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• Error including image in Latex

  - by euphoria83

  I am getting the following error while compiling my Latex File : ! LaTeX Error: Cannot determine size of graphic in tree.jpg (no BoundingBox). Why do I get this error ? What has this to do with an .eps file ? Infact, I could compile it fine with MacTex on my machine. But when I submit it online to a scientific journal for publication, it compiles it on the server and sends me the resultant PDF which as all these error that prevent it from compiling. I am using the following syntax for including the images : \begin{figure}[!h] \begin{center} \scalebox{0.45}{ \includegraphics{tree.jpg}} \end{center} \caption{\small A sample} \label{tree} \end{figure} What should I do ? Could it be that their server is using an old compiler ? UPDATE : It finally worked. I converted the first image to PDF and the compilation happened perfectly. I guess it used the bounding box value from that PDF and applied it to all images.

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• Anyone using IronPython in a production application?

  - by Scott P

  I've been toying with the idea of adding IronPython for extending a scientific application I support. Is this a good or horrible idea? Are there any good examples of IronPython being used in a production application. I've seen Resolver, which is kind of cute. Are there any other apps out there? What I don't get is this. Is it any easier to use IronPython than to just use something like code DOM to create script like extensibility in your application? Anyone have some horror stories or tales of glorious success with IronPython / IronRuby?

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• If I specify a System property multiple times when invoking JVM which value is used?

  - by RobV

  If I specify a system property multiple times when invoking the JVM which value will I actually get when I retrieve the property? e.g. java -Dprop=A -Dprop=B -jar my.jar What will be the result when I call System.getProperty("prop");? The Java documentation on this does not really tell me anything useful on this front. In my non-scientific testing on a couple of machines running different JVMs it seems like the last value is the one returned (which is actually the behavior I need) but I wondered if this behavior is actually defined officially anywhere or can it vary between JVMs?

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• using OOoWrite, i would like to add custom html elements

  - by romunov

  I have 35 pages list of scientific references. In order to upload them to a webpage, I would like to add custom fields before and after each reference. I would also like to find italicized text and add around it. For instance, I would like this paragraph Alouf N., 1973. Biotope et description de Niphargus altagahizi n. sp., Amphipode Gammaridé souterrain du Liban, International Journal of Speleology 5: 49-61. to look like: <p class="cite">Alouf N., 1973. Biotope et description de <em>Niphargus altagahizi</em> n. sp., Amphipode Gammaridé souterrain du Liban, International Journal of Speleology 5: 49-61.</p> Any suggestions how to do this in OOoWriter macros perhaps, or any other application?

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• starting 64 Bit Windows Application Development

  - by user173438

  I intend to start writing a 64 Bit Scientific Computing Application (signal processing) for Windows using Microsoft Visual Studio 2008. What should I have ready as far as a development platform is concerned? How would it be different from 32 Bit development? What could be the porting issues for a 32 Bit version that I already have (ok - this might too early to ask.. even before I start compiling)? As you might have guessed, I am looking for general directions. All pointers would be much appreciated! :) Thanks in advance..

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• For what purpose does java have a float primitive type?

  - by Roman

  I heard plenty times different claims about float type in java. The most popular issues typicaly regard to converting float value to double and vice versa. I read (rather long time ago and not sure that it's actual now with new JVM) that float gives much worse performance then double. And it's also not recommended to use float in scientific applications which should have certain accuracy. I also remember that when I worked with AWT and Swing I had some problems with using float or double (like using Point2D.Float or Point2D.Double). So, I see only 2 advantages of float over double: it needs only 4 bytes while double needs 8 bytes JMM garantees that assignment operation is atomic with float variables while it's not atomic with double's. Are there any other cases where float is better then double? Do you use float's in your applications? It seems to me that the only valuable reason java has float is backward compatibility.

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• What is the standard way to parse floats at runtime in C?

  - by Joel J. Adamson

  Hello, I have a scientific application for which I want to input initial values at runtime. I have an option to get them from the command line, or to get them from an input file. Either of these options are input to a generic parser that uses strtod to return a linked list of initial values for each simulation run. I either use the command-line argument or getline() to read the values. The question is, should I be rolling my own parser, or should I be using a parser-generator or some library? What is the standard method? This is the only data I will read at runtime, and everything else is set at compile time (except for output files and a few other totally simple things). Thanks, Joel

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• Should I bundle C libraries with my Python application?

