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422 bytes added
, 10:55, 1 February 2016
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| MIN_NEIGHBOR_NUM = 500 | | MIN_NEIGHBOR_NUM = 500 |
| BEDFILE_IS_SORTED = True | | BEDFILE_IS_SORTED = True |
− | MOSRUN = mosbatch -E/tmp -i -m2000 -j20,43,122,135,137,138,149,151,153,154,155,156,162,163 sh -c | + | BATCHTYPE = slurm |
| + | BATCHOPTS = --partition=main --time=0:30:0 |
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| In the config file, there are several parameters to adjust: | | In the config file, there are several parameters to adjust: |
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| BEDFILE_IS_SORTED: True or false, depending on whether the BED files listed in the index file are sorted. | | BEDFILE_IS_SORTED: True or false, depending on whether the BED files listed in the index file are sorted. |
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| + | BATCHTYPE: We have three options for this parameter. When you run GREGOR on local machine, specify "local"; when run on MOSIX system, specify "mosix"; when run on SLURM system, specify "slurm". |
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| + | BATCHOPTS: This parameter works with BATCHTYPE when you specify "mosix" or "slurm". For example, when you define mosix, this parameter can be "-E/tmp -i -m2000 -j10,11,12,13,14,15,16 sh -c"; when you define "slurm", it can be "--partition=1000g --time=0:30:0" |
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| == Results Output == | | == Results Output == |