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Created with Raphaël 2.2.012Mar85128Feb2725232221201918151413127625Jan15141110417Dec1265130Nov2928272321201918161513129862131Oct24231917161513121110985432128Sep2726252120754329Aug282725242317161432131Jul25242316329Jun27262522191513111086131May30282322211817121110982123Apr1627Mar2620197124Feb23201615141031Jan208Dec29Nov2825242322211710415Oct23Sep2095125Aug181526Jul201514131286542130Jun2916151473231May2827262524232120191612111095319Apr1814131130Mar292624231817161210921Feb27Jan2120191412111065431Dec282321141326Nov26Oct22191884130Sep2826232221201614131110987432131Aug242320131211109516Jul141312230Jun2928252318171615141310326May20181714131211107654330Apr2827Do not buffer the resultset (only tested with MySQL)bugfix: <= instead of <In "topup" mode, concurrent inserts make the row count unreliableProtect generate_graph.pl in table-drawing mode from printing too many rows (by setting a limit in JSON config)Protect generate_graph.pl in job-drawing mode from printing too many jobs (by setting a limit in JSON config)extend a method in JobAdaptor to return a limited number of jobs (for use in generate_graph)Fixed a memory leak in data_dbc()cosmetic: renamed README.txt back to README to retain an unbroken history in CVScosmetic: added new commits to README and renamed it Changelog; split out the old README.txt (non-Changelog part)avoid having beekeeper run in submitted-to-the-farm state - detect it, report and quitparam_substitution is now default everywhere, no need to call it explicitlyadded param_required() and param_is_defined() interfaces to Processbugfix: updated examples of how to use JobFactory without and with input_id_templatebugfix: changed implementation of data_dbc() to correctly compare things before cachingClone::clone is no longer used, so dependency has been removedIt is more efficient to give MySQL a LIMIT clauseJobFactory uses $overriding_hash to create jobs/rows from input_id_template; 'input_id' parameter deprecated; standaloneJob supports templates.Substitution machinery now supports an extra $overriding_hash that contains parameters with higher precedence than the whole of param() structurefixed several problems with parameter substitution and detection of undefs; added param_required() and param_is_defined()reload the cached data_dbc() value on change of param('db_conn')The modules of the analyses must be accessibleNew runnable to check the size of the resultset of any SQL queryremoved param_substitute() call from Runnables -- no longer needed, as substitution is automatica "total" (anything-to-anything) substitution mechanism has been implemented in Hive::ParamsThe preferred meadow type must be registeredThe modules of the analysis must be loadableIn dataflow rules within the same database, the destination analysis must existIn control rules within the same database, the condition analysis must existmake sure all LSF pids are quoted, to protect them from tcsh interpretation of square bracketsa new script to remove old "DONE" jobs and associated job_file and log_message entriesseed_pipeline.pl now shows examples of input_ids of seedable analysesMade $final_clause a parameter of _generic_fetch() & removed default ORDER-BY; hopefully fasterIn case no -logic_name/-analysis_id was supplied, show the list of analyses that have no incoming dataflow (and so are candidates for seeding)Added perldoc to seed_pipeline.pl scriptA new script to quickly seed any analysis of any pipeline.hide the calls to URLFactory into the DBAdaptor's constructorhash of resources no longer depends on default_meadow (bugfix)Updated to release 71Tables must be in the right order. Otherwise, the foreign key checks complainresolving conflict: using mine