search

sebhtml / ray

Ray -- Parallel genome assemblies for parallel DNA sequencing
http://denovoassembler.sf.net
Other
65 stars 12 forks source link

Error: can not add ... #229

Closed sebhtml closed 10 years ago

sebhtml commented 10 years ago

Error: can not add TGACGAACGGGCTCTGCGGATCGTTCGGCAC last objects: [5095] ------> GGAGGTGACGAACGGGCTCTGCGGATCGTTC [5096] ------> GAGGTGACGAACGGGCTCTGCGGATCGTTCG [5097] ------> AGGTGACGAACGGGCTCTGCGGATCGTTCGG [5098] ------> GGTGACGAACGGGCTCTGCGGATCGTTCGGC [5099] ------> GTGACGAACGGGCTCTGCGGATCGTTCGGCA [5100] ------> TGACGAACGGGCTCTGCGGATCGTTCGGCAT [5101] ------> GACGAACGGGCTCTGCGGATCGTTCGGCATA [5102] ------> ACGAACGGGCTCTGCGGATCGTTCGGCATAG [5103] ------> CGAACGGGCTCTGCGGATCGTTCGGCATAGC [5104] ------> GAACGGGCTCTGCGGATCGTTCGGCATAGCG [5105] ------> AACGGGCTCTGCGGATCGTTCGGCATAGCGT [5106] ------> ACGGGCTCTGCGGATCGTTCGGCATAGCGTT [5107] ------> CGGGCTCTGCGGATCGTTCGGCATAGCGTTC [5108] ------> GGGCTCTGCGGATCGTTCGGCATAGCGTTCT [5109] ------> GGCTCTGCGGATCGTTCGGCATAGCGTTCTT [5110] ------> GCTCTGCGGATCGTTCGGCATAGCGTTCTTG

To reproduce:

/mnt/scratch_mp2/corbeil/corbeil_group/projects/PaeAZ/AZPAE14881-1 24 cores, 34 min 2077290 reads

sebhtml commented 10 years ago

Finally found a dataset that can be used to reproduce this:

/mnt/scratch_mp2/corbeil/corbeil_group/projects/PaeAZ/AZPAE14881-1

sebhtml commented 10 years ago

with -debug-fusions, get a hand on metadata for those sequences.

sebhtml commented 10 years ago

Received hit path data. Matches: 12042 Self Identifier: 10000001 Strand: 0 Length: 34496 Begin: 22506 End: 34481 Hit Identifier: 5000000 Strand: 0 Length: 27674 Begin: 0 End: 12027 VALID Error: can not add TGGAAGTTCGAGTCTTCTCCTGGGCACCATC last objects: [34480] ------> AGGTGGCGGAATTGGTAGACGCACTAGGTTC [34481] ------> GGTGGCGGAATTGGTAGACGCACTAGGTTCA [34482] ------> GTGGCGGAATTGGTAGACGCACTAGGTTCAA [34483] ------> TGGCGGAATTGGTAGACGCACTAGGTTCAAG [34484] ------> GGCGGAATTGGTAGACGCACTAGGTTCAAGT [34485] ------> GCGGAATTGGTAGACGCACTAGGTTCAAGTC [34486] ------> CGGAATTGGTAGACGCACTAGGTTCAAGTCC [34487] ------> GGAATTGGTAGACGCACTAGGTTCAAGTCCT [34488] ------> GAATTGGTAGACGCACTAGGTTCAAGTCCTA [34489] ------> AATTGGTAGACGCACTAGGTTCAAGTCCTAG [34490] ------> ATTGGTAGACGCACTAGGTTCAAGTCCTAGC [34491] ------> TTGGTAGACGCACTAGGTTCAAGTCCTAGCG [34492] ------> TGGTAGACGCACTAGGTTCAAGTCCTAGCGG [34493] ------> GGTAGACGCACTAGGTTCAAGTCCTAGCGGT [34494] ------> GTAGACGCACTAGGTTCAAGTCCTAGCGGTG [34495] ------> TAGACGCACTAGGTTCAAGTCCTAGCGGTGG Created new path, length= 34496

sebhtml commented 10 years ago

Almost done.

Doing a debug run. Then remove -debug-fusions

sebhtml commented 10 years ago

d65bb48affdf03f7a91d84c7be77fef8f5514259

sebhtml commented 10 years ago

3bfa9863d17ab867f0c97795b8bb7f2dae7986e5