which end up covering upwards of 8 - 10 layers of data. I want to know if anyone could suggest a graceful way of handling 'expected errors' from the MySQL database in a way that I can construct meaningful messages for the end user. I will explain 'expected errors' with an example. Lets say I have a set of tables used for basic discussions: discussion questions responses users Hierarchically they would probably look something like this: -users --discussion ---questions ----responses When I attempt to delete a user the FKs will check discussions and if any discussion exist the deletion is restricted, deleting discussion checks questions, deleting questions checks responses. An 'expected error' in this case would be attempting to delete a user--unless they are newly created I can anticipate that one or more foreign keys will fail causing an error. What I WANT to do is to catch that error on deletion and be able to tell the end user something like 'We're sorry, but all discussions must be removed before you can delete this user...'. Now I know I can keep and maintain matching arrays in PHP and map specific errors to messages but that is messy and prone to becoming stagnant, or I could manually run a set of selects prior to attempting the deletion, but then I am doing just as much work as without using FKs. Any help here would be greatly appreciated, or if I am just looking at this completely wrong then please let me know. On a side note I generally use CodeIgniter for my application development, so if that would open up an avenue through that framework please consider that in your answers. Thanks in Advance

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• Strategies for dealing with Circular references caused by JPA relationships?

  - by ams

  I am trying to partition my application into modules by features packaged into separate jars such as feature-a.jar, feature-b.jar, ... etc. Individual feature jars such as feature-a.jar should contain all the code for a feature a including jpa entities, business logic, rest apis, unit tests, integration test ... etc. The problem I am running into is that bi-directional relationships between JPA entities cause circular references between the jar files. For example Customer entity should be in customer.jar and the Order should be in order.jar but Customer references order and order references customer making it hard to split them into separate jars / eclipse projects. Options I see for dealing with the circular dependencies in JPA entities: Option 1: Put all the entities into one jar / one project Option 2: Don't map certain bi-directianl relationships to avoid circular dependencies across projects. Questions: What rules / principles have you used to decide when to do bi-directional mapping vs. not? Have you been able to break jpa entities into their own projects / jar by features if so how did you avoid the circular dependencies issues?

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• CompositionHost.Initialize() can not execute twice.

  - by Khoa

  I am currently try to integrate MEF and PRISM to work with each other. Everything is working fine so far. Now i would like to use MEF runtime module discovery (DeploymentCatalog) which will be used to download XAPs from server directory and then plug it into one of the Region inside my MAIN UI. I am using UnityBootStrapper and inside this class i also integrated MEF container. This sample application is based on Glenn Block (http://codebetter.com/glennblock/2010/01/03/mef-and-prism-exploration-mef-module-loading/). The following code is used to initialize CompositionContainer inside my Bootstrapper: // This is the host catalog which contains all parts of running assembly. var catalog = GetHostCatalog(); // Create MEF container which initial catalog var container = new CompositionContainer(catalog); // here we explicitly map a part to make it available on imports elsewhere, using // Unity to resolve the export so dependencies are resolved // We do this because region manager is third-party ... therefore, we need to // export explicitly because the implementation doesn't have its own [export] tag container.ComposeExportedValue<IRegionManager>(Container.Resolve<IRegionManager>()); container.ComposeExportedValue<IEventAggregator>(Container.Resolve<IEventAggregator>()); // Obtain CatalogService as a singleton // All dynamic modules will use this service to add its parts. Container.RegisterInstance<ICatalogService>(new CatalogService(catalog)); // Initialize the container CompositionHost.Initialize(container); Now i have another class called DeploymentCatalogService which is used to download the XAP from server. The current problem i am facing is that inside DeploymentCatalogService Initialize method, CompositionHost container is try to initialize its container with aggregateCatalog again. _aggregateCatalog = new AggregateCatalog(); _aggregateCatalog.Catalogs.Add(new DeploymentCatalog()); CompositionHost.Initialize(_aggregateCatalog); This causes an Exception which stated that The container has already been initialized. Is there a way to use the existing container and update it with the new aggregateCatalog? Hope this is not too confusing. Please be nice i am still new to MEF. Cheers,

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• WCF data services (OData), query with inheritance limitation?

