comparison README @ 2:cac848910bd8

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author kevyin
date Fri, 14 Sep 2012 03:17:38 -0400
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1 Copyright (c) 2012, Kenneth Sabir
2 All rights reserved.
3
4 Redistribution and use in source and binary forms, with or without modification, are permitted provided
5 that the following conditions are met:
6
7 - Redistributions of source code must retain the above copyright notice, this list of conditions and
8 the following disclaimer.
9 - Redistributions in binary form must reproduce the above copyright notice, this list of conditions and
10 the following disclaimer in the documentation and/or other materials provided with the distribution.
11 - Neither the name of the Garvan Institute nor the names of its contributors may be used to endorse
12 or promote products derived from this software without specific prior written permission.
13
14 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES,
15 INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
16 ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT,
17 INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
18 SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY
19 THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING
20 IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
21
22 ##################################################
23 INSTALLATION:
24 #================================================#
25
26 Set the number of threads to use by editing:
27 fastq_groomer_parallel.xml:
28 Modify the last argument in the <command> tag, Default is 8
29
30 Tested on galaxy-dist -r e6444e7a1685
31 This currently depends on the following galaxy_utils python library which should come with the default galaxy install
32
33 More info:
34 from galaxy_utils.sequence.fastq import fastqReader, fastqVerboseErrorReader, fastqAggregator, fastqWriter
35 ##################################################