  - by oceanhug

  If I have a Python package that depends on some C libraries (like say the Gnu Scientific Library (GSL) for numerical computations), is it a good idea to bundle the library with my code? I'd like to make my package as easy to install as possible for users and I don't want them to have to download C libraries by hand and supply include-paths. Also I could always ensure that the version of the library that I ship is compatible with my code. However, is it possible that there are clashes if the user has the library installed already, or ar there any other reasons why I shouldn't do this? I know that I can make it easier for users by just providing a binary distribution, but I'd like to avoid having to maintain binary distributions for all possible OSs. So, I'd like to stick to a source distribution, but for the user (who proudly owns a C compiler) installation should be as easy as python setup.py install.

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• Python Library installation

  - by MacPython

  Hi everybody I have two questions regarding python libraries: I would like to know if there is something like a "super" python library which lets me install ALL or at least all scientific useful python libraries, which I can install once and then I have all I need. There is a number of annoying problems when installing different libraries (pythonpath, cant import because it is not installed BUT it is installed). Is there any good documentation about common installation errors and how to avoid them. If there is no total solution I would be interested in numpy, scipy, matplotlib, PIL Thanks a lot for the attention and help Best Z

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• Confusion between numpy, scipy, matplotlib and pylab

  - by goFrendiAsgard

  Numpy, scipy, matplotlib, and pylab are common terms among they who use python for scientific computation. I just learn a bit about pylab, and I got a lot of confusion. Whenever I want to import numpy, I can always do: import numpy as np I just consider, that once I do from pylab import * The numpy will be imported as well (with np alias). So basically the second one do more things compared to the first one. There are few things I want to ask. Is it right that pylab is just a wrapper for numpy, scipy and matplotlib? As np is the numpy alias, what is the scipy and matplotlib alias? (as far as I know, plt is alias of matplotlib.pyplot, but I don't know the alias for the matplotlib itself) Thanks in advance.

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• Search Result displaying-like google php

  - by Ramesh

  i have an paragraph and user will search inside that and if the search term has 3 matches inside but all are in 3 different places ex World War II, or the Second World War[1] (often abbreviated WWII or WW2), was a global military conflict lasting from 1939 to 1945 which involved most of the world's nations, including all of the great powers, organised into two opposing military alliances: the Allies and the Axis. It was the most widespread war in history, with more than 100 million military personnel mobilised. In a state of "total war," the major participants placed their entire economic, industrial, and scientific capabilities at the service of the war effort, erasing the distinction between civilian and military resources. Marked by significant action against civilians, including the Holocaust and the only use of nuclear weapons in warfare, it was the deadliest conflict in human history,[2] with over seventy million casualties. i have to search "war" so that it should display like World War II, or the Second World War[1].....In a state of "totalwar,".... some thing like this ///

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• Whats the deal with python?

  - by gmatt

  My interests in programming lie mainly in algorithms, and lately I have seen many reputable researchers write a lot of their code in python. How easy and convenient is python for scientific computing? Does it have a library of algorithms that compares to matlab's? Is Python a scripting language or does it compile? Is it a great language for prototyping an algorithm? How long would it take me to learn enough of it to be productive provided I know C well and OO programming somewhat? Is it OO based? Sorry for the condensed format of questions, but I'm very curious and was hoping a more experienced programmer could help me out.

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• JSF (and friends) tags vs. traditional html tags

  - by H3wh0s33ks

  So this question came up today and I didn't have a specific or scientific answer. What are the costs associated with using jsf (or tomahawk, faclets, etc., etc.) tags in place of traditional html tags. My gut reaction is that you should use jsf tags in situations where you need the additional functionality they provide, and use traditional tags when you don't. Also I feel like jsf tags would require more resources (since the server has to take them and rerender them as html anyways) than html. Does anybody know what the cost actually is (as far as time and memory)? Also useful information is what is the convention that is in use, pure jsf or a mixture of the two?

