fix: schemas/vegbien.sql: locationevent: added locationevent_place_visit_id index to facilitate joins to place_visit_id in the validations queries

web/links/index.htm: updated to Firefox bookmarks: PostgreSQL: added description of join_collapse_limit config param (which should be turned off, although it is on by default). added links for using TIDs ("the fastest possible access to a single row").

bugfix: schemas/vegbien.sql: source_by_shortname(): documented that in some cases, it is actually a bad idea to use a nested SELECT, because this will prevent Postgres from using an index scan (causing an equally bad slowdown as not inlining in cases where a nested SELECT is required).

schemas/postgresql.conf: log_min_messages: dropped the verbosity back down to the default, to avoid clogging up the logs

schemas/vegbien.sql: locationevent: documented `VACUUM ANALYZE` runtime (20 min)

schemas/postgresql.conf: log_min_messages: show what autovacuum is doing

fix: schemas/postgresql.conf: disable autovacuum_vacuum_cost_delay to avoid stalling autovacuuming due to a concurrent query, as this can prevent autovacuuming from happening altogether (http://vegpath.org/links/#PostgreSQL:%20Documentation:%209.3:%20Resource%20Consumption:%2018.4.4.%20Cost-based%20Vacuum%20Delay)

web/links/index.htm: updated to Firefox bookmarks: PostgreSQL: added links for troubleshooting autovacuuming (which can slow queries down significantly when it isn't happening for any tables)

schemas/vegbien.sql: location: documented `CREATE INDEX plot_source_id` runtime (5 min)

fix: schemas/vegbien.sql: location: added plot_source_id index to provide the equivalent of the location.source_id index for outer plots. this will help Postgres choose the right query plans in queries involving outer plots.

planning/meetings/BIEN conference call availability.xlsx: updated

bugfix: validation/aggregating/plots/bien3_validations_salvias_vegbien.sql: need to escape the quotes in \set ... 'SALVIAS'

validation/aggregating/plots/bien3_validations_salvias_vegbien.sql: removed `SET search_path TO public;` since this is the default

validation/aggregating/plots/bien3_validations_salvias_vegbien.sql: search_path: removed public_validations since we are not creating views

validation/aggregating/plots/bien3_validations_salvias_vegbien.sql: use psql var :datasource instead of current_schema() so that the queries are runnable without special configuration of the search_path

validation/aggregating/plots/bien3_validations_salvias_vegbien.sql: removed `CREATE OR REPLACE VIEW` so the validations views are not unintentionally replaced when running this file

validation/aggregating/plots/bien3_validations_salvias_vegbien.sql: updated from DB

schemas/vegbien.sql: _plots_18_list_of_subplots_codes_for_each_plot_for_each_project: added ~type table

fix: inputs/SALVIAS/validations.sql: _plots_18_list_of_subplots_codes_for_each_plot_for_each_project: changed columns to match output query

schemas/vegbien.sql: _plots_15_pct_cover_of_each_verb_taxon_in_each_plot_in_each_pro: added ~type table

fix: inputs/SALVIAS/validations.sql: _plots_15_pct_cover_of_each_verb_taxon_in_each_plot_in_each_pro: changed types to match output query

bugfix: inputs/SALVIAS/validations.sql: _plots_15_pct_cover_of_each_verb_taxon_in_each_plot_in_each_pro: changed summarizing column from mean_cover->totalpercentcover to match output query

bugfix: inputs/SALVIAS/validations.sql: _plots_10a_aggregate_observation_individual_counts: changed individual_id type to match output query

bugfix: schemas/Makefile: `%/install: vegbien.sql`: also need to match `public_validations` when used as a schema-qualifier (public_validations._), and after a cast (::) to a schema-qualified type. these occur in schema-qualified casts to the custom return type in the keys() functions.

bugfix: schemas/Makefile: `%/install: vegbien.sql`: sed expr: need to use '' instead of "" because $(*q) may contain "

bugfix: schemas/vegbien.sql: _plots_10a_aggregate_observation_individual_counts: need to use taxonoccurrence.sourceaccessioncode, not aggregateoccurrence.sourceaccessioncode, because aggregateoccurrence.sourceaccessioncode is not populated

schemas/vegbien.sql: public_validations schema comment: documented how to remove a validations query so its columns can be changed (use public_validations.rm_query_view())

schemas/vegbien.sql, inputs/SALVIAS/validations.sql: added _plots_10a_aggregate_observation_individual_counts, for use in debugging diffs in _plots_10_count_of_individuals_per_plot_in_each_proj

schemas/util.sql: create_if_not_exists(): also support `CREATE FUNCTION` (by handling duplicate_function exceptions)

