Mercurial > repos > iuc > mageck_count

annotate test-data/out.pathway.log.txt @ 6:3edbd1ff5602 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 0c76d2d8677e66d4f76ac748614c7911f298758c
author iuc
date Sat, 05 Jan 2019 05:48:56 -0500
parents b80c0e046539
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b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
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1 INFO @ Mon, 12 Feb 2018 04:19:29: Parameters: /home/maria/miniconda3/envs/mulled-v1-b1e6893952d2d7e4d51a13d040adcd7bea052bfdc57a24d59056014db875e749/bin/mageck pathway --gene-ranking /tmp/tmpd9LSrs/files/000/dataset_19.dat --gmt-file /tmp/tmpd9LSrs/files/000/dataset_20.dat -n sample1 --method gsea --sort-criteria neg --ranking-column 2 --ranking-column-2 8 --pathway-alpha 0.25 --permutation 1000
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
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2 INFO @ Mon, 12 Feb 2018 04:19:29: Welcome to MAGeCK v0.5.7. Command: pathway
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
3 INFO @ Mon, 12 Feb 2018 04:19:29: GSEA command for negative selection: mageckGSEA -s -c 2 -p 1000 -g "/tmp/tmpd9LSrs/files/000/dataset_20.dat" -r "/tmp/tmpd9LSrs/files/000/dataset_19.dat" -o sample1.pathway.low.txt
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
4 INFO @ Mon, 12 Feb 2018 04:19:29: Running command: mageckGSEA -s -c 2 -p 1000 -g "/tmp/tmpd9LSrs/files/000/dataset_20.dat" -r "/tmp/tmpd9LSrs/files/000/dataset_19.dat" -o sample1.pathway.low.txt
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
5 INFO @ Mon, 12 Feb 2018 04:19:29: Command message:
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
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6 INFO @ Mon, 12 Feb 2018 04:19:29: GMT file: /tmp/tmpd9LSrs/files/000/dataset_20.dat
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
7 INFO @ Mon, 12 Feb 2018 04:19:29: Rank file: /tmp/tmpd9LSrs/files/000/dataset_19.dat
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
8 INFO @ Mon, 12 Feb 2018 04:19:29: Output file: sample1.pathway.low.txt
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
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9 INFO @ Mon, 12 Feb 2018 04:19:29: pathway size:1
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
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10 INFO @ Mon, 12 Feb 2018 04:19:29: rank size:101
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
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11 INFO @ Mon, 12 Feb 2018 04:19:29: Permutations:1000
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
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12 INFO @ Mon, 12 Feb 2018 04:19:29: .
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
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13 INFO @ Mon, 12 Feb 2018 04:19:29:
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
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14 INFO @ Mon, 12 Feb 2018 04:19:29: End command message.
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
15 INFO @ Mon, 12 Feb 2018 04:19:29: GSEA command for positive selection: mageckGSEA -s -c 8 -p 1000 -g "/tmp/tmpd9LSrs/files/000/dataset_20.dat" -r "/tmp/tmpd9LSrs/files/000/dataset_19.dat" -o sample1.pathway.high.txt
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
16 INFO @ Mon, 12 Feb 2018 04:19:29: Running command: mageckGSEA -s -c 8 -p 1000 -g "/tmp/tmpd9LSrs/files/000/dataset_20.dat" -r "/tmp/tmpd9LSrs/files/000/dataset_19.dat" -o sample1.pathway.high.txt
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
17 INFO @ Mon, 12 Feb 2018 04:19:29: Command message:
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
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18 INFO @ Mon, 12 Feb 2018 04:19:29: GMT file: /tmp/tmpd9LSrs/files/000/dataset_20.dat
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
19 INFO @ Mon, 12 Feb 2018 04:19:29: Rank file: /tmp/tmpd9LSrs/files/000/dataset_19.dat
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
20 INFO @ Mon, 12 Feb 2018 04:19:29: Output file: sample1.pathway.high.txt
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
21 INFO @ Mon, 12 Feb 2018 04:19:29: pathway size:1
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
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22 INFO @ Mon, 12 Feb 2018 04:19:29: rank size:101
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
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23 INFO @ Mon, 12 Feb 2018 04:19:29: Permutations:1000
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
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24 INFO @ Mon, 12 Feb 2018 04:19:29: .
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
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25 INFO @ Mon, 12 Feb 2018 04:19:29:
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
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26 INFO @ Mon, 12 Feb 2018 04:19:29: End command message.
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
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27 INFO @ Mon, 12 Feb 2018 04:19:29: Running command: rm sample1.pathway.low.tmp
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
28 INFO @ Mon, 12 Feb 2018 04:19:29: Running command: rm sample1.pathway.high.tmp
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
29 INFO @ Mon, 12 Feb 2018 04:19:29: Running command: rm sample1.pathway.low.txt
b80c0e046539 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
30 INFO @ Mon, 12 Feb 2018 04:19:29: Running command: rm sample1.pathway.high.txt