Harvest for Jennings et al 2010 Created 30 Jul 14:56

Harvesting Log

# Logfile created on 2020-07-30 14:46:55 -0400 by logger.rb/v1.4.2
[START] [2020-07-30 14:46:55] logged process
[START] [2020-07-30 14:46:55] Creating resource from OpenData
[START] [2020-07-30 14:46:56] logged process
[START] [2020-07-30 14:46:56] Parse meta.xml file and create formats with fields
[STOP] [2020-07-30 14:46:56] Parse meta.xml file and create formats with fields
[STOP] [2020-07-30 14:46:56] Creating resource from OpenData
[INFO] [2020-07-30 14:47:27] ## HARVEST: type = -harvest
[START] [2020-07-30 14:47:31] logged process
[START] [2020-07-30 14:47:31] create_harvest_instance
[STOP] [2020-07-30 14:47:32] create_harvest_instance
[START] [2020-07-30 14:47:32] fetch_files
[STOP] [2020-07-30 14:47:32] fetch_files
[START] [2020-07-30 14:47:32] validate_each_file
[STOP] [2020-07-30 14:47:32] validate_each_file
[START] [2020-07-30 14:47:32] convert_to_csv
[CMD] [2020-07-30 14:47:32] /usr/bin/sort /app/public/converted_csv/jennings_et_al_j_refs_22308.csv > /app/public/converted_csv/jennings_et_al_j_refs_22308.csv_sorted
[CMD] [2020-07-30 14:47:32] /usr/bin/sort /app/public/converted_csv/jennings_et_al_j_nodes_22309.csv > /app/public/converted_csv/jennings_et_al_j_nodes_22309.csv_sorted
[CMD] [2020-07-30 14:47:32] /usr/bin/sort /app/public/converted_csv/jennings_et_al_j_occurrences_22310.csv > /app/public/converted_csv/jennings_et_al_j_occurrences_22310.csv_sorted
[CMD] [2020-07-30 14:47:32] /usr/bin/sort /app/public/converted_csv/jennings_et_al_j_measurements_22311.csv > /app/public/converted_csv/jennings_et_al_j_measurements_22311.csv_sorted
[STOP] [2020-07-30 14:47:32] convert_to_csv
[START] [2020-07-30 14:47:32] calculate_delta
[CMD] [2020-07-30 14:47:32] echo "0a" > /app/public/diff/jennings_et_al_j_refs_22308.diff
[CMD] [2020-07-30 14:47:32] tail -n +1 /app/public/converted_csv/jennings_et_al_j_refs_22308.csv >> /app/public/diff/jennings_et_al_j_refs_22308.diff
[CMD] [2020-07-30 14:47:32] echo "." >> /app/public/diff/jennings_et_al_j_refs_22308.diff
[CMD] [2020-07-30 14:47:32] echo "0a" > /app/public/diff/jennings_et_al_j_nodes_22309.diff
[CMD] [2020-07-30 14:47:32] tail -n +1 /app/public/converted_csv/jennings_et_al_j_nodes_22309.csv >> /app/public/diff/jennings_et_al_j_nodes_22309.diff
[CMD] [2020-07-30 14:47:32] echo "." >> /app/public/diff/jennings_et_al_j_nodes_22309.diff
[CMD] [2020-07-30 14:47:32] echo "0a" > /app/public/diff/jennings_et_al_j_occurrences_22310.diff
[CMD] [2020-07-30 14:47:32] tail -n +1 /app/public/converted_csv/jennings_et_al_j_occurrences_22310.csv >> /app/public/diff/jennings_et_al_j_occurrences_22310.diff
[CMD] [2020-07-30 14:47:32] echo "." >> /app/public/diff/jennings_et_al_j_occurrences_22310.diff
[CMD] [2020-07-30 14:47:32] echo "0a" > /app/public/diff/jennings_et_al_j_measurements_22311.diff
[CMD] [2020-07-30 14:47:32] tail -n +1 /app/public/converted_csv/jennings_et_al_j_measurements_22311.csv >> /app/public/diff/jennings_et_al_j_measurements_22311.diff
[CMD] [2020-07-30 14:47:32] echo "." >> /app/public/diff/jennings_et_al_j_measurements_22311.diff
[STOP] [2020-07-30 14:47:32] calculate_delta
[START] [2020-07-30 14:47:32] parse_diff_and_store
[INFO] [2020-07-30 14:47:32] Loading refs diff file into memory (true lines)...
