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Top Forums Shell Programming and Scripting Bash script help - removing certain rows from .csv file Post 302797871 by MrTuxor on Tuesday 23rd of April 2013 10:19:29 AM
Old 04-23-2013
Bash script help - removing certain rows from .csv file

Hello Everyone,

I am trying to find a way to take a .csv file with 7 columns and a ton of rows (over 600,000) and remove the entire row if the cell in forth column is blank.

Just to give you a little background on why I am doing this (just in case there is an easier way), I am pulling information from a PCAP into a .csv file and I only want to view the rows from the .csv file if it lists something in the http.host (forth column) entry (i.e. google.com). If that entry is blank because it is not a http.host website then I would like to remove the row. By doing this it would seriously cut down on the amount of rows I have to review to make sure my users are not visiting sites that they should now be.

So far my script looks like this:
Code:
#/bin/bash

echo -n "What is the name of your PCAP file? "
read in_pcap

echo -n "What is the name of your CSV file? "
read out_csv

tshark -r "$in_pcap" -T fields -e frame.number -e ip.src -e ip.dst -e http.host -e frame.time -e frame.time_relative -E header=y -E separator=, > "$out_csv"

_____
I ran the script on a current PCAP and it wors like a charm getting the information I need from a pcap file to a csv file unfortunately I am running into the aforementioned blank row situation as every entry does not list a value in the http.host cell. In fact of the over 600,000 I am guessing there are only several hundred rows that I need. So adding to the script above (or creating a new script if need be) to remove rows with a blank entry in the forth column of every row would be the perfect solution however I am not sure how to do that. The condition that needs to be met for the loop (assuming a loop is the solution) for the loop to stop would be for each of the 7 columns to be blank a.k.a. the row after the last of the 600,000+ entries.

Can anyone help me edit my current script and or write a new script to loop over (or otherwise remove) blank entries?

Thanks in advance!

Last edited by Franklin52; 04-24-2013 at 04:15 AM.. Reason: Please use code tags
 

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csv(n)								  CSV processing							    csv(n)

__________________________________________________________________________________________________________________________________________________

