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• How should we serve files in a small bioinformatics cluster?

  - by cespinoza

  We have a small cluster of six ubuntu servers. We run bioinformatics analyses on these clusters. Each analysis takes about 24 hours to complete, each core i7 server can handle 2 at a time, takes as input about 5GB data and outputs about 10-25GB of data. We run dozens of these a week. The software is a hodgepodge of custom perl scripts and 3rd party sequence alignment software written in C/C++. Currently, files are served from two of the compute nodes (yes, we're using compute nodes as file servers)-- each node has 5 1TB sata drives mounted separately (no raid) and is pooled via glusterfs 2.0.1. They each have as 3 bonded intel ethernet pci gigabit ethernet cards, attached to a d-link DGS-1224T switch ($300 24 port consumer-level). We are not currently using jumbo frames (not sure why, actually). The two file-serving compute nodes are then mirrored via glusterfs. Each of the four other nodes mounts the files via glusterfs. The files are all large (4gb+), and are stored as bare files (no database/etc) if that matters. As you can imagine, this is a bit of a mess that grew organically without forethought and we want to improve it now that we're running out of space. Our analyses are I/O intensive and it is a bottle neck-- we're only getting 140mB/sec between the two fileservers, maybe 50mb/sec from the clients (which only have single NICs). We have a flexible budget which I can probably get up $5k or so. How should we spend our budget? We need at least 10TB of storage fast enough to serve all nodes. How fast/big does the cpu/memory of such a file server have to be? Should we use NFS, ATA over Ethernet, iSCSI, Glusterfs, or something else? Should we buy two or more servers and create some sort of storage cluster, or is 1 server enough for such a small number of nodes? Should we invest in faster NICs (say, PCI-express cards with multiple connectors)? The switch? Should we use raid, if so, hardware or software? and which raid (5, 6, 10, etc)? Any ideas appreciated. We're biologists, not IT gurus.

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• Is there a fast concat method for linked list in Java?

  - by rocker

  How can I concat two linked lists in O(1) with Java via jdk, google or apache commons collection or whatever? E.g. in jdk there is only the addAll method which is O(n). Another feature I miss is to concat two lists where each of them could be in inverse order. To illustrate this assume two lists a-b-c and e-f-g could merged into a-b-c-e-f-g a-b-c-g-f-e c-b-a-e-f-g c-b-a-g-f-e Do you know of such a list implemenation or do I have to implement my own linked list? It would be also helpful to know how to tweak existing solutions (e.g. the jdk LinkedList has a lot of private methods only). These features seems to me very obvious, hopefully I am not missing something stupid.

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• Arry of pointers in objective c using NSArray

  - by Amir

  Hello, I am writting program for my iphone and have a qestion. lets say i have class named my_obj class my_obj { NSString *name; NSinteger *id; NSinteger *foo; NSString *boo; } now i allocate 100 objects from type my_obj and insert them to array from type NSArray. then i want to sort the Array in two different ways. one by the name and the second by the id. i want to allocate another two arrays from type NSArray *arraySortByName *arraySortById what i need to do if i just want the sorted arrays to be referenced to the original array so i will get two sorted arrays that point to the original array (that didnt changed!) i other word i dont want to allocate another 100 objects to each sorted array.

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• Executing functions parallelly in PHP

  - by binaryLV

  Hi! Can PHP call a function and don't wait for it to return? So something like this: function callback($pause, $arg) { sleep($pause); echo $arg, "\n"; } header('Content-Type: text/plain'); fast_call_user_func_array('callback', array(3, 'three')); fast_call_user_func_array('callback', array(2, 'two')); fast_call_user_func_array('callback', array(1, 'one')); would output one (after 1 second) two (after 2 seconds) three (after 3 seconds) rather than three (after 3 seconds) two (after 3 + 2 = 5 seconds) one (after 3 + 2 + 1 = 6 seconds) Main script is intended to be run as a permanent process (TCP server). callback() function would receive data from client, execute external PHP script and then do something based on other arguments that are passed to callback(). The problem is that main script must not wait for external PHP script to finish. Result of external script is important, so exec('php -f file.php &') is not an option.

