VRE #10759

Request for a VRE for french tropical tuna fisheries data

Added by Paul Taconet over 1 year ago. Updated about 1 year ago.

Status:ReleasedStart date:Jan 24, 2018
Priority:UrgentDue date:
Assignee:Massimiliano Assante% Done:

100%

Sprint:WP08
VRE_Policy:Restricted Invite_Policy:VRE_Manager
Milestones:
Duration:

Description

In the context of the Data Collection Framework, the french tropical tuna fisheries data are collected by the French Research Institute for Sustainable Development (IRD). From the collection to the dissemination, data are managed by the Observatory of Exploited Tropical Pelagic Ecosystems (Ob7) of the IRD. In the frame of an IRD-french Ministry of fisheries (DPMA) partenship, data are periodicaly furnished by the Ob7 to the Ministry.

There is now a demand from the ministry, but also from other partners that are frequent users of the data (e.g. scientists, fishing vessels owners), to be able to easily discover, access and visualize these data, at any time, without having to make specific data requests to the Ob7.

We would hence like to deploy a VRE to answer these needs. The VRE name should be « French tropical tuna atlas ». The needs are the same as the Tuna Atlas VRE. The new VRE should hence be a replication of the FAO_TunaAtlas VRE (FAO TA). As a reminder, the applications and servers are the followings :

  • Postgresql + Postgis database with one administrator account. The database should be empty (I will deploy the model). The capacity of the DB should be 100 GB. The request is the same as for ticket #10650 (https://support.d4science.org/issues/10650)
  • Geonetwork catalogue. The catalogue should be empty : we will fill it with the data that we store in the DB.
  • Geoserver
  • SAI + Data Miner
  • The Map viewer
  • RStudio
  • Sharelatex
  • Shiny proxy
  • PhpPgAdmin

All the versions for the applications should be the same as the ones running in the FAO_TA VRE.

The priority are the database and the GN instance. We would like to have them ready by the end of January 2018.

For the other applications, end of February 2018 would be a good delivery date.

Thanks,
Paul


Subtasks

Task #11034: French tropical tuna atlas VRE - new PostgreSQL database ...Closed_InfraScience Systems Engineer

D4Science Infrastructure - VM Creation #11038: FrenchTropicalTunaAtlas dedicated GeoNetworkClosedMassimiliano Assante

D4Science Infrastructure - VM Creation #11045: FrenchTropicalTunaAtlas dedicated GeoServerClosedFabio Sinibaldi

Task #11212: FrenchTropicalTunaAtlas: deploy a static webappClosedAndrea Dell'Amico

History

#1 Updated by Paul Taconet over 1 year ago

  • VRE_Policy changed from Open to Restricted

Hi,
Any news on this ticket?
Thanks a lot,
Paul

#2 Updated by Massimiliano Assante over 1 year ago

  • Status changed from New to Planned

#3 Updated by Roberto Cirillo over 1 year ago

Please @paul.taconet@ird.fr could you open a subtask ticket for the db creation as done in #10650 ?

#4 Updated by Paul Taconet over 1 year ago

Ok. I have done it here: #11034
Thanks

#5 Updated by Roberto Cirillo over 1 year ago

I need to understand what will be the name of this VRE in order to open another ticket for the creation of a dedicated geonetwork. @massimiliano.assante@isti.cnr.it, please, could you suggest a name?

#6 Updated by Paul Taconet over 1 year ago

I have suggested in the description « French tropical tuna atlas » as the VRE name but I am open to other propositions. The name should reflect the fact that the VRE concerns data & services for french tropical tuna fisheries

#7 Updated by Massimiliano Assante over 1 year ago

VRE (Short) Name could be: "TropicalTunaFisheriesData" what do you think @paul.taconet@ird.fr ?

#8 Updated by Massimiliano Assante over 1 year ago

Sorry Paul, didn't see your suggestion what about "FrenchTropicalTunaAtlas"?

