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	<title>Comments on: A script to simulate DNA sequence sets</title>
	<atom:link href="http://python.genedrift.org/2007/04/04/a-script-to-simulate-dna-sequence-sets/feed/" rel="self" type="application/rss+xml" />
	<link>http://python.genedrift.org/2007/04/04/a-script-to-simulate-dna-sequence-sets/</link>
	<description>a step-by-step guide to create Python applications in bioinformatics</description>
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		<title>By: Beginning Python for Bioinformatics &#187; Blog Archive &#187; Generating multiple sets of random DNA sequences with one script (and a bash one)</title>
		<link>http://python.genedrift.org/2007/04/04/a-script-to-simulate-dna-sequence-sets/comment-page-1/#comment-4607</link>
		<dc:creator>Beginning Python for Bioinformatics &#187; Blog Archive &#187; Generating multiple sets of random DNA sequences with one script (and a bash one)</dc:creator>
		<pubDate>Fri, 26 Oct 2007 17:15:53 +0000</pubDate>
		<guid isPermaLink="false">http://python.genedrift.org/2007/04/04/a-script-to-simulate-dna-sequence-sets/#comment-4607</guid>
		<description>[...] commenter, Dilmurat, gave me an idea about the script that generates random DNA sequence sets. Apparently it wasn&#8217;t clear that the script was [...]</description>
		<content:encoded><![CDATA[<p>[...] commenter, Dilmurat, gave me an idea about the script that generates random DNA sequence sets. Apparently it wasn&#8217;t clear that the script was [...]</p>
]]></content:encoded>
	</item>
	<item>
		<title>By: dilmurat</title>
		<link>http://python.genedrift.org/2007/04/04/a-script-to-simulate-dna-sequence-sets/comment-page-1/#comment-4605</link>
		<dc:creator>dilmurat</dc:creator>
		<pubDate>Fri, 26 Oct 2007 16:43:45 +0000</pubDate>
		<guid isPermaLink="false">http://python.genedrift.org/2007/04/04/a-script-to-simulate-dna-sequence-sets/#comment-4605</guid>
		<description>Hi Paulo: 

I think there is a slight problem to view above code with mozilla, that the reason confused me. Now I checked the code with Internet Explorer, that works fine. 

The viewing problem happens to the following code:
----
for i in range(setsize):
    rlength = random.randint(minlength, maxlength)
    sequenceset.append(simulate_sequence(rlength))
----
With mozilla, it shows:
---
for i in range(setsize):
    rlength = random.randint(minlength, maxlength)
sequenceset.append(simulate_sequence(rlength))
---

Thanks!
Dilmurat</description>
		<content:encoded><![CDATA[<p>Hi Paulo: </p>
<p>I think there is a slight problem to view above code with mozilla, that the reason confused me. Now I checked the code with Internet Explorer, that works fine. </p>
<p>The viewing problem happens to the following code:<br />
&#8212;-<br />
for i in range(setsize):<br />
    rlength = random.randint(minlength, maxlength)<br />
    sequenceset.append(simulate_sequence(rlength))<br />
&#8212;-<br />
With mozilla, it shows:<br />
&#8212;<br />
for i in range(setsize):<br />
    rlength = random.randint(minlength, maxlength)<br />
sequenceset.append(simulate_sequence(rlength))<br />
&#8212;</p>
<p>Thanks!<br />
Dilmurat</p>
]]></content:encoded>
	</item>
	<item>
		<title>By: nuin</title>
		<link>http://python.genedrift.org/2007/04/04/a-script-to-simulate-dna-sequence-sets/comment-page-1/#comment-4569</link>
		<dc:creator>nuin</dc:creator>
		<pubDate>Thu, 25 Oct 2007 20:55:51 +0000</pubDate>
		<guid isPermaLink="false">http://python.genedrift.org/2007/04/04/a-script-to-simulate-dna-sequence-sets/#comment-4569</guid>
		<description>Hi Dilmurat

In fact this script generates only one set of sequences. It was never intended to generate more than one set. The difference to the previous entry is that it can generate sequences with different lengths. 

Sorry if the explanation wasn&#039;t clearer. I will write a post and incorporate your ideas. 

Cheers
Paulo</description>
		<content:encoded><![CDATA[<p>Hi Dilmurat</p>
<p>In fact this script generates only one set of sequences. It was never intended to generate more than one set. The difference to the previous entry is that it can generate sequences with different lengths. </p>
<p>Sorry if the explanation wasn&#8217;t clearer. I will write a post and incorporate your ideas. </p>
<p>Cheers<br />
Paulo</p>
]]></content:encoded>
	</item>
	<item>
		<title>By: Dilmurat</title>
		<link>http://python.genedrift.org/2007/04/04/a-script-to-simulate-dna-sequence-sets/comment-page-1/#comment-4550</link>
		<dc:creator>Dilmurat</dc:creator>
		<pubDate>Thu, 25 Oct 2007 16:15:04 +0000</pubDate>
		<guid isPermaLink="false">http://python.genedrift.org/2007/04/04/a-script-to-simulate-dna-sequence-sets/#comment-4550</guid>
		<description>Hi Paulo:

No matter how I change the value of &#039;setsize&#039;, the above script always produces 1 set of sequence, that is supposed to produce the different sets of random sequences according to the changes of &#039;setsize&#039;. 

I have done a bit modification with above script after line 17, that works fine now. Please have a look and jive some suggestions.

------------
rlength = []

for i in range(setsize):
  rlength.append(random.randint(minlength, maxlength))

for length in rlength:
   sequenceset.append(simulate_sequence(length))
  
for sequence in sequenceset:
  print sequence
-------------------

regards!
Dilmurat</description>
		<content:encoded><![CDATA[<p>Hi Paulo:</p>
<p>No matter how I change the value of &#8216;setsize&#8217;, the above script always produces 1 set of sequence, that is supposed to produce the different sets of random sequences according to the changes of &#8216;setsize&#8217;. </p>
<p>I have done a bit modification with above script after line 17, that works fine now. Please have a look and jive some suggestions.</p>
<p>&#8212;&#8212;&#8212;&#8212;<br />
rlength = []</p>
<p>for i in range(setsize):<br />
  rlength.append(random.randint(minlength, maxlength))</p>
<p>for length in rlength:<br />
   sequenceset.append(simulate_sequence(length))</p>
<p>for sequence in sequenceset:<br />
  print sequence<br />
&#8212;&#8212;&#8212;&#8212;&#8212;&#8212;-</p>
<p>regards!<br />
Dilmurat</p>
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