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    <id>tag:blogs.perl.org,2009-11-03:/users/leprevost//1349</id>
    <updated>2013-02-23T10:07:40Z</updated>
    <subtitle>A blog about the Perl programming language, Bioinformatics and Big (Bio) Data </subtitle>
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<entry>
    <title>if you build write it they will come</title>
    <link rel="alternate" type="text/html" href="http://blogs.perl.org/users/leprevost/2013/02/if-you-build-write-it-they-will-come.html" />
    <id>tag:blogs.perl.org,2013:/users/leprevost//1349.4367</id>

    <published>2013-02-22T20:56:37Z</published>
    <updated>2013-02-23T10:07:40Z</updated>

    <summary>After reading some of the posts about renaming Perl to something else I noticed that a commonly used argument was about the language visibility. Personally I don&apos;t want to take party here and restart all the discussion about that issue,...</summary>
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        <name>leprevost</name>
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        <![CDATA[<p>After reading some of the posts about renaming Perl to something else I noticed that a commonly used argument was about the language visibility. Personally I don't want to take party here and restart all the discussion about that issue, I think a lot of people more capable and committed to the language evolution already gave their opinion.</p>

<p>My point here is about that comment mentioned before, the language visibility and appearance. If the way how people see and remember Perl is the problem, I think that we can come up with some kind of solution without any dramatic changes in the language itself, and I'm going to tell you how, in my opinion, we could address this issue.</p>

<p>You see, here in Brazil we have 13 Perl Mongers groups, (one of them under my leadership), and once every year people from all parts of Brazil organize themselves to what we call 'Equinox' where the mongers are invited to write articles about something that they really enjoy about Perl, it could be how to use a specific module or how to implement something using Perl, the articles cover a whole range of uses and this has been going on for some years (since 2006 I guess). Sometimes we have themes and we get organized to cover all cool aspects and important points in using Perl.</p>

<p>I'm telling you that because this event we have here have its own repercussion, mainly because we can provide very good material for people in our native language, talking about cool and modern applications.</p>

<p>Now imagine if other Perl Mongers groups did the same thing at the same time in other countries, imagine if in the same week people from all around the world start posting articles in different languages about all the cool and modern stuff we have today about Perl and all the great stuff that composes what some like to call part of the Perl Renaissance. Perl is already really accessible to others, this could be our help to improve our language promotion.</p>

<p>We already have one of the most organized and active programming comunities aroud there and doing that will prove that we have lots of people working with Perl and that our language is far from being dead.</p>]]>
        
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<entry>
    <title>YAPC::Brasil 2012 Starts Tomorrow</title>
    <link rel="alternate" type="text/html" href="http://blogs.perl.org/users/leprevost/2012/10/yapcbrasil-2012-starts-tomorrow.html" />
    <id>tag:blogs.perl.org,2012:/users/leprevost//1349.3969</id>

    <published>2012-10-18T18:28:35Z</published>
    <updated>2012-10-18T18:34:29Z</updated>

    <summary>The 2012 edition of the YAPC::Brasil will start tomorrow. We will have lots of good subjects being presented covering different areas as big data, open data, data journalism, Perl hacking and bioinformatics. There are already representants from 4 local Perl...</summary>
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        <![CDATA[<p>The 2012 edition of the YAPC::Brasil will start tomorrow. We will have lots of good subjects being presented covering different areas as big data, open data, data journalism, Perl hacking and bioinformatics. There are already representants from 4 local Perl Mongers groups and from 10 different countries, including Brazil. Check the <a href="http://yapcbrasil.org.br/2012/">website</a> for more informations.</p>]]>
        
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</entry>

<entry>
    <title>Scientific papers and softwares</title>
    <link rel="alternate" type="text/html" href="http://blogs.perl.org/users/leprevost/2012/07/scientific-papers-and-softwares.html" />
    <id>tag:blogs.perl.org,2012:/users/leprevost//1349.3535</id>

    <published>2012-07-12T20:11:59Z</published>
    <updated>2012-07-12T20:30:52Z</updated>

    <summary>This week I recieved from a friend researcher a paper from the scientific journal Bioinformatics. The journal is very famous among bioinformaticians and it describes itself as &apos;The leading journal in its field&apos;. I&apos;m not gonna specify who is the...</summary>
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        <![CDATA[<p>This week I recieved from a friend researcher a paper from the scientific journal Bioinformatics. The journal is very famous among bioinformaticians and it describes itself as 'The leading journal in its field'. I'm not gonna specify who is the author or what is the name of the paper because I don't think necessary. In a simple way, the paper is about a software written in Perl designed to increase the performance of a database searching using protein mass-spectra.<br />
I became interested so I downloaded the .rar, what I saw was 7 .pl scripts, 2 .xml and a readme file telling me the right order of execution and the correct inputs and outputs. The first impression I had was not good, there was no organization at all, the documentation was limited to comments above functions and the most important, the authors did not made test files. The scripts were a little messy too, no 'warnings' and 'strict' pragmas were used and some scripts weren't even indented.<br />
My point here is that I think scientific journals should have better peer-review systems for papers based on softwares, specially those between biology and informatics, I know that it could be hard for someone who don't code in Perl to see some of those points, but good practices are a common thing among all languages. In scientific projects if bad laboratory work can be refused why can't bad coding be refused as well? This kind of project became a publication in a scientific journal and with this software I can't have sure that it works exactly like the authors described and I can't know if I will have reproductible results.<br />
Good practices in software development are as important as laboratory good practices, everyone should respect it.</p>]]>
        
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</entry>

<entry>
    <title>Hello World</title>
    <link rel="alternate" type="text/html" href="http://blogs.perl.org/users/leprevost/2012/06/hello-world.html" />
    <id>tag:blogs.perl.org,2012:/users/leprevost//1349.3330</id>

    <published>2012-06-01T13:32:00Z</published>
    <updated>2012-06-01T16:30:31Z</updated>

    <summary>OK, so this is my first attempt to write a blog, I hope this works. I like Perl (a lot) I like Bioinformatics and Computational Biology (yes I&apos;m a biologist and I&apos;m also a systems analyst), and now I decided...</summary>
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        <name>leprevost</name>
        <uri>http://www.leprevost.com.br</uri>
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    <content type="html" xml:lang="en" xml:base="http://blogs.perl.org/users/leprevost/">
        <![CDATA[<p>OK, so this is my first attempt to write a blog, I hope this works. I like Perl (a lot) I like Bioinformatics and Computational Biology (yes I'm a biologist and I'm also a systems analyst), and now I decided that I like Big Data as well. Hope to write a little about those subjects.</p>]]>
        
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