Re: [GeneX-dev] Re: CanonicalSequenceFeature is missing...

[Michael P. <mic...@ho...>]

I missed the Release Notes for the DB...I see them on sourceforge
now.

I did a quick check by doing an rgrep on the install tree and there
are still a lot of references to CanonicalSequenceFeature in xml2db.pl
as well, so even if the curation tool can handle it, having nothing there
may break submission using xml2db.pl

Regards,

Michael Pear

----- Original Message -----
From: "Jason E. Stewart" <ja...@op...>
To: "Michael Pear" <mic...@ho...>
Cc: "Jason E. Stewart" <ja...@op...>; "Jiaye Zhou" <ze...@in...>;
<gen...@li...>
Sent: Thursday, January 25, 2001 6:56 PM
Subject: [GeneX-dev] Re: CanonicalSequenceFeature is missing...


> "Michael Pear" <mic...@ho...> writes:
>
> > I tried to download a control bundle on my new installation, but
> > db2xml.pl failed because it couldn't find
> > CanonicalSequenceFeature.pm. I don't see it or anything in
> > Genex/CanonicalSequenceFeature in the install tree. I no longer find
> > this table in the database either. What's up?
>
> This was in the Release Notes for DB v0.8.1, but for some reason, I
> didn't include it in the Server install notes:
>
> From the release notes:
>
> * All tables related to Canonical Sequence Features were removed
>   (CanonicalSequenceFeature, CSF_ExternalDBLink, UserCanonicalLink,
>   RelatedCSF)
> * the two CSF related columns in UserSequenceFeature were removed
>   (putative_csf_fk, nonunique_flag)
>
> And it looks like *I* didn't debug things enough :-(
>
> CSF was supposed to go away a month ago, it has always been an
> unsupported feature, and since it was never really broken, it never
> made it high enough on my priority to remove. I did it last release.
>
> Todd and/or Lonny. Will the CT break without CSF in the control
> bundle? Should I just output a blank CSF section for now?
>
> Mea culpa, mea culpa,
> jas.
>
>
>
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