error: unknown object, input file type "seq" does not exist

Thure Etzold etzold at embl-heidelberg.de
Sun Jan 12 09:57:57 EST 1997


Several sites with SRS5 have reported a problem that on a query like

getz '[swissprot-des:kinase]' -e 
they get the message

error: unknown object, input file type "seq" does not exist

thanks to the help of Jean-Marc Plaza from Infobiogen I found out 
what causes the problem:

in the file 'srs/icarus/db/srsdb.i' there is a section used for
running the 'demo' in the 'guided tour' of the documentation:


# for the demo in the "Guided Tour"
file:"SRSDEMO:genes.i"
file:"SRSDEMO:reflist.i"
$site:[name:demo
  libs:{
    $libloc:[@GENES_DB dir:"SRSDEMO:"]
    $libloc:[@REFLIST_DB dir:"SRSDEMO:"]
  }
]

one of the included .i files defines a file type with
SEQ_FILE:$filetype:[typename:dat maxline:100]

which collides with the one described for swissprot

so all you have to do is to outcomment the above so that you get

#file:"SRSDEMO:genes.i"
#file:"SRSDEMO:reflist.i"
#$site:[name:demo
#  libs:{
#    $libloc:[@GENES_DB dir:"SRSDEMO:"]
#    $libloc:[@REFLIST_DB dir:"SRSDEMO:"]
#  }
#]

run srssection again and all should be well

regards
Thure



-- 
===============================================================================
Thure Etzold                                   | EMBL
E-mail: etzold at embl-heidelberg.de              | Postfach 10.2209
Tel: (49) 6221 387529                          | 69012 Heidelberg
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