  - by Mathieu Hétu

  Project: WCF Data service using internally EF4 CTP5 Code-First approach. I configured entities with inheritance (TPH). See previous question on this topic: Previous question about multiple entities- same table The mapping works well, and unit test over EF4 confirms that queries runs smoothly. My entities looks like this: ContactBase (abstract) Customer (inherits from ContactBase), this entity has also several Navigation properties toward other entities Resource (inherits from ContactBase) I have configured a discriminator, so both Customer and Resource map to the same table. Again, everythings works fine on the Ef4 point of view (unit tests all greens!) However, when exposing this DBContext over WCF Data services, I get: - CustomerBases sets exposed (Customers and Resources sets seems hidden, is it by design?) - When I query over Odata on Customers, I get this error: Navigation Properties are not supported on derived entity types. Entity Set 'ContactBases' has a instance of type 'CodeFirstNamespace.Customer', which is an derived entity type and has navigation properties. Please remove all the navigation properties from type 'CodeFirstNamespace.Customer'. Stacktrace: at System.Data.Services.Serializers.SyndicationSerializer.WriteObjectProperties(IExpandedResult expanded, Object customObject, ResourceType resourceType, Uri absoluteUri, String relativeUri, SyndicationItem item, DictionaryContent content, EpmSourcePathSegment currentSourceRoot) at System.Data.Services.Serializers.SyndicationSerializer.WriteEntryElement(IExpandedResult expanded, Object element, ResourceType expectedType, Uri absoluteUri, String relativeUri, SyndicationItem target) at System.Data.Services.Serializers.SyndicationSerializer.<DeferredFeedItems>d__b.MoveNext() at System.ServiceModel.Syndication.Atom10FeedFormatter.WriteItems(XmlWriter writer, IEnumerable`1 items, Uri feedBaseUri) at System.ServiceModel.Syndication.Atom10FeedFormatter.WriteFeedTo(XmlWriter writer, SyndicationFeed feed, Boolean isSourceFeed) at System.ServiceModel.Syndication.Atom10FeedFormatter.WriteFeed(XmlWriter writer) at System.ServiceModel.Syndication.Atom10FeedFormatter.WriteTo(XmlWriter writer) at System.Data.Services.Serializers.SyndicationSerializer.WriteTopLevelElements(IExpandedResult expanded, IEnumerator elements, Boolean hasMoved) at System.Data.Services.Serializers.Serializer.WriteRequest(IEnumerator queryResults, Boolean hasMoved) at System.Data.Services.ResponseBodyWriter.Write(Stream stream) Seems like a limitation of WCF Data services... is it? Not much documentation can be found on the web about WCF Data services (OData) and inheritance specifications. How can I overpass this exception? I need these navigation properties on derived entities, and inheritance seems the only way to provide mapping of 2 entites on the same table with Ef4 CTP5... Any thoughts?

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• How to determine a text block of a file in one version come from which file in the previous version?

  - by Muhammad Asaduzzaman

  The problem is described below: Suppose I have a list of files in one version(say A,B,C,D). In the next version I have the following files(A,E,F,G). There are some similarities in their contents. The files in the later version comes from the previous version by file name renaming, content addition, deletion or partial modification or without any change( for example A is not changed). I take a block of text from a file(E, 2nd version) and check which files(in the 1st version) contain this text block. I found that B,C and D contain the text fragment. I want to determine from which file(B or c or d) this text block actually comes from.(I assume that E is a file whose name change in the second version). Since the contents may be changed, added or deleted in the later version, so in order to determine similarity I use LCS algorithm. But I cannot map the file with its previous version. I think one possible approach might be to use the location information of the match text blocks. But this heuristics not always work. Is there any research or algorithm exist to find so. Any direction will be helpful. Thanks in advance.