schemas/util.sql: mk_keys_func(): create the keys() function directly from the keys record type, to support creating just a custom keys record type rather than also a custom keys() function (which is fairly complicated to do, thanks to the need to define a separate custom return type)

bugfix: schemas/util.sql: relation_type(relation_type_char "char"): need to handle TYPEs as well, because these are also listed in pg_class (and should be deleted by drop_relations_like())

schemas/util.sql: added show_types_like()

bugfix: schemas/util.sql: functions marked IMMUTABLE: changed to STABLE or VOLATILE where IMMUTABLE would cause preemptive inlining (http://vegpath.org/links/#PostgreSQL:%20Documentation:%209.3:%20Function%20Volatility%20Categories%20**)

bugfix: schemas/util.sql: functions marked IMMUTABLE: changed to STABLE or VOLATILE where IMMUTABLE would cause preemptive inlining (http://vegpath.org/links/#PostgreSQL:%20Documentation:%209.3:%20Function%20Volatility%20Categories%20**)

schemas/vegbien.sql: locationevent: documented `UPDATE locationevent SET place_visit_id = place_visit_id` runtime (>~1 h)

schemas/util.sql: added relation_type(regtype) so drop_relation() would work on TYPEs, too. TYPEs are sometimes used as a function return type linked to a particular table (eg. in the keys() functions), and should be dropped along with the table by util.drop_relations_like().

schemas/util.sql: drop_relation(regclass): support any type that has a util.relation_type()

fix: schemas/vegbien.sql: _plots_10_count_of_individuals_per_plot_in_each_project: fixed to handle subplots properly, using new locationevent.place_visit_id

schemas/vegbien.sql: added place_visit view, analogous to plot but for top-level locationevents. this is needed by the SALVIAS validation queries.

schemas/vegbien.sql: locationevent: added locationevent_set_place_visit_id() trigger, analogous to location_set_plot_location_id() but for the locationevent nesting hierarchy. this is needed by the SALVIAS validation queries.

fix: schemas/vegbien.sql: location_set_plot_location_id(): removed incorrect comment that this is a pull-forward trigger

bugfix: schemas/vegbien.sql: public_validations.query_view_relation_max_prefix_len(): added values__ prefix

bugfix: schemas/util.sql: mk_keys_func(regtype, util.col_cast[]): use `CREATE FUNCTION` instead of `CREATE OR REPLACE FUNCTION` so that the function is only created if it does not exist, to avoid overwriting a custom keys() function

schemas/vegbien.sql: public_validations: re-auto-added keys(), values_() functions for all queries

bugfix: schemas/util.sql: uses of util.col_cast.col_name: need to wrap in quote_ident()

schemas/vegbien.sql: public_validations: re-auto-added keys(), values_() functions for all queries

bugfix: schemas/util.sql: mk_keys_func(regtype, util.col_cast[]): use named return type to avoid complicated edge cases with 1-column records, which prevent (values_(...)).* from working correctly

schemas/util.sql: added mk_typed_cols_list(col_cast[])

schemas/util.sql: added prefixed_name()

schemas/util.sql: mk_keys_func(regtype, util.col_cast[]): use util.qual_name() to create the function name, for clarity

schemas/vegbien.sql: public_validations: auto-added values_() functions for all queries

schemas/util.sql: util.remake_diff_table(): viewing the table in human-readable form: use just the output side's values_() columns, to avoid repeating columns on both sides that are the same and put just the changed columns side-by-side

bugfix: schemas/util.sql: mk_keys_func(regtype): values() function: must be called values_() instead because `values` is a keyword

schemas/util.sql: mk_keys_func(regtype): also add values() function for use in displaying the diff table

schemas/util.sql: mk_keys_func(regtype, col_cast[]): allow changing the name of the generated function

schemas/util.sql: `RAISE USING ERRCODE = SQLSTATE, MESSAGE = SQLERRM`: use simpler `RAISE` to rethrow error

bugfix: schemas/util.sql: mk_keys_func(regtype, util.col_cast[]): use util.create_if_not_exists() to avoid trying to overwrite a custom keys() function the user has written

schemas/vegbien.sql: public_validations: auto-added keys() functions for all queries

schemas/util.sql: diff(text, text): automatically create a keys() function for the base type. this avoids the need to create keys() functions manually for the numerous queries that need them.

