Great work Andra!
Is there any possibility to add for Ensembl related properties (Gene ID,
Transcript ID etc.) the version of Ensembl from which these Ids are
extracted (maybe by adding a qualifier to the ID value) as Entrez seems to
provide this information? Between Ensembl versions these IDs can
Il 03/10/2014 22:31, Legoktm ha scritto:
On 9/30/14 10:00 AM, Andra Waagmeester wrote:
Would it be accepted if we increase the throughput by running multiple
instances of ProteinBoxBot in parallel. If so, what would be an accepted
number of parallel instances of a bot to run? We can run
The suggestion to use wbeditentity was great. It took me some time to get
used to using that call, but finally I managed and the optimisation was
great. So great that we also finished including the Mouse genome,
yesterday. It only took 2 days to complete, in contrast to the weeks with
the human
On 9/30/14 10:00 AM, Andra Waagmeester wrote:
Would it be accepted if we increase the throughput by running multiple
instances of ProteinBoxBot in parallel. If so, what would be an accepted
number of parallel instances of a bot to run? We can run multiple
instances from different geographical
On Wed, Oct 1, 2014 at 10:56 AM, Andra Waagmeester an...@micelio.be wrote:
There are about 47000 genes. In the first step the bot check if an entry
already exists and, if not a new entry is made subsequently three claims
are added (Entrez Gene ID (P351)
Hey,
Currently each entity creation and subsequent claims are unique API
calls. So using the wbeditentity will probably result in an improvement.
Thanks for the suggestion.
I second that suggestion. It should definitely not take 2 weeks or more to
add a mere 50k items. In case your bot is PHP
Hi All,
I have joined the development team of the ProteinBoxBot (
https://www.wikidata.org/wiki/User:ProteinBoxBot) . Our goal is to make
Wikidata the canonical resource for referencing and translating identifiers
for genes and proteins from different species.
Currently adding all genes
That's very cool! To get an idea, how big is your dataset?
On Tue Sep 30 2014 at 12:06:56 PM Daniel Kinzler
daniel.kinz...@wikimedia.de wrote:
What makes it so slow?
Note that you can use wbeditentity to perform complex edits with a single
api
call. It's not as streight forward to use as,
