Mercurial > repos > devteam > picard
diff test-data/picard_CollectGcBiasMetrics_test1.tab @ 14:486d7500da69 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
| author | iuc |
|---|---|
| date | Mon, 16 Apr 2018 21:27:09 -0400 |
| parents | 08f69add4d06 |
| children |
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--- a/test-data/picard_CollectGcBiasMetrics_test1.tab Sat Jan 20 08:28:02 2018 -0500 +++ b/test-data/picard_CollectGcBiasMetrics_test1.tab Mon Apr 16 21:27:09 2018 -0400 @@ -1,110 +1,110 @@ ## htsjdk.samtools.metrics.StringHeader -# picard.analysis.CollectGcBiasMetrics CHART_OUTPUT=/tmp/tmp_TYiPX/files/000/dataset_5.dat SUMMARY_OUTPUT=/tmp/tmp_TYiPX/files/000/dataset_3.dat SCAN_WINDOW_SIZE=100 MINIMUM_GENOME_FRACTION=5.0E-5 IS_BISULFITE_SEQUENCED=true INPUT=/tmp/tmp_TYiPX/files/000/dataset_1.dat OUTPUT=/tmp/tmp_TYiPX/files/000/dataset_4.dat ASSUME_SORTED=true VERBOSITY=ERROR QUIET=true VALIDATION_STRINGENCY=LENIENT REFERENCE_SEQUENCE=localref.fa METRIC_ACCUMULATION_LEVEL=[ALL_READS] STOP_AFTER=0 COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json +# CollectGcBiasMetrics CHART_OUTPUT=/tmp/tmpYRm8q4/files/000/dataset_21.dat SUMMARY_OUTPUT=/tmp/tmpYRm8q4/files/000/dataset_19.dat SCAN_WINDOW_SIZE=100 MINIMUM_GENOME_FRACTION=5.0E-5 IS_BISULFITE_SEQUENCED=true INPUT=picard_CollectGcBiasMetrics_bam OUTPUT=/tmp/tmpYRm8q4/files/000/dataset_20.dat ASSUME_SORTED=true VERBOSITY=ERROR QUIET=true VALIDATION_STRINGENCY=LENIENT REFERENCE_SEQUENCE=localref.fa METRIC_ACCUMULATION_LEVEL=[ALL_READS] ALSO_IGNORE_DUPLICATES=false STOP_AFTER=0 COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json USE_JDK_DEFLATER=false USE_JDK_INFLATER=false ## htsjdk.samtools.metrics.StringHeader -# Started on: Sun Nov 27 10:39:24 CET 2016 +# Started on: Sat Apr 14 09:28:18 CEST 2018 ## METRICS CLASS picard.analysis.GcBiasDetailMetrics -ACCUMULATION_LEVEL GC WINDOWS READ_STARTS MEAN_BASE_QUALITY NORMALIZED_COVERAGE ERROR_BAR_WIDTH SAMPLE LIBRARY READ_GROUP -All Reads 0 0 118 20 0 0 -All Reads 1 0 0 0 0 0 -All Reads 2 0 0 0 0 0 -All Reads 3 0 0 0 0 0 -All Reads 4 0 0 0 0 0 -All Reads 5 0 0 0 0 0 -All Reads 6 0 0 0 0 0 -All Reads 7 0 0 0 0 0 -All Reads 8 0 0 0 0 0 -All Reads 9 0 0 0 0 0 -All Reads 10 0 0 0 0 0 -All Reads 11 0 0 0 0 0 -All Reads 12 0 0 0 0 0 -All Reads 13 0 0 0 0 0 -All Reads 14 0 0 0 0 0 -All Reads 15 0 0 0 0 0 -All Reads 16 0 0 0 0 0 -All Reads 17 0 0 0 0 0 -All Reads 18 0 0 0 0 0 -All Reads 19 0 0 0 0 0 -All Reads 20 0 0 0 0 0 -All Reads 21 0 0 0 0 0 -All Reads 22 0 0 0 0 0 -All Reads 23 0 0 0 0 0 -All Reads 24 2 0 0 0 0 -All Reads 25 15 0 0 0 0 -All Reads 26 13 0 0 0 0 -All Reads 27 18 0 0 0 0 -All Reads 28 50 5 21 4.843529 2.166092 -All Reads 29 47 0 0 0 0 -All Reads 