Is the roary -a check complete?

[tseemann]

Is is missing FastTree or fastml or exonerate or R or kraken?

2015/11/17 11:54:58 Looking for 'awk' - found /usr/bin/awk
2015/11/17 11:54:58 Looking for 'bedtools' - found /bio/linuxbrew/bin/bedtools
2015/11/17 11:54:58 Determined bedtools version is 2.24
2015/11/17 11:54:58 Looking for 'blastp' - found /bio/linuxbrew/bin/blastp
2015/11/17 11:54:58 Determined blastp version is 2.2.31
2015/11/17 11:54:58 Looking for 'cd-hit' - found /bio/linuxbrew/bin/cd-hit
2015/11/17 11:54:58 Determined cd-hit version is 4.6
2015/11/17 11:54:58 Optional tool 'cdhit' not found in your $PATH
2015/11/17 11:54:58 Looking for 'grep' - found /usr/bin/grep
2015/11/17 11:54:58 Looking for 'mafft' - found /bio/linuxbrew/bin/mafft
2015/11/17 11:54:58 Determined mafft version is 7.221
2015/11/17 11:54:58 Looking for 'makeblastdb' - found /bio/linuxbrew/bin/makeblastdb
2015/11/17 11:54:58 Determined makeblastdb version is 2.2.31
2015/11/17 11:54:58 Looking for 'mcl' - found /bio/linuxbrew/bin/mcl
2015/11/17 11:54:58 Determined mcl version is 14-137
2015/11/17 11:54:58 Looking for 'parallel' - found /bio/linuxbrew/bin/parallel
2015/11/17 11:54:58 Determined parallel version is 20150922
2015/11/17 11:54:59 Looking for 'prank' - found /bio/linuxbrew/bin/prank
2015/11/17 11:55:00 Determined prank version is 140603
2015/11/17 11:55:00 Looking for 'sed' - found /bio/linuxbrew/bin/sed
Roary version 3.5.1