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Top Forums Programming Run sed and awk in multiple files in adirectory Post 303018470 by Dieunel on Thursday 7th of June 2018 09:42:39 AM
Old 06-07-2018
Dear moderator


Thank you for yor assistance, I finally get the code and and since I have various files on my directory. With a for loop It can work on all my directory. Here is the code :



<<
Code:
for filename in ERR*_orfm.fna.*.test ; do
    last_seq=$(awk '{print $1}' $filename | tail -n1)
    seqname=$(basename $filename .test)
    outname="$seqname".first_out
    echo "cat $seqname | sed -e "1,/$last_seq/ d" | sed -ne '/^>/,$ p' > $outname"
done

>>




Regards




Moderator's Comments:
Mod Comment SERIOUSLY: Please use CODE tags as required by forum rules! You received an infraction for repeatedly ignoring polite requests to do so.

Last edited by RudiC; 06-07-2018 at 11:49 AM.. Reason: Added CODE tags.
 

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FUNC_NUM_ARGS(3)							 1							  FUNC_NUM_ARGS(3)

func_num_args - Returns the number of arguments passed to the function

SYNOPSIS
int func_num_args (void ) DESCRIPTION
Gets the number of arguments passed to the function. This function may be used in conjunction with func_get_arg(3) and func_get_args(3) to allow user-defined functions to accept variable- length argument lists. RETURN VALUES
Returns the number of arguments passed into the current user-defined function. CHANGELOG
+--------+---------------------------------------------------+ |Version | | | | | | | Description | | | | +--------+---------------------------------------------------+ | 5.3.0 | | | | | | | This function can now be used in parameter | | | lists. | | | | | 5.3.0 | | | | | | | If this function is called from the outermost | | | scope of a file which has been included by call- | | | ing include(3) or require(3) from within a func- | | | tion in the calling file, it now generates a | | | warning and returns -1. | | | | +--------+---------------------------------------------------+ ERRORS
/EXCEPTIONS Generates a warning if called from outside of a user-defined function. EXAMPLES
Example #1 func_num_args(3) example <?php function foo() { $numargs = func_num_args(); echo "Number of arguments: $numargs "; } foo(1, 2, 3); ?> The above example will output: Number of arguments: 3 Example #2 func_num_args(3) example before and after PHP 5.3 test.php <?php function foo() { include './fna.php'; } foo('First arg', 'Second arg'); ?> fna.php <?php $num_args = func_num_args(); var_export($num_args); ?> Output previous to PHP 5.3: 2 Output in PHP 5.3 and later will be something similar to: Warning: func_num_args(): Called from the global scope - no function context in /home/torben/Desktop/code/ml/fna.php on line 3 -1 NOTES
Note Because this function depends on the current scope to determine parameter details, it cannot be used as a function parameter in ver- sions prior to 5.3.0. If this value must be passed, the results should be assigned to a variable, and that variable should be passed. SEE ALSO
... syntax in PHP 5.6+, func_get_arg(3), func_get_args(3), ReflectionFunctionAbstract::getNumberOfParameters. PHP Documentation Group FUNC_NUM_ARGS(3)
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