Mercurial > repos > iuc > mageck_gsea

annotate test-data/out.pathway.log.txt @ 6:b946929d31c4 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit e9c464070ad7c01b830345a550477e8dfdcac5ae"
author iuc
date Wed, 01 Apr 2020 06:18:19 -0400
parents d95eae71878e
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
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
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
2 INFO @ Mon, 12 Feb 2018 04:19:29: Welcome to MAGeCK v0.5.7. Command: pathway
d95eae71878e 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
d95eae71878e 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
d95eae71878e 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:
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
6 INFO @ Mon, 12 Feb 2018 04:19:29: GMT file: /tmp/tmpd9LSrs/files/000/dataset_20.dat
d95eae71878e 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
d95eae71878e 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
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
9 INFO @ Mon, 12 Feb 2018 04:19:29: pathway size:1
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
10 INFO @ Mon, 12 Feb 2018 04:19:29: rank size:101
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
11 INFO @ Mon, 12 Feb 2018 04:19:29: Permutations:1000
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
12 INFO @ Mon, 12 Feb 2018 04:19:29: .
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
13 INFO @ Mon, 12 Feb 2018 04:19:29:
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
14 INFO @ Mon, 12 Feb 2018 04:19:29: End command message.
d95eae71878e 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
d95eae71878e 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
d95eae71878e 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:
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
18 INFO @ Mon, 12 Feb 2018 04:19:29: GMT file: /tmp/tmpd9LSrs/files/000/dataset_20.dat
d95eae71878e 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
d95eae71878e 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
d95eae71878e 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
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
22 INFO @ Mon, 12 Feb 2018 04:19:29: rank size:101
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
23 INFO @ Mon, 12 Feb 2018 04:19:29: Permutations:1000
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
24 INFO @ Mon, 12 Feb 2018 04:19:29: .
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
25 INFO @ Mon, 12 Feb 2018 04:19:29:
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
26 INFO @ Mon, 12 Feb 2018 04:19:29: End command message.
d95eae71878e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mageck commit 71cef018eec5ee7ff7f3853599c027e80e2637fe
iuc
parents:
diff changeset
27 INFO @ Mon, 12 Feb 2018 04:19:29: Running command: rm sample1.pathway.low.tmp
d95eae71878e 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
d95eae71878e 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
d95eae71878e 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