Use when converting NCBI C toolkit BLAST command lines to NCBI C++ toolkit equivalents.
legacy_blast.pl <legacy_program> <legacy_args> [--print_only] [--path /path/to/blast/bin]/home/vimalinx/miniforge3/envs/bio/bin/legacy_blast.plreferences/help.mdblastall, formatdb, fastacmd, or related legacy programs.--print_only before executing them.# 1) Preview a blastall-to-BLAST+ translation
legacy_blast.pl \
blastall -p blastp -i query.fa -d nr -e 1e-5 \
--print_only \
--path /home/vimalinx/miniforge3/envs/bio/bin
# 2) Preview a formatdb migration
legacy_blast.pl \
formatdb -i proteins.fa -p T \
--print_only \
--path /home/vimalinx/miniforge3/envs/bio/bin
# 3) Execute the translated command directly
legacy_blast.pl \
fastacmd -d nr -s NP_414543 \
--path /home/vimalinx/miniforge3/envs/bio/bin
--print_only first and review the translated BLAST+ command for semantic drift.--path at the BLAST+ binaries you actually want to use on this machine.--print_only and --path must use double dashes and appear at the end of the legacy command line./usr/bin, which is usually wrong in this workspace; prefer --path /home/vimalinx/miniforge3/envs/bio/bin.blastall, megablast, blastpgp, bl2seq, rpsblast, fastacmd, formatdb, and seedtop.--version only works as the first and only argument to the script.