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• Potential issue when using memcache session save handler in PHP

  - by Sean

  I have two load balanced web servers, and I'm using the memcache session save handler with the save path pointing to two memcache servers. It's configured with session redundancy set to two (the number of memcache servers). So PHP is writing session data to both memcache servers, and when I take one of the servers down, everything seems to work fine since the session data has been written to both memcache servers. The problem seems to happen when I use the app for a while with only the one memcache server up, and then bring the other one back up. My theory is that the memcache server comes back up, and PHP then starts asking it for session data which isn't there since it was written to the other server while this one was down. Is there any merit to this theory? Should PHP be asking both servers for the session data and maybe there's some other problem?

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• Finding the sum of 2D Arrays in Ruby

  - by Bragaadeesh

  Hi, I have an array of two dimensional Arrays. I want to create a new two dimensional array which finds the sum of these values in the 2D arrays. Sum at x,y of new array = Sum at x,y of arr1 + Sum at x,y of arr2 + .... |1,2,4| |1,1,1| |1,1,1| |2,4,6| |1,1,1| |1,1,1| |2,4,6| |1,1,1| |1,1,1| |2,4,6| |1,1,1| |1,1,1| Now adding the above two dimensional arrays will result in, |3,4,6| |4,6,8| |4,6,8| |4,6,8| How to achieve this in Ruby (not in any other languages). I have written a method, but it looks very long and ugly.

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• Why tinymce in django admin outputs html tags?

  - by israkir

  I have two apps using the same tinymce textarea configurations. However, while an input in an app does output the text properly, same input in another app does not output the text properly -it outputs the <p> <li> tags etc... I have exactly same django source codes for these two different apps. As I mentioned above, two apps using the same tinymce textarea. How come this could happen? Thanks.

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• How to bundle C/C++ code with C-shell-script?

  - by eSKay

  I have a C shell script that calls two C programs - one after the another with some file handling before, in-between and afterwards. Now, as such I have three different files - one C shell script and 2 .c files. I need to give this script to other users. The problem is that I have to distribute three files - which the users must keep in the same folder and then execute the script. Is there some better way to do this? [I know I can make one C code file out of those two... but I will still be left with a shell script and a C code. Actually, the two C codes do entirely different things... so I want them to be separate]

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• Multiple wifi cards and Internet connections on Win-7

  - by Dpp

  Hello, I have two wifi cards and two separated internet connections. I connect to the Internet with both of them but one does all of the internet transactions (and I have not seen any place where I can specify which one I would prefer to use!) What I would like to do is use one of them for the browser and skype only, and the other one for stock exchange software for instance. Any idea if it is possible?

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• Add multiple Styles to Silverlight Control

  - by lidermin

  Hello, I'm using silverlight and I defined two styles for the page: ExpanderBottomRightButtonStyle ExpanderScaleStyle Now I want to add those two styles to the same control: <controls:Expander x:Name="expBRButton" Grid.Row="1" Grid.Column="2" Margin="5" Style="{StaticResource ExpanderBottomRightButtonStyle}"> <controls:Expander.Content> <Button Content="&lt;Button&gt;"></Button> </controls:Expander.Content> </controls:Expander> I don't want to join the two styles in one, cause I need them separately too. I thought something like: Style="{StaticResource ExpanderBottomRightButtonStyle ExpanderScaleStyle}" But it's not possible. How should I do this? I'm new on Silverlight 3. Thanks in advance.

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• How to bundle C code in C shell script?

  - by eSKay

  I have a C shell script that calls two C programs - one after the another with some file handling before, in-between and afterwards. Now, as such I have three different files - one C shell script and 2 .c files. I need to give this script to other users. The problem is that I have to distribute three files - which the users must keep in the same folder and then execute the script. Is there some better way to do this? [I know I can make one C code file out of those two... but I will still be left with a shell script and a C code. Actually, the two C codes do entirely different things... so I want them to be separate]

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• Configure multiple keystores in JBoss depending on requested hostname

  - by Mo

  Hello, I have my J2EE application deployed into a JBossAS. My Application has to respond to two different hostnames (https://foo.com/myApp and https://bar.com/myApp). It is the same instance of the app serving those two hostnames. But I don't know how to configure the keystores. I need different keystores for each hostname. Is there a way to tie a virtual host in JBoss' server.xml to a specific connector? Or do I have to use two different IP-addresses and create a connector for each? A solution that does not require a second IP-address would be greatly appreciated.

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• VMWare Lab Manager: What's the difference between Capture to Library and Archive to Library?

