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|
example database
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Links left on other RR dbs
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|
do on hgarchive1
|
|
do on RR
|
chains
/nets
|
multiz
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otherOrgs
|
Human Proteins
|
liftOver
|
dbDb
|
defaultDb
|
gdbPdb
|
/gdbd
|
dbDb
|
liftOverChain
|
dbBlastTab
|
gdbPdb
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|
Case_1
|
rn2
|
|
single row for db
|
single row for db
|
leave default row only
|
mirror exclude
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remove row from RR.dbDb
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keep all toDb and fromDb rows
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N/A
|
drop row in gdbPdb ***
|
|
ce1
|
|
|
x
|
|
|
rename tables in otherOrgs *
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|
|
|
Case_2
|
hg15
|
|
|
|
|
x
|
one row
|
leave default row + hg15 row **
|
allow mirror
|
remove row
|
keep all
|
N/A
|
drop ****
|
|
bosTau1
|
|
|
|
|
x
|
leave default row only
|
drop row in gdbPdb ***
|
|
|
|
Case_3
|
mm5
|
x
|
x
|
x
|
|
x
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keep all rows for dbs with links to this db
|
leave default row + a row for any db connected via links in a track**
|
allow mirror
|
set active = 0
|
keep all
|
rename tables in otherOrgs *
|
drop ****
|
|
mm6
|
x
|
x
|
x
|
|
x
|
drop row in gdbPdb ***
|
|
danRer2
|
x
|
x
|
|
|
x
|
N/A
|
|
|
|
*
|
rename tables in otherOrgs to cap-first-initial (e.g.,
dm1.Ce1BlastTab)
and make a note in README on hgarchive:htdocs-YYYY-MM.
|
|
**
|
human, mouse and rat assemblies have their own gdbPdb entries.
|
|
***
|
drop the proteinsYYMMDD row in gdbPdb, but leave the {proteins,sp}YYMMDD dbs
for other assemblies.
|
|
****
|
drop the row in gdbPdb and drop the entire {proteins,sp}YYMMDD dbs
from RR after push to hgarchive1: no other genome uses proteins db.
|
|