Mercurial > repos > iuc > biscot
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planemo upload for repository https://github.com/bgruening/iuc/tree/master/tools/biscot commit cce7b9b092030d3bb23a706ca3bf2dece9c20b5f
| author | iuc |
|---|---|
| date | Fri, 06 Jan 2023 22:10:44 +0000 |
| parents | |
| children |
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# hostname=6d61d934e61b # $ cd /HybridScaffold; /RefAligner/amd2/RefAligner -o /data/jwd03f/main/053/913/53913897/working/align_final/bionano_bppAdjust_cmap_ngs_fasta_BNGcontigs_HYBRID_SCAFFOLD -stdout -stderr -i /data/jwd03f/main/053/913/53913897/working/assignAlignType/assignAlignType_q.cmap -ref /data/jwd03f/main/053/913/53913897/working/align_final/step2.hybrid.cmap -maxmem 250 -maxthreads 24 -maxvirtmem 250 -RAmem 3 1 -res 2.9 -FP 0.6 -FN 0.06 -sf 0.20 -sd 0.0 -sr 0.01 -extend 1 -outlier 0.0001 -endoutlier 0.001 -PVendoutlier -deltaX 6 -deltaY 6 -xmapchim 12 -hashgen 5 7 2.4 1.5 0.05 5.0 1 1 4 -hash -hashdelta 26 10 46 -hashMultiMatch 30 10 -insertThreads 24 -nosplit 2 -biaswt 0 -T 1e-10 -S -1000 -indel -PVres 2 -rres 0.9 -MaxSE 0.5 -HSDrange 1.0 -outlierBC -xmapUnique 14 -AlignRes 2. -outlierExtend 6 24 -Kmax 6 -resEstimate -BestRef 1 -f -mres 0.9 # CompileDir= /home/users/sqa01/RefAlignerBuild/branches/12432.12463rel/12432.12463rel CompileCmd=/opt/gcc-9.3.0/bin/g++ -B/opt/binutils-2.34 -fopenmp -Ofast -march=znver2 -mavx2 -mfpmath=sse -DUSE_PFLOAT=1 -DUSE_RFLOAT=1 -DUSE_SSE=1 -DUSE_MFLOAT=1 -DUSE_EPOW=2 -I/home/users8/tanantharaman/sleef-081120/build/include -I/opt/glibc-2.31/include -DUSE_STATIC -freciprocal-math -fno-signed-zeros -fno-trapping-math -fno-tree-vectorize -mtune=znver2 -fno-lto-odr-type-merging -DRELEASE=1 -std=gnu++98 -Wl,--dynamic-linker=/opt/glibc-2.31/lib/ld-linux-x86-64.so.2 -Wl,--rpath=/opt/glibc-2.31/lib -Wl,--rpath=/opt/gcc-9.3.0/lib64 -lsleefinline -lrt -lmvec -L/home/users8/tanantharaman/sleef-081120/build/lib -L/opt/glibc-2.31/lib -L/opt/gcc-9.3.0/lib64 -static -static-libstdc++ -static-libgcc -s SVNversion=12463 $Header: http://svn.bnm.local:81/svn/Informatics/RefAligner/branches/12432/RefAligner.cpp 12458 2021-10-24 00:56:45Z tanantharaman $ # FLAGS: USE_SSE=1 USE_AVX=1 USE_MIC=0 USE_PFLOAT=1 USE_RFLOAT=1 USE_MFLOAT=1 USE_EPOW=2 DEBUG=1 VERB=1 # CMAP File Version: 0.1 # Label Channels: 1 # Nickase Recognition Site 1: gctcttc # Number of Consensus Maps: 2 # StdDev & Coverage refer to the interval between current site and next site #h CMapId ContigLength NumSites SiteID LabelChannel Position StdDev Coverage Occurrence #f int float int int int float float float float 1 3879935.1 449 1 1 20.0 112.1 106.0 106.0 1 3879935.1 449 2 1 1679.6 290.0 108.0 106.0 1 3879935.1 449 3 1 45612.1 