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Merge pull request #76 from LSSTDESC/u/rknop/update_alert_schema
Update code for LSST v9.0 alert schema
2 parents 73dcbd0 + 38ac3d1 commit 8a2f8ea

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‎db/2025-09-29_update_schema.sql‎

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-- Update table schema based on the lsst v9.0 alert schema
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-- It's not an exhaustive copy, but....
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-- Note that the current version of alerts have NO host
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-- association in diaObject. Leave those columns in for now,
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-- however, in ancitipation that we'll eventually have it
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-- (if only with DRs).
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-- We are not going to add the lastsourcemjdtai, etc. diaobject
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-- columns, because we are hoping we won't have to deal with updating
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-- the diaobject table. This means the ra/dec will never get updated.
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-- For DR, that doesn't matter. For realtime, we will just have to
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-- hope the very first ra/dec is close enough for the searches we do.
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-- To actually find positions, we should look at diasources.
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ALTER TABLE diaobject DROP COLUMN validitystart;
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ALTER TABLE diaobject DROP COLUMN validityend;
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ALTER TABLE diaobject DROP COLUMN radecmjdtai;
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ALTER TABLE diaobject DROP COLUMN parallax;
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ALTER TABLE diaobject DROP COLUMN parallaxerr;
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ALTER TABLE diaobject DROP COLUMN pmra;
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ALTER TABLE diaobject DROP COLUMN pmraerr;
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ALTER TABLE diaobject DROP COLUMN pmra_parallax_cov;
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ALTER TABLE diaobject DROP COLUMN pmdec;
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ALTER TABLE diaobject DROP COLUMN pmdecerr;
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ALTER TABLE diaobject DROP COLUMN pmdec_parallax_cov;
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ALTER TABLE diaobject DROP COLUMN pmra_pmdec_cov;
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ALTER TABLE diaobject ADD COLUMN validitystartmjdtai double precision;
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ALTER TABLE ppdb_diaobject DROP COLUMN validitystart;
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ALTER TABLE ppdb_diaobject DROP COLUMN validityend;
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ALTER TABLE ppdb_diaobject DROP COLUMN radecmjdtai;
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ALTER TABLE ppdb_diaobject DROP COLUMN parallax;
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ALTER TABLE ppdb_diaobject DROP COLUMN parallaxerr;
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ALTER TABLE ppdb_diaobject DROP COLUMN pmra;
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ALTER TABLE ppdb_diaobject DROP COLUMN pmraerr;
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ALTER TABLE ppdb_diaobject DROP COLUMN pmra_parallax_cov;
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ALTER TABLE ppdb_diaobject DROP COLUMN pmdec;
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ALTER TABLE ppdb_diaobject DROP COLUMN pmdecerr;
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ALTER TABLE ppdb_diaobject DROP COLUMN pmdec_parallax_cov;
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ALTER TABLE ppdb_diaobject DROP COLUMN pmra_pmdec_cov;
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ALTER TABLE ppdb_diaobject ADD COLUMN validitystartmjdtai double precision;
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-- Even though the DP1 database didn't have ids for forced sources,
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-- the alert schema we're seeing *does*.
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-- However, don't trust either diaSourceId or diaForcedSourceId as a primary
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-- key. Store them and index them, though.
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-- Do not make parentdiasourceid a foreign key because
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-- we may well get a source in an alert where the
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-- parent source is not yet ingested.
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ALTER TABLE diasource DROP COLUMN psfra;
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ALTER TABLE diasource DROP COLUMN psfraerr;
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ALTER TABLE diasource DROP COLUMN psfdec;
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ALTER TABLE diasource DROP COLUMN psfdecerr;
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ALTER TABLE diasource DROP COLUMN psfra_psfdec_cov;
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ALTER TABLE diasource DROP COLUMN psfflux_psfra_cov;
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ALTER TABLE diasource DROP COLUMN psfflux_psfdec_cov;
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ALTER TABLE diasource DROP COLUMN ixxerr;
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ALTER TABLE diasource DROP COLUMN iyyerr;
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ALTER TABLE diasource DROP COLUMN ixyerr;
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ALTER TABLE diasource DROP COLUMN ixx_ixy_cov;
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ALTER TABLE diasource DROP COLUMN ixx_iyy_cov;
