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worker_processes  1;

error_log  logs/error.log;


events {
    worker_connections  1024;
}

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Step 10 : RUN make test
 ---> Running in 389178ea0b21
if [ ! -d bin ]; then mkdir -p bin; fi
if [ ! -d lib ]; then mkdir -p lib; fi
if [ ! -d obj ]; then mkdir -p obj; fi
if [ ! -d obj/unittest ]; then mkdir -p obj/unittest; fi
if [ ! -d include ]; then mkdir -p include; fi
if [ ! -d cpp ]; then mkdir -p cpp; fi
/bin/sh: 1: git: not foundecho "#define VG_GIT_VERSION \"unknown\"" > include/vg_git_version.hpp

NickSto

$ vg index -p --edge-max 3 -k 11 -x nvc-debug.8001-8256.xg -g nvc-debug.8001-8256.gcsa nvc-debug.8001-8256.vg
Saving index to disk...
 loading graph                  [=====================================================================================================]100.0%
 processing kmers of nvc-debug. [=====================================================================================================]100.0%
InputGraph::InputGraph(): 504202 kmers in 1 file(s)
InputGraph::read(): Read 504202 11-mers from .vg-kmers-tmp-XXTYw8qM
InputGraph::readKeys(): 254968 unique keys
InputGraph::read(): Read 504202 11-mers from .vg-kmers-tmp-XXTYw8qM
InputGraph::readFrom(): 33488 unique from nodes
InputGraph::read(): Read 504202 11-mers from .vg-kmers-tmp-XXTYw8qM

NickSto

$ vg index -p --edge-max 3 -k 11 -x nvc-debug.7752-8000.xg -g nvc-debug.7752-8000.gcsa nvc-debug.7752-8000.vg
Saving index to disk...
 loading graph                  [=====================================================================================================]100.0%
 processing kmers of nvc-debug. [=====================================================================================================]100.0%
InputGraph::InputGraph(): 2156576 kmers in 1 file(s)
InputGraph::read(): Read 2156576 11-mers from .vg-kmers-tmp-XXM0k7nm
InputGraph::readKeys(): 737698 unique keys
InputGraph::read(): Read 2156576 11-mers from .vg-kmers-tmp-XXM0k7nm
InputGraph::readFrom(): 33562 unique from nodes
InputGraph::read(): Read 2156576 11-mers from .vg-kmers-tmp-XXM0k7nm

NickSto

BCALM 2, git commit d47cf58
setting storage type to hdf5
bcalm_algo params, prefix:k21a10/SC8C1.bcalm.unitigs.fa k:21 a:10 minsize:10 threads:48 mintype:1
DSK used 1 passes and 48 partitions

Iterated 339851 kmers, among them 69358 were doubled

In this superbucket (containing 48 active minimizers),
                  sum of time spent in lambda's: 31223.5 msecs
                                 longest lambda: 706.7 msecs

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[Approximating frequencies of minimizers ]  0    %   elapsed:   0 min 0  sec   remaining:   0 min 0  sec   cpu:  -1.0 %   mem: [  17,   17,   17] MB 
[Approximating frequencies of minimizers ]  100  %   elapsed:   0 min 4  sec   remaining:   0 min 0  sec   cpu: 100.0 %   mem: [  17,   17,   17] MB 
[Approximating frequencies of minimizers ]  100  %   elapsed:   0 min 4  sec   remaining:   0 min 0  sec   cpu: 100.0 %   mem: [  17,   17,   17] MB 
[Approximating frequencies of minimizers ]  100  %   elapsed:   0 min 4  sec   remaining:   0 min 0  sec   cpu: 100.0 %   mem: [  17,   17,   17] MB 
[Approximating frequencies of minimizers ]  100  %   elapsed:   0 min 4  sec   remaining:   0 min 0  sec   cpu: 100.0 %   mem: [  17,   17,   17] MB 
[Approximating frequencies of minimizers ]  100  %   elapsed:   0 min 4  sec   remaining:   0 min 0  sec   cpu: 100.0 %   mem: [  17,   17,   17] MB 
[Approximating frequencies of minimizers ]  100  %   elapsed:   0 min 4  sec   remaining:   0 min 0  sec   cpu: 100.0 %   m

NickSto

$ ./simulate-travis.py --git-range HEAD
Using config file /home/me/.config/bioconda/conf.yml, which has the following contents:
{'CONDA_ROOT': '/tmp/miniconda', 'CONDARC': '/tmp/miniconda/condarc'}
+ bioconda-utils lint recipes config.yml --git-range HEAD
18:45:31 BIOCONDA INFO Recipes newly unblacklisted:

18:45:31 BIOCONDA INFO Recipes to consider according to git: 
recipes/dunovo
 recipes/dunovo
18:45:31 BIOCONDA INFO Recipes to lint:

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#!/usr/bin/env python3
from __future__ import division
from __future__ import print_function
from __future__ import absolute_import
from __future__ import unicode_literals
import sys
import json
import errno
import argparse

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class QueryParams(collections.OrderedDict):
  """A class to simplify handling query parameters and enable simpler query strings.
  This encapsulates parsing the values of query strings, holding their values, and producing
  altered query strings in a simplified format.
  It works by first declaring the accepted ("canonical") query string parameters with add().
  This object retains information on the preferred order of parameters, along with their default
  values and type.
  Then, you give parse() the parameters given by the user, and it will interpret the values
  according to their expected type.
  Then, you can continue using this object as a dict holding the parameter values, and getting and

NickSto

<!DOCTYPE HTML>
<html>
    <!--base.mako-->