126.1 114.0 92.0 1 3879935.1 449 4 1 49245.1 205.8 116.0 100.0 1 3879935.1 449 5 1 68514.5 123.8 120.0 116.0 1 3879935.1 449 6 1 71807.2 139.9 126.0 118.0 1 3879935.1 449 7 1 77614.8 168.6 126.0 116.0 1 3879935.1 449 8 1 88645.4 147.4 126.0 104.0 1 3879935.1 449 9 1 95715.0 140.5 130.0 110.0 1 3879935.1 449 10 1 101612.6 182.6 132.0 118.0 1 3879935.1 449 11 1 115551.9 136.8 134.0 108.0 1 3879935.1 449 12 1 120842.6 155.7 136.0 128.0 1 3879935.1 449 13 1 129405.4 134.2 138.0 136.0 1 3879935.1 449 14 1 134289.6 133.8 138.0 136.0 1 3879935.1 449 15 1 139102.5 128.1 136.0 120.0 1 3879935.1 449 16 1 143032.3 216.3 134.0 130.0 1 3879935.1 449 17 1 164913.0 114.5 134.0 128.0 1 3879935.1 449 18 1 166898.9 109.4 126.0 72.0 1 3879935.1 449 19 1 168209.4 138.5 122.0 102.0 1 3879935.1 449 20 1 173784.8 151.9 124.0 114.0 1 3879935.1 449 21 1 181653.5 133.6 122.0 114.0 1 3879935.1 449 22 1 186435.3 175.5 122.0 108.0 1 3879935.1 449 23 1 198876.3 135.2 114.0 106.0 1 3879935.1 449 24 1 203905.3 116.1 114.0 108.0 1 3879935.1 449 25 1 206098.3 233.2 110.0 106.0 1 3879935.1 449 26 1 232472.3 127.9 102.0 100.0 1 3879935.1 449 27 1 236376.4 140.3 100.0 88.0 1 3879935.1 449 28 1 242248.5 141.5 100.0 98.0 1 3879935.1 449 29 1 248306.8 161.0 96.0 42.0 1 3879935.1 449 30 1 257864.3 137.2 98.0 84.0 1 3879935.1 449 31 1 263229.2 147.9 100.0 94.0 1 3879935.1 449 32 1 270386.6 122.3 100.0 76.0 1 3879935.1 449 33 1 273454.8 195.0 98.0 90.0 1 3879935.1 449 34 1 290153.8 167.9 100.0 90.0 1 3879935.1 449 35 1 301041.4 163.3 100.0 80.0 1 3879935.1 449 36 1 311025.8 143.1 104.0 90.0 1 3879935.1 449 37 1 317358.2 124.2 104.0 102.0 1 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84.0 1 3879935.1 449 81 1 634575.7 125.7 96.0 88.0 1 3879935.1 449 82 1 638144.1 116.9 88.0 52.0 1 3879935.1 449 83 1 640448.4 196.4 88.0 82.0 1 3879935.1 449 84 1 657466.4 183.2 86.0 76.0 1 3879935.1 449 85 1 671526.4 251.2 88.0 72.0 1 3879935.1 449 86 1 703054.8 177.5 96.0 74.0 1 3879935.1 449 87 1 715905.6 113.8 100.0 84.0 1 3879935.1 449 88 1 717785.9 113.8 98.0 86.0 1 3879935.1 449 89 1 719668.5 121.7 98.0 84.0 1 3879935.1 449 90 1 722650.2 119.5 100.0 96.0 1 3879935.1 449 91 1 725320.7 112.5 100.0 84.0 1 3879935.1 449 92 1 727030.6 158.8 100.0 90.0 1 3879935.1 449 93 1 736175.5 135.4 96.0 82.0 1 3879935.1 449 94 1 741250.4 132.1 98.0 98.0 1 3879935.1 449 95 1 745801.7 118.3 102.0 102.0 1 3879935.1 449 96 1 748312.3 132.5 102.0 102.0 1 3879935.1 449 97 1 752921.8 202.6 98.0 92.0 1 3879935.1 449 98 1 771409.1 117.6 94.0 78.0 1 3879935.1 449 99 1 773816.7 112.9 96.0 92.0 1 3879935.1 449 100 1 775581.2 171.1 94.0 84.0 1 3879935.1 449 101 1 787110.0 159.7 94.0 82.0 1 3879935.1 449 102 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