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ALTER TABLE diasource DROP COLUMN iyy_ixy_cov;
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ALTER TABLE diasource RENAME COLUMN fpbkgd TO templateflux;
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ALTER TABLE diasource RENAME COLUMN fpbkgderr TO templatefluxerr;
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ALTER TABLE diasource ALTER COLUMN x SET NOT NULL;
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ALTER TABLE diasource ALTER COLUMN y SET NOT NULL;
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ALTER TABLE diasource ALTER COLUMN psfflux DROP NOT NULL;
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ALTER TABLE diasource ALTER COLUMN psffluxerr DROP NOT NULL;
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ALTER TABLE diasource ADD COLUMN diasourceid bigint NOT NULL;
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ALTER TABLE diasource ADD COLUMN parentdiasourceid bigint;
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ALTER TABLE diasource ADD COLUMN apflux real;
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ALTER TABLE diasource ADD COLUMN apfluxerr real;
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ALTER TABLE diasource ADD COLUMN bboxsize int;
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ALTER TABLE diasource ADD COLUMN timeprocessedmjdtai double precision;
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ALTER TABLE diasource ADD COLUMN timewithdrawnmjdtai double precision;
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ALTER TABLE diasource ALTER COLUMN flags SET DEFAULT 0;
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ALTER TABLE diasource ALTER COLUMN pixelflags SET DEFAULT 0;
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UPDATE diasource SET flags=0 WHERE flags IS NULL;
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UPDATE diasource SET pixelflags=0 WHERE pixelflags IS NULL;
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-- Not going to keep the trail and dipole stuff for now
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-- Ideally broker filters will have gotten rid of things that are dipoles or trails
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-- ALTER TABLE diasource ADD COLUMN trailflux real;
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-- ALTER TABLE diasource ADD COLUMN trailfluxerr real;
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-- ALTER TABLE diasource ADD COLUMN trailra double precision;
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-- ALTER TABLE diasource ADD COLUMN trailraerr real;
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-- ALTER TABLE diasource ADD COLUMN traildec double precision;
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-- ALTER TABLE diasource ADD COLUMN traildecerr real;
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-- ALTER TABLE diasource ADD COLUMN traillength real;
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-- ALTER TABLE diasource ADD COLUMN traillengtherr real;
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-- ALTER TABLE diasource ADD COLUMN trailangle real;
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-- ALTER TABLE diasource ADD COLUMN trailangleerr real;
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-- ALTER TABLE diasource ADD COLUMN trailchi2 real;
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-- ALTER TABLE diasource ADD COLUMN tranndata int;
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-- ALTER TABLE diasource ADD COLUMN trail_flag_edge bool;
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-- ALTER TABLE diasource ADD COLUMN dipolemeanflux real;
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-- ALTER TABLE diasource ADD COLUMN dipolemeanfluxerr real;
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-- ALTER TABLE diasource ADD COLUMN dipoleflxudiff real;
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-- ALTER TABLE diasource ADD COLUMN dipolefluxdifferr real;
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-- ALTER TABLE diasource ADD COLUMN dipolelength real;
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-- ALTER TABLE diasource ADD COLUMN dipoleangle real;
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-- ALTER TABLE diasource ADD COLUMN dipolechi2 real;
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-- ALTER TABLE diasource ADD COLUMN dipolendata int;
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CREATE INDEX idx_diasource_diasourceid ON diasource(diasourceid);
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ALTER TABLE ppdb_diasource DROP COLUMN psfra;
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ALTER TABLE ppdb_diasource DROP COLUMN psfraerr;
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ALTER TABLE ppdb_diasource DROP COLUMN psfdec;
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ALTER TABLE ppdb_diasource DROP COLUMN psfdecerr;
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ALTER TABLE ppdb_diasource DROP COLUMN psfra_psfdec_cov;
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ALTER TABLE ppdb_diasource DROP COLUMN psfflux_psfra_cov;
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ALTER TABLE ppdb_diasource DROP COLUMN psfflux_psfdec_cov;
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ALTER TABLE ppdb_diasource DROP COLUMN ixxerr;
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ALTER TABLE ppdb_diasource DROP COLUMN iyyerr;
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ALTER TABLE ppdb_diasource DROP COLUMN ixyerr;
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ALTER TABLE ppdb_diasource DROP COLUMN ixx_ixy_cov;
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ALTER TABLE ppdb_diasource DROP COLUMN ixx_iyy_cov;
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ALTER TABLE ppdb_diasource DROP COLUMN iyy_ixy_cov;
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ALTER TABLE ppdb_diasource RENAME COLUMN fpbkgd TO templateflux;
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ALTER TABLE ppdb_diasource RENAME COLUMN fpbkgderr TO templatefluxerr;
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ALTER TABLE diasource ALTER COLUMN x SET NOT NULL;
