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From Oct 04, 2018 to Nov 02, 2018

Nov 02, 2018

07:35 PM Task #12806: Testing the new settings of the RAKIP infrastructure
Lars Valentin wrote:
> Hey Andrea,
>
> thank you for your answer. I checked your links and I can see some nice gr...
Andrea Dell'Amico
07:22 PM Task #12806: Testing the new settings of the RAKIP infrastructure
Hey Andrea,
thank you for your answer. I checked your links and I can see some nice graphs, but I am not sure if t...
Lars Valentin
06:30 PM Task #12806 (In Progress): Testing the new settings of the RAKIP infrastructure
Hi Lars,
we usually don't do that kind of support. We are in process of refining a set of dashboards to visualise ou...
Andrea Dell'Amico
04:25 PM Task #12806 (Closed): Testing the new settings of the RAKIP infrastructure
Hello Leonardo,
I just published a workflow in KNIME/Dm15coresuse in https://aginfra.d4science.org/group/rakip_por...
Lars Valentin
04:25 PM Support #11605: Set DataMiner queue length to 1
due to changes in a related task Lars Valentin
11:05 AM Support #12254 (Closed): geoserver-french-tunaatlas: strange accounting logs and high load
Luca Frosini
11:01 AM Task #12031 (Closed): gCubeApps - IS-Collector: too many open connections
Luca Frosini
11:01 AM Support #12337 (Closed): Restart Social Data Indexer instance
Luca Frosini

Oct 31, 2018

04:39 PM Task #12788: DMPoolManager - The dm-pool-manager-pre.d4science.org has problems when an algorithm is republished
After the last corrections, I have done another test.
Now in case of update of the algorithm the file is written wit...
Giancarlo Panichi
03:37 PM Task #12614: Need server with joblength 1 to use all 16 cores and a cue system per server.
I would like to pass the task to @lars.valentin@bfr.bund.de ... the community is not in the position to challenge the... Leonardo Candela
02:50 PM Task #12614 (Feedback): Need server with joblength 1 to use all 16 cores and a cue system per server.
The dm cluster with queue 1 has been configured on RAKIP_Portal VRE. Please @leonardo.candela@isti.cnr.it could you c... Roberto Cirillo
02:43 PM Task #12614 (In Progress): Need server with joblength 1 to use all 16 cores and a cue system per server.
Roberto Cirillo
02:52 PM Task #12793 (Closed): DataMiner Service - Check the DataMiner Service configuration
This issue was solved by the ticket #12794. I close this ticket. Giancarlo Panichi
11:17 AM Task #11821: Ansible: Provide a new role for storageHub webapp
Done. I'm going to test it ASAP. Roberto Cirillo

Oct 30, 2018

06:33 PM Task #11821: Ansible: Provide a new role for storageHub webapp
yes, correct Lucio Lelii
06:24 PM Task #11821 (In Progress): Ansible: Provide a new role for storageHub webapp
Lucio Lelii wrote:
> One thing is missing in the ansible configuration. There is a new parameter in the web.xml file...
Roberto Cirillo
06:04 PM Task #11821: Ansible: Provide a new role for storageHub webapp
One thing is missing in the ansible configuration. There is a new parameter in the web.xml file for the uri resolver ... Lucio Lelii
06:01 PM Task #11821 (Closed): Ansible: Provide a new role for storageHub webapp
Roberto Cirillo
06:17 PM Task #12792 (Closed): Apache Server - The response in servlets no longer works correctly
This problem was due to StorageHub and is solved. I close the ticket. Giancarlo Panichi
05:51 PM Task #12794 (Closed): Workspace - Download problem with some file extension
Lucio Lelii
05:23 PM Task #12794: Workspace - Download problem with some file extension

@g.panichi@isti.cnr.it are you referring to a file downloaded by public link? Is it correct?
If it can help, I've ...
Roberto Cirillo
04:10 PM Upgrade #12772: D4Science Preprod Gateway upgrade to gCube 4.13.0
Can you also update the status of the related release tickets in https://support.d4science.org/issues/12772 to deploy... Massimiliano Assante
12:44 PM Upgrade #12739 (Completed): /gcube/preprod upgrade to gCube 4.13
Roberto Cirillo
12:31 PM Task #12799: Memory problems on ckan-d4s1.d4science.org
There's no other way right now, and it's the reason why the two main CKAN instances have so much RAM.
Andrea Dell'Amico
11:52 AM Task #12799: Memory problems on ckan-d4s1.d4science.org
This is a known problem due to harvesting processes (managed through the paster environment) performed by CKAN.
The ...
Francesco Mangiacrapa
11:15 AM Task #12799: Memory problems on ckan-d4s1.d4science.org
[Thu Oct 25 06:04:16 2018] Out of memory: Kill process 19985 (paster) score 848 or sacrifice child
[Thu Oct 25 06:04...
Tommaso Piccioli
11:14 AM Task #12799 (Closed): Memory problems on ckan-d4s1.d4science.org
Many processes killed due to Out of memory Tommaso Piccioli
12:29 PM Incident #12756 (Closed): ShareLatex on VRE CollabResearch crashes very often
The problem disappeared. Andrea Dell'Amico
11:42 AM Task #10954 (Closed): There is no limit to the access log file number
Roberto Cirillo
11:41 AM Task #11522: Provide a cronjob for removing old access.log files
The same cronjob should be added to all the collector instances.
Please could you add it to the following productio...
Roberto Cirillo
11:09 AM Task #11522 (In Progress): Provide a cronjob for removing old access.log files
There are still problems with the "rotate and delete log", at least on these hosts:
collector-d4research.d4science...
Tommaso Piccioli
11:38 AM Task #12798 (Closed): Upgrade the oVirt cluster
All the hypervisors have been upgraded. Andrea Dell'Amico
10:18 AM Task #12614: Need server with joblength 1 to use all 16 cores and a cue system per server.

