Mercurial > repos > kevyin > fastq_groomer_parallel
comparison README @ 0:18a08d476d5e
First upload 0.3.0
| author | kevyin |
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| date | Fri, 14 Sep 2012 01:18:16 -0400 |
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| -1:000000000000 | 0:18a08d476d5e |
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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 that the following conditions are met: | |
| 5 | |
| 6 Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. | |
| 7 Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the | |
| 8 documentation and/or other materials provided with the distribution. | |
| 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 | |
| 10 software without specific prior written permission. | |
| 11 | |
| 12 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, | |
| 13 THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS | |
| 14 BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE | |
| 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 | |
| 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 | |
| 17 SUCH DAMAGE. | |
| 18 | |
| 19 ################################################## | |
| 20 Installation: | |
| 21 #================================================# | |
| 22 | |
| 23 Set the number of threads to use edit fastq_groomer_parallel.xml: | |
| 24 Modify the last argument in the <command> tag, Default is 2 | |
| 25 | |
| 26 | |
| 27 Tested on -r e6444e7a1685 | |
| 28 This currently depends on the following galaxy_utils python library which should come with the default galaxy install | |
| 29 | |
| 30 More info: | |
| 31 from galaxy_utils.sequence.fastq import fastqReader, fastqVerboseErrorReader, fastqAggregator, fastqWriter | |
| 32 ################################################## |