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Top Forums Shell Programming and Scripting Bash to move specific files from folders in find file Post 302981648 by greet_sed on Friday 16th of September 2016 12:31:44 PM
Old 09-16-2016
Hi,

Code:
NEWEST=`ls -tr1d "${MY_DIR}/"*.${FILEEXT} 2>/dev/null | tail -1`

Above code is not doing what you explained in your post.

You need to read line by line in out.txt file then find / list the files with *.bam extension , copy etc.

It may be done in oneliner , if you can add more description about structure of Folder1,Folder2 and /home/cmccabe/nfs/exportedReports with clear example.

if not, try like this:
Code:
cat out.txt
DIR1
DIR2
$ ls -a DIR1/
.  ..  123.bam  abc.bam  xyz.log
$ ls -a DIR2/
.  ..  cool.txt  me.bam

Sample code written here to update your script.

Code:
a=/home/cmccabe/nfs/exportedReports;DEST="/home/cmccabe/Desktop/NGS/API/$DATE";
while read line; do find $a/$line -name "*.bam" -exec cp {} $DEST \;
done < out.txt 
$ ls -a $DEST
.  ..  123.bam  abc.bam  me.bam


Last edited by greet_sed; 09-16-2016 at 01:56 PM.. Reason: Add sample code
This User Gave Thanks to greet_sed For This Post:
 

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DOM(3pm)						User Contributed Perl Documentation						  DOM(3pm)

NAME
XML::Generator::DOM - XML::Generator subclass for producing DOM trees instead of strings. SYNOPSIS
use XML::Generator::DOM; my $dg = XML::Generator::DOM->new(); my $doc = $dg->xml($dg->xmlcmnt("Test document."), $dg->foo({'baz' => 'bam'}, 42)); print $doc->toString; yields: <?xml version="1.0" standalone="yes"?> <!--Test document--> <foo baz="bam">42</foo> DESCRIPTION
XML::Generator::DOM subclasses XML::Generator in order to produce DOM trees instead of strings (see XML::Generator and XML::DOM). This module is still experimental and its semantics might change. Essentially, tag methods return XML::DOM::DocumentFragment objects, constructed either from a DOM document passed into the constructor or a default document that XML::Generator::DOM will automatically construct. Calling the xml() method will return this automatically constructed document and cause a fresh one to be constructed for future tag method calls. If you passed in your own document, you may not call the xml() method. Below, we just note the remaining differences in semantics between XML::Generator methods and XML::Generator::DOM methods. CONSTRUCTOR
These configuration options are accepted but have no effect on the semantics of the returned object: escape, pretty, conformance and empty. TAG METHODS
Subsequently, tag method semantics are somewhat different for this module compared to XML::Generator. The primary difference is that tag method return XML::DOM::DocumentFragment objects. Namespace and attribute processing remains the same, but remaining arguments to tag methods must either be text or other XML::DOM::DocumentFragment objects. No escape processing, syntax checking, or output control is done; this is all left up to XML::DOM. SPECIAL TAGS
All special tags are available by default with XML::Generator::DOM; you don't need to use 'conformance' => 'strict'. xmlpi(@args) Arguments will simply be concatenated and passed as the data to the XML::DOM::ProcessingInstruction object that is returned. xmlcmnt Escaping of '--' is done by XML::DOM::Comment, which replaces both hyphens with '&#45;'. An XML::DOM::Comment object is returned. xmldecl Returns an XML::DOM::XMLDecl object. Respects 'version', 'encoding' and 'dtd' settings in the object. xmldecl Returns an XML::DOM::DocumentType object. xmlcdata Returns an XML::DOM::CDATASection object. xml As described above, xml() can only be used when dom_document was not set in the object. The automatically created document will have its XML Declaration set and the arguments to xml() will be appended to it. Then a new DOM document is automatically generated and the old one is returned. This is the only way to get a DOM document from this module. perl v5.12.4 2004-03-23 DOM(3pm)
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