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Top Forums Shell Programming and Scripting Xargs to call python executable to process multiple bam files Post 303042547 by Aia on Saturday 28th of December 2019 10:11:23 PM
Old 12-28-2019
Code:
ls *dups.bam \
| xargs -I % echo --bam % \
| xargs python "${path_to_strelka}"/bin/configureStrelkaGermlineWorkflow.py \
--referenceFasta "${fasta}" --callRegions "${bed}" --exome \
--runDir "${dir}" "${dir}"/runWorkflow.py -m local -j 20

 

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Plack::Session::Store::File(3pm)			User Contributed Perl Documentation			  Plack::Session::Store::File(3pm)

NAME
Plack::Session::Store::File - Basic file-based session store SYNOPSIS
use Plack::Builder; use Plack::Middleware::Session; use Plack::Session::Store::File; my $app = sub { return [ 200, [ 'Content-Type' => 'text/plain' ], [ 'Hello Foo' ] ]; }; builder { enable 'Session', store => Plack::Session::Store::File->new( dir => '/path/to/sessions' ); $app; }; # with custom serializer/deserializer builder { enable 'Session', store => Plack::Session::Store::File->new( dir => '/path/to/sessions', # YAML takes it's args the opposite order serializer => sub { YAML::DumpFile( reverse @_ ) }, deserializer => sub { YAML::LoadFile( @_ ) }, ); $app; }; DESCRIPTION
This implements a basic file based storage for session data. By default it will use Storable to serialize and deserialize the data, but this can be configured easily. This is a subclass of Plack::Session::Store and implements its full interface. METHODS
new ( %params ) The %params can include dir, serializer and deserializer options. It will check to be sure that the dir is writable for you. dir This is the directory to store the session data files in, if nothing is provided then "/tmp" is used. serializer This is a CODE reference that implements the serialization logic. The CODE ref gets two arguments, the $value, which is a HASH reference to be serialized, and the $file_path to save it to. It is not expected to return anything. deserializer This is a CODE reference that implements the deserialization logic. The CODE ref gets one argument, the $file_path to load the data from. It is expected to return a HASH reference. BUGS
All complex software has bugs lurking in it, and this module is no exception. If you find a bug please either email me, or add the bug to cpan-RT. AUTHOR
Stevan Little <stevan.little@iinteractive.com> COPYRIGHT AND LICENSE
Copyright 2009, 2010 Infinity Interactive, Inc. <http://www.iinteractive.com> This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself. perl v5.12.4 2011-07-27 Plack::Session::Store::File(3pm)
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