  - by mcohen75

  On a configuration in my workspace I have two options, Capture to Library and Archive to Library. What's the difference between the two? The Lab Manager User's Guide isn't very useful here: Archive a Workspace Configuration to the Library You can preserve the exact state of a configuration in the configuration library. Archived configurations are read-only, but you can clone, export, and delete them. Sounds like what Capture to Workspace does.

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• Can't move li elements from one unorderted list to another

  - by Roland

  I have two un-ordered list <ul id="#list1"> <li>one</li> <li>two</li> </ul> <ul id="#list2"></ul> and two buttons <input id="add" name="yt1" type="button" value="<<" /><br /> <input id="remove" name="yt2" type="button" value=">>" /> If the button with the id add is pressed all elements from #list1 should be move to #list2. How do I move elements from one list to another using JQuery I though of something like the below, but not sure how to do the actual moving $("#add").click(function(){ $("#list1 li").each(function(){ //Do not know what to put in here } })

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• Grep for multiple patterns over multiple files

  - by prelic

  I've been googling around, and I can't find the answer I'm looking for. Say I have a file, text1.txt, in directory mydir whose contents are: one two and another called text2.txt, also in mydir, whose contents are: two three four I'm trying to get a list of files (for a given directory) which contain all (not any) patterns I search for. In the example I provided, I'm looking for output somewhere along the lines of: ./text1.txt or ./text1.txt:one ./text1.txt:two The only things I've been able to find are concerning matching any patterns in a file, or matching multiple patterns in a single file (which I tried extending to a whole directory, but received grep usage errors). Any help is much appreciated. Edit-Things I've tried grep "pattern1" < ./* | grep "pattern2" ./* "ambiguous redirect" grep 'pattern1'|'pattern2' ./* returns files that match either pattern

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• Reusing an anonymous parameter in a prepared statement

  - by Chris Lieb

  I am customizing the insert SQL generated by hibernate and have hit an issue. When Hibernate generates the query by itself, it inserts data into the first two columns of the table, but this causes a database error since all four columns of the table are non-nullable. For the insert to be performed properly, it must insert the same data into two columns of the new record. This means that I need Hibernate to bind the same data to two different parameters in the query (prepared statement) that I am writing. Is there some SQL syntax that allows me to refer to anonymous parameters bound to a prepared statement in an order different from which they are bound? Details REF_USER_PAGE_XREF ---------------------------------------- PK FK1 | NETWORK_ID | VARCHAR2(100) PK FK1 | PAGE_PATH | VARCHAR2(1000) | USER_LAST_UPDT | VARCHAR2(100) | TMSP_LAST_UPDT | DATE insert into REF_USER_ROLE_XREF( NETWORK_ID, PAGE_PATH, TMSP_LAST_UPDT, USER_LAST_UPDT) values ( ?, /* want to insert the same data here */ ?, ?, /* and here */ (select to_char(sysdate, 'DD-MON-YY') from dual) I want to insert the same data into the first and third anonymous parameters.

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• Best choice for off-site backup: dd vs tar

  - by plok

  I have two 1TB single-partition hard disks configured as RAID1, of which I would like to make an off-site backup on a third disk, which I am still to buy. The idea is to store the backup at a relative's house, considerably far away from my place, in the hope that all the information will be safe in the case of a global thermonuclear apocalypse. Of course, this backup would be well encrypted. What I still have to decide is whether I am going to simply tar the entire partition or, instead, use dd to create an image of the disks. Is there any non-trivial difference between these two approaches that I could be overlooking? This off-site backup would be updated no more than two or three times a year, in the best of the cases, so performance should not be a factor to be pondered at all. What, and why, would you use if you were me? dd, tar, or a third option?

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• Object reference case study

  - by Skogen

  When person 1 become partner with person 3, person 2 should no longer have person 1 as partner. How should I solve this? public class Person { private String name; private Person partner; public Person(String name){ this.name = name; } public void setPartner(Person partner){ this.partner = partner; partner.partner = this; } public static void main(String[] args) { Person one = new Person("1"); Person two = new Person("2"); Person three = new Person("3"); Person four = new Person("4"); one.setPartner(two); three.setPartner(four); one.setPartner(three); //Person two is still partner with person 1 }

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• Ruby: how to know depth of multidemensional array

  - by hqt

  This is my problem I have met in my assignment. Array A has two elements: array B and array C. Array B has two elements: array D and array E At some point, array X just contains two elements: string a and string b. I don't know how to determine how deep array A is. For example: arrA = [ [ [1,2] ] ] I have tested by: A[0][0][0] == nil which returns false. Moreover, A[0][0]..[0] == nil always returns false. So, I cannot do this way to know how deep array A is.

