Hi All
I'm trying out some different bacteriall assembly annotation tools. Currently on bg7. However, when I execute it using the included test data it begins but exits prematurely without error. Any ideas how to fix this? Thanks
$ ../bin/bg7 -n escherichia_coli_o104_h4_str._ty-2482_1_supercontigs -g ./escherichia_coli_o104_h4_str._ty-2482_1_supercontigs.fasta -p ./EHEC_ReferenceProteins_17_08_2012.fasta -r ./EHEC_Reference_RNAs.frn -c ./genetic_code.txt -G ./GenBankExternalData.xml -o bg7_out
logging your params to /home/rosema1/BioInfo/bin/BG7/bg7_example_input_files/bg7_out/params.log
it looks like this machine has 24 cores, will use that for blast settings
creating RNAs blast db
RNA blast db created: /home/rosema1/BioInfo/bin/BG7/bg7_example_input_files/bg7_out/escherichia_coli_o104_h4_str._ty-2482_1_supercontigs.rnas.db
if you want, you can check makeblastdb log: /home/rosema1/BioInfo/bin/BG7/bg7_example_input_files/bg7_out/escherichia_coli_o104_h4_str._ty-2482_1_supercontigs.rnas.db.log
running blastn: RNAs vs genome sequence
done! will do a basic results check now
checking if blast xml output file looks ok..
$ ls bg7_out/
escherichia_coli_o104_h4_str._ty-2482_1_supercontigs_RNA_blastn.xml escherichia_coli_o104_h4_str._ty-2482_1_supercontigs.rnas.db.nin
escherichia_coli_o104_h4_str._ty-2482_1_supercontigs.rnas.db.log escherichia_coli_o104_h4_str._ty-2482_1_supercontigs.rnas.db.nsq
escherichia_coli_o104_h4_str._ty-2482_1_supercontigs.rnas.db.nhr params.log