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@ -185,7 +185,7 @@ Mean : 43117.75, Median : 44627.5, Mode : 4978
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@ -219,7 +219,7 @@ Q1 : 6.0, Q2 : 12, Q3 : 16.0
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@ -256,7 +256,7 @@ we call B the event "a blue ball is drawn" and R the event "a red ball is drawn"
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@ -331,7 +331,7 @@ Between 20 and 22 hours?</p>
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@ -277,7 +277,7 @@ $$</div>
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@ -286,7 +286,7 @@ maxuploadtarget=5000
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@ -365,7 +365,7 @@ Mayer multiple average 1.3789102045356179
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@ -279,7 +279,7 @@ Epoch 5/5
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@ -161,7 +161,7 @@ _________________________________________________________________
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@ -561,6 +561,7 @@
</div>
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<li><a href="./linux/sed.html">Basic operations with SED</a></li>
<li><a href="./linux/ramdisk.html">How to create a ramdisk?</a></li>
<li><a href="./linux/simple_bash_function.html">Create a simple bash function</a></li>
<li><a href="./linux/bashrc.html">What's inside my .bashrc ?</a></li>
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linux/Reloading_.bashrc.html
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@ -144,7 +144,7 @@ However, you can use the following command to do it </p>
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@ -167,7 +167,7 @@ none 0 0 0 - /config
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linux/get_ip_linux.html
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@ -256,7 +256,7 @@ wifi0 Link encap:UNSPEC HWaddr 5C-51-4F-41-7A-AD-00-00-00-00-00-00-00-00-00
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@ -172,7 +172,7 @@ USER;PID;%CPU;%MEM;VSZ;RSS;TTY;STAT;START;TIME;COMMAND</p>
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@ -169,7 +169,7 @@ dd <span class="k">if</span><span class="o">=</span>/dev/zero <span class="nv">o
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<section id="content" class="body">
<header>
<h1>
Basic operations with SED
</h1>
<ol class="breadcrumb">
<li>
<time class="published" datetime="2018-12-24T15:03:00+01:00">
24 décembre 2018
</time>
</li>
<li>Linux</li>
<li>Bash</li>
</ol>
</header>
<div class='article_content'>
<p>In this article we will learn about some of the main uses we can use <code>sed</code> for :
<em> replacing
</em> deleting
* printing </p>
<p>For this example we will learn how to remove the comments starting with the '#' sign and the blank lines for the following file :</p>
<div class="highlight"><pre><span></span>## Header of input.csv
#this file contains information I want to parse with a simple program.
#The header, the footer or any comment starting with a &quot;#&quot; will be removed
#The blank lines will also be removed
#img,processed,defaut
#bloc 1
0,a0000.tif,,
1,a0001.tif,True,&quot;(139, 63)(145, 91)&quot;
2,a0002.tif,True,&quot;(93, 72)(24, 162)(31, 64)&quot;
3,a0003.tif,,
4,a0004.tif,,
5,a0005.tif,,
6,a0006.tif,,
7,a0007.tif,,
8,a0008.tif,,
9,a0009.tif,True,&quot;(127, 80)(104, 60)(87, 63)(53, 78)(17, 126)&quot;
10,a0010.tif,,
11,a0011.tif,True,&quot;(39, 78)(84, 110)&quot; # a random comment passing by
#end of bloc 1
#bloc 2
12,a0012.tif,,
13,a0013.tif,,
14,a0014.tif,,
15,a0015.tif,True,&quot;(146, 65)(146, 89)(139, 146)(16, 68)&quot;
16,a0016.tif,True,&quot;(51, 59)(77, 69)(145, 78)(139, 112)(97, 123)(17, 148)&quot;
17,a0017.tif,,
#end of bloc 2
#bloc 3
18,a0018.tif,,
19,a0019.tif,,
20,a0020.tif,True,&quot;(57, 99)(12, 113)(27, 139)(16, 158)&quot;
21,a0021.tif,,
22,a0022.tif,,
23,a0023.tif,,
24,a0024.tif,,
25,a0025.tif,,
26,a0026.tif,,
#end of bloc 3
27,a0027.tif,True,&quot;(11, 86)(29, 74)(92, 68)(109, 129)(132, 104)&quot;
28,a0028.tif,,
29,a0029.tif,True,&quot;(128, 58)&quot;
30,a0030.tif,True,&quot;(133, 59)(99, 77)(111, 100)(115, 153)&quot;
31,a0031.tif,True,&quot;(43, 154)(27, 177)&quot;
## footer : end of file
</pre></div>
<h2>Anatomy of a SED command</h2>
<p>If we run the command : </p>
<div class="highlight"><pre><span></span>sed <span class="s2">&quot;&quot;</span> input.csv
</pre></div>
<p>Everything inside the brackets will be interpreted as a sed command. In our case, there is nothing hence the file will be printed to the consol without any modification.</p>
<p>You can put in the quotation mark one of sed's many commands for instance <code>s</code> that stands for substitude and is one of the most commonly used.</p>
<p>In our csv we use the comma separator, let's say that we want to change it to a semicolon. We would do :</p>
<div class="highlight"><pre><span></span>sed <span class="s2">&quot;s/,/;/&quot;</span> input.csv
</pre></div>
<p>so we have <code>s</code> meaning that we want to use the replace command followed by a <code>/</code> and the caracter(s) we want to replace followed by a <code>/</code> and the caracter(s) we want to replace it with and finally a <code>/</code>.</p>
<p>The result is the following :</p>
<div class="highlight"><pre><span></span>## Header
#this file contains information I want to parse with a simple program.
