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