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Import Log for Global Biotic Interactions

  • Started: April 16, 2024 13:22
  • Completed: 17:08:49
  • Failed: 17:08:49
  • Status: stopped

Events (most recent first):

show warnings (32)
  • 17:41:55 (infos) resource.rb:505:in `background_republish'> content_server_connection.rb:104:in `log_info'> /data/Globi/publish_metadata.tsv: Scheme missing.
  • 17:41:54 (warns) resource.rb:505:in `background_republish'> content_server_connection.rb:112:in `log_warn'> USING wget TO RETRIEVE FULL FILE...
  • 17:41:54 (warns) resource.rb:505:in `background_republish'> content_server_connection.rb:112:in `log_warn'> TRUNCATED RESPONSE! Got 400571183 bytes out of 747585637 from https://content.eol.org/data/Globi/publish_metadata.tsv
  • 17:41:20 (infos) resource.rb:505:in `background_republish'> content_server_connection.rb:104:in `log_info'> Connecting to https://content.eol.org/ ...
  • 17:41:20 (infos) resource.rb:505:in `background_republish'> content_server_connection.rb:104:in `log_info'> /data/Globi/publish_traits.tsv: Scheme missing.
  • 17:41:19 (warns) resource.rb:505:in `background_republish'> content_server_connection.rb:112:in `log_warn'> USING wget TO RETRIEVE FULL FILE...
  • 17:41:19 (warns) resource.rb:505:in `background_republish'> content_server_connection.rb:112:in `log_warn'> TRUNCATED RESPONSE! Got 118998543 bytes out of 949928114 from https://content.eol.org/data/Globi/publish_traits.tsv
  • 17:41:08 (infos) resource.rb:505:in `background_republish'> content_server_connection.rb:104:in `log_info'> Connecting to https://content.eol.org/ ...
  • 17:41:08 (infos) resource.rb:505:in `background_republish'> content_server_connection.rb:104:in `log_info'> polling for trait diff metadata: /resources/20/publish_diffs.json
  • 16:57:02 (infos) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:105:in `log_info'> Connecting to https://content.eol.org/ ...
  • 16:57:02 (infos) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:105:in `log_info'> /data/Globi/publish_traits.tsv: Scheme missing.
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> Downloaded: 1 files, 229M in 33s (6.90 MB/s)
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> FINISHED --2024-04-16 20:55:41--
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> 2024-04-16 20:55:41 (31.2 MB/s) - ‘/app/tmp/Globi_tmp_1713300719_publish_traits.tsv’ saved [949928114/949928114]
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> Saving to: ‘/app/tmp/Globi_tmp_1713300719_publish_traits.tsv’
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> Length: 949928114 (906M), 240363851 (229M) remaining [application/octet-stream]
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> HTTP request sent, awaiting response... 206 Partial Content
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> Connecting to content.eol.org (content.eol.org)|160.111.248.42|:443... connected.
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> Saving to: ‘/app/tmp/Globi_tmp_1713300719_publish_traits.tsv’
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> Length: 949928114 (906M) [application/octet-stream]
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> HTTP request sent, awaiting response... 200 OK
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> Connecting to content.eol.org (content.eol.org)|160.111.248.42|:443... connected.
  • 16:56:20 (infos) (pry):14:in `wget_file'> content_server_connection.rb:105:in `log_info'> Resolving content.eol.org (content.eol.org)... 160.111.248.42
  • 16:50:43 (warns) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:113:in `log_warn'> USING wget TO RETRIEVE FULL FILE...
  • 16:50:43 (warns) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:113:in `log_warn'> TRUNCATED RESPONSE! Got 635270399 bytes out of 949928114 from https://content.eol.org/data/Globi/publish_traits.tsv
  • 16:50:16 (infos) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:105:in `log_info'> Connecting to https://content.eol.org/ ...
  • 16:50:16 (infos) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:105:in `log_info'> polling for trait diff metadata: /resources/20/publish_diffs.json?since=1713299990
  • 16:50:16 (starts) (pry):2:in `__pry__'> fast.rb:202:in `publish_traits_with_cleanup'> #publish_traits = TraitBank::Slurp.load_resource_from_repo
  • 16:50:16 (starts) (pry):2:in `__pry__'> fast.rb:202:in `publish_traits_with_cleanup'> Running
  • 16:50:16 (starts) (pry):2:in `__pry__'> fast.rb:186:in `traits_by_resource'> Publishing::Fast.traits_by_resource
  • 16:50:16 (starts) (pry):2:in `__pry__'> fast.rb:186:in `traits_by_resource'> Running
  • 16:48:23 (ends) (pry):2:in `__pry__'> fast.rb:195:in `ensure in traits_by_resource'> Complete
  • 16:48:23 (ends) (pry):2:in `__pry__'> fast.rb:194:in `ensure in traits_by_resource'> TOTAL TIME: 3.3m
  • 16:48:22 (infos) fast.rb:334:in `publish_traits'> slurp.rb:594:in `add_metadata'> adding new metadata
  • 16:48:22 (infos) fast.rb:334:in `publish_traits'> slurp.rb:353:in `log_node_count'> Nodes: 0; Traits: 0; MetaData: 0
  • 16:46:20 (infos) fast.rb:334:in `publish_traits'> slurp.rb:275:in `block in load_csv'> Importing 128000 rows from publish_traits.tsv
  • 16:46:20 (infos) fast.rb:334:in `publish_traits'> slurp.rb:584:in `add_traits'> adding new traits
  • 16:46:20 (infos) fast.rb:334:in `publish_traits'> slurp.rb:613:in `remove_traits'> not removing any traits
  • 16:45:34 (infos) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:104:in `log_info'> Connecting to https://content.eol.org/ ...
  • 16:45:34 (infos) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:104:in `log_info'> /data/Globi/publish_traits.tsv: Scheme missing.
  • 16:45:34 (warns) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:112:in `log_warn'> USING wget TO RETRIEVE FULL FILE...
  • 16:45:34 (warns) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:112:in `log_warn'> TRUNCATED RESPONSE! Got 577104695 bytes out of 949928114 from https://content.eol.org/data/Globi/publish_traits.tsv
  • 16:45:10 (infos) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:104:in `log_info'> Connecting to https://content.eol.org/ ...
  • 16:45:07 (infos) slurp.rb:20:in `load_resource_from_repo'> content_server_connection.rb:104:in `log_info'> polling for trait diff metadata: /resources/20/publish_diffs.json?since=1713299990
  • 16:45:07 (starts) (pry):2:in `__pry__'> fast.rb:202:in `publish_traits_with_cleanup'> #publish_traits = TraitBank::Slurp.load_resource_from_repo
  • 16:45:07 (starts) (pry):2:in `__pry__'> fast.rb:202:in `publish_traits_with_cleanup'> Running
  • 16:45:07 (starts) (pry):2:in `__pry__'> fast.rb:186:in `traits_by_resource'> Publishing::Fast.traits_by_resource
  • 16:45:07 (starts) (pry):2:in `__pry__'> fast.rb:186:in `traits_by_resource'> Running
  • 16:39:50 (ends) (pry):2:in `__pry__'> fast.rb:195:in `traits_by_resource'> Complete
  • 16:39:50 (ends) (pry):2:in `__pry__'> fast.rb:194:in `traits_by_resource'> TOTAL TIME: 5.7m
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