uqbwoodc@gillard:20150409:/tmp/t$ ~/git/finishm/bin/finishm visualise --fasta /srv/home/s4383937/Barrow/mcrA_methanocrens_PR1.1.fq.gz/PR1/reads/PR1_Methanosarcinales_seqs.fa --assembly-svg finishm_visualise.svg --assembly-kmer 31
INFO finishm 09/04 13:11:57: Reading in or generating the assembly graph
INFO bio-velvet 09/04 13:11:57: Running velveth: /srv/whitlam/home/users/uqbwoodc/git/finishm/lib/assembly/../../ext/src/velveth
INFO finishm 09/04 13:11:57: Assembling sampled reads with velvet
INFO bio-velvet 09/04 13:11:57: Running velveth: /srv/whitlam/home/users/uqbwoodc/git/finishm/lib/assembly/../../ext/src/velveth /tmp/runner_1428549117_114 31 -fasta -short /tmp/probes.fa20150409-21139-1a8nl28 a.fa -create_binary
INFO bio-velvet 09/04 13:11:57: Running velvetg: /srv/whitlam/home/users/uqbwoodc/git/finishm/lib/assembly/../../ext/src/velvetg /tmp/runner_1428549117_114 -read_trkg yes -cov_cutoff 3.5 -tour_bus no -read_to_node_binary yes
INFO finishm 09/04 13:11:58: Finished running assembly
INFO finishm 09/04 13:11:58: Reading in the actual sequences of all reads from /tmp/runner_1428549117_114/CnyUnifiedSeq
INFO finishm 09/04 13:11:58: Read in 175 sequences
INFO finishm 09/04 13:11:58: Parsing the graph output from velvet
INFO finishm 09/04 13:11:58: Finished parsing graph: found 13 nodes and 0 arcs
INFO finishm 09/04 13:11:58: Beginning parse of graph using velvet's parsing C code..
INFO finishm 09/04 13:11:58: Completed velvet code parsing velvet graph
INFO finishm 09/04 13:11:58: Determining paired-end node connections..
INFO finishm 09/04 13:11:58: Converting assembly to a graphviz..
INFO finishm 09/04 13:11:58: Converting 0 arcs to GraphViz format
INFO finishm 09/04 13:11:58: Adding paired-end linkages to GraphViz format..
The unconnected nodes should be drawn in.