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• Looking for a list of free data api's and web services

  - by darren

  I'm wondering if anybody has come across a comprehensive list of free sources for data (as a web api) or web services. I'm looking to start a new project to tinker with in my spare time and I am wondering what interesting data is available to play with. It seems like many api services such as last.fm or google search don't exist or are no longer free. Possible examples of what I am looking for information about a given ip address mapping api's information about books, movies, music information about places, businesses, attractions meteorological, financial or other scientific data shopping, products I would appreciate any suggestions you may have about interesting data freely available through the web. thanks

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• c++ programming for clusters and HPC

  - by Abruzzo Forte e Gentile

  HI All I need to write a scientific application in C++ doing a lot of computations and using a lot of memory. I have part of the job but due to high requirements in terms of resources I was thinking to start moving to OpenMPI. Before doing that I have a simple curiosity: If I understood the principle of OpenMPI is the developer that has the task of splitting the jobs over different nodes calling SEND and RECEIVE based on node available at that time. Do you know if it does exist some library or OS or whatever that has this capability letting my code reamain as it is now? Basically something that connects all computers and let share as one their memory and CPU? I am a bit confused because of the high material available on the topic. Should I look at cloud computing? or Distributed Shared Memory? Can you help me or address me a bit? Thanks

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• Tips for measuring the parallelism speed-up in multi-core development.

  - by fnCzar

  I have read many of the good questions and answers around multi-core programming how-tos etc. I am familiar with concurrency, IPC, MPI etc but what I need is advice on how to measure speed-up which will help in making a business case of spending the time to write such code. Please don't answer with "well run it with single-core code then multi-core code and figure out the difference". This is neither a scientific nor a reliable way to measure performance improvement. If you know of tools that will do some of the heavy lifting please mention them. Answers pertaining to methodology will be more fitting but listing tools is ok as well.

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• Project hosting vs. my own SVN

  - by BigG

  I'm working on different projects with some small teams (2-3 people for each). Those projects are about some scientific stuff, most (probably all) the code will be released under GPL after the publication of some results and we don't want to spend money for this. My first question is: should i keep my local SVN server or you know some good service for this? Both of them have some disadvantages and services like xp-dev.com looks pretty interesting but should i trust them? [i'll get only the free plan] Online services give you some tools for project management, what do you think about them?

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• Faking a Single Address Space

  - by dsimcha

  I have a large scientific computing task that parallelizes very well with SMP, but at too fine grained a level to be easily parallelized via explicit message passing. I'd like to parallelize it across address spaces and physical machines. Is it feasible to create a scheduler that would parallelize already multithreaded code across multiple physical computers under the following conditions: The code is already multithreaded and can scale pretty well on SMP configurations. The fact that not all of the threads are running in the same address space or on the same physical machine must be transparent to the program, even if this comes at a significant performance penalty in some use cases. You may assume that all of the physical machines involved are running operating systems and CPU architectures that are binary compatible. Things like locks and atomic operations may be slow (having network latency to deal with and all) but must "just work".

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• What is the term(s) used to describe programming language syntax?

  - by Mr Roys

  Is there an exact/correct term to describe this difference between the syntax/constructs of programming langauges e.g VB6 with its (if ... else ... endif) and C# with its curly braces for conditional statements. I'm using VB6 syntax and C# as examples since I'm more familiar with their syntax. For example, Visual Basic 6's syntax uses a more verbose, natural language like structure. If (id = 0) Then id = MyObject.Add(Me) Else Call MyObject.Update(Me) End If while C# has more concise syntax like: if (id == 0) { id = MyObject.Add(this); } else { MyObject.Update(this); } Conciseness? Natural languageness? Or is there a more "scientific" word for describing syntax?

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• Partially parse C++ for a domain-specific language

  - by PierreBdR

  I would like to create a domain specific language as an augmented-C++ language. I will need mostly two types of contructs: Top-level constructs for specialized types or declarations In-code constructs, i.e. to add primitives to make functions calls or idiom easier The language will be used for scientific computing purposes, and will ultimately be translated into plain C++. C++ has been chosen as it seems to offer a good compromise between: ease of use, efficiency and availability of a wide range of libraries. A previous attempt using flex and bison failed due to the complexity of the C++ syntax. The existing parser can still fail on some constructs. So we want to start over, but on better bases. Do you know about similar projects? And if you attempted to do so, what tools would you use? What would be the main pitfalls? Would you have recommendations in term of syntax?