#The header; the footer or any comment starting with a &quot;#&quot; will be removed
#The blank lines will also be removed
#img;processed,defaut
#bloc 1
0;a0000.tif,,
1;a0001.tif,True,&quot;(139, 63)(145, 91)&quot;
2;a0002.tif,True,&quot;(93, 72)(24, 162)(31, 64)&quot;
3;a0003.tif,,
4;a0004.tif,,
5;a0005.tif,,
6;a0006.tif,,
7;a0007.tif,,
8;a0008.tif,,
9;a0009.tif,True,&quot;(127, 80)(104, 60)(87, 63)(53, 78)(17, 126)&quot;
10;a0010.tif,,
11;a0011.tif,True,&quot;(39, 78)(84, 110)&quot; # a random comment passing by
#end of bloc 1
#bloc 2
12;a0012.tif,,
13;a0013.tif,,
14;a0014.tif,,
15;a0015.tif,True,&quot;(146, 65)(146, 89)(139, 146)(16, 68)&quot;
16;a0016.tif,True,&quot;(51, 59)(77, 69)(145, 78)(139, 112)(97, 123)(17, 148)&quot;
17;a0017.tif,,
#end of bloc 2
#bloc 3
18;a0018.tif,,
19;a0019.tif,,
20;a0020.tif,True,&quot;(57, 99)(12, 113)(27, 139)(16, 158)&quot;
21;a0021.tif,,
22;a0022.tif,,
23;a0023.tif,,
24;a0024.tif,,
25;a0025.tif,,
26;a0026.tif,,
#end of bloc 3
27;a0027.tif,True,&quot;(11, 86)(29, 74)(92, 68)(109, 129)(132, 104)&quot;
28;a0028.tif,,
29;a0029.tif,True,&quot;(128, 58)&quot;
30;a0030.tif,True,&quot;(133, 59)(99, 77)(111, 100)(115, 153)&quot;
31;a0031.tif,True,&quot;(43, 154)(27, 177)&quot;
## footer : end of file
</pre></div>
<p>As you can see, only the first comma has been replaced, in order to repeat the command multiple times per line we need to specify the <code>g</code> option</p>
<div class="highlight"><pre><span></span>sed <span class="s2">&quot;s/,/;/g&quot;</span> input.csv
</pre></div>
<div class="highlight"><pre><span></span>## Header
#this file contains information I want to parse with a simple program.
#The header; the footer or any comment starting with a &quot;#&quot; will be removed
#The blank lines will also be removed
#img;processed;defaut
#bloc 1
0;a0000.tif;;
1;a0001.tif;True;&quot;(139; 63)(145; 91)&quot;
2;a0002.tif;True;&quot;(93; 72)(24; 162)(31; 64)&quot;
3;a0003.tif;;
4;a0004.tif;;
5;a0005.tif;;
6;a0006.tif;;
7;a0007.tif;;
8;a0008.tif;;
9;a0009.tif;True;&quot;(127; 80)(104; 60)(87; 63)(53; 78)(17; 126)&quot;
10;a0010.tif;;
11;a0011.tif;True;&quot;(39; 78)(84; 110)&quot; # a random comment passing by
#end of bloc 1
#bloc 2
12;a0012.tif;;
13;a0013.tif;;
14;a0014.tif;;
15;a0015.tif;True;&quot;(146; 65)(146; 89)(139; 146)(16; 68)&quot;
16;a0016.tif;True;&quot;(51; 59)(77; 69)(145; 78)(139; 112)(97; 123)(17; 148)&quot;
17;a0017.tif;;
#end of bloc 2
#bloc 3
18;a0018.tif;;
19;a0019.tif;;
20;a0020.tif;True;&quot;(57; 99)(12; 113)(27; 139)(16; 158)&quot;
21;a0021.tif;;
22;a0022.tif;;
23;a0023.tif;;
24;a0024.tif;;
25;a0025.tif;;
26;a0026.tif;;
#end of bloc 3
27;a0027.tif;True;&quot;(11; 86)(29; 74)(92; 68)(109; 129)(132; 104)&quot;
28;a0028.tif;;
29;a0029.tif;True;&quot;(128; 58)&quot;
30;a0030.tif;True;&quot;(133; 59)(99; 77)(111; 100)(115; 153)&quot;
31;a0031.tif;True;&quot;(43; 154)(27; 177)&quot;
## footer : end of file
</pre></div>
<h2>Removing comments</h2>
<p>In order to remove comments, we can replace the pattern of a comment by nothing. A commant starts with a # sign and is followed by an arbitrarly long chain of characters. In order to match this pattern, we will use a regular expression.</p>
