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DPT
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<code>Input saved to /scratch/irc/personal/robrechtc/tmp//RtmpB1FmY6/input: <br> data.rds<br> params.json<br>Attaching package: ‘dplyr’<br>The following objects are masked from ‘package:stats’:<br> filter, lag<br>The following objects are masked from ‘package:base’:<br> intersect, setdiff, setequal, union<br>Attaching package: ‘purrr’<br>The following object is masked from ‘package:jsonlite’:<br> flatten<br>Loading required namespace: cellTree<br>Computing LDA model using: maptpx<br>Filtering out rows with standard deviation < 0.5 (101 -> 100)...<br>Loading required namespace: maptpx<br>Estimating on a 92 document collection.<br>Fit and Bayes Factor Estimation for K = 2 ... 15<br>log posterior increase: 200.72, done.<br>log BF( 2 ) = 1438.47<br>log posterior increase: 64.85, done.<br>log BF( 3 ) = 1442.97<br>log posterior increase: 52.13, done.<br>log BF( 4 ) = 1551.19<br>log posterior increase: 26, done.<br>log BF( 5 ) = 1713.53<br>log posterior increase: 16.62, done.<br>log BF( 6 ) = 1921.41<br>log posterior increase: 16.38, done.<br>log BF( 7 ) = 2096.15<br>log posterior increase: 12.19, done.<br>log BF( 8 ) = 2258.25<br>log posterior increase: 17.06, done.<br>log BF( 9 ) = 2496.27<br>log posterior increase: 14.12, 8.04, done.<br>log BF( 10 ) = 2786.86<br>log posterior increase: 12.42, 6.49, done.<br>log BF( 11 ) = 3063.72<br>log posterior increase: 11.89, 5.46, 3.84, done.<br>log BF( 12 ) = 3377.74<br>log posterior increase: 12.65, 4.22, done.<br>log BF( 13 ) = 3723.2<br>log posterior increase: 13.42, 7.36, 3.17, 1.8, done.<br>log BF( 14 ) = 3912<br>log posterior increase: 7.83, 3.55, done.<br>log BF( 15 ) = 4377.37<br>Selected k = 15 topics<br>Using rooting method: longest.path<br>Using root vertex: 66<br>Adding branch #1:<br> [1] 26 90 65 60 9 31 64 62 83 76 14 29 7 52 41 61 69<br>Using branch width: 1.46 (width.scale.factor: 1.5)<br>Outliers: 0<br>Total number of branches: 1 (forks: 0)<br>Backbone fork merge (width: 1.46): 18 -> 18 <br>Ranking all cells...<br>Computing tree layout...output saved in /scratch/irc/personal/robrechtc/tmp//RtmpB1FmY6/output: <br> output.rds<br></code>
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<code>Input saved to /scratch/irc/personal/robrechtc/tmp//RtmpULaXP6/input: <br> data.rds<br> params.json<br>Attaching package: ‘dplyr’<br>The following objects are masked from ‘package:stats’:<br> filter, lag<br>The following objects are masked from ‘package:base’:<br> intersect, setdiff, setequal, union<br>Attaching package: ‘purrr’<br>The following object is masked from ‘package:jsonlite’:<br> flatten<br>Loading required namespace: cellTree<br>Computing LDA model using: maptpx<br>Filtering out rows with standard deviation < 0.5 (101 -> 101)...<br>Loading required namespace: maptpx<br>Estimating on a 94 document collection.<br>Fit and Bayes Factor Estimation for K = 2 ... 15<br>log posterior increase: 8.37, done.<br>log BF( 2 ) = 564.74<br>log posterior increase: 701.77, done.<br>log BF( 3 ) = 1548.52<br>log posterior increase: 60.97, done.<br>log BF( 4 ) = 1684.34<br>log posterior increase: 26.11, done.<br>log BF( 5 ) = 1836.86<br>log posterior increase: 21.51, done.<br>log BF( 6 ) = 2027.24<br>log posterior increase: 18.85, done.<br>log BF( 7 ) = 2267.94<br>log posterior increase: 17.52, done.<br>log BF( 8 ) = 2540.48<br>log posterior increase: 15.99, 9.34, done.