[EMBOSS] Can't connect internal SRSWWW ver7
Akira Onozuka
akira.onozuka at shionogi.co.jp
Fri May 28 02:15:05 UTC 2004
Dear EMBOSS users
I would like to ask a very primitive question.
I installed EMBOSS 2.8 on linux environment and we have SRSWWW internally on other host machine without proxy configuration.
Our emboss.default file is vary simple as follows.
##############
DB GENBANK [ type: N method: srswww format: genbank
url: http://hostname:8080/srs71bin/cgi-bin/wgetz
dbalias: GENBANK
fields: "sv des org key"
comment: "Genbank IDs"
]
#############
But, when I typed
seqret -sequence DDBJ:AB001611 -outseq AB001611.fasta -osformat fasta
machine returns
Reads and writes (returns) sequences
Error: failed to open filename 'DDBJ'
Error: Unable to read sequence 'DDBJ:AB001611'
Died: seqret terminated: Bad value for '-sequence' and no prompt
I can't specify which process has the issue for connecting with SRS. If we tried to jump to internet SRSWWW , we need proxy with user authentication, so it is difficult to verify with other outer resources in current EMBOSS version. The possibility could be
(1)EMBOSS can't recognize SRS7??
(2)Some configuration trouble in emboss.default file
and others.......
But anyway, I would like to know which process has the issue for retrieving sequence from SRSWWW. How can I see that??
Any suggestions will be highly welcomed.
Regards,
Akira Onozuka
#####################################################
Shionogi & Co., Ltd
12-4, Sagisu 5-chome, Fukushima-ku, Osaka 553-0002, Japan
Sr.Research Scientist
TEL:+81-6-6455-2015 FAX :+81-6-6455-2066
E-mail akira.onozuka at shionogi.co.jp
#####################################################
More information about the EMBOSS
mailing list