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• Is it possible to synchronize with Microsoft Sync Framework through FTP-transfers?

  - by Christian80

  I'm looking at synchronize methods between two databases and found Microsoft Sync Framework recently. I've been trying to investigate if it suits my needs. My scenario is the following: Two SQL-databases located in different geographical parts. The remote database can go without internet connection for days at times and for some locations the only means of communicating is with ftp transfers to the main server. So my question is: Is it possible to sync between two servers and send the sync-information and data through a ftp-server?

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• Saving data in a inherited django model

  - by aldeano

  I'm building an app to save data and some calculations made with those datas, the idea is keep the data in one model and the calculations in other. So, the models are like this: class FreshData(models.Model): name = models.CharField(max_length=20) one = models.IntegerField() two = models.IntegerField() def save(self, *args, **kwargs): Calculations() Calculations.three = self.one + self.two super(FreshData, self).save(*args, **kwargs) Calculations.save() class Calculations(FreshData): three = models.IntegerField() I've got a valueerror pointing out "self.one" and "self.two" as without value. I keep the idea in witch my design is wrong and django has a simpler way to store related data.

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• How to find the differences between the values of a specific column based on a key?

  - by Holicreature

  I've two tables as purchase_details and invoice_details and i want to store the inventory/stock of each product from the data of these two tables. structure of purchase_details. 'pid', 'int(10)' 'product_id', 'int(10)' 'quantity', 'float(8,2)' 'amount', 'float(12,2)' 'expiry_date', 'date' structure of purchase_details. 'invoice_id', 'int(10) unsigned' 'product_id', 'int(10) unsigned' 'quantity', 'float(10,2)' 'price', 'float(12,2)' i want to calculate the total quantity of remaining stock (quantity of sum of products from purchase_details - quantity of sum of products from invoice_details). Product_id is would be same for the two tables. how can i proceed?

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• Rebuild whole page on callback?

  - by AJ

  Hello, In asp.net is it a requirement to rebuild the whole page during every callback? For example my web page is split into three distinct areas and I have an update panel for each area. Lets say I want to update the third area, do I have to bother with any processing of the other two areas? For example lets say there is a grid view in area two. The update panel in area three callbacks to update its content. Do I have to rebind the grid in area two? Thanks, AJ

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• How to organise a many to many relationship in MongoDB

  - by Gareth Elms

  I have two tables/collections; Users and Groups. A user can be a member of any number of groups and a user can also be an owner of any number of groups. In a relational database I'd probably have a third table called UserGroups with a UserID column, a GroupID column and an IsOwner column. I'm using MongoDB and I'm sure there is a different approach for this kind of relationship in a document database. Should I embed the list of groups and groups-as-owner inside the Users table as two arrays of ObjectIDs? Should I also store the list of members and owners in the Groups table as two arrays, effectively mirroring the relationship causing a duplication of relationship information? Or is a bridging UserGroups table a legitimate concept in document databases for many to many relationships? Thanks

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• Subsonic : Same column name different tables

  - by John Transformer

  Hi, I have a query where I need to do a "Where" clause for two different columns in two different tables but subsonic creates the same parametrized parameter name for both which is causing an issue. How can I fix this? string _RawSql = new Select() .From(Tables.Table1) .InnerJoin(Tables.Table2) .InnerJoin(Table3.SidColumn, Table2.Table3SidColumn) .Where(Table1.SidColumn).IsEqualTo(2) .And(Table3.SidColumn).IsEqualTo(1) .BuildSqlStatement(); The query this is creating is SELECT .... FROM [dbo].[Table1] INNER JOIN [dbo].[Table2] ON [dbo].[Table1].[Table2Sid] = [dbo].[Table2].[Sid] INNER JOIN [dbo].[Table3] ON [dbo].[Table2].[Table3Sid] = [dbo].[Table3].[Sid] WHERE [dbo].[Table1].[Sid] = @Sid AND [dbo].[Table3].[Sid] = @Sid Note that in the last two lines its using @Sid for both Table1 and Table3. How go I do it so it uses @Sid0 and @Sid1? Any help would be appreciated. Thanks

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