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Diffstat (limited to 'biology/hmmer/pkg-message')
| -rw-r--r-- | biology/hmmer/pkg-message | 22 |
1 files changed, 22 insertions, 0 deletions
diff --git a/biology/hmmer/pkg-message b/biology/hmmer/pkg-message new file mode 100644 index 000000000000..dbfd059121b1 --- /dev/null +++ b/biology/hmmer/pkg-message @@ -0,0 +1,22 @@ +********************************************************* + +Note on environment variables: + + HMMER reads three environment variables: + HMMERDB - directory location of HMM databases (e.g. PFAM) + BLASTDB - directory location of FASTA-formatted sequence databases + BLASTMAT - directory location of PAM scoring matrices + + If you have installed BLAST, you probably already have these + environment variables set in system-wide or user-specific + .cshrc files. They are optional. If they are set up, you + can simplify command lines to: + > hmmpfam pfam my.query + > hmmsearch my.hmm swiss35 + instead of + > hmmpfam /some/long/path/to/databases/pfam my.query + > hmmsearch my.hmm /some/long/path/to/databases/swiss35 + +Please see the website http://hmmer.wustl.edu/ for more information. + +********************************************************* |