30 63 0 0 0 0 -All Reads 31 97 4 20 1.997332 0.998666 -All Reads 32 167 3 23 0.870095 0.50235 -All Reads 33 178 4 22 1.088434 0.544217 -All Reads 34 225 8 22 1.722144 0.60887 -All Reads 35 291 5 22 0.832222 0.372181 -All Reads 36 391 1 21 0.123875 0.123875 -All Reads 37 506 4 24 0.382888 0.191444 -All Reads 38 570 0 0 0 0 -All Reads 39 640 0 0 0 0 -All Reads 40 729 0 0 0 0 -All Reads 41 846 1 24 0.057252 0.057252 -All Reads 42 1060 1 24 0.045694 0.045694 -All Reads 43 1182 13 22 0.532706 0.147746 -All Reads 44 1113 8 22 0.348142 0.123087 -All Reads 45 1161 7 20 0.29203 0.110377 -All Reads 46 1113 5 20 0.217589 0.097309 -All Reads 47 1035 8 23 0.374379 0.132363 -All Reads 48 956 9 23 0.455981 0.151994 -All Reads 49 913 1 24 0.053051 0.053051 -All Reads 50 785 5 22 0.308505 0.137968 -All Reads 51 607 5 22 0.398973 0.178426 -All Reads 52 436 104 22 11.553373 1.132901 -All Reads 53 354 13 23 1.778697 0.493322 -All Reads 54 288 0 0 0 0 -All Reads 55 232 6 21 1.252637 0.511387 -All Reads 56 133 0 0 0 0 -All Reads 57 108 2 24 0.89695 0.634239 -All Reads 58 65 0 0 0 0 -All Reads 59 38 0 0 0 0 -All Reads 60 29 0 0 0 0 -All Reads 61 10 0 0 0 0 -All Reads 62 2 0 0 0 0 -All Reads 63 0 0 0 0 0 -All Reads 64 0 0 0 0 0 -All Reads 65 0 0 0 0 0 -All Reads 66 0 0 0 0 0 -All Reads 67 0 0 0 0 0 -All Reads 68 0 0 0 0 0 -All Reads 69 0 0 0 0 0 -All Reads 70 0 0 0 0 0 -All Reads 71 0 0 0 0 0 -All Reads 72 0 0 0 0 0 -All Reads 73 0 0 0 0 0 -All Reads 74 0 0 0 0 0 -All Reads 75 0 0 0 0 0 -All Reads 76 0 0 0 0 0 -All Reads 77 0 0 0 0 0 -All Reads 78 0 0 0 0 0 -All Reads 79 0 0 0 0 0 -All Reads 80 0 0 0 0 0 -All Reads 81 0 0 0 0 0 -All Reads 82 0 0 0 0 0 -All Reads 83 0 0 0 0 0 -All Reads 84 0 0 0 0 0 -All Reads 85 0 0 0 0 0 -All Reads 86 0 0 0 0 0 -All Reads 87 0 0 0 0 0 -All Reads 88 0 0 0 0 0 -All Reads 89 0 0 0 0 0 -All Reads 90 0 0 0 0 0 -All Reads 91 0 0 0 0 0 -All Reads 92 0 0 0 0 0 -All Reads 93 0 0 0 0 0 -All Reads 94 0 0 0 0 0 -All Reads 95 0 0 0 0 0 -All Reads 96 0 0 0 0 0 -All Reads 97 0 0 0 0 0 -All Reads 98 0 0 0 0 0 -All Reads 99 0 0 0 0 0 -All Reads 100 0 0 0 0 0 +ACCUMULATION_LEVEL READS_USED GC WINDOWS READ_STARTS MEAN_BASE_QUALITY NORMALIZED_COVERAGE ERROR_BAR_WIDTH SAMPLE LIBRARY READ_GROUP +All Reads ALL 0 0 118 20 0 0 +All Reads ALL 1 0 0 0 0 0 +All Reads ALL 2 0 0 0 0 0 +All Reads ALL 3 0 0 0 0 0 +All Reads ALL 4 0 0 0 0 0 +All Reads ALL 5 0 0 0 0 0 +All Reads ALL 6 0 0 0 0 0 +All Reads ALL 7 0 0 0 0 0 +All Reads ALL 8 0 0 0 0 0 +All Reads ALL 9 0 0 0 0 0 +All Reads ALL 10 0 0 0 0 0 +All Reads ALL 11 0 0 0 0 0 +All Reads ALL 12 0 0 0 0 0 +All Reads ALL 13 0 0 0 0 0 +All Reads ALL 14 0 0 0 0 0 +All Reads ALL 15 0 0 0 0 0 +All Reads ALL 16 0 0 0 0 0 +All Reads ALL 17 0 0 0 0 0 +All Reads