Mercurial > repos > rdvelazquez > savage
diff test-data/savage-out1.txt @ 0:0e2450894b69 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/savage commit b'05321082a670b6d41ae9f329b2b54227eecac6ad\n'-dirty
| author | rdvelazquez |
|---|---|
| date | Fri, 07 Dec 2018 14:30:00 -0500 |
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| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/savage-out1.txt Fri Dec 07 14:30:00 2018 -0500 @@ -0,0 +1,110 @@ +Mon Nov 26 13:16:47 2018 + + +Input: +../stage_c/singles.fastq + + +../contig_overlaps.txt + +Output directory: +Maximum number of overlaps: 100000000 +Threads: 1 +Minimum clique size: 2 +Minimal overlap percentage: 0 +Minimal overlap length: 100 +Edge threshold: 0.995 +Overlap threshold (to be reconsidered): 0.9 +First it: 0 +Add duplicates: 0 +Resolve read orientations: 1 +Keep singletons of length at least: 100 +Enumerate cliques: 0 +Error correction: 0 +Ignore inclusions: 1 +Graph only: 0 +FNO: 1 +Mismatch prob: 0 +Original readcount: 2200 +Optimize: 0 +No inclusion overlaps: 0 +Merge contigs: 0 +Remove_multi_occ: 0 +Remove transitive edges: 1 +Minimal read length: 100 +Remove branches: 1 +Remove backedges: 1 + + +Output: +Vertex count: 4 +Edge count: 2 +Duplicate overlaps: 0 +Self-overlaps: 0 +Inclusions: 0 +Conflicting edges removed: 0 +Number of backedges (DFS): 0 + +Total clique count: 0 +Superread (singles) count: 1 +Superread (paired) count: 0 +Superread (trivials) count: 2 +Next overlaps count: 1 + +***************************************** + +Mon Nov 26 13:16:47 2018 + + +Input: +singles.fastq +None +None +overlaps.txt + +Output directory: +Maximum number of overlaps: 100000000 +Threads: 1 +Minimum clique size: 2 +Minimal overlap percentage: 0 +Minimal overlap length: 100 +Edge threshold: 0.995 +Overlap threshold (to be reconsidered): 0.9 +First it: 0 +Add duplicates: 0 +Resolve read orientations: 1 +Keep singletons of length at least: 100 +Enumerate cliques: 0 +Error correction: 0 +Ignore inclusions: 1 +Graph only: 0 +FNO: 1 +Mismatch prob: 0 +Original readcount: 2200 +Optimize: 0 +No inclusion overlaps: 0 +Merge contigs: 0 +Remove_multi_occ: 0 +Remove transitive edges: 1 +Minimal read length: 100 +Remove branches: 1 +Remove backedges: 1 + + +Output: +Vertex count: 3 +Edge count: 1 +Duplicate overlaps: 0 +Self-overlaps: 0 +Inclusions: 0 +Conflicting edges removed: 0 +Number of backedges (DFS): 0 + +Total clique count: 0 +Superread (singles) count: 1 +Superread (paired) count: 0 +Superread (trivials) count: 1 +Next overlaps count: 0 + +***************************************** +