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• Nested Resource testing RSpec

  - by Joseph DelCioppio

  I have two models: class Solution < ActiveRecord::Base belongs_to :owner, :class_name => "User", :foreign_key => :user_id end class User < ActiveRecord::Base has_many :solutions end with the following routing: map.resources :users, :has_many => :solutions and here is the SolutionsController: class SolutionsController < ApplicationController before_filter :load_user def index @solutions = @user.solutions end private def load_user @user = User.find(params[:user_id]) unless params[:user_id].nil? end end Can anybody help me with writing a test for the index action? So far I have tried the following but it doesn't work: describe SolutionsController do before(:each) do @user = Factory.create(:user) @solutions = 7.times{Factory.build(:solution, :owner => @user)} @user.stub!(:solutions).and_return(@solutions) end it "should find all of the solutions owned by a user" do @user.should_receive(:solutions) get :index, :user_id => @user.id end end And I get the following error: Spec::Mocks::MockExpectationError in 'SolutionsController GET index, when the user owns the software he is viewing should find all of the solutions owned by a user' #<User:0x000000041c53e0> expected :solutions with (any args) once, but received it 0 times Thanks in advance for all the help. Joe

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• C++. How to define template parameter of type T for class A when class T needs a type A template parameter?

  - by jaybny

  Executor class has template of type P and it takes a P object in constructor. Algo class has a template E and also has a static variable of type E. Processor class has template T and a collection of Ts. Question how can I define Executor< Processor<Algo> > and Algo<Executor> ? Is this possible? I see no way to defining this, its kind of an "infinite recursive template argument" See code. template <class T> class Processor { map<string,T> ts; void Process(string str, int i) { ts[str].Do(i); } } template <class P> class Executor { Proc &p; Executor(P &p) : Proc(p) {} void Foo(string str, int i) { p.Process(str,i); } Execute(string str) { } } template <class E> class Algo { static E e; void Do(int i) {} void Foo() { e.Execute("xxx"); } } main () { typedef Processor<Algo> PALGO; // invalid typedef Executor<PALGO> EPALGO; typedef Algo<EPALGO> AEPALGO; Executor<PALGO> executor(PALGO()); AEPALGO::E = executor; }

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• Consistent HashCode() and Equals() results, but inconsistent TreeMap.containsKey() result

  - by smessing

  I have the following object Node: private class Node implements Comparable<Node>(){ private String guid(); ... public boolean equals(Node o){ return (this == o); } public int hashCode(){ return guid.hashCode(); } ... } And I use it in the following TreeMap: TreeMap<Node, TreeSet<Edge>> nodes = new TreeMap<Node, TreeSet<Edge>>(); Now, the tree map is used in a class called Graph to store nodes currently in the graph, along with a set of their edges (from the class Edge). My problem is when I try to execute: public containsNode(n){ for (Node x : nodes.keySet()) { System.out.println("HASH CODE: "); System.out.print(x.hashCode() == n.hashCode()); System.out.println("EQUALS: "); System.out.print(x.equals(n)); System.out.println("CONTAINS: "); System.out.print(nodes.containsKey(n)); System.out.println("N: " + n); System.out.println("X: " + x); } } I sometimes get the following: HASHCODE: true EQUALS: true CONTAINS: false N: foo X: foo Anyone have an idea as to what I'm doing wrong? I'm still new to all this, so I apologize in advance if I'm overlooking something simple (I know hashCode() doesn't really matter for TreeMap, but I figured I'd include it).