ALL 18 0 0 0 0 0 +All Reads ALL 19 0 0 0 0 0 +All Reads ALL 20 0 0 0 0 0 +All Reads ALL 21 0 0 0 0 0 +All Reads ALL 22 0 0 0 0 0 +All Reads ALL 23 0 0 0 0 0 +All Reads ALL 24 2 0 0 0 0 +All Reads ALL 25 15 0 0 0 0 +All Reads ALL 26 13 0 0 0 0 +All Reads ALL 27 18 0 0 0 0 +All Reads ALL 28 50 5 21 4.843529 2.166092 +All Reads ALL 29 47 0 0 0 0 +All Reads ALL 30 63 0 0 0 0 +All Reads ALL 31 97 4 20 1.997332 0.998666 +All Reads ALL 32 167 3 23 0.870095 0.50235 +All Reads ALL 33 178 4 22 1.088434 0.544217 +All Reads ALL 34 225 8 22 1.722144 0.60887 +All Reads ALL 35 291 5 22 0.832222 0.372181 +All Reads ALL 36 391 1 21 0.123875 0.123875 +All Reads ALL 37 506 4 24 0.382888 0.191444 +All Reads ALL 38 570 0 0 0 0 +All Reads ALL 39 640 0 0 0 0 +All Reads ALL 40 729 0 0 0 0 +All Reads ALL 41 846 1 24 0.057252 0.057252 +All Reads ALL 42 1060 1 24 0.045694 0.045694 +All Reads ALL 43 1182 13 22 0.532706 0.147746 +All Reads ALL 44 1113 8 22 0.348142 0.123087 +All Reads ALL 45 1161 7 20 0.29203 0.110377 +All Reads ALL 46 1113 5 20 0.217589 0.097309 +All Reads ALL 47 1035 8 23 0.374379 0.132363 +All Reads ALL 48 956 9 23 0.455981 0.151994 +All Reads ALL 49 913 1 24 0.053051 0.053051 +All Reads ALL 50 785 5 22 0.308505 0.137968 +All Reads ALL 51 607 5 22 0.398973 0.178426 +All Reads ALL 52 436 104 22 11.553373 1.132901 +All Reads ALL 53 354 13 23 1.778697 0.493322 +All Reads ALL 54 288 0 0 0 0 +All Reads ALL 55 232 6 21 1.252637 0.511387 +All Reads ALL 56 133 0 0 0 0 +All Reads ALL 57 108 2 24 0.89695 0.634239 +All Reads ALL 58 65 0 0 0 0 +All Reads ALL 59 38 0 0 0 0 +All Reads ALL 60 29 0 0 0 0 +All Reads ALL 61 10 0 0 0 0 +All Reads ALL 62 2 0 0 0 0 +All Reads ALL 63 0 0 0 0 0 +All Reads ALL 64 0 0 0 0 0 +All Reads ALL 65 0 0 0 0 0 +All Reads ALL 66 0 0 0 0 0 +All Reads ALL 67 0 0 0 0 0 +All Reads ALL 68 0 0 0 0 0 +All Reads ALL 69 0 0 0 0 0 +All Reads ALL 70 0 0 0 0 0 +All Reads ALL 71 0 0 0 0 0 +All Reads ALL 72 0 0 0 0 0 +All Reads ALL 73 0 0 0 0 0 +All Reads ALL 74 0 0 0 0 0 +All Reads ALL 75 0 0 0 0 0 +All Reads ALL 76 0 0 0 0 0 +All Reads ALL 77 0 0 0 0 0 +All Reads ALL 78 0 0 0 0 0 +All Reads ALL 79 0 0 0 0 0 +All Reads ALL 80 0 0 0 0 0 +All Reads ALL 81 0 0 0 0 0 +All Reads ALL 82 0 0 0 0 0 +All Reads ALL 83 0 0 0 0 0 +All Reads ALL 84 0 0 0 0 0 +All Reads ALL 85 0 0 0 0 0 +All Reads ALL 86 0 0 0 0 0 +All Reads ALL 87 0 0 0 0 0 +All Reads ALL 88 0 0 0 0 0 +All Reads ALL 89 0 0 0 0 0 +All Reads ALL 90 0 0 0 0 0 +All Reads ALL 91 0 0 0 0 0 +All Reads ALL 92 0 0 0 0 0 +All Reads ALL 93 0 0 0 0 0 +All Reads ALL 94 0 0 0 0 0 +All Reads ALL 95 0 0 0 0 0 +All Reads ALL 96 0 0 0 0 0 +All Reads ALL 97 0 0 0 0 0 +All Reads ALL 98 0 0 0 0 0 +All Reads ALL 99 0 0 0 0 0 +All Reads ALL 100 0 0 0 0 0