Harvest for DC Birds Video Created 10 Jul 11:21

Stage: completed
Fetched: 10 Jul 11:21
Validated: 10 Jul 11:21
Deltas Created 10 Jul 11:21
Units Normalized: 10 Jul 11:21
Ancestry Built: 10 Jul 11:21
Nodes Matched: 10 Jul 11:21
Names Parsed: 10 Jul 11:21
New Models Stored: 10 Jul 11:21
Indexed: 10 Jul 11:21
Completed: 10 Jul 11:21
Time to Harvest: less than a minute
Harvesting Log

(126 lines)
# Logfile created on 2019-07-10 11:21:08 -0400 by logger.rb/56815
[START] [2019-07-10 11:21:08] logged process
[START] [2019-07-10 11:21:08] create_harvest_instance
[STOP] [2019-07-10 11:21:09] create_harvest_instance
[START] [2019-07-10 11:21:09] fetch_files
[STOP] [2019-07-10 11:21:09] fetch_files
[START] [2019-07-10 11:21:09] validate_each_file
[STOP] [2019-07-10 11:21:09] validate_each_file
[START] [2019-07-10 11:21:09] convert_to_csv
[CMD] [2019-07-10 11:21:09] /usr/bin/sort /app/public/converted_csv/dc_birds_video_b_agents_14112.csv > /app/public/converted_csv/dc_birds_video_b_agents_14112.csv_sorted
[CMD] [2019-07-10 11:21:09] /usr/bin/sort /app/public/converted_csv/dc_birds_video_b_nodes_14113.csv > /app/public/converted_csv/dc_birds_video_b_nodes_14113.csv_sorted
[CMD] [2019-07-10 11:21:09] /usr/bin/sort /app/public/converted_csv/dc_birds_video_b_media_14114.csv > /app/public/converted_csv/dc_birds_video_b_media_14114.csv_sorted
[STOP] [2019-07-10 11:21:09] convert_to_csv
[START] [2019-07-10 11:21:09] calculate_delta
[CMD] [2019-07-10 11:21:09] echo "0a" > /app/public/diff/dc_birds_video_b_agents_14112.diff
[CMD] [2019-07-10 11:21:09] tail -n +1 /app/public/converted_csv/dc_birds_video_b_agents_14112.csv >> /app/public/diff/dc_birds_video_b_agents_14112.diff
[CMD] [2019-07-10 11:21:09] echo "." >> /app/public/diff/dc_birds_video_b_agents_14112.diff
[CMD] [2019-07-10 11:21:09] echo "0a" > /app/public/diff/dc_birds_video_b_nodes_14113.diff
[CMD] [2019-07-10 11:21:09] tail -n +1 /app/public/converted_csv/dc_birds_video_b_nodes_14113.csv >> /app/public/diff/dc_birds_video_b_nodes_14113.diff
[CMD] [2019-07-10 11:21:09] echo "." >> /app/public/diff/dc_birds_video_b_nodes_14113.diff
[CMD] [2019-07-10 11:21:09] echo "0a" > /app/public/diff/dc_birds_video_b_media_14114.diff
[CMD] [2019-07-10 11:21:09] tail -n +1 /app/public/converted_csv/dc_birds_video_b_media_14114.csv >> /app/public/diff/dc_birds_video_b_media_14114.diff
[CMD] [2019-07-10 11:21:09] echo "." >> /app/public/diff/dc_birds_video_b_media_14114.diff
[STOP] [2019-07-10 11:21:09] calculate_delta
[START] [2019-07-10 11:21:09] parse_diff_and_store
[INFO] [2019-07-10 11:21:09] Loading agents diff file into memory (true lines)...
[INFO] [2019-07-10 11:21:09] Loading nodes diff file into memory (true lines)...
[INFO] [2019-07-10 11:21:09] Loading media diff file into memory (true lines)...