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• Best way to migrate export/import from SQL Server to oracle

  - by matao

  Hi guys! I'm faced with needing access for reporting to some data that lives in Oracle and other data that lives in a SQL Server 2000 database. For various reasons these live on different sides of a firewall. Now we're looking at doing an export/import from sql server to oracle and I'd like some advice on the best way to go about it... The procedure will need to be fully automated and run nightly, so that excludes using the SQL developer tools. I also can't make a live link between databases from our (oracle) side as the firewall is in the way. The data needs to be transformed in the process from a star schema to a de-normalised table ready for reporting. What I'm thinking about is writing a monster query for SQL Server (which I mostly have already) that will denormalise and read out the data from SQL Server into a flat file using the sql server equivalent of sqlplus as a scheduled task, dump into a Well Known Location, then on the oracle side have a cron job that copies down the file and loads it with sql loader and rebuilds indexes etc. This is all doable, but very manual. Is there one or a combination of FOSS or standard oracle/SQL Server tools that could automate this for me? the Irreducible complexity is the query on one side and building indexes on the other, but I would love to not have to write the CSV dumping detail or the SQL loader script, just say dump this view out to CSV on one side, and on the other truncate and insert into this table from CSV and not worry about mapping column names and all other arcane sqlldr voodoo... best practices? thoughts? comments? edit: I have about 50+ columns all of varying types and lengths in my dataset, which is why I'd prefer to not have to write out how to generate and map each single column...

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• Creating Actions from UIActionSheets help

  - by user337174

  I am using two UIAction sheets within my current project. I can get one to work perfectly fine but when i insert a second action sheet it runs the same arguements as the first. How do i define the actionsheets seperatly? -(IBAction) phoneButtonClicked:(id)sender { // open a dialog with just an OK button UIActionSheet *actionSheet = [[UIActionSheet alloc] initWithTitle:nil delegate:self cancelButtonTitle:@"Cancel" destructiveButtonTitle:nil otherButtonTitles:[NSString stringWithFormat:@"Phone: %@",phone],nil]; actionSheet.actionSheetStyle = UIActionSheetStyleDefault; [actionSheet showInView:self.view]; // show from our table view (pops up in the middle of the table) [actionSheet release]; } -(IBAction) mapButtonClicked:(id)sender { // open a dialog with just an OK button UIActionSheet *mapActionSheet = [[UIActionSheet alloc] initWithTitle:nil delegate:self cancelButtonTitle:@"Cancel" destructiveButtonTitle:nil otherButtonTitles:[NSString stringWithFormat:@"Map"],nil]; mapActionSheet.actionSheetStyle = UIActionSheetStyleDefault; [mapActionSheet showInView:self.view]; // show from our table view (pops up in the middle of the table) [mapActionSheet release]; } -(void)actionSheet:(UIActionSheet *)actionSheet clickedButtonAtIndex:(NSInteger)buttonIndex { if(buttonIndex == 0){ NSString *callPhone = [NSString stringWithFormat:@"tel:%@",phone]; NSLog(@"Calling: %@", callPhone); [[UIApplication sharedApplication] openURL:[NSURL URLWithString:callPhone]]; } }

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• Super inplace controls in_place_select displays incorrectly

  - by Magicked

  I'm using the super_inplace_controls plugin to allow users to edit fields on the "show" page. However, I'm running into an issue with the in_place_select function. Here is my view: <p> <b>Status:</b> <%= in_place_select :incident, :incident_status, :choices => @statuses.map { |e| [e.name, e.id] } %> </p> This is in the 'Incident' view. IncidentStatus is a separate table that has_many Incidents. In the Incident controller, I retrieve @statuses like so: @statuses = IncidentStatus.find(:all) Everything works fine for the in_place_select, except the original display. In my browser, it shows: Status: #<IncidentStatus:0x1033147d8> Which means it's not grabbing the current incident_status.name, but it's just changing the object to a string. I'm not sure how to fix this! When I click on the "IncidentStatus:0x1033147d8", everything works properly and I can select the proper fields. Thanks for any help!

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• How do you use stl's functions like for_each?

