[EMBOSS] New and confusing problem with infoseq!

michael watson (IAH-C) michael.watson at bbsrc.ac.uk
Tue Sep 23 10:58:10 UTC 2008


Confusing because this didn't happen before and I haven't changed
anything!

EMBOSS 5.0.0 on RHEL 4.

Why is infoseq complaining about a database?  Has my environment changed
because this used to work exactly how I wanted it to!

Mick

-bash-3.00$ infoseq 
Displays some simple information about sequences
Input (gapped) sequence(s):  Contig0.1399.fasta
Died: Qualifier '-database' not found

-bash-3.00$ more Contig0.1399.fasta 
>lcl|Contig0.1399 No definition line found
AGAGGAGAGGAGAGGACAAAATATGTTATTCCTTGGCAAGTGTTCCCTTGAGAAGGTGTCTGTTAGGGCACA
GTCCATTG
GTGCCTGTGAGGAAAAAGAAGCTGAAGGACTTACTGGGCCACACAGTTGCGACCATCAGAGCTGCCAGCAGC
AGCATGTT
TGCTGCTCCAGCTCAGCTGCTGCTGAGACTCAGAGATGTGTGAGTGAGGCCCCAGATGGGGACATACTGAGT
AGGAGGAG
CTGTCCCCAGCAGTGTTTTTTTTTCTGTGCATAACACCATGGGGCTGTGCTTGTCAAGACGTTACAGCAACC
CGGGAAAT
AAGCAAGACCAGAGAATGCTGAGGTTGTTTTGAAGGAGGTGGTCCTGTCTGCTTTCCTGAGAAATGCAAAGA
ACCGTTGC
TCAGTCCAAGGACTGAAAGGCATGAAGGCTCTTCCAACACAAGCTGTGTTCAGAGCCTCGCAAAACCAGCAC
TATGGAAA






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