Mercurial > repos > bgruening > tgsgapcloser
view test-data/test_01.log @ 0:86fa46d3ce2e draft default tip
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/tgsgapcloser commit dcc6bd722244004ed2d5ac49d53a4e1d71366b1a"
| author | bgruening |
|---|---|
| date | Sun, 14 Nov 2021 21:28:36 +0000 |
| parents | |
| children |
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/usr/local/bin/tgsgapcloserbin/tgsgapcloser --prefix output --contig2ont_paf output.fill.paf --ont_reads_a /tmp/tmp0waeaugc/files/f/4/4/dataset_f44c5ccd-786b-4085-ba86-9dea34a7c4b2.dat --min_match 300 --min_idy 0.300000 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : TGSGapCloser start now ... TGSGapCloser INFO UTC 2021/11/14 19:39:45 : LoadONTReads start now ... TGSGapCloser INFO UTC 2021/11/14 19:39:45 : LoadONTReads finish. used wall clock : 0 seconds, cpu time : 0.000380 seconds TGSGapCloser INFO UTC 2021/11/14 19:39:45 : LoadPAF start now ... TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the read2contig freq is 1 9 2 1 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the contig2read_num_freq freq is 1 2 9 1 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the contig2a_read_freq freq is 1 9 2 2 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : LoadPAF finish. used wall clock : 0 seconds, cpu time : 0.000138 seconds TGSGapCloser INFO UTC 2021/11/14 19:39:45 : LoadScaffInfo start now ... TGSGapCloser INFO UTC 2021/11/14 19:39:45 : LoadScaffInfo finish. used wall clock : 0 seconds, cpu time : 0.000028 seconds TGSGapCloser INFO UTC 2021/11/14 19:39:45 : ParseAllGap start now ... TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the overlap cheked caused failed is 0 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the gapsize cheked caused failed is 0 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the gap_total is 5 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the no_match is 4 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the no choose is 0 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the no common is 0 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the scaff_negotive_gap_size is 0 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the ont_negotive_gap_size is 0 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the common reads count freq for a gap 1 1 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the used idy freq is 41 1 54 1 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the correct oo reads count freq for a gap 1 1 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the filler choose count freq for a gap 1 1 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the one read provide filler choose count freq for a gap 1 1 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : >the cut error is 0 TGSGapCloser INFO UTC 2021/11/14 19:39:45 : ParseAllGap finish. used wall clock : 0 seconds, cpu time : 0.000165 seconds TGSGapCloser INFO UTC 2021/11/14 19:39:45 : PrintScaffInfo start now ... TGSGapCloser INFO UTC 2021/11/14 19:39:45 : PrintScaffInfo finish. used wall clock : 0 seconds, cpu time : 0.000045 seconds TGSGapCloser INFO UTC 2021/11/14 19:39:45 : TGSGapCloser finish. used wall clock : 0 seconds, cpu time : 0.000965 seconds