  - by thomas-gies

  I started using stl containers because they came in very handy when I needed functionality of a list, set and map and had nothing else available in my programming environment. I did not care much about the ideas behind it. STL documentations were only interesting up to the point where it came to functions, etc. Then I skipped reading and just used the containers. But yesterday, still being relaxed from my holidays, I just gave it a try and wanted to go a bit more the stl way. So I used the transform function (can I have a little bit of applause for me, thank you). From an academic point of view it really looked interesting and it worked. But the thing that boroughs me is that if you intensify the use of those functions, you need 10ks of helper classes for mostly everything you want to do in your code. The hole logic of the program is sliced in tiny pieces. This slicing is not the result of god coding habits. It's just a technical need. Something, that makes my life probably harder not easier. And I learned the hard way, that you should always choose the simplest approach that solves the problem at hand. And I can't see what, for example, the for_each function is doing for me that justifies the use of a helper class over several simple lines of code that sit inside a normal loop so that everybody can see what is going on. I would like to know, what you are thinking about my concerns? Did you see it like I do when you started working this way and have changed your mind when you got used to it? Are there benefits that I overlooked? Or do you just ignore this stuff as I did (and will go an doing it, probably). Thanks. PS: I know that there is a real for_each loop in boost. But I ignore it here since it is just a convenient way for my usual loops with iterators I guess.

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• ZF2 - How to use the Hydrator/exchangeArray() to populate a nested object

  - by Dominic Watson

  I've got an object with values that are stored in my database. My object also contains another object which is stored in the database using just the ID of it (foreign key). http://framework.zend.com/manual/2.0/en/modules/zend.stdlib.hydrator.html Before the Hydrator/exchangeArray functionality in ZF2 you would use a Mapper to grab everything you need to create the object. Now I'm trying to eliminate this extra layer by just using Hydration/exchangeArray to populate my objects but am a bit stuck on creating the nested object. Should my entity have the Inner object's table injected into it so I can create it if the ID of it is passed to my 'exchangeArray' ? Here are example entities as an example. // Village id, name, position, square_id // Map Square id, name, type Upon sending square_id to my Village's exchangeArray() function. It would get the mapTable and use hydrator to pull in the square using the ID I have. It doesn't seem right to be to have mapper instances inside my entity as I thought they should be disconnected from anything but it's own entity specific parameters and functionality?

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• Length-1 arrays can be converted to python scalars error? python

  - by Randy

  from numpy import * from pylab import * from math import * def LogisticMap(a,x): return 4.*a*x*(1.-x) def CosineMap(a,x): return a*cos(x/(2.*pi)) def TentMap(a,x): if x>= 0 or x<0.5: return 2.*a*x if x>=0.5 or x<=1.: return 2.*a*(1.-x) a = 0.98 N = 40 xaxis = arange(0.0,N,1.0) Func = CosineMap subplot(211) title(str(Func.func_name) + ' at a=%g and its second iterate' %a) ylabel('X(n+1)') # set y-axis label plot(xaxis,Func(a,xaxis), 'g', antialiased=True) subplot(212) ylabel('X(n+1)') # set y-axis label xlabel('X(n)') # set x-axis label plot(xaxis,Func(a,Func(a,xaxis)), 'bo', antialiased=True) My program is supposed to take any of the three defined functions and plot it. They all take in a value x from the array xaxis from 0 to N and then return the value. I want it to plot a graph of xaxis vs f(xaxis) with f being any of the three above functions. The logisticmap function works fine, but for CosineMap i get the error "only length-1 arrays can be converted to python scalars" and for TentMap i get error "The truth value of an array with more than one element is ambiguous, use a.any() or a.all()". My tent map function is suppose to return 2*a*x if 0<=x<0.5 and it's suppose to return 2*a*(1-x) if 0.5<=0<=1.

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• Parse large XML file w/ script or use BioPython API ?