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• Preserving NULL values in a Double Variable

  - by Sam

  Hi, I'm working on a vb.net application which imports from an Excel spreadsheet. If rdr.HasRows Then Do While rdr.Read() If rdr.GetValue(0).Equals(System.DBNull.Value) Then Return Nothing Else Return rdr.GetValue(0) End If Loop Else I was using string value to store the double values and when preparing the database statement I'd use this code: If (LastDayAverage = Nothing) Then command.Parameters.AddWithValue("@WF_LAST_DAY_TAG", System.DBNull.Value) Else command.Parameters.AddWithValue("@WF_LAST_DAY_TAG", Convert.ToDecimal(LastDayAverage)) End If I now have some data with quite a few decimal places and the data was put into the string variable in scientific notation, so this seems to be the wrong approach. It didn't seem right using the string variable to begin with. If I use a double or decimal type variable, the blank excel values come across as 0.0. How can I preserve the blank values? Thanks

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• CouchDB: How to change view function via javascript?

  - by osti

  Hello Guys, I am playing around with CouchDB to test if it is "possible" [1] to store scientific data (simulated and experimental raw data + metadata). A big pro is the schema-less approach of CouchDB: we have to be very flexible with the metadata, as the set of parameters changes very often. Up to now I have some code to feed raw data, plots (both as attachments), and hierarchical metadata (as JSON) into CouchDB documents, and have written some prototype Javascript for filtering and showing. But the filtering is done on the client side (a.k.a. browser): The map function simply returns everything. How could I change the (or push a second) map function of a specific _design-document with simple browser-JS? I do not think that a temporary view would yield any performance gain... Thanks for your time and answers. [1]: of course it is possible, but is it also useful? feasible? reasonable?

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• Java Spotlight Episode 138: Paul Perrone on Life Saving Embedded Java

  - by Roger Brinkley

  Interview with Paul Perrone, founder and CEO of Perrone Robotics, on using Java Embedded to test autonomous vehicle operations for the Insurance Institute for Highway Safety that will save lives. Right-click or Control-click to download this MP3 file. You can also subscribe to the Java Spotlight Podcast Feed to get the latest podcast automatically. If you use iTunes you can open iTunes and subscribe with this link: Java Spotlight Podcast in iTunes. Show Notes News JDK 8 is Feature Complete Java SE 7 Update 25 Released What should the JCP be doing? 2013 Duke's Choice Award Nominations Another Quick update to Code Signing Article on OTN Events June 24, Austin JUG, Austin, TX June 25, Virtual Developer Day - Java, EMEA, 10AM CEST Jul 16-19, Uberconf, Denver, USA Jul 22-24, JavaOne Shanghai, China Jul 29-31, JVM Summit Language, Santa Clara Sep 11-12, JavaZone, Oslo, Norway Sep 19-20, Strange Loop, St. Louis Sep 22-26 JavaOne San Francisco 2013, USA Feature Interview Paul J. Perrone is founder/CEO of Perrone Robotics. Paul architected the Java-based general-purpose robotics and automation software platform known as “MAX”. Paul has overseen MAX’s application to rapidly field self-driving robotic cars, unmanned air vehicles, factory and road-side automation applications, and a wide range of advanced robots and automaton applications. He fielded a self-driving autonomous robotic dune buggy in the historic 2005 Grand Challenge race across the Mojave desert and a self-driving autonomous car in the 2007 Urban Challenge through a city landscape. His work has been featured in numerous televised and print media including the Discovery Channel, a theatrical documentary, scientific journals, trade magazines, and international press. Since 2008, Paul has also been working as the chief software engineer, CTO, and roboticist automating rock star Neil Young’s LincVolt, a 1959 Lincoln Continental retro-fitted as a fully autonomous extended range electric vehicle. Paul has been an engineer, author of books and articles on Java, frequent speaker on Java, and entrepreneur in the robotics and software space for over 20 years. He is a member of the Java Champions program, recipient of three Duke Awards including a Gold Duke and Lifetime Achievement Award, has showcased Java-based robots at five JavaOne keynotes, and is a frequent JavaOne speaker and show floor participant. He holds a B.S.E.E. from Rutgers University and an M.S.E.E. from the University of Virginia. What’s Cool Shenandoah: A pauseless GC for OpenJDK

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• Windows Azure Use Case: High-Performance Computing (HPC)