[INFO] [2020-07-30 14:47:32] Loading nodes diff file into memory (true lines)...
[INFO] [2020-07-30 14:47:32] Loading occurrences diff file into memory (true lines)...
[INFO] [2020-07-30 14:47:32] Loading measurements diff file into memory (true lines)...
[INFO] [2020-07-30 14:47:33] Storing 37 ScientificNames
[INFO] [2020-07-30 14:47:33] Processing group of 37 in 1 groups of 1000
[INFO] [2020-07-30 14:47:33] Average Time: 0.03
[INFO] [2020-07-30 14:47:33] Total Time: 1s
[INFO] [2020-07-30 14:47:33] Storing 37 Nodes
[INFO] [2020-07-30 14:47:33] Processing group of 37 in 1 groups of 1000
[INFO] [2020-07-30 14:47:33] Average Time: 0.02
[INFO] [2020-07-30 14:47:33] Total Time: 1s
[INFO] [2020-07-30 14:47:33] Storing 37 Occurrences
[INFO] [2020-07-30 14:47:33] Processing group of 37 in 1 groups of 1000
[INFO] [2020-07-30 14:47:33] Average Time: 0.01
[INFO] [2020-07-30 14:47:33] Total Time: 1s
[INFO] [2020-07-30 14:47:33] Storing 37 OccurrenceMetadata
[INFO] [2020-07-30 14:47:33] Processing group of 37 in 1 groups of 1000
[INFO] [2020-07-30 14:47:33] Average Time: 0.0
[INFO] [2020-07-30 14:47:33] Total Time: 1s
[INFO] [2020-07-30 14:47:33] Storing 74 Traits
[INFO] [2020-07-30 14:47:33] Processing group of 74 in 1 groups of 1000
[INFO] [2020-07-30 14:47:33] Average Time: 0.03
[INFO] [2020-07-30 14:47:33] Total Time: 1s
[INFO] [2020-07-30 14:47:33] Storing 111 MetaTraits
[INFO] [2020-07-30 14:47:33] Processing group of 111 in 1 groups of 1000
[INFO] [2020-07-30 14:47:33] Average Time: 0.01
[INFO] [2020-07-30 14:47:33] Total Time: 1s
[STOP] [2020-07-30 14:47:33] parse_diff_and_store
[START] [2020-07-30 14:47:33] resolve_keys
[INFO] [2020-07-30 14:47:40] Occurrences to nodes (through scientific_names)...
[INFO] [2020-07-30 14:47:40] traits to occurrences...
[INFO] [2020-07-30 14:47:40] traits to nodes (through occurrences)...
[INFO] [2020-07-30 14:47:40] Traits to sex term...
[INFO] [2020-07-30 14:47:40] Traits to lifestage term...
[INFO] [2020-07-30 14:47:40] MetaTraits to traits...
[INFO] [2020-07-30 14:47:40] MetaTraits (simple, measurement row refers to parent) to traits...
[INFO] [2020-07-30 14:47:40] Assocs to occurrences...
[INFO] [2020-07-30 14:47:40] Assocs to nodes...
[INFO] [2020-07-30 14:47:40] Assoc to sex term...
[INFO] [2020-07-30 14:47:40] Assoc to lifestage term...