<div class="highlight"><pre><span></span>sed <span class="s2">&quot;s/#.*//g&quot;</span> input.csv
</pre></div>
<p><code>#.*</code> means : find strings that start with a <code>#</code>, the <code>.</code> stands for any character, finally, the <code>*</code> means that the <code>.</code> can be repeated any number of times. That means that <code>sed</code> will look for a string starting with a # followed by any characters that come after in the line.</p>
<p>If we want to do something a bit cleaner, we can try to remove any whitespace before the comments as well. In order to do so, we will use the <code>\s</code> regular expression that represents a whitespace. If we want to make sure that we removed any whitespace before the comments, we will do <code>\s*</code></p>
<p>The final regular expression is then <code>\s*#.*</code> and it will then be replaced by nothing. </p>
<p>Finally, the command becomes </p>
<div class="highlight"><pre><span></span>sed <span class="s2">&quot;s/\s*#.*//g&quot;</span> input.csv
</pre></div>
<p>If we run that command, all our comments have disappeared </p>
<div class="highlight"><pre><span></span>0,a0000.tif,,
1,a0001.tif,True,&quot;(139, 63)(145, 91)&quot;
2,a0002.tif,True,&quot;(93, 72)(24, 162)(31, 64)&quot;
3,a0003.tif,,
4,a0004.tif,,
5,a0005.tif,,
6,a0006.tif,,
7,a0007.tif,,
8,a0008.tif,,
9,a0009.tif,True,&quot;(127, 80)(104, 60)(87, 63)(53, 78)(17, 126)&quot;
10,a0010.tif,,
11,a0011.tif,True,&quot;(39, 78)(84, 110)&quot;
12,a0012.tif,,
13,a0013.tif,,
14,a0014.tif,,
15,a0015.tif,True,&quot;(146, 65)(146, 89)(139, 146)(16, 68)&quot;
16,a0016.tif,True,&quot;(51, 59)(77, 69)(145, 78)(139, 112)(97, 123)(17, 148)&quot;
17,a0017.tif,,
18,a0018.tif,,
19,a0019.tif,,
20,a0020.tif,True,&quot;(57, 99)(12, 113)(27, 139)(16, 158)&quot;
21,a0021.tif,,
22,a0022.tif,,
23,a0023.tif,,
24,a0024.tif,,
25,a0025.tif,,
26,a0026.tif,,
27,a0027.tif,True,&quot;(11, 86)(29, 74)(92, 68)(109, 129)(132, 104)&quot;
28,a0028.tif,,
29,a0029.tif,True,&quot;(128, 58)&quot;
30,a0030.tif,True,&quot;(133, 59)(99, 77)(111, 100)(115, 153)&quot;
31,a0031.tif,True,&quot;(43, 154)(27, 177)&quot;
</pre></div>
<h2>Removing blank lines</h2>
<p>In order to remove the blank lines, we need to specify to <code>sed</code> a pattern corresponding to a blank line and use the <code>d</code> command where the <code>d</code> stands for delete. The delete command expects the pattern to the between /</p>
<p>Now let's define what pattern a blank line corresponds to. Since there is no symbol for blankness, we can do the following <code>^$</code>. <code>^</code> means the begining of a line and <code>$</code> corresponds to the end of a line.</p>
<p>So whenever we find a blank line we delete it. </p>
<div class="highlight"><pre><span></span>sed <span class="s2">&quot;/^</span>$<span class="s2">/ d&quot;</span> input.csv
</pre></div>
<div class="highlight"><pre><span></span>## Header
#this file contains information I want to parse with a simple program.