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ALTER TABLE diasource ALTER COLUMN y SET NOT NULL;
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ALTER TABLE diasource ALTER COLUMN psfflux DROP NOT NULL;
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ALTER TABLE diasource ALTER COLUMN psffluxerr DROP NOT NULL;
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ALTER TABLE ppdb_diasource ADD COLUMN diasourceid bigint;
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ALTER TABLE ppdb_diasource ADD COLUMN parentdiasourceid bigint;
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ALTER TABLE ppdb_diasource ADD COLUMN apflux real;
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ALTER TABLE ppdb_diasource ADD COLUMN apfluxerr real;
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ALTER TABLE ppdb_diasource ADD COLUMN bboxsize int;
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ALTER TABLE ppdb_diasource ADD COLUMN timeprocessedmjdtai double precision;
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ALTER TABLE ppdb_diasource ADD COLUMN timewithdrawnmjdtai double precision;
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ALTER TABLE ppdb_diasource ALTER COLUMN flags SET DEFAULT 0;
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ALTER TABLE ppdb_diasource ALTER COLUMN pixelflags SET DEFAULT 0;
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ALTER TABLE ppdb_diasource ALTER COLUMN psfflux DROP NOT NULL;
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ALTER TABLE ppdb_diasource ALTER COLUMN psffluxerr DROP NOT NULL;
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UPDATE ppdb_diasource SET flags=0 WHERE flags IS NULL;
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UPDATE ppdb_diasource SET pixelflags=0 WHERE pixelflags IS NULL;
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-- Not going to keep the trail and dipole stuff for now
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-- Ideally broker filters will have gotten rid of things that are dipoles or trails
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-- ALTER TABLE ppdb_diasource ADD COLUMN trailflux real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN trailfluxerr real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN trailra double precision;
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-- ALTER TABLE ppdb_diasource ADD COLUMN trailraerr real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN traildec double precision;
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-- ALTER TABLE ppdb_diasource ADD COLUMN traildecerr real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN traillength real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN traillengtherr real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN trailangle real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN trailangleerr real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN trailchi2 real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN tranndata int;
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-- ALTER TABLE ppdb_diasource ADD COLUMN trail_flag_edge bool;
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-- ALTER TABLE ppdb_diasource ADD COLUMN dipolemeanflux real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN dipolemeanfluxerr real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN dipoleflxudiff real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN dipolefluxdifferr real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN dipolelength real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN dipoleangle real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN dipolechi2 real;
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-- ALTER TABLE ppdb_diasource ADD COLUMN dipolendata int;
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CREATE INDEX idx_ppdb_diasource_diasourceid ON ppdb_diasource(diasourceid);
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ALTER TABLE diaforcedsource ALTER COLUMN band DROP NOT NULL;
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ALTER TABLE diaforcedsource ALTER COLUMN psfflux DROP NOT NULL;
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ALTER TABLE diaforcedsource ALTER COLUMN psffluxerr DROP NOT NULL;
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ALTER TABLE diaforcedsource DROP COLUMN time_processed;
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ALTER TABLE diaforcedsource DROP COLUMN time_withdrawn;
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ALTER TABLE diaforcedsource ADD COLUMN timeprocessedmjdtai double precision NOT NULL;
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ALTER TABLE diaforcedsource ADD COLUMN timewithdrawnmjdtai double precision;
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ALTER TABLE diaforcedsource ADD COLUMN diaforcedsourceid bigint;
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CREATE INDEX idx_diaforcedsource_diaforcedsourceid ON diaforcedsource(diaforcedsourceid);
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ALTER TABLE ppdb_diaforcedsource ALTER COLUMN band DROP NOT NULL;
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ALTER TABLE ppdb_diaforcedsource ALTER COLUMN psfflux DROP NOT NULL;
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ALTER TABLE ppdb_diaforcedsource ALTER COLUMN psffluxerr DROP NOT NULL;
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ALTER TABLE ppdb_diaforcedsource DROP COLUMN time_processed;
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ALTER TABLE ppdb_diaforcedsource DROP COLUMN time_withdrawn;
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ALTER TABLE ppdb_diaforcedsource ADD COLUMN timeprocessedmjdtai double precision NOT NULL;
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ALTER TABLE ppdb_diaforcedsource ADD COLUMN timewithdrawnmjdtai double precision;
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ALTER TABLE ppdb_diaforcedsource ADD COLUMN diaforcedsourceid bigint;
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CREATE INDEX idx_ppdb_diaforcedsource_diaforcedsourceid ON ppdb_diaforcedsource(diaforcedsourceid);