NAME
csv - Procedures to handle CSV data. SYNOPSIS
package require Tcl 8.3 package require csv ?0.7.2? ::csv::iscomplete data ::csv::join values {sepChar ,} {delChar "} ::csv::joinlist values {sepChar ,} {delChar "} ::csv::joinmatrix matrix {sepChar ,} {delChar "} ::csv::read2matrix ?-alternate? chan m {sepChar ,} {expand none} ::csv::read2queue ?-alternate? chan q {sepChar ,} ::csv::report cmd matrix ?chan? ::csv::split ?-alternate? line {sepChar ,} {delChar "} ::csv::split2matrix ?-alternate? m line {sepChar ,} {expand none} ::csv::split2queue ?-alternate? q line {sepChar ,} ::csv::writematrix m chan {sepChar ,} {delChar "} ::csv::writequeue q chan {sepChar ,} {delChar "} _________________________________________________________________ DESCRIPTION
The csv package provides commands to manipulate information in CSV FORMAT (CSV = Comma Separated Values). COMMANDS
The following commands are available: ::csv::iscomplete data A predicate checking if the argument data is a complete csv record. The result is a boolean flag indicating the completeness of the data. The result is true if the data is complete. ::csv::join values {sepChar ,} {delChar "} Takes a list of values and returns a string in CSV format containing these values. The separator character can be defined by the caller, but this is optional. The default is ",". The quoting character can be defined by the caller, but this is optional. The default is '"'. ::csv::joinlist values {sepChar ,} {delChar "} Takes a list of lists of values and returns a string in CSV format containing these values. The separator character can be defined by the caller, but this is optional. The default is ",". The quoting character can be defined by the caller, but this is optional. The default is '"'. Each element of the outer list is considered a record, these are separated by newlines in the result. The ele- ments of each record are formatted as usual (via ::csv::join). ::csv::joinmatrix matrix {sepChar ,} {delChar "} Takes a matrix object following the API specified for the struct::matrix package and returns a string in CSV format containing these values. The separator character can be defined by the caller, but this is optional. The default is ",". The quoting character can be defined by the caller, but this is optional. The default is '"'. Each row of the matrix is considered a record, these are separated by newlines in the result. The elements of each record are formatted as usual (via ::csv::join). ::csv::read2matrix ?-alternate? chan m {sepChar ,} {expand none} A wrapper around ::csv::split2matrix (see below) reading CSV-formatted lines from the specified channel (until EOF) and adding them to the given matrix. For an explanation of the expand argument see ::csv::split2matrix. ::csv::read2queue ?-alternate? chan q {sepChar ,} A wrapper around ::csv::split2queue (see below) reading CSV-formatted lines from the specified channel (until EOF) and adding them to the given queue. ::csv::report cmd matrix ?chan? A report command which can be used by the matrix methods format 2string and format 2chan. For the latter this command delegates the work to ::csv::writematrix. cmd is expected to be either printmatrix or printmatrix2channel. The channel argument, chan, has to be present for the latter and must not be present for the first. ::csv::split ?-alternate? line {sepChar ,} {delChar "} converts a line in CSV format into a list of the values contained in the line. The character used to separate the values from each other can be defined by the caller, via sepChar, but this is optional. The default is ",". The quoting character can be defined by the caller, but this is optional. The default is '"'. If the option -alternate is specified a slightly different syntax is used to parse the input. This syntax is explained below, in the section FORMAT. ::csv::split2matrix ?-alternate? m line {sepChar ,} {expand none} The same as ::csv::split, but appends the resulting list as a new row to the matrix m, using the method add row. The expansion mode specified via expand determines how the command handles a matrix with less columns than contained in line. The allowed modes are: none This is the default mode. In this mode it is the responsibility of the caller to ensure that the matrix has enough columns to contain the full line. If there are not enough columns the list of values is silently truncated at the end to fit. empty In this mode the command expands an empty matrix to hold all columns of the specified line, but goes no further. The overall effect is that the first of a series of lines determines the number of columns in the matrix and all following lines are truncated to that size, as if mode none was set. auto In this mode the command expands the matrix as needed to hold all columns contained in line. The overall effect is that after adding a series of lines the matrix will have enough columns to hold all columns of the longest line encountered so far. ::csv::split2queue ?-alternate? q line {sepChar ,} The same as ::csv::split, but appending the resulting list as a single item to the queue q, using the method put. ::csv::writematrix m chan {sepChar ,} {delChar "} A wrapper around ::csv::join taking all rows in the matrix m and writing them CSV formatted into the channel chan. ::csv::writequeue q chan {sepChar ,} {delChar "} A wrapper around ::csv::join taking all items in the queue q (assumes that they are lists) and writing them CSV formatted into the channel chan. FORMAT
The format of regular CSV files is specified as [1] Each record of a csv file (comma-separated values, as exported e.g. by Excel) is a set of ASCII values separated by ",". For other languages it may be ";" however, although this is not important for this case as the functions provided here allow any separator character. [2] If and only if a value contains itself the separator ",", then it (the value) has to be put between "". If the value does not con- tain the separator character then quoting is optional. [3] If a value contains the character ", that character is represented by "". [4] The output string "" represents the value ". In other words, it is assumed that it was created through rule 3, and only this rule, i.e. that the value was not quoted. An alternate format definition mainly used by MS products specifies that the output string "" is a representation of the empty string. In other words, it is assumed that the output was generated out of the empty string by quoting it (i.e. rule 2), and not through rule 3. This is the only difference between the regular and the alternate format. The alternate format is activated through specification of the option -alternate to the various split commands. EXAMPLE
Using the regular format the record 123,"123,521.2","Mary says ""Hello, I am Mary""","" is parsed into the items a) 123 b) 123,521.2 c) Mary says "Hello, I am Mary" d) (the empty string) Using the alternate format the result is a) 123 b) 123,521.2 c) Mary says "Hello, I am Mary" d) " instead. As can be seen only item (d) is different, now a " instead of the empty string. BUGS, IDEAS, FEEDBACK This document, and the package it describes, will undoubtedly contain bugs and other problems. Please report such in the category csv of the Tcllib SF Trackers [http://sourceforge.net/tracker/?group_id=12883]. Please also report any ideas for enhancements you may have for either package and/or documentation. SEE ALSO
matrix, queue KEYWORDS
csv, matrix, package, queue, tcllib CATEGORY
Text processing COPYRIGHT
Copyright (c) 2002-2009 Andreas Kupries <andreas_kupries@users.sourceforge.net> csv 0.7.2 csv(n)
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