Failure of transforming Velvet .afg file into GDE .contig file
I did a hybrid assembly using Velvet. There were three typs of data, Solexa, 454 and sanger data. Then I wantted to scaffold the contigs using Bambus. I have to transform velvet_asm.afg file into GDE .contig file .
First tansform .afg to AMOS bank file
'bank-transact -m velvet_asm.afg -b velvet_amos.bank -c'
Second transform AMOS bank file into .contig file
'bank2contig velvet_amos.bank >velvet.contitg'
The first step was ok. The second step fail.
Error returned:
'ERROR: -- Fatal AMOS Exception --
WHAT: Invalid sequence subrange
LINE: 90
FILE: Sequence_AMOS.cc
'
Who can tell me the reason and how to resolve it? Thank You!
First tansform .afg to AMOS bank file
'bank-transact -m velvet_asm.afg -b velvet_amos.bank -c'
Second transform AMOS bank file into .contig file
'bank2contig velvet_amos.bank >velvet.contitg'
The first step was ok. The second step fail.
Error returned:
'ERROR: -- Fatal AMOS Exception --
WHAT: Invalid sequence subrange
LINE: 90
FILE: Sequence_AMOS.cc
'
Who can tell me the reason and how to resolve it? Thank You!