I get an error when trying to do the final merge stage of oases. This is my command and output:
../assemblers/oases_0.2.07_x11/oases MergedAssembly/ -merge yes
[0.000000] Reading graph file MergedAssembly//Graph2
[0.023690] Graph has 2355595 nodes and 5929364 sequences
[1282.942385] Reading read set file MergedAssembly//Sequences;
[1293.465792] 5929364 sequences found
[1327.296416] Done
[1389.423138] Removing contigs with coverage < 3.000000...
[1389.502600] Concatenation...
[1389.918961] Renumbering nodes
[1389.918980] Initial node count 2355595
[1389.923377] Removed 0 null nodes
[1389.923396] Concatenation over!
[1389.923399] Clipping short tips off graph, drastic
[1389.970080] Concatenation...
[1390.386237] Renumbering nodes
[1390.386257] Initial node count 2355595
[1390.390656] Removed 0 null nodes
[1390.390673] Concatenation over!
[1390.390675] 2355595 nodes left
[1390.390683] Correcting graph with cutoff 0.200000
[1390.390691] Removing low coverage edges from the graph
Segmentation fault
Has anyone experienced anything such as this? If so do you have any ideas as to how I can get around it?
../assemblers/oases_0.2.07_x11/oases MergedAssembly/ -merge yes
[0.000000] Reading graph file MergedAssembly//Graph2
[0.023690] Graph has 2355595 nodes and 5929364 sequences
[1282.942385] Reading read set file MergedAssembly//Sequences;
[1293.465792] 5929364 sequences found
[1327.296416] Done
[1389.423138] Removing contigs with coverage < 3.000000...
[1389.502600] Concatenation...
[1389.918961] Renumbering nodes
[1389.918980] Initial node count 2355595
[1389.923377] Removed 0 null nodes
[1389.923396] Concatenation over!
[1389.923399] Clipping short tips off graph, drastic
[1389.970080] Concatenation...
[1390.386237] Renumbering nodes
[1390.386257] Initial node count 2355595
[1390.390656] Removed 0 null nodes
[1390.390673] Concatenation over!
[1390.390675] 2355595 nodes left
[1390.390683] Correcting graph with cutoff 0.200000
[1390.390691] Removing low coverage edges from the graph
Segmentation fault
Has anyone experienced anything such as this? If so do you have any ideas as to how I can get around it?
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