BLAST Database creation error
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I was trying to create a BLAST database but I got this error
Building a new DB, current time: 12/03/2015 09:44:18 New DB name: plant_protein New DB title: /home/sanjay/bin/Genomes/plant_protein_from_plantgdb.fa Sequence type: Protein Keep Linkouts: T Keep MBits: T Maximum file size: 1000000000B volume: plant_protein file: plant_protein.pin file: plant_protein.phr file: plant_protein.psq BLAST Database creation error: FASTA-Reader: No residues givenThen I looked whether my any FASTA sequence is empty or not by running this command
grep -c "^$" ~/bin/Genomes/plant_protein_from_plantgdb.faI found that there is one sequence which have only FASTA header. To remove the empty FASTA sequence I run this command
awk 'BEGIN {RS = ">" ; FS = "\n" ; ORS = ""} $2 {print ">"$0}' ~/bin/Genomes/plant_protein_from_plantgdb.fa >~/bin/Genomes/plant_protein_from_plantgdb.fastaAnd finally I got the happy success message
Building a new DB, current time: 12/03/2015 09:48:01 New DB name: plant_protein New DB title: /home/sanjay/bin/Genomes/plant_protein_from_plantgdb.fasta Sequence type: Protein Keep Linkouts: T Keep MBits: T Maximum file size: 1000000000B Adding sequences from FASTA; added 980219 sequences in 24.2583 seconds.
How to install NCBI BLAST program on your computer HERE
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