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chiulab / surpi

SURPI
chiulab.ucsf.edu/surpi
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Error taxonomy_lookup_embeded.pl #27

Open guillaume-gricourt opened 8 years ago

guillaume-gricourt commented 8 years ago

Hello, I have this error when i run taxonomy_lookup_embeded.pl DBD::SQLite::db selectrow_arrayref failed: no such table: gi_taxid at ./taxonomy_lookup_embeded.pl Have you an idea to fix the problem ? Thanks a lot

raeece commented 8 years ago

This is most probably because NCBI has removed GI numbers from NT database. If you have downloaded NT database after september 2016 you are likely to face this problem. Please see https://github.com/chiulab/surpi/issues/26

guillaume-gricourt commented 8 years ago

Hi, Thanks a lot, Guillaume

2016-10-25 8:52 GMT+02:00 raeece notifications@github.com:

This is most probably because NCBI has removed GI numbers from NT database. If you have downloaded NT database after september 2016 you are likely to face this problem. Please see #26 https://github.com/chiulab/surpi/issues/26

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/chiulab/surpi/issues/27#issuecomment-255952081, or mute the thread https://github.com/notifications/unsubscribe-auth/AVxAYJ6OB55S6q-7VvAh_e3Jm7n3qRYTks5q3adKgaJpZM4KWOCr .

guillaume-gricourt commented 8 years ago

Hi, Have you any solution ? NCBI don't provide previous database. Can you provide me an old release via ftp ? Thanks a lot. Guillaume G.

2016-10-25 19:03 GMT+02:00 Gui GuiGui guipagui@gmail.com:

Hi, Thanks a lot, Guillaume

2016-10-25 8:52 GMT+02:00 raeece notifications@github.com:

This is most probably because NCBI has removed GI numbers from NT database. If you have downloaded NT database after september 2016 you are likely to face this problem. Please see #26 https://github.com/chiulab/surpi/issues/26

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/chiulab/surpi/issues/27#issuecomment-255952081, or mute the thread https://github.com/notifications/unsubscribe-auth/AVxAYJ6OB55S6q-7VvAh_e3Jm7n3qRYTks5q3adKgaJpZM4KWOCr .

raeece commented 8 years ago

Hi, I don't have the old release. I am waiting for the SURPI developers to provide a fix at the earliest.

mushalallam commented 7 years ago

Hi Did anyone try to solve this issue? Thanks