‎db/2025-10-20_nonnullvaliditystart.sql‎

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ALTER TABLE diaobject ALTER COLUMN validitystartmjdtai SET NOT NULL;
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ALTER TABLE ppdb_diaobject ALTER COLUMN validitystartmjdtai SET NOT NULL;

‎docker-compose.yaml‎

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services:
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kafka-zookeeper:
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-kafka-test:${DOCKER_VERSION:-test20250918}
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-kafka-test:${DOCKER_VERSION:-test20251020}
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build:
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context: ./docker/kafka
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healthcheck:
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depends_on:
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kafka-zookeeper:
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condition: service_healthy
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-kafka-test:${DOCKER_VERSION:-test20250918}
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-kafka-test:${DOCKER_VERSION:-test20251020}
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build:
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context: ./docker/kafka
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healthcheck:
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entrypoint: [ "bin/kafka-server-start.sh", "config/server.properties" ]
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postgres:
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-postgres:${DOCKER_VERSION:-test20250918}
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-postgres:${DOCKER_VERSION:-test20251020}
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build:
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context: ./docker/postgres
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target: postgres
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retries: 10
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mongodb:
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-mongodb:${DOCKER_VERSION:-test20250918}
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-mongodb:${DOCKER_VERSION:-test20251020}
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context: ./docker/mongodb
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environment:
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depends_on:
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condition: service_healthy
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-shell:${DOCKER_VERSION:-test20250918}
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-shell:${DOCKER_VERSION:-test20251020}
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build:
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context: ./docker/webserver
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depends_on:
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createdb:
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condition: service_completed_successfully
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-query-runner:${DOCKER_VERSION:-test20250918}
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-query-runner:${DOCKER_VERSION:-test20251020}
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build:
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context: ./docker/query_runner
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target: queryrunner
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condition: service_started
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queryrunner:
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condition: service_started
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-webap:${DOCKER_VERSION:-test20250918}
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-webap:${DOCKER_VERSION:-test20251020}
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build:
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context: ./docker/webserver
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target: webserver
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condition: service_healthy
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createdb:
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condition: service_completed_successfully
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-shell:${DOCKER_VERSION:-test20250918}
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-shell:${DOCKER_VERSION:-test20251020}
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build:
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context: ./docker/webserver
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target: shell
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condition: service_healthy
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mongodb:
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condition: service_healthy
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-shell:${DOCKER_VERSION:-test20250918}
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-shell:${DOCKER_VERSION:-test20251020}
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build:
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working_dir: /code
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makeinstall:
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-shell:${DOCKER_VERSION:-test20250918}
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-shell:${DOCKER_VERSION:-test20251020}
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build:
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context: ./docker/webserver
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condition: service_started # TODO : health test for webap
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-shell:${DOCKER_VERSION:-test20250918}
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image: ${DOCKER_ARCHIVE:-ghcr.io/lsstdesc}/fastdb-shell:${DOCKER_VERSION:-test20251020}
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‎docker/mongodb/Dockerfile‎