#The header, the footer or any comment starting with a &quot;#&quot; will be removed
#The blank lines will also be removed
#img,processed,defaut
#bloc 1
0,a0000.tif,,
1,a0001.tif,True,&quot;(139, 63)(145, 91)&quot;
2,a0002.tif,True,&quot;(93, 72)(24, 162)(31, 64)&quot;
3,a0003.tif,,
4,a0004.tif,,
5,a0005.tif,,
6,a0006.tif,,
7,a0007.tif,,
8,a0008.tif,,
9,a0009.tif,True,&quot;(127, 80)(104, 60)(87, 63)(53, 78)(17, 126)&quot;
10,a0010.tif,,
11,a0011.tif,True,&quot;(39, 78)(84, 110)&quot; # a random comment passing by
#end of bloc 1
#bloc 2
12,a0012.tif,,
13,a0013.tif,,
14,a0014.tif,,
15,a0015.tif,True,&quot;(146, 65)(146, 89)(139, 146)(16, 68)&quot;
16,a0016.tif,True,&quot;(51, 59)(77, 69)(145, 78)(139, 112)(97, 123)(17, 148)&quot;
17,a0017.tif,,
#end of bloc 2
#bloc 3
18,a0018.tif,,
19,a0019.tif,,
20,a0020.tif,True,&quot;(57, 99)(12, 113)(27, 139)(16, 158)&quot;
21,a0021.tif,,
22,a0022.tif,,
23,a0023.tif,,
24,a0024.tif,,
25,a0025.tif,,
26,a0026.tif,,
#end of bloc 3
27,a0027.tif,True,&quot;(11, 86)(29, 74)(92, 68)(109, 129)(132, 104)&quot;
28,a0028.tif,,
29,a0029.tif,True,&quot;(128, 58)&quot;
30,a0030.tif,True,&quot;(133, 59)(99, 77)(111, 100)(115, 153)&quot;
31,a0031.tif,True,&quot;(43, 154)(27, 177)&quot;
## footer : end of file
</pre></div>
<h3>combining the sed commands</h3>
<p>We can concatenate sed commands by separating them with a semicolon. Hence the final <code>sed</code> command will be :</p>
<div class="highlight"><pre><span></span>sed <span class="s2">&quot;s/\s*#.*//g;/^</span>$<span class="s2">/ d&quot;</span> input.csv
</pre></div>
<p>and the final output is </p>
<div class="highlight"><pre><span></span>0,a0000.tif,,
1,a0001.tif,True,&quot;(139, 63)(145, 91)&quot;
2,a0002.tif,True,&quot;(93, 72)(24, 162)(31, 64)&quot;
3,a0003.tif,,
4,a0004.tif,,
5,a0005.tif,,
6,a0006.tif,,
7,a0007.tif,,
8,a0008.tif,,
9,a0009.tif,True,&quot;(127, 80)(104, 60)(87, 63)(53, 78)(17, 126)&quot;
10,a0010.tif,,
11,a0011.tif,True,&quot;(39, 78)(84, 110)&quot;
12,a0012.tif,,
13,a0013.tif,,
14,a0014.tif,,
15,a0015.tif,True,&quot;(146, 65)(146, 89)(139, 146)(16, 68)&quot;
16,a0016.tif,True,&quot;(51, 59)(77, 69)(145, 78)(139, 112)(97, 123)(17, 148)&quot;
17,a0017.tif,,
18,a0018.tif,,
19,a0019.tif,,
20,a0020.tif,True,&quot;(57, 99)(12, 113)(27, 139)(16, 158)&quot;
21,a0021.tif,,
22,a0022.tif,,
23,a0023.tif,,
24,a0024.tif,,
25,a0025.tif,,
26,a0026.tif,,
27,a0027.tif,True,&quot;(11, 86)(29, 74)(92, 68)(109, 129)(132, 104)&quot;
28,a0028.tif,,
29,a0029.tif,True,&quot;(128, 58)&quot;
30,a0030.tif,True,&quot;(133, 59)(99, 77)(111, 100)(115, 153)&quot;
31,a0031.tif,True,&quot;(43, 154)(27, 177)&quot;
</pre></div>
<h3>Overwritting the file</h3>
<p>If we want to overwrite the result of <code>sed</code> on the input file, we need to add the option <code>-i</code>. So if you are running <code>sed</code> without <code>-i</code>, it is safe and won't alter your files.</p>
<div class="highlight"><pre><span></span>sed -i <span class="s2">&quot;s/\s*#.*//g;/^</span>$<span class="s2">/ d&quot;</span> input.csv
</pre></div>
</div>
<aside>
<div class="bug-reporting__panel">
<h3>Find an error or bug? Have a suggestion?</h3>
<p>Everything on this site is avaliable on GitHub. Head on over and <a href='https://github.com/redoules/redoules.github.io/issues/new'>submit an issue.</a> You can also message me directly by <a href='mailto:guillaume.redoules@gadz.org'>email</a>.</p>
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python/Creating_a_sqlite_database.html
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python/Iterating_over_a_dataframe.html
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python/sorting.html
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@ -5,7 +5,7 @@ xmlns="http://www.sitemaps.org/schemas/sitemap/0.9">
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tipuesearch_content.json
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