loading DNA
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loading DNA
by Ryan Golhar
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The wiki docs say to use bp_bulk_load_gff.pl to load the DNA sequence
for our organism. The docs also say that bp_bulk_load_gff.pl will create a new database schema, deleting anything that was there prior. I've already loaded by GFF files. Is there are way to load the sequences without recreating the mysql database? Ryan ------------------------------------------------------------------------------ Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july _______________________________________________ Gmod-gbrowse mailing list Gmod-gbrowse@... https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse |
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Re: loading DNA
by Dave Clements, GMOD Help Desk-2
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Hi Ryan,
It looks like from your other postings today, that you are trying to load GFF3 files. Try bp_seqfeature_load.pl, without the -c flag. For example, bp_seqfeature_load.pl -f -d dbname file.gff file.fasta Dave C On Wed, Nov 4, 2009 at 8:23 AM, Ryan Golhar <golharam@...> wrote: > The wiki docs say to use bp_bulk_load_gff.pl to load the DNA sequence > for our organism. The docs also say that bp_bulk_load_gff.pl will > create a new database schema, deleting anything that was there prior. > > I've already loaded by GFF files. Is there are way to load the > sequences without recreating the mysql database? > > Ryan > > ------------------------------------------------------------------------------ > Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day > trial. Simplify your report design, integration and deployment - and focus on > what you do best, core application coding. Discover what's new with > Crystal Reports now. http://p.sf.net/sfu/bobj-july > _______________________________________________ > Gmod-gbrowse mailing list > Gmod-gbrowse@... > https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse > -- Please keep responses on the list! http://gmod.org/wiki/GMOD_News http://gmod.org/wiki/Training_and_Outreach#Online_Tutorials Was this helpful? http://gmod.org/wiki/Help_Desk_Feedback ------------------------------------------------------------------------------ Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july _______________________________________________ Gmod-gbrowse mailing list Gmod-gbrowse@... https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse |
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Re: loading DNA
by Ryan Golhar
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Thanks. That's what I though but the wikidocs and the help for
bp_seqfeature_load didn't indicate that and I wanted to be sure. Dave Clements, GMOD Help Desk wrote: > Hi Ryan, > > It looks like from your other postings today, that you are trying to > load GFF3 files. Try bp_seqfeature_load.pl, without the -c flag. > > For example, > bp_seqfeature_load.pl -f -d dbname file.gff file.fasta > > Dave C > > On Wed, Nov 4, 2009 at 8:23 AM, Ryan Golhar <golharam@...> wrote: >> The wiki docs say to use bp_bulk_load_gff.pl to load the DNA sequence >> for our organism. The docs also say that bp_bulk_load_gff.pl will >> create a new database schema, deleting anything that was there prior. >> >> I've already loaded by GFF files. Is there are way to load the >> sequences without recreating the mysql database? >> >> Ryan >> >> ------------------------------------------------------------------------------ >> Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day >> trial. Simplify your report design, integration and deployment - and focus on >> what you do best, core application coding. Discover what's new with >> Crystal Reports now. http://p.sf.net/sfu/bobj-july >> _______________________________________________ >> Gmod-gbrowse mailing list >> Gmod-gbrowse@... >> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse >> > > > ------------------------------------------------------------------------------ Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july _______________________________________________ Gmod-gbrowse mailing list Gmod-gbrowse@... https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse |
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