[STOP] [2020-07-30 14:47:40] resolve_keys
[START] [2020-07-30 14:47:40] hold_for_later_1
[STOP] [2020-07-30 14:47:40] hold_for_later_1
[START] [2020-07-30 14:47:40] hold_for_later_2
[STOP] [2020-07-30 14:47:40] hold_for_later_2
[START] [2020-07-30 14:47:40] resolve_missing_parents
[STOP] [2020-07-30 14:47:40] resolve_missing_parents
[START] [2020-07-30 14:47:40] rebuild_nodes
[START] [2020-07-30 14:47:40] Flattener#flatten
[START] [2020-07-30 14:47:40] Flattener#study_resource
[START] [2020-07-30 14:47:40] Flattener#build_ancestry
[STOP] [2020-07-30 14:47:40] Flattener#build_ancestry
[INFO] [2020-07-30 14:47:40] 37 ancestry keys
[START] [2020-07-30 14:47:40] build_node_ancestors
[INFO] [2020-07-30 14:47:40] old ancestors deleted.
[STOP] [2020-07-30 14:47:40] build_node_ancestors
[WARN] [2020-07-30 14:47:40] Flattener: nothing to flatten! (Completely flat resource?)
[STOP] [2020-07-30 14:47:40] Flattener#flatten
[STOP] [2020-07-30 14:47:40] rebuild_nodes
[START] [2020-07-30 14:47:40] resolve_missing_media_owners
[STOP] [2020-07-30 14:47:40] resolve_missing_media_owners
[START] [2020-07-30 14:47:40] sanitize_media_verbatims
[STOP] [2020-07-30 14:47:40] sanitize_media_verbatims
[START] [2020-07-30 14:47:40] queue_downloads
[STOP] [2020-07-30 14:47:40] queue_downloads
[START] [2020-07-30 14:47:40] parse_names
[WARN] [2020-07-30 14:47:40] I see 37 names which still need to be parsed.
[STOP] [2020-07-30 14:47:41] parse_names
[START] [2020-07-30 14:47:41] denormalize_canonical_names_to_nodes
[STOP] [2020-07-30 14:47:41] denormalize_canonical_names_to_nodes
[START] [2020-07-30 14:47:41] match_nodes
[START] [2020-07-30 14:47:41] map_all_nodes_to_pages
[STOP] [2020-07-30 14:47:41] map_all_nodes_to_pages
[INFO] [2020-07-30 14:47:41] ZERO unmatched nodes (of 37)! Nicely done.
[START] [2020-07-30 14:47:41] update_nodes
[STOP] [2020-07-30 14:47:41] update_nodes
[STOP] [2020-07-30 14:47:41] match_nodes
[START] [2020-07-30 14:47:41] reindex_search
[STOP] [2020-07-30 14:47:41] reindex_search
[START] [2020-07-30 14:47:41] normalize_units
[STOP] [2020-07-30 14:47:41] normalize_units
[START] [2020-07-30 14:47:41] calculate_statistics
[2020-07-30 14:47:41] ZERO NODE ANCESTORS. Is this actually a completely flat resource?
[STOP] [2020-07-30 14:47:41] calculate_statistics
[START] [2020-07-30 14:47:41] complete_harvest_instance
[START] [2020-07-30 14:47:41] overall_tsv_creation
[INFO] [2020-07-30 14:47:41] Processing group of 37 in 1 batches of 10000
[INFO] [2020-07-30 14:48:30] 37 Traits (unfiltered)...
[INFO] [2020-07-30 14:49:06] 37 Traits (filtered)...
[INFO] [2020-07-30 14:49:06] 0 Associations (filtered)...
[INFO] [2020-07-30 14:49:06] 185 metadata added.
[INFO] [2020-07-30 14:49:06] 0 metadata added.