#9 Updated by Paul Taconet over 1 year ago

Sounds very good! Thank you

#10 Updated by Roberto Cirillo over 1 year ago

What about the geoserver?
If you need admin privileges, we should install a dedicated instance otherwise we could share the geoservers used in FAO_TunaAtlas VRE.

#11 Updated by Paul Taconet over 1 year ago

I would prefer a dedicated instance, since the maintainers and the users of this VRE will not be the same as those of the FAO_tunaatlas VRE.
In addition, some of the data of this new VRE might be confidential.
Thanks

#12 Updated by Emmanuel Blondel over 1 year ago

I confirm they should be separate SDI component instances. Postgis/Geoserver/Geonetwork
Thanks

#13 Updated by Massimiliano Assante over 1 year ago

  • Status changed from Planned to In Progress

#16 Updated by Massimiliano Assante over 1 year ago

  • Status changed from In Progress to Available

@paul.taconet@ird.fr is there anything still missing? Dedicated Geonetowrk and Geoserver have been created please verify

D4Science Infrastructure - VM Creation #11038: FrenchTropicalTunaAtlas dedicated GeoNetwork
D4Science Infrastructure - VM Creation #11045: FrenchTropicalTunaAtlas dedicated GeoServer

#18 Updated by Fabio Sinibaldi about 1 year ago

Hi @paul.taconet@ird.fr,
credentials to SDI Services (such as GeoServer and GeoNetwork) can be retrieved at the following URL by specifying your own token from the VRE of interest (in this case tropical tuna) :
http://sdi.d4science.org/sdi-service/gcube/service/SDI?gcube-token=...

More information available in the service's wiki page here : https://gcube.wiki.gcube-system.org/gcube/Interaction_with_SDI-Service

#19 Updated by Paul Taconet about 1 year ago

Thanks for the answer.

Everything seems OK regarding the PostgreSQL database, GN and GS.
I will start publishing datasets in + or - 1 month.
@emmanuel.blondel@fao.org , for now the viewer seems to be connected to the CSW of the global tuna atlas. Is it possible to connect it to the French tuna atlas?

#20 Updated by Emmanuel Blondel about 1 year ago

They are some pre-requisites:
* data & metadata needs: where I suppose you are setting up the full methodology including metadata, feature catalogue and OGC data service production/publication. Please consider that all ISO metadata files (ISO 19115/19119/19110) will have to 100% validated vs. ISO schemas otherwise the JS client will simply reject them. I would advise to set-up and run the workflow, at least on a subset (but maybe is it already done?) before looking into the viewer
* for viewer deployment: you need to ask CNR (@andrea.dellamico@isti.cnr.it) to provide a place for your VRE webapp under static-web.d4science.org similar to what we have in TunaAtlas, PAIM or AAPS. We need to have access to this server using ssh / SFTP. Once this set-up, we can deploy a clone of the map viewer pointing to your new CSW endpoint.

#21 Updated by Paul Taconet about 1 year ago

Ok, thanks Emmanuel for you very quick answer.

Regarding the point 1 (data & metadata needs), yes I will use the full methodology. At now no data has been integrated in the DB. I will advise you as soon as I have loaded and published data and metadata.

Regarding the point 2, @andrea.dellamico@isti.cnr.it you might know better than me what to do?

#22 Updated by Andrea Dell'Amico about 1 year ago

Paul Taconet wrote:

Ok, thanks Emmanuel for you very quick answer.

Regarding the point 1 (data & metadata needs), yes I will use the full methodology. At now no data has been integrated in the DB. I will advise you as soon as I have loaded and published data and metadata.

Regarding the point 2, @andrea.dellamico@isti.cnr.it you might know better than me what to do?

Yes, please open a ticket asking for a place to deploy a static webapp and I'll provide you what's needed ASAP. You should also publish a valid public ssh key of yours into your portal profile, there's a dedicated field.

#25 Updated by Massimiliano Assante about 1 year ago

  • Status changed from Available to Released

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