[INFO] [2019-07-10 11:21:09] Storing 2 Attributions
[INFO] [2019-07-10 11:21:09] Processing group of 2 in 1 groups of 1000
[INFO] [2019-07-10 11:21:09] Average Time: 0.0
[INFO] [2019-07-10 11:21:09] Total Time: 1s
[INFO] [2019-07-10 11:21:09] Storing 42 ScientificNames
[INFO] [2019-07-10 11:21:09] Processing group of 42 in 1 groups of 1000
[INFO] [2019-07-10 11:21:09] Average Time: 0.05
[INFO] [2019-07-10 11:21:09] Total Time: 1s
[INFO] [2019-07-10 11:21:09] Storing 42 Nodes
[INFO] [2019-07-10 11:21:09] Processing group of 42 in 1 groups of 1000
[INFO] [2019-07-10 11:21:09] Average Time: 0.02
[INFO] [2019-07-10 11:21:09] Total Time: 1s
[INFO] [2019-07-10 11:21:09] Storing 120 ContentAttributions
[INFO] [2019-07-10 11:21:09] Processing group of 120 in 1 groups of 1000
[INFO] [2019-07-10 11:21:09] Average Time: 0.12
[INFO] [2019-07-10 11:21:09] Total Time: 1s
[INFO] [2019-07-10 11:21:09] Storing 60 Media
[INFO] [2019-07-10 11:21:09] Processing group of 60 in 1 groups of 1000
[INFO] [2019-07-10 11:21:09] Average Time: 0.04
[INFO] [2019-07-10 11:21:09] Total Time: 1s
[STOP] [2019-07-10 11:21:09] parse_diff_and_store
[START] [2019-07-10 11:21:09] resolve_keys
[INFO] [2019-07-10 11:21:13] Occurrences to nodes (through scientific_names)...
[INFO] [2019-07-10 11:21:13] traits to occurrences...
[INFO] [2019-07-10 11:21:13] traits to nodes (through occurrences)...
[INFO] [2019-07-10 11:21:13] Traits to sex term...
[INFO] [2019-07-10 11:21:13] Traits to lifestage term...
[INFO] [2019-07-10 11:21:13] MetaTraits to traits...
[INFO] [2019-07-10 11:21:13] MetaTraits (simple, measurement row refers to parent) to traits...
[INFO] [2019-07-10 11:21:13] Assocs to occurrences...
[INFO] [2019-07-10 11:21:13] Assocs to nodes...
[INFO] [2019-07-10 11:21:13] Assoc to sex term...
[INFO] [2019-07-10 11:21:13] Assoc to lifestage term...
[STOP] [2019-07-10 11:21:13] resolve_keys
[START] [2019-07-10 11:21:13] hold_for_later_1
[STOP] [2019-07-10 11:21:13] hold_for_later_1
[START] [2019-07-10 11:21:13] hold_for_later_2
[STOP] [2019-07-10 11:21:13] hold_for_later_2
[START] [2019-07-10 11:21:13] resolve_missing_parents
[STOP] [2019-07-10 11:21:13] resolve_missing_parents
[START] [2019-07-10 11:21:13] rebuild_nodes
[START] [2019-07-10 11:21:13] Flattener#flatten
[START] [2019-07-10 11:21:13] Flattener#study_resource
[START] [2019-07-10 11:21:13] Flattener#build_ancestry
[STOP] [2019-07-10 11:21:13] Flattener#build_ancestry
[INFO] [2019-07-10 11:21:13] 42 ancestry keys
[START] [2019-07-10 11:21:13] build_node_ancestors
[INFO] [2019-07-10 11:21:13] old ancestors deleted.