  - by jeremy04

  Hey guys this is my first question on here. I'm trying to make a local copy of the UniprotKB in SQL. The UniprotKB is 2.1GB, and it comes in XML and a special text format used by SwissProt Here are my options: 1) Use a SAX parser (XML) - I chose Ruby, and Nokogiri. I started writing the parser, but my initial reaction: how would I map the XML schema to the SAX parser? 2) BioPython - I already have BioSQL/Biopython installed, which literally created my SQL schema for me, and I was able to successfully insert one SwissProt/Uniprot txt file into the database. I'm running it right now (crosses fingers) on the entire 2.1gb. Here is the code I'm running: from Bio import SeqIO from BioSQL import BioSeqDatabase from Bio import SwissProt server = BioSeqDatabase.open_database(driver = "MySQLdb", user = "root", passwd = "", host="localhost", db = "bioseqdb") db = server["uniprot"] iterator = SeqIO.parse(open("/path/to/uniprot_sprot.dat", "r"), "swiss") db.load(iterator) server.commit() Edit: it's now crashing because the transactions are getting locked (since the tables are Innodb) Error Number: 1205 Lock wait timeout exceeded; try restarting transaction. I'm using MySQL version: 5.1.43 Should I switch my database to Postgrelsql ?

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• Java Applet - ArrayIndexOutOfBoundsException (pt 2)

  - by Dan

  Hi there, I fixed my previous problem. But now when on my tile map... if I try to go 9 tiles to the RIGHT, and on trying to get to the 9th tile.... I will get this error: Exception in thread "AWT-EventQueue-1" java.lang.ArrayIndexOutOfBoundsException: 8 at tileGen.blocked(tileGen.java:125) at tileGen.keyPressed(tileGen.java:58) at java.awt.Component.processKeyEvent(Component.java:6221) at java.awt.Component.processEvent(Component.java:6040) at java.awt.Container.processEvent(Container.java:2041) at java.awt.Component.dispatchEventImpl(Component.java:4630) at java.awt.Container.dispatchEventImpl(Container.java:2099) at java.awt.Component.dispatchEvent(Component.java:4460) at java.awt.KeyboardFocusManager.redispatchEvent(KeyboardFocusManager.java:1850) at java.awt.DefaultKeyboardFocusManager.dispatchKeyEvent(DefaultKeyboardFocusManager.java:712) at java.awt.DefaultKeyboardFocusManager.preDispatchKeyEvent(DefaultKeyboardFocusManager.java:990) at java.awt.DefaultKeyboardFocusManager.typeAheadAssertions(DefaultKeyboardFocusManager.java:855) at java.awt.DefaultKeyboardFocusManager.dispatchEvent(DefaultKeyboardFocusManager.java:676) at java.awt.Component.dispatchEventImpl(Component.java:4502) at java.awt.Container.dispatchEventImpl(Container.java:2099) at java.awt.Component.dispatchEvent(Component.java:4460) at java.awt.EventQueue.dispatchEvent(EventQueue.java:599) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) Here is code: http://www.so.pastebin.com/hYkpQf13 I have tried many solutions, all of which have failed. Maybe someone here can I help me? Thank you.

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• ASP.NET MVC - hiding id in URL?

  - by mcfroob

  I'm building a basic blog application just now, for viewing data I'm just using the default route, i.e. - routes.MapRoute ( "Default", // Route name "{controller}/{action}/{id}", new { controller = "Blog", action = "Index", id = UrlParameter.Optional } ); So that when you go to mysite.com/View/12 it displays the blog with id 12. I want to modify the URLs so that they look as follows: mysite.com/View/2010/06/01/this-is-the-title. I could have a URL mapping like - routes.MapRoute( "View", "View/{year}/{month}/{day}/{title}", new { controller = "Blog", action = "View" } ); But then I'm not passing the ID into the Controller action so I would have to search on the date and title which doesn't feel right. On the other hand, if I pass the ID in it will show up in the URL which isn't what I'm aiming for either. Is there any way to redirect to the URL I want in the controller action after passing only the ID in as a paramter, or to pass the ID into the a Map Route but hide it in the URL? Thanks for your help!

