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sebhtml / ray

Ray -- Parallel genome assemblies for parallel DNA sequencing
http://denovoassembler.sf.net
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system tests #173

Closed sebhtml closed 11 years ago

sebhtml commented 11 years ago

Sun Apr 14 23:55:09 EDT 2013 Validating genomes (not necessary if ruby is available on the grid nodes). Sun Apr 14 23:58:16 EDT 2013 summary of system tests: SystemTests-2013-04-14-20-59-18.html Sun Apr 14 23:58:16 EDT 2013 validation entries: SystemTests-2013-04-14-20-59-18.validationEntries

sebhtml commented 11 years ago
DatasetNumber of contigsNumber of scaffoldsNumber of basesAverage contig lengthN50 contig lengthMaximum contig lengthGenome coverage breadthNumber of misassembled contigsNumber of incorrect scaffoldsNucleotide mismatchesNucleotide indels
coli.Ray 73 64 4603568 63062 118479 222309 0.9943 3 1 7 4
coli-interleaved.Ray 73 65 4603841 63066 114742 222309 0.9944 4 1 7 4
ecoli-MiSeq.Ray 84 80 4548781 54152 95817 269165 0.9772 1 1 22 6
L1-L3.Ray 8 4 5608474 701059 964748 1703584 0.9858 3 0 75 31
multiple-peaks.Ray 5 4 881713 176342 614024 614024 0.9993 1 0 0 0
pg2.Ray 6 6 871450 145241 612159 612159 0.9976 0 0 0 0
phix.Ray 1 1 5386 5386 5386 5386 1.0000 0 0 0 0
pseudomonas-interleaved-bz2.Ray 74 53 6231558 84210 233788 572438 0.9974 3 1 1 0
pseudomonas-p.Ray 102 98 6220231 60982 248130 580140 0.9958 0 1 45 2
pseudomonas-p-bz2-gz.Ray 103 99 6220351 60391 248130 580140 0.9958 0 1 45 2
pseudomonas-s.Ray 1951 1951 6031747 3091 4758 29440 0.9628 1 0 1 0
strept.Ray 104 96 2000718 19237 36431 128039 0.9843 0 1 0 0
strept-200.Ray 104 96 2000678 19237 36431 128039 0.9846 0 1 0 0
strept-300.Ray 71 61 2008075 28282 55479 182993 0.9839 0 0 1 0
strept-amos.Ray 104 96 2000678 19237 36431 128039 0.9846 0 1 0 0
strept-bz2.Ray 104 96 2000650 19237 36431 128039 0.9845 0 1 0 0
strept-interleaved.Ray 105 97 2001380 19060 36431 128039 0.9846 0 1 0 0
strept-interleaved-bz2.Ray 106 98 2001424 18881 36431 128039 0.9846 0 1 0 0
strept-simulated-errors.Ray 99 82 1997709 20178 37594 127936 0.9856 0 0 1 0
sebhtml commented 11 years ago

L1-L3.Ray has a regression.

sebhtml commented 11 years ago

Results for v2.1.0

https://github.com/sebhtml/ray/wiki/V2.1.0-systemtests

sebhtml commented 11 years ago

This issue is not reproducible

Contigs >= 100 nt Number: 12 Total length: 4662726 Average: 388560 N50: 489612 Median: 355985 Largest: 872794 Contigs >= 500 nt Number: 12 Total length: 4662726 Average: 388560 N50: 489612 Median: 355985 Largest: 872794 Scaffolds >= 100 nt Number: 2 Total length: 4691898 Average: 2345949 N50: 2603241 Median: 2345949 Largest: 2603241 Scaffolds >= 500 nt Number: 2 Total length: 4691898 Average: 2345949 N50: 2603241 Median: 2345949 Largest: 2603241

L1-L3.Ray & 12 & 2 & 4662726 & 388560 & 489612 & 872794 & 0.0000 & & & & \