  - by BuckWoody

  This is one in a series of posts on when and where to use a distributed architecture design in your organization's computing needs. You can find the main post here: http://blogs.msdn.com/b/buckwoody/archive/2011/01/18/windows-azure-and-sql-azure-use-cases.aspx  Description: High-Performance Computing (also called Technical Computing) at its most simplistic is a layout of computer workloads where a “head node” accepts work requests, and parses them out to “worker nodes'”. This is useful in cases such as scientific simulations, drug research, MatLab work and where other large compute loads are required. It’s not the immediate-result type computing many are used to; instead, a “job” or group of work requests is sent to a cluster of computers and the worker nodes work on individual parts of the calculations and return the work to the scheduler or head node for the requestor in a batch-request fashion. This is typical to the way that many mainframe computing use-cases work. You can use commodity-based computers to create an HPC Cluster, such as the Linux application called Beowulf, and Microsoft has a server product for HPC using standard computers, called the Windows Compute Cluster that you can read more about here. The issue with HPC (from any vendor) that some organization have is the amount of compute nodes they need. Having too many results in excess infrastructure, including computers, buildings, storage, heat and so on. Having too few means that the work is slower, and takes longer to return a result to the calling application. Unless there is a consistent level of work requested, predicting the number of nodes is problematic. Implementation: Recently, Microsoft announced an internal partnership between the HPC group (Now called the Technical Computing Group) and Windows Azure. You now have two options for implementing an HPC environment using Windows. You can extend the current infrastructure you have for HPC by adding in Compute Nodes in Windows Azure, using a “Broker Node”.  You can then purchase time for adding machines, and then stop paying for them when the work is completed. This is a common pattern in groups that have a constant need for HPC, but need to “burst” that load count under certain conditions. The second option is to install only a Head Node and a Broker Node onsite, and host all Compute Nodes in Windows Azure. This is often the pattern for organizations that need HPC on a scheduled and periodic basis, such as financial analysis or actuarial table calculations. References: Blog entry on Hybrid HPC with Windows Azure: http://blogs.msdn.com/b/ignitionshowcase/archive/2010/12/13/high-performance-computing-on-premise-and-in-the-windows-azure-cloud.aspx  Links for further research on HPC, includes Windows Azure information: http://blogs.msdn.com/b/ncdevguy/archive/2011/02/16/handy-links-for-hpc-and-azure.aspx 

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• Introduction to Lean Software Development and Kanban Systems

  - by Ben Griswold

  Last year I took myself through a crash course on Lean Software Development and Kanban Systems in preparation for an in-house presentation.  I learned a bunch.  In this series, I’ll be sharing what I learned with you.   If your career looks anything like mine, you have probably been affiliated with a company or two which pushed requirements gathering and documentation to the nth degree. To add insult to injury, they probably added planning process (documentation, requirements, policies, meetings, committees) to the extent that it possibly retarded any progress. In my opinion, the typical company resembles the quote from Tom DeMarco. It isn’t enough just to do things right – we also had to say in advance exactly what we intended to do and then do exactly that. In the 1980s, Toyota turned the tables and revolutionize the automobile industry with their approach of “Lean Manufacturing.” A massive paradigm shift hit factories throughout the US and Europe. Mass production and scientific management techniques from the early 1900’s were questioned as Japanese manufacturing companies demonstrated that ‘Just-in-Time’ was a better paradigm. The widely adopted Japanese manufacturing concepts came to be known as ‘lean production’. Lean Thinking capitalizes on the intelligence of frontline workers, believing that they are the ones who should determine and continually improve the way they do their jobs. Lean puts main focus on people and communication – if people who produce the software are respected and they communicate efficiently, it is more likely that they will deliver good product and the final customer will be satisfied. In time, the abstractions behind lean production spread to logistics, and from there to the military, to construction, and to the service industry. As it turns out, principles of lean thinking are universal and have been applied successfully across many disciplines. Lean has been adopted by companies including Dell, FedEx, Lens Crafters, LLBean, SW Airlines, Digital River and eBay. Lean thinking got its name from a 1990’s best seller called The Machine That Changed the World : The Story of Lean Production. This book chronicles the movement of automobile manufacturing from craft production to mass production to lean production. Tom and Mary Poppendieck, that is.  Here’s one of their books: Implementing Lean Software Thinking: From Concept to Cash Our in-house presentations are supposed to run no more than 45 minutes.  I really cranked and got through my 87 slides in just under an hour. Of course, I had to cheat a little – I only covered the 7 principles and a single practice. In the next part of the series, we’ll dive into Principle #1: Eliminate Waste. And I am going to be a little obnoxious about listing my Lean and Kanban references with every series post.  The references are great and they deserve this sort of attention. 

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