Mercurial > repos > iuc > beagle
annotate test-data/test_output.log @ 0:553b27c30eb8 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
author | iuc |
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date | Sat, 03 Jul 2021 23:33:37 +0000 |
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rev | line source |
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0
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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1 beagle.21Apr21.304.jar (version 5.2) |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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2 Copyright (C) 2014-2021 Brian L. Browning |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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3 Enter "java -jar beagle.21Apr21.304.jar" to list command line argument |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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4 Start time: 08:46 PM GMT on 26 Jun 2021 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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5 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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6 Command line: java -Xmx989m -jar beagle.21Apr21.304.jar |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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7 gt=/tmp/tmpoahokk9w/files/e/9/3/dataset_e93c5cb3-373e-4432-80ab-47ff1068bc9f.dat |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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8 chrom=22:100- |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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9 ne=1000000 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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10 window=40.0 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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11 overlap=2.0 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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12 seed=1 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
diff
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13 err=0.02 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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14 burnin=3 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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15 iterations=12 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
diff
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16 phase-states=280 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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17 impute=true |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
diff
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18 imp-states=1600 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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19 imp-segment=6.0 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
diff
changeset
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20 imp-step=0.1 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
diff
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21 cluster=0.005 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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22 ap=false |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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23 gp=false |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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24 out=out |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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25 nthreads=1 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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26 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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27 No genetic map is specified: using 1 cM = 1 Mb |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
diff
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28 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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29 Reference samples: 0 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
diff
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30 Study samples: 191 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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31 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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32 Window 1 [22:20000086-20016908] |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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33 Reference markers: 223 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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34 Study markers: 223 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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35 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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36 Burnin iteration 1: 1 second |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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37 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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38 Burnin iteration 2: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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39 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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40 Burnin iteration 3: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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41 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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42 Phasing iteration 1: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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43 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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44 Phasing iteration 2: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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45 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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46 Phasing iteration 3: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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47 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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48 Phasing iteration 4: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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49 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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50 Phasing iteration 5: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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51 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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52 Phasing iteration 6: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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53 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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54 Phasing iteration 7: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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55 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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56 Phasing iteration 8: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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57 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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58 Phasing iteration 9: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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59 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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60 Phasing iteration 10: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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61 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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62 Phasing iteration 11: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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63 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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64 Phasing iteration 12: 0 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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65 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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66 Cumulative Statistics: |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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67 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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68 Study markers: 223 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
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69 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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70 Haplotype phasing time: 2 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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71 Total time: 3 seconds |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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72 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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73 End time: 08:46 PM GMT on 26 Jun 2021 |
553b27c30eb8
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beagle commit ccb3f8eaa99490f8513200e45fc59e5011fb41e8"
iuc
parents:
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74 beagle.21Apr21.304.jar finished |