[INFO] [2020-07-30 14:49:06] Average Time: 57.61
[INFO] [2020-07-30 14:49:06] Total Time: 1m25s
[STOP] [2020-07-30 14:49:06] overall_tsv_creation
[INFO] [2020-07-30 14:49:06] Done. Check your files:
[INFO] [2020-07-30 14:49:06] (37 lines) /app/public/data/jennings_et_al_j/publish_nodes.tsv
[INFO] [2020-07-30 14:49:06] (37 lines) /app/public/data/jennings_et_al_j/publish_scientific_names.tsv
[INFO] [2020-07-30 14:49:06] (38 lines) /app/public/data/jennings_et_al_j/publish_traits.tsv
[INFO] [2020-07-30 14:49:06] (75 lines) /app/public/data/jennings_et_al_j/publish_metadata.tsv
[STOP] [2020-07-30 14:49:06] complete_harvest_instance
[START] [2020-07-30 14:49:06] completed
[STOP] [2020-07-30 14:49:06] completed
[STOP] [2020-07-30 14:49:06] logged process, took 95.27
[INFO] [2020-07-30 14:56:41] ## HARVEST: type = re_download_opendata_-harvest
[INFO] [2020-07-30 14:56:43] ## remove_type: ScientificName
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 37 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.008] Removed 37 Scientificnames
[INFO] [2020-07-30 14:56:44] ## remove_type: Vernacular
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 0 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.011] Removed 0 Vernaculars
[INFO] [2020-07-30 14:56:44] ## remove_type: Article
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 0 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.013] Removed 0 Articles
[INFO] [2020-07-30 14:56:44] ## remove_type: Medium
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 0 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.017] Removed 0 Media
[INFO] [2020-07-30 14:56:44] ## remove_type: Trait
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 74 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.024] Removed 74 Traits
[INFO] [2020-07-30 14:56:44] ## remove_type: MetaTrait
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 111 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.031] Removed 111 Metatraits
[INFO] [2020-07-30 14:56:44] ## remove_type: OccurrenceMetadatum
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 37 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.035] Removed 37 Occurrencemetadata
[INFO] [2020-07-30 14:56:44] ## remove_type: Assoc
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 0 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.038] Removed 0 Assocs
[INFO] [2020-07-30 14:56:44] ## remove_type: MetaAssoc
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 0 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.040] Removed 0 Metaassocs
[INFO] [2020-07-30 14:56:44] ## remove_type: Identifier
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 0 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.042] Removed 0 Identifiers
[INFO] [2020-07-30 14:56:44] ## remove_type: Reference
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 0 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.045] Removed 0 References
[INFO] [2020-07-30 14:56:44] Starting batch with ID 80634446...
[INFO] [2020-07-30 14:56:44] Starting batch with ID 80634446...
[INFO] [2020-07-30 14:56:44] Starting batch with ID 80634446...
[INFO] [2020-07-30 14:56:44] Starting batch with ID 80634446...
[INFO] [2020-07-30 14:56:44] Starting batch with ID 80634446...
[INFO] [2020-07-30 14:56:44] Starting batch with ID 80634446...
[INFO] [2020-07-30 14:56:44] ## remove_type: Node
[INFO] [2020-07-30 14:56:44] ++ Calling delete_all on 37 instances...
