eol_names_and_ranks_archive.tar.gz only downloadable via browser (not command-line)

[JRice]

currently it ends up in /opt/downloads/eol_names_and_ranks_archive.tar.gz and we need it to be accessible to PHP somewhere "standard".

Update the script: /opt/eol_php_code/rake_tasks/create_eol_archive_names_only.php

[JRice]

The URL should be static, and publicly available... apparently there is one that is working, location TBD.

Note that you should add this file to the .gitignore list, though!

[JRice]

Is this already working? i.e.: http://services.eol.org/downloads/eol_names_and_ranks_archive.tar.gz

[jhpoelen]

@jhammock @JRice thanks for making this available.

For some reason, using wget services.eol.org/downloads/eol_archive_objects.tar.gz results in:

--2015-09-15 08:52:46--  http://services.eol.org/downloads/eol_archive_objects.tar.gz
Resolving services.eol.org... 160.111.248.28
Connecting to services.eol.org|160.111.248.28|:80... connected.
HTTP request sent, awaiting response... 503 Service Unavailable
2015-09-15 08:52:47 ERROR 503: Service Unavailable.

Same occurs for wget http://services.eol.org/downloads/eol_names_and_ranks_archive.tar.gz

--2015-09-15 08:54:43--  http://services.eol.org/downloads/eol_names_and_ranks_archive.tar.gz
Resolving services.eol.org... 160.111.248.28
Connecting to services.eol.org|160.111.248.28|:80... connected.
HTTP request sent, awaiting response... 503 Service Unavailable
2015-09-15 08:54:45 ERROR 503: Service Unavailable.

Downloading in Firefox v40.0.3 seems to work ok (download still in progress...).

Can you reproduce this?

[jhpoelen]

The resource at http://services.eol.org/downloads/eol_names_and_ranks_archive.tar.gz contains the following columns:

taxonID	scientificName	nameAccordingTo	taxonRank	genus	specificEpithet
34543	Enhydra EOL Group on Flickr; IUCN Red List ...	genus	Enhydra

This list helps to associate a specific name string to an EOL page id. However, it is not clear how the name fits into a taxonomic tree (if at all).

I had a similar issue with GloBI were Sergey (see globalbioticinteractions/globalbioticinteractions#70) asked for a full download of taxa included in GloBI. To help do this, I created a dump with with full taxonomic path including tsn's or taxon ids of external taxonomies. This way, Sergey (and others) can easily link a specific taxon to a multitude of taxonomies without having to retrieve them one by one.

I've included an example produced by GloBI after taxonomic name matching against various taxonomic services (including EOLs). Any way that EOL can provide a similar taxon dump periodically? This would cut down the GloBI name resolution time from about a week to hours or less and use the careful taxon links established by EOL curators.

id	name	rank	commonNames	path	pathIds	pathNames
EOL:328583	Enhydra lutris	Species	Seeotter @de ; sea otter @en ; Nutria marina @es ; Merisaukko @fi ; Loutre de mer @fr ; Zeeotter @nl ; Loira de mar @oc ;	Animalia ; Chordata ; Mammalia ; Carnivora ; Mustelidae ; Enhydra ; Enhydra lutris	EOL:1 ; EOL:694 ; EOL:1642 ; EOL:7662 ; EOL:7670 ; EOL:34543 ; EOL:328583	kingdom ; phylum ; class ; order ; family ; genus ; species
OTT:949676	Enhydra lutris	species		Animalia ; Chordata ; Mammalia ; Carnivora ; Mustelidae ; Enhydra ; Enhydra lutris	IRMNG:11 ; IRMNG:148 ; IRMNG:1310 ; IRMNG:12116 ; IRMNG:104767 ; IRMNG:1297077 ; IRMNG:10198728	kingdom ; phylum ; class ; order ; family ; genus ; species
GBIF:2433670	Enhydra lutris	species		Animalia ; Chordata ; Mammalia ; Carnivora ; Mustelidae ; Enhydra ; Enhydra lutris	GBIF:1 ; GBIF:44 ; GBIF:359 ; GBIF:732 ; GBIF:5307 ; GBIF:2433669 ;

...