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FROM mongo:8.0.11 AS BASE
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FROM mongo:8.0.15 AS BASE
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SHELL ["/bin/bash", "-c"]
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WORKDIR /usr/src

‎docs/developers.rst‎

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If you change database sturctures (adding fields, etc.), it's possible that some of the tests will start failing because cached test data no longer matches what's expected. This will happen (at least) to tests that use the ``alerts_90days_sent_received_and_imported`` fixture in ``tests/fixtures/alertcycle.py``. If you're seeing something you think is this error, look at all the comments above and below that test in that file for information on rebuilding the cached test data.
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If the ``services/test_sourceimporter.py::test_full90days_fast`` test fails
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---------------------------------------------------------------------------
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(Note that a bunch of other tests will also fail for the same reason that this test fails.)
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It's possible that the structure of the database has changed since a data file was last updated. See the comments in ``tests/fixtures/alertcycle.py`` between the ``alerts_90days_sent_received_and_imported`` and ``fully_do_alerts_90days_sent_received_and_imported`` fixtures for more information.
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Pushing Branches and Pull Requests
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==================================

‎share/Makefile.am‎

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sharedir = @installdir@/share
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avscdir = @installdir@/share/avsc
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avsc_DATA = avsc/fastdb_test_0.2.Alert.avsc \
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avsc/fastdb_test_0.2.DiaForcedSource.avsc \
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avsc/fastdb_test_0.2.DiaObject.avsc \
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avsc/fastdb_test_0.2.DiaSource.avsc \
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avsc/fastdb_test_0.2.BrokerMessage.avsc
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avsc_DATA = avsc/fastdb_9_0_1.BrokerMessage.avsc \
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avsc/lsst.v9_0.alert.avsc \
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avsc/lsst.v9_0.diaObject.avsc \
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avsc/lsst.v9_0.diaSource.avsc \
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avsc/lsst.v9_0.diaForcedSource.avsc \
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avsc/lsst.v9_0.ssSource.avsc \
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avsc/lsst.v9_0.MPCORB.avsc

‎share/Makefile.in‎

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AUTOMAKE_OPTION = subdir-objects
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avscdir = @installdir@/share/avsc
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avsc_DATA = avsc/fastdb_test_0.2.Alert.avsc \
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avsc/fastdb_test_0.2.DiaForcedSource.avsc \
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avsc/fastdb_test_0.2.DiaObject.avsc \
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avsc/fastdb_test_0.2.DiaSource.avsc \
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avsc/fastdb_test_0.2.BrokerMessage.avsc
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avsc_DATA = avsc/fastdb_9_0_1.BrokerMessage.avsc \
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avsc/lsst.v9_0.alert.avsc \
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avsc/lsst.v9_0.diaObject.avsc \
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avsc/lsst.v9_0.diaSource.avsc \
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avsc/lsst.v9_0.diaForcedSource.avsc \
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avsc/lsst.v9_0.ssSource.avsc \
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avsc/lsst.v9_0.MPCORB.avsc
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all: all-am
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‎share/avsc/README.md‎

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## lsst namespaces
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`lsst.v9_0.*` was copied directly from https://github.com/lsst/alert_packet/blob/main/python/lsst/alert/packet/schema/9/0/lsst.v9_0.alert.avsc
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## fastdb namespaces
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### fastdb_9_0_1
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Based on `lsst.v9_0`. Has only `BrokerMessage` in it, which includes things from the `lsstv9_0` namespace.
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### fastdb_test_0.2
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**This one is old and out of date, ignore it.**
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`[namespace].Alert.avsc` is manually constructed
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`[namespace].Dia*.avsc` were produced by the code in `src/admin` under repo root

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