[STOP] [2019-07-10 11:21:13] build_node_ancestors
[START] [2019-07-10 11:21:13] Flattener#propagate_ancestor_ids
[STOP] [2019-07-10 11:21:13] Flattener#propagate_ancestor_ids
[STOP] [2019-07-10 11:21:13] Flattener#flatten
[STOP] [2019-07-10 11:21:13] rebuild_nodes
[START] [2019-07-10 11:21:13] resolve_missing_media_owners
[STOP] [2019-07-10 11:21:13] resolve_missing_media_owners
[START] [2019-07-10 11:21:13] sanitize_media_verbatims
[STOP] [2019-07-10 11:21:13] sanitize_media_verbatims
[START] [2019-07-10 11:21:13] queue_downloads
[STOP] [2019-07-10 11:21:13] queue_downloads
[START] [2019-07-10 11:21:13] parse_names
[WARN] [2019-07-10 11:21:13] I see 42 names which still need to be parsed.
[STOP] [2019-07-10 11:21:15] parse_names
[START] [2019-07-10 11:21:15] denormalize_canonical_names_to_nodes
[STOP] [2019-07-10 11:21:15] denormalize_canonical_names_to_nodes
[START] [2019-07-10 11:21:15] match_nodes
[START] [2019-07-10 11:21:15] map_all_nodes_to_pages
[STOP] [2019-07-10 11:21:18] map_all_nodes_to_pages
[INFO] [2019-07-10 11:21:18] Unmatched nodes (4 of 42): Carduelis tristis (#44147733); Picoides pubescens (#44147744); Anas clypeata (#44147755); Anas americana (#44147757)
[START] [2019-07-10 11:21:18] update_nodes
[STOP] [2019-07-10 11:21:18] update_nodes
[STOP] [2019-07-10 11:21:18] match_nodes
[START] [2019-07-10 11:21:18] reindex_search
[STOP] [2019-07-10 11:21:18] reindex_search
[START] [2019-07-10 11:21:18] normalize_units
[STOP] [2019-07-10 11:21:18] normalize_units
[START] [2019-07-10 11:21:18] calculate_statistics
[STOP] [2019-07-10 11:21:18] calculate_statistics
[START] [2019-07-10 11:21:18] complete_harvest_instance
[START] [2019-07-10 11:21:18] overall_tsv_creation
[INFO] [2019-07-10 11:21:18] Processing group of 42 in 1 batches of 10000
[INFO] [2019-07-10 11:21:50] Average Time: 11.35
[INFO] [2019-07-10 11:21:50] Total Time: 32s
[STOP] [2019-07-10 11:21:50] overall_tsv_creation
[INFO] [2019-07-10 11:21:50] Done. Check your files:
[INFO] [2019-07-10 11:21:50] (42 lines) /app/public/data/dc_birds_video_b/publish_nodes.tsv
[INFO] [2019-07-10 11:21:50] (41 lines) /app/public/data/dc_birds_video_b/publish_node_ancestors.tsv
[INFO] [2019-07-10 11:21:50] (42 lines) /app/public/data/dc_birds_video_b/publish_scientific_names.tsv
[INFO] [2019-07-10 11:21:50] (60 lines) /app/public/data/dc_birds_video_b/publish_media.tsv
[INFO] [2019-07-10 11:21:50] (120 lines) /app/public/data/dc_birds_video_b/publish_attributions.tsv
[STOP] [2019-07-10 11:21:50] complete_harvest_instance
[START] [2019-07-10 11:21:50] completed
[STOP] [2019-07-10 11:21:50] completed
[STOP] [2019-07-10 11:21:50] logged process, took 41.94
[ERR] [2019-07-10 13:03:38][hdls] download_and_prep FAILED for Medium.find(10051571): 404 Not Found
[ERR] [2019-07-10 13:03:39][hdls] download_and_prep FAILED for Medium.find(10051576): 404 Not Found
[ERR] [2019-07-10 13:03:46][hdls] download_and_prep FAILED for Medium.find(10051592): 404 Not Found
[ERR] [2019-07-10 13:03:54][hdls] download_and_prep FAILED for Medium.find(10051612): 404 Not Found
[ERR] [2019-07-10 13:03:55][hdls] download_and_prep FAILED for Medium.find(10051619): 404 Not Found
Latest Process

10 Jul 11:21 EXITED currently processing 0