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• Mapkit +closest annotation

  - by danskcollignon

  Hi all, I am trying to devellopp an app showing the nearest poi to the users location. My app is now capable of: showing a map (Mapkit) with 110 annotations and the user's location. Furthermore, I have a TableView at the bottom of my screen, to choose between the different annotations. However, they're listed by number, and not by proximity to the user's location, which is my wish. My research have led me to think that I should use CLLocation for getting the user's location. I then have really no idea on how to do it next, using getDistancefrom. My annotations are stored on SecondViewController.m, using this form: -(void)loadOurAnnotations { CLLocationCoordinate2D workingCoordinate; workingCoordinate.latitude = XX.XXXXX; workingCoordinate.longitude = XX.XXXXX; SecondViewAnnotation *POI1 = [[SecondViewAnnotation alloc] initWithCoordinate:workingCoordinate]; [POI1 setTitle:@"POI"]; [POI1 setSubtitle:@"StreetName"]; [POI1 setAnnotationType:SecondViewAnnotationTypePOI1]; [mapView addAnnotation:POI1]; , and so on to POI110. Could someone please give me a clue? I'm a total newbie! Thank you in advance for your help,

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• Could I do this blind relative to absolute path conversion (for perforce depot paths) better?

  - by wonderfulthunk

  I need to "blindly" (i.e. without access to the filesystem, in this case the source control server) convert some relative paths to absolute paths. So I'm playing with dotdots and indices. For those that are curious I have a log file produced by someone else's tool that sometimes outputs relative paths, and for performance reasons I don't want to access the source control server where the paths are located to check if they're valid and more easily convert them to their absolute path equivalents. I've gone through a number of (probably foolish) iterations trying to get it to work - mostly a few variations of iterating over the array of folders and trying delete_at(index) and delete_at(index-1) but my index kept incrementing while I was deleting elements of the array out from under myself, which didn't work for cases with multiple dotdots. Any tips on improving it in general or specifically the lack of non-consecutive dotdot support would be welcome. Currently this is working with my limited examples, but I think it could be improved. It can't handle non-consecutive '..' directories, and I am probably doing a lot of wasteful (and error-prone) things that I probably don't need to do because I'm a bit of a hack. I've found a lot of examples of converting other types of relative paths using other languages, but none of them seemed to fit my situation. These are my example paths that I need to convert, from: //depot/foo/../bar/single.c //depot/foo/docs/../../other/double.c //depot/foo/usr/bin/../../../else/more/triple.c to: //depot/bar/single.c //depot/other/double.c //depot/else/more/triple.c And my script: begin paths = File.open(ARGV[0]).readlines puts(paths) new_paths = Array.new paths.each { |path| folders = path.split('/') if ( folders.include?('..') ) num_dotdots = 0 first_dotdot = folders.index('..') last_dotdot = folders.rindex('..') folders.each { |item| if ( item == '..' ) num_dotdots += 1 end } if ( first_dotdot and ( num_dotdots > 0 ) ) # this might be redundant? folders.slice!(first_dotdot - num_dotdots..last_dotdot) # dependent on consecutive dotdots only end end folders.map! { |elem| if ( elem !~ /\n/ ) elem = elem + '/' else elem = elem end } new_paths << folders.to_s } puts(new_paths) end

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• problem with two key ranges in couchdb

  - by Duasto

  I'm having problem getting the right results in my coordinate system. To explain my system, I have this simple database that have x_axis, y_axis and name columns. I don't need to get all the data, I just need to display some part of it. For example, I have a coordinate system that have 10:10(meaning from x_axis -10 to 10 and from y_axis -10 to 10) and I want to display only 49 coordinates. In sql query I can do it something like this: "select * from coordinate where x_axis = -3 and x_axis <= 3 and y_axis = -3 y_axis <= 3" I tried this function but no success: "by_range": { "map": "function(doc) { emit([doc.x_axis, doc.y_axis], doc) }" } by_range?startkey=[-3,-3]&endkey=[3,3] I got a wrong results of: -3x-3 -3x-2 -3x-1 -3x0 -3x1 -3x2 -3x3 <-- should not display this part -- -3x4 -3x5 -3x6 -3x7 -3x8 -3x9 -3x10 <-- end of should not display this part -- ..... up to 3x3 to give you a better understanding of my project here is the screenshot of that I want to be made: Oops they don't allowed new poster to post an image img96(dot)imageshack(dot)us/img96/5382/coordinates(dot)jpg <<< just change the "(dot)" to "."

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