[INFO] [2020-07-30 14:56:44] [14:56:44.535] Removed 37 Nodes
[START] [2020-07-30 14:56:44] logged process
[START] [2020-07-30 14:56:44] Creating resource from OpenData
[START] [2020-07-30 14:56:44] logged process
[START] [2020-07-30 14:56:44] Parse meta.xml file and create formats with fields
[STOP] [2020-07-30 14:56:45] Parse meta.xml file and create formats with fields
[STOP] [2020-07-30 14:56:45] Creating resource from OpenData
[START] [2020-07-30 14:56:45] logged process
[START] [2020-07-30 14:56:45] create_harvest_instance
[STOP] [2020-07-30 14:56:46] create_harvest_instance
[START] [2020-07-30 14:56:46] fetch_files
[STOP] [2020-07-30 14:56:46] fetch_files
[START] [2020-07-30 14:56:46] validate_each_file
[STOP] [2020-07-30 14:56:46] validate_each_file
[START] [2020-07-30 14:56:46] convert_to_csv
[CMD] [2020-07-30 14:56:46] /usr/bin/sort /app/public/converted_csv/jennings_et_al_j_refs_22340.csv > /app/public/converted_csv/jennings_et_al_j_refs_22340.csv_sorted
[CMD] [2020-07-30 14:56:46] /usr/bin/sort /app/public/converted_csv/jennings_et_al_j_nodes_22341.csv > /app/public/converted_csv/jennings_et_al_j_nodes_22341.csv_sorted
[CMD] [2020-07-30 14:56:46] /usr/bin/sort /app/public/converted_csv/jennings_et_al_j_occurrences_22342.csv > /app/public/converted_csv/jennings_et_al_j_occurrences_22342.csv_sorted
[CMD] [2020-07-30 14:56:46] /usr/bin/sort /app/public/converted_csv/jennings_et_al_j_measurements_22343.csv > /app/public/converted_csv/jennings_et_al_j_measurements_22343.csv_sorted
[STOP] [2020-07-30 14:56:46] convert_to_csv
[START] [2020-07-30 14:56:46] calculate_delta
[CMD] [2020-07-30 14:56:46] echo "0a" > /app/public/diff/jennings_et_al_j_refs_22340.diff
[CMD] [2020-07-30 14:56:46] tail -n +1 /app/public/converted_csv/jennings_et_al_j_refs_22340.csv >> /app/public/diff/jennings_et_al_j_refs_22340.diff
[CMD] [2020-07-30 14:56:46] echo "." >> /app/public/diff/jennings_et_al_j_refs_22340.diff
[CMD] [2020-07-30 14:56:46] echo "0a" > /app/public/diff/jennings_et_al_j_nodes_22341.diff
[CMD] [2020-07-30 14:56:46] tail -n +1 /app/public/converted_csv/jennings_et_al_j_nodes_22341.csv >> /app/public/diff/jennings_et_al_j_nodes_22341.diff
[CMD] [2020-07-30 14:56:46] echo "." >> /app/public/diff/jennings_et_al_j_nodes_22341.diff
[CMD] [2020-07-30 14:56:46] echo "0a" > /app/public/diff/jennings_et_al_j_occurrences_22342.diff
[CMD] [2020-07-30 14:56:46] tail -n +1 /app/public/converted_csv/jennings_et_al_j_occurrences_22342.csv >> /app/public/diff/jennings_et_al_j_occurrences_22342.diff
[CMD] [2020-07-30 14:56:46] echo "." >> /app/public/diff/jennings_et_al_j_occurrences_22342.diff
[CMD] [2020-07-30 14:56:46] echo "0a" > /app/public/diff/jennings_et_al_j_measurements_22343.diff
[CMD] [2020-07-30 14:56:46] tail -n +1 /app/public/converted_csv/jennings_et_al_j_measurements_22343.csv >> /app/public/diff/jennings_et_al_j_measurements_22343.diff
[CMD] [2020-07-30 14:56:46] echo "." >> /app/public/diff/jennings_et_al_j_measurements_22343.diff
[STOP] [2020-07-30 14:56:46] calculate_delta
[START] [2020-07-30 14:56:46] parse_diff_and_store
[INFO] [2020-07-30 14:56:46] Loading refs diff file into memory (true lines)...
[INFO] [2020-07-30 14:56:46] Loading nodes diff file into memory (true lines)...
[INFO] [2020-07-30 14:56:46] Loading occurrences diff file into memory (true lines)...
[INFO] [2020-07-30 14:56:46] Loading measurements diff file into memory (true lines)...
