big problem / blast command line parameters.

Paul Guermonprez LnG at LnG.net
Thu May 31 13:20:09 EST 2001


hello,

i try to execute a blast search against several bases.

i would like to make this command work :
  blastall -p blastn -d "base1 base2" -i input.txt -o output.txt

these commands are working :
  blastall base1 input.txt output.txt
  blastall base2 input.txt output.txt
  blastall base1 input.txt > output.txt
  blastall base2 input.txt > output.txt

but not :
  blastall  -d  base1  -i  input.txt  -o  output.txt
  blastall  -d  base2  -i  input.txt  -o  output.txt
  blastall  -d  base1  -i  input.txt  >   output.txt
  blastall  -d  base2  -i  input.txt  >   output.txt
  blastall  -p  blastn -d  base1  -i  input.txt  -o  output.txt
  blastall  -p  blastn -d  base2  -i  input.txt  -o  output.txt
  blastall  -p  blastn -d "base1 base2" -i input.txt -o output.txt

the error message is :
  "ERROR: No argument given for BLAST report utput File"

any ideas ?
running NCBI blast / redhat 7


paul guermonprez.




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