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1 Copyright (c) 2012, Kenneth Sabir
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2 Copyright (c) 2016, Kevin Ying
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3 All rights reserved.
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4
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5 Redistribution and use in source and binary forms, with or without modification, are permitted provided
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6 that the following conditions are met:
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7
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8 - Redistributions of source code must retain the above copyright notice, this list of conditions and
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9 the following disclaimer.
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10 - Redistributions in binary form must reproduce the above copyright notice, this list of conditions and
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11 the following disclaimer in the documentation and/or other materials provided with the distribution.
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12 - Neither the name of the Garvan Institute nor the names of its contributors may be used to endorse
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13 or promote products derived from this software without specific prior written permission.
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14
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15 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES,
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16 INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
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17 ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT,
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18 INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
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19 SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY
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20 THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING
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21 IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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22
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23 ##################################################
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24 INSTALLATION:
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25 #================================================#
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26
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27 Set the number of threads to use by editing:
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28 fastq_groomer_parallel.xml:
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29 Modify the last argument in the <command> tag, Default is 8
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30
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31 Tested on galaxy-dist -r e6444e7a1685
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32 This currently depends on the following galaxy_utils python library which should come with the default galaxy install
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33
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34 More info:
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35 from galaxy_utils.sequence.fastq import fastqReader, fastqVerboseErrorReader, fastqAggregator, fastqWriter
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36 v0.3.2 Explicit dependency on ``galaxy_sequence_utils``
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37 ##################################################
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