[INFO] [2020-07-30 14:56:47] Storing 37 ScientificNames
[INFO] [2020-07-30 14:56:47] Processing group of 37 in 1 groups of 1000
[INFO] [2020-07-30 14:56:47] Average Time: 0.01
[INFO] [2020-07-30 14:56:47] Total Time: 1s
[INFO] [2020-07-30 14:56:47] Storing 37 Nodes
[INFO] [2020-07-30 14:56:47] Processing group of 37 in 1 groups of 1000
[INFO] [2020-07-30 14:56:47] Average Time: 0.01
[INFO] [2020-07-30 14:56:47] Total Time: 1s
[INFO] [2020-07-30 14:56:47] Storing 37 Occurrences
[INFO] [2020-07-30 14:56:47] Processing group of 37 in 1 groups of 1000
[INFO] [2020-07-30 14:56:47] Average Time: 0.0
[INFO] [2020-07-30 14:56:47] Total Time: 1s
[INFO] [2020-07-30 14:56:47] Storing 37 OccurrenceMetadata
[INFO] [2020-07-30 14:56:47] Processing group of 37 in 1 groups of 1000
[INFO] [2020-07-30 14:56:47] Average Time: 0.0
[INFO] [2020-07-30 14:56:47] Total Time: 1s
[INFO] [2020-07-30 14:56:47] Storing 74 Traits
[INFO] [2020-07-30 14:56:47] Processing group of 74 in 1 groups of 1000
[INFO] [2020-07-30 14:56:47] Average Time: 0.02
[INFO] [2020-07-30 14:56:47] Total Time: 1s
[INFO] [2020-07-30 14:56:47] Storing 111 MetaTraits
[INFO] [2020-07-30 14:56:47] Processing group of 111 in 1 groups of 1000
[INFO] [2020-07-30 14:56:47] Average Time: 0.01
[INFO] [2020-07-30 14:56:47] Total Time: 1s
[STOP] [2020-07-30 14:56:47] parse_diff_and_store
[START] [2020-07-30 14:56:47] resolve_keys
[INFO] [2020-07-30 14:56:54] Occurrences to nodes (through scientific_names)...
[INFO] [2020-07-30 14:56:54] traits to occurrences...
[INFO] [2020-07-30 14:56:54] traits to nodes (through occurrences)...
[INFO] [2020-07-30 14:56:54] Traits to sex term...
[INFO] [2020-07-30 14:56:54] Traits to lifestage term...
[INFO] [2020-07-30 14:56:54] MetaTraits to traits...
[INFO] [2020-07-30 14:56:54] MetaTraits (simple, measurement row refers to parent) to traits...
[INFO] [2020-07-30 14:56:54] Assocs to occurrences...
[INFO] [2020-07-30 14:56:54] Assocs to nodes...
[INFO] [2020-07-30 14:56:54] Assoc to sex term...
[INFO] [2020-07-30 14:56:54] Assoc to lifestage term...
[STOP] [2020-07-30 14:56:54] resolve_keys
[START] [2020-07-30 14:56:54] hold_for_later_1
[STOP] [2020-07-30 14:56:54] hold_for_later_1
[START] [2020-07-30 14:56:54] hold_for_later_2
[STOP] [2020-07-30 14:56:54] hold_for_later_2
[START] [2020-07-30 14:56:54] resolve_missing_parents
[STOP] [2020-07-30 14:56:54] resolve_missing_parents
[START] [2020-07-30 14:56:54] rebuild_nodes
[START] [2020-07-30 14:56:54] Flattener#flatten
[START] [2020-07-30 14:56:54] Flattener#study_resource
[START] [2020-07-30 14:56:54] Flattener#build_ancestry
[STOP] [2020-07-30 14:56:54] Flattener#build_ancestry
[INFO] [2020-07-30 14:56:54] 37 ancestry keys
[START] [2020-07-30 14:56:54] build_node_ancestors
[INFO] [2020-07-30 14:56:54] old ancestors deleted.
