[Gusdev-gusdev] Problem loading EMBL files into GUS

[Madhura S. <sma...@st...>]

Hi All

I am trying to load EMBL files into GUS, but having some problems,
when I try to execute the command :

ga GUS::Common::Plugin::GenericParser2Gus --filetype=3Dembl =
-filepath=3Db.pertussis.embl -sequencetype=3Dds-DNA

without commit, I get the following error:

*********************************************************
***COMMIT TURNED OFF***
Dumping log: $VAR1 =3D '/tmp//GenericParser2Gusdev.pid28608.log';

embl file to parse, b.bronchiseptica.embl...
ID line fine!!!
source feature found, FT   source          1..5339179!!
processing bioperl sequence, BB...
sequence not in GUS yet
can't find SequenceType, ds-DNA
number of features =3D 5009
organism, taxon id: Bordetella bronchiseptica,
DBD::Oracle::st execute failed: ORA-01400: cannot insert NULL into =
("DOTS"."NASE
QUENCEIMP"."SEQUENCE_TYPE_ID") (DBD ERROR: OCIStmtExecute) at =
/afs/ir/users/s/m/
smadhura/RA/GUS/lib/perl/GUS/ObjRelP/DbiDbHandle.pm line 145.

(after this along sequence is printed)

ATCGTACGGATTACAGGGCTTACGATGTTTCACGTGAAACGCCGAACGAGGTGCCACTATAATGGCCTCGGAA=
CGCTCTT
TCATCTCTCCCCATC, 1, 1, 1, 5339179, 850606, 0, chr. 1, 853819, 1, 86, =
1825282, 0
at /afs/ir/users/s/m/smadhura/RA/GUS/lib/perl/GUS/ObjRelP/DbiDbHandle.pm =
line 18
5
       =20
*************************************************************************=
**
Can someone tell me why this error is occuring?

Thanks!

Madhura