[prophyle] 2019-02-01 10:37:11 Shell command: make -j -s -C /Users/karel/miniconda/envs/rase/lib/python3.6/site-packages/prophyle
[prophyle] 2019-02-01 10:37:12 Finished (0.2 MB used): make -j -s -C /Users/karel/miniconda/envs/rase/lib/python3.6/site-packages/prophyle
[prophyle] 2019-02-01 10:37:13 Decompressing index core files
[prophyle] 2019-02-01 10:37:13 Shell command: tar xvf ./pipeline/database/spneumoniae_sparc.k18.tar.gz -C ./pipeline/database
x spneumoniae_sparc.k18/
x spneumoniae_sparc.k18/tree.preliminary.nw
x spneumoniae_sparc.k18/index.fa.ann
x spneumoniae_sparc.k18/index.fa.kmers.tsv
x spneumoniae_sparc.k18/.complete.2
x spneumoniae_sparc.k18/.complete.3
x spneumoniae_sparc.k18/index.fa.bwt
x spneumoniae_sparc.k18/index.fa.amb
x spneumoniae_sparc.k18/tree.nw
x spneumoniae_sparc.k18/.complete.1
x spneumoniae_sparc.k18/index.json
[prophyle] 2019-02-01 10:37:14 Finished (1.1 MB used): tar xvf ./pipeline/database/spneumoniae_sparc.k18.tar.gz -C ./pipeline/database
[prophyle] 2019-02-01 10:37:14 Core files have been decompressed, reconstructing the index
[prophyle] 2019-02-01 10:37:14 Shell command: prophyle index -k 18 ./pipeline/database/spneumoniae_sparc.k18/tree.nw ./pipeline/database/spneumoniae_sparc.k18
[prophyle] 2019-02-01 10:37:14 Index construction started