[STOP] [2020-07-30 14:56:54] build_node_ancestors
[WARN] [2020-07-30 14:56:54] Flattener: nothing to flatten! (Completely flat resource?)
[STOP] [2020-07-30 14:56:54] Flattener#flatten
[STOP] [2020-07-30 14:56:54] rebuild_nodes
[START] [2020-07-30 14:56:54] resolve_missing_media_owners
[STOP] [2020-07-30 14:56:54] resolve_missing_media_owners
[START] [2020-07-30 14:56:54] sanitize_media_verbatims
[STOP] [2020-07-30 14:56:54] sanitize_media_verbatims
[START] [2020-07-30 14:56:54] queue_downloads
[STOP] [2020-07-30 14:56:54] queue_downloads
[START] [2020-07-30 14:56:54] parse_names
[WARN] [2020-07-30 14:56:54] I see 37 names which still need to be parsed.
[STOP] [2020-07-30 14:56:55] parse_names
[START] [2020-07-30 14:56:55] denormalize_canonical_names_to_nodes
[STOP] [2020-07-30 14:56:55] denormalize_canonical_names_to_nodes
[START] [2020-07-30 14:56:55] match_nodes
[START] [2020-07-30 14:56:55] map_all_nodes_to_pages
[STOP] [2020-07-30 14:56:55] map_all_nodes_to_pages
[INFO] [2020-07-30 14:56:55] ZERO unmatched nodes (of 37)! Nicely done.
[START] [2020-07-30 14:56:55] update_nodes
[STOP] [2020-07-30 14:56:55] update_nodes
[STOP] [2020-07-30 14:56:55] match_nodes
[START] [2020-07-30 14:56:55] reindex_search
[STOP] [2020-07-30 14:56:55] reindex_search
[START] [2020-07-30 14:56:55] normalize_units
[STOP] [2020-07-30 14:56:55] normalize_units
[START] [2020-07-30 14:56:55] calculate_statistics
[2020-07-30 14:56:55] ZERO NODE ANCESTORS. Is this actually a completely flat resource?
[STOP] [2020-07-30 14:56:55] calculate_statistics
[START] [2020-07-30 14:56:55] complete_harvest_instance
[START] [2020-07-30 14:56:55] overall_tsv_creation
[INFO] [2020-07-30 14:56:55] Processing group of 37 in 1 batches of 10000
[INFO] [2020-07-30 14:57:45] 37 Traits (unfiltered)...
[INFO] [2020-07-30 14:58:21] 37 Traits (filtered)...
[INFO] [2020-07-30 14:58:21] 0 Associations (filtered)...
[INFO] [2020-07-30 14:58:21] 185 metadata added.
[INFO] [2020-07-30 14:58:21] 0 metadata added.
[INFO] [2020-07-30 14:58:21] Average Time: 58.95
[INFO] [2020-07-30 14:58:21] Total Time: 1m27s
[STOP] [2020-07-30 14:58:21] overall_tsv_creation
[INFO] [2020-07-30 14:58:21] Done. Check your files:
[INFO] [2020-07-30 14:58:21] (37 lines) /app/public/data/jennings_et_al_j/publish_nodes.tsv
[INFO] [2020-07-30 14:58:21] (37 lines) /app/public/data/jennings_et_al_j/publish_scientific_names.tsv
[INFO] [2020-07-30 14:58:21] (38 lines) /app/public/data/jennings_et_al_j/publish_traits.tsv
[INFO] [2020-07-30 14:58:21] (75 lines) /app/public/data/jennings_et_al_j/publish_metadata.tsv
[STOP] [2020-07-30 14:58:22] complete_harvest_instance
[START] [2020-07-30 14:58:22] completed
[STOP] [2020-07-30 14:58:22] completed
[STOP] [2020-07-30 14:58:22] logged process, took 96.88

Latest Process

30 Jul 14:56 EXITED currently processing 0