Mercurial > repos > iuc > mothur_classify_seqs

annotate test-data/mothur.1518613913.logfile @ 4:5780dd6cfec9 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
author iuc
date Wed, 14 Feb 2018 09:36:32 -0500
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5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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1 Linux version
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3 Using ReadLine
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5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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5 Running 64Bit Version
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5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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7 mothur v.1.39.5
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8 Last updated: 3/20/2017
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10 by
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11 Patrick D. Schloss
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13 Department of Microbiology & Immunology
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14 University of Michigan
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15 http://www.mothur.org
5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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17 When using, please cite:
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18 Schloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.
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5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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20 Distributed under the GNU General Public License
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5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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22 Type 'help()' for information on the commands that are available
5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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24 For questions and analysis support, please visit our forum at https://www.mothur.org/forum
5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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26 Type 'quit()' to exit program
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27 Interactive Mode
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5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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30 mothur > classify.svm(shared=final.tx.1.subsample.1.pick.shared,design=test.design, kernel=rbf)
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31 removing kernel linear
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32 removing kernel polynomial
5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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33 removing kernel sigmoid
5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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34 1
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35 transforming data to have zero mean and unit variance
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36 SVM-RFE round 1:
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37 44 unranked features
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38 failed to train SVM on labels A and B
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39 [ERROR]: std::exceptionRAM used: 0.00563049Gigabytes . Total Ram: 62.8475Gigabytes.
5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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5780dd6cfec9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
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41 has occurred in the ClassifySvmSharedCommand class function processSharedAndDesignData. Please contact Pat Schloss at mothur.bugs@gmail.com, and be sure to include the mothur.logFile with your inquiry.