<br>log BF( 9 ) = 2847.18<br>log posterior increase: 12.81, 5.55, done.<br>log BF( 10 ) = 3162.51<br>log posterior increase: 9.33, 5.4, done.<br>log BF( 11 ) = 3465.23<br>log posterior increase: 14.93, 5.78, done.<br>log BF( 12 ) = 3772.1<br>log posterior increase: 12.3, 5.49, 2.53, done.<br>log BF( 13 ) = 4081.94<br>log posterior increase: 9.63, 4.66, done.<br>log BF( 14 ) = 4435<br>log posterior increase: 8.77, 5.33, 3.66, 2.86, done.<br>log BF( 15 ) = 4662.25<br>Selected k = 15 topics<br>Using rooting method: longest.path<br>Using root vertex: 18<br>Adding branch #1:<br> [1] 88 20 80 51 79 63 76 68 25 72 24 92 48 26 4<br>Using branch width: 1.47 (width.scale.factor: 1.5)<br>Outliers: 0<br>Total number of branches: 1 (forks: 0)<br>Backbone fork merge (width: 1.47): 16 -> 16 <br>Ranking all cells...<br>Computing tree layout...output saved in /scratch/irc/personal/robrechtc/tmp//RtmpULaXP6/output: <br> output.rds<br></code>
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<code>File: /home/rcannood/Workspace/dynverse/dynbenchmark//derived/04-method_characterisation/method_testing/suite/celltree_maptpx/r2gridengine/20180803_183127_celltree_maptpx_tsJkrqSuRQ/log/log.3.e.txt<br></code>
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<code>Input saved to /scratch/irc/personal/robrechtc/tmp//RtmpeRsmZ6/input: <br> data.rds<br> params.json<br>Attaching package: ‘dplyr’<br>The following objects are masked from ‘package:stats’:<br> filter, lag<br>The following objects are masked from ‘package:base’:<br> intersect, setdiff, setequal, union<br>Attaching package: ‘purrr’<br>The following object is masked from ‘package:jsonlite’:<br> flatten<br>Loading required namespace: cellTree<br>Computing LDA model using: maptpx<br>Filtering out rows with standard deviation < 0.5 (101 -> 101)...<br>Loading required namespace: maptpx<br>Estimating on a 95 document collection.<br>Fit and Bayes Factor Estimation for K = 2 ... 15<br>log posterior increase: 142.55, done.<br>log BF( 2 ) = 1200.76<br>log posterior increase: 57.12, done.<br>log BF( 3 ) = 1200.36<br>log posterior increase: 44.39, done.<br>log BF( 4 ) = 1366.85<br>log posterior increase: 27.96, done.<br>log BF( 5 ) = 1551.69<br>log posterior increase: 18.97, done.<br>log BF( 6 ) = 1730.57<br>log posterior increase: 18.5, done.<br>log BF( 7 ) = 1976.33<br>log posterior increase: 18.86, 10.01, done.<br>log BF( 8 ) = 2259.76<br>log posterior increase: 19.77, done.<br>log BF( 9 ) = 2566.54<br>log posterior increase: 14.29, done.<br>log BF( 10 ) = 2853.04<br>log posterior increase: 12.71, 8.64, 4.76, done.<br>log BF( 11 ) = 3183.45<br>log posterior increase: 16, 7.4, 4.1, done.<br>log BF( 12 ) = 3514.08<br>log posterior increase: 15.01, 6.83, 4.35, done.<br>log BF( 13 ) = 3883.11<br>log posterior increase: 15.5, 5.77, 3.36, done.<br>log BF( 14 ) = 4220.01<br>log posterior increase: 16.64, 5.3, 3.3, done.<br>log BF( 15 ) = 4529.89<br>Selected k = 15 topics<br>Using rooting method: longest.path<br>Using root vertex: 11<br>Adding branch #1:<br> [1] 69 74 10 25 89 81 28 54 86 35 85 73 4 78 64 26<br>Using branch width: 1.45 (width.scale.factor: 1.5)<br>Outliers: 0<br>Total number of branches: 1 (forks: 0)<br>Backbone fork merge (width: 1.45): 17 -> 17 <br>Ranking all cells...<br>Computing tree layout...output saved in /scratch/irc/personal/robrechtc/tmp//RtmpeRsmZ6/output: <br> output.rds<br></code>
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