cc_staff
284
edits
BLAST: Difference between revisions
Jump to navigation
Jump to search
m
Note on zcat
(Marked this version for translation) |
m (Note on zcat) |
||
| Line 123: | Line 123: | ||
cat seq.fa {{!}} parallel --jobs $SLURM_CPUS_PER_TASK -k --block 1M --recstart '>' --pipe 'blastn -db ref.fa -query - ' > seq.ref | cat seq.fa {{!}} parallel --jobs $SLURM_CPUS_PER_TASK -k --block 1M --recstart '>' --pipe 'blastn -db ref.fa -query - ' > seq.ref | ||
}} | }} | ||
Note: the <tt>zcat</tt> utility could be used here to read a gzip compressed FASTA file and pass its decompressed content to GNU Parallel. | |||
==== Job submission ==== <!--T:31--> | ==== Job submission ==== <!--T:31--> | ||