schemas/util.sql: added mk_keys_func(regtype)

bugfix: schemas/util.sql: mk_keys_func(regtype, util.col_cast[]): need to handle 1-column records specially, because Postgres does not allow returning a 1-column record when there are OUT params

schemas/util.sql: added typed_cols(regtype)

schemas/util.sql: added mk_keys_func(regtype, col_cast[])

bugfix: schemas/util.sql: raise(): need to use $__BODY1$ in case msg contains $BODY1$ (in SQL)

bugfix: schemas/util.sql: mk_out_params(): need COALESCE around string_agg()

bugfix: schemas/util.sql: eval(): don't declare it STRICT because it should throw an error if you try to execute NULL

schemas/vegbien.sql: synced with DB, which reorders ~type tables

schemas/util.sql: added mk_out_params()

schemas/util.sql: mk_diff_query(): indented left_ table to line up vertically with right_, for easier comparison of the left_/right_ table names

schemas/util.sql: mk_diff_query(): removed special handling for CROSS JOIN because this is now handled by diff(text, text) using `FULL JOIN ON true`. this simplification allows mk_diff_query() to contain just the template structure of the FULL JOIN, without _if() calls that decrease readability.

schemas/util.sql: diff(text, text): handle the CROSS JOIN special case using `FULL JOIN ON true`, to allow mk_diff_query() to support just a straighforward FULL JOIN. this also ensures that all diff queries use the same FULL JOIN template.

bugfix: schemas/vegbien.sql: public_validations: schema comment: also need to re-create keys() functions after running public_validations.rm_all_queries()

bugfix: schemas/vegbien.sql: added back keys() matchup functions, which get cascadingly deleted when the queries are re-created to change column names, etc. note that this causes the associated ~type tables to sort before them.

schemas/vegbien.sql: added new ~type tables

fix: lib/phpPgAdmin.login.php.diff: "For user public_, leave password blank" instruction: moved this to right under the Password field and increased the font size so people would be more likely to see it

/Makefile: added separate phppgadmin-Linux target to avoid needing to run the entire postgres-Linux target whenever http://vegbiendev.nceas.ucsb.edu/phppgadmin/ goes down (after some system updates)

schemas/vegbien.sql: rm_all_queries(schema): documented this function's unexpected behavior when schema = public_validations (it removes in all schemas, not just public_validations). this is because this uses rm_query_view().

fix: schemas/vegbien.sql: use plot (which includes only outer plots) instead of location, to match the input queries

schemas/vegbien.sql: rm_query_group(): support removing all validations as well as just those with a particular group prefix (and renamed to rm_output_queries())

fix: schemas/vegbien.sql: public_validations: schema comment: removed incorrect "" in `SET search_path = "public_validations", pg_catalog;` now that they are no longer auto-added

bugfix: schemas/Makefile: `%/install: vegbien.sql`: don't enclose public_validations in "" because this causes a comment that says to search for `SET search_path = public_validations, pg_catalog;` to become mangled

schemas/vegbien.sql: synced with DB, which reorders ~type tables

fix: schemas/Makefile: moved comment about publishing a schema to %/publish

lib/Firefox_bookmarks.reformat.csv: "page's description": changed to "page's own description" to clarify that this is a description provided by the page itself

web/links/index.htm: updated to Firefox bookmarks: PostgreSQL: added links for error reporting levels and how to hide stack traces in psql. SQL: added links for recursive queries, which can be used to traverse hierarchical (parent-pointer) tables.

fix: inputs/SALVIAS/validations.sql: renamed SiteCode to plot_code to match output queries

schemas/util.sql: raise_error_notice(): raise a WARNING instead because this is for errors, and rename to raise_error_warning() to match

schemas/util.sql: raise_error_notice(): raise a WARNING instead because this is for errors, and rename to raise_error_warning() to match

schemas/util.sql: removed no longer used raise_notice(). use util.raise(NOTICE, ...) instead.

schemas/util.sql: use util.raise(NOTICE, ...) instead of util.raise_notice()

schemas/util.sql: raise(type text, msg text): documented the possible options for the type param

fix: schemas/util.sql: raise(): util.eval(): turn off verbose_ mode to avoid printing debug statements about debug statements

schemas/util.sql: eval(): added verbose_ option like for eval2set()

schemas/util.sql: added raise(type text, msg text)

fix: schemas/vegbien.sql: plots* validation queries: renamed plot_code columns (with names plotcode, plotCode, SiteCode) to match the input queries (plot_code)

fix: schemas/vegbien.sql: added back traits* ~type tables

fix: schemas/vegbien.sql: plots* validation queries: renamed plot_code columns (with names plotcode, plotCode, SiteCode) to match the input queries (plot_code)

inputs/SALVIAS/validations.sql: use plot_code instead of plotcode for easier readability

fix: schemas/vegbien.sql: rm_all_queries(): all-schemas mode: also remove queries that are only present on the input side, so that the input side can also be re-created from the DDL file

fix: schemas/vegbien.sql: rm_all_queries(): documented that this actually does remove queries in all schemas when schema is NULL, because rm_query_view(public_validations.view) searches all schemas