According to the discussion we had at the meeting, I kindly ask @roberto.cirillo@isti.cnr.it to change the configur...
Leonardo Candela

Oct 29, 2018

07:16 PM Task #12798: Upgrade the oVirt cluster
dlib15x has been upgraded. Andrea Dell'Amico
06:38 PM Task #12798 (In Progress): Upgrade the oVirt cluster
Upgraded:
dlib19x
dlib18x
dlib16x
The upgrade of dlib15x just started.
Andrea Dell'Amico
06:36 PM Task #12798 (Closed): Upgrade the oVirt cluster
The fix for the gluster leak has been released some weeks ago and it seems stable. Also, we are running out of memory... Andrea Dell'Amico
03:29 PM Upgrade #12772: D4Science Preprod Gateway upgrade to gCube 4.13.0
The following portlets are available on preprod1:
~~~
tabular-data-manager-2.20.0-4.13.0-173423
statistical-algo...
Giancarlo Panichi
02:42 PM Upgrade #12772: D4Science Preprod Gateway upgrade to gCube 4.13.0
The Workspace Portlet built with gCube 4.13 at http://eticsbuild2.research-infrastructures.eu:8080/BuildReport/bdownl... Francesco Mangiacrapa
02:54 PM Task #12794 (Closed): Workspace - Download problem with some file extension
The workspace has some error with some file extension.
I have seen that when the .jar file and .R are downloaded th...
Giancarlo Panichi
10:14 AM Task #12793 (Closed): DataMiner Service - Check the DataMiner Service configuration
Check the DataMiner service configuration in Preprod.
Currently if a computation is performed in preVRE it is not s...
Giancarlo Panichi
10:01 AM Upgrade #12739 (In Progress): /gcube/preprod upgrade to gCube 4.13
Roberto Cirillo
10:01 AM Upgrade #12739 (Planned): /gcube/preprod upgrade to gCube 4.13
Roberto Cirillo

Oct 26, 2018

07:42 PM Task #12792: Apache Server - The response in servlets no longer works correctly
Hi @massimiliano.assante@isti.cnr.it , I think that in Preprod there is the old version of the Workspace Portlet, we ... Giancarlo Panichi
07:39 PM Task #12792: Apache Server - The response in servlets no longer works correctly
The workspace Download file servlet (called when you click download) works fine Massimiliano Assante
07:12 PM Task #12792: Apache Server - The response in servlets no longer works correctly
Did you try any other servlet?
Andrea Dell'Amico
04:44 PM Task #12792 (Closed): Apache Server - The response in servlets no longer works correctly
Upgrading Preprod from Nginx to Apache server the Response in servlets no longer works correctly.
I have encounter...
Giancarlo Panichi
05:50 PM Task #12788: DMPoolManager - The dm-pool-manager-pre.d4science.org has problems when an algorithm is republished
Hi @ciro.formisano@eng.it , yes the republishing and updating of the algorithms is a requirement, and it has always w... Giancarlo Panichi
04:07 PM Task #12788: DMPoolManager - The dm-pool-manager-pre.d4science.org has problems when an algorithm is republished
I am not an expert on ansible. However I don't remember if the re-pubblication should have been supported. Are we sur... Ciro Formisano
03:54 PM Task #12788: DMPoolManager - The dm-pool-manager-pre.d4science.org has problems when an algorithm is republished
I tried to run ansible from the command line and I noticed these logs:
~~~
gcube@dm-pool-manager-pre:~/dataminer-...
Giancarlo Panichi
11:46 AM Task #12788 (Closed): DMPoolManager - The dm-pool-manager-pre.d4science.org has problems when an algorithm is republished
The dm-pool-manager-pre.d4science.org has problems when an algorithm is republished.
Perhaps it might even be necess...
Giancarlo Panichi
12:12 PM Task #12789 (Closed): DMPoolManger - Support Python 3.6
We need to support the installation of algorithms written with Python3.6.
For this it is necessary that in the DMPoo...
Giancarlo Panichi

Oct 25, 2018

12:41 PM Task #12742: DataMiner - Support Python 3.6
Done. Andrea Dell'Amico
11:54 AM Task #12742: DataMiner - Support Python 3.6
Hi @andrea.dellamico@isti.cnr.it ,please install it also on dataminer1-pre
because currently StorageHub only runs on...
Giancarlo Panichi
12:18 PM Task #12252: VRE Modeler FARM VO reports only 12 VREs whereas they are circa 28
The new VRE has been correctly disposed so I guess it isn't an expired problem.
I'm going to change this ticket to ...
Roberto Cirillo
10:27 AM Upgrade #12772 (In Progress): D4Science Preprod Gateway upgrade to gCube 4.13.0
The portal bundle libraries built with gCube 4.13 have been installed Massimiliano Assante
10:25 AM Upgrade #12772 (Planned): D4Science Preprod Gateway upgrade to gCube 4.13.0
Massimiliano Assante
10:16 AM Upgrade #12772 (Completed): D4Science Preprod Gateway upgrade to gCube 4.13.0
Massimiliano Assante
10:19 AM Upgrade #12773 (Completed): D4Science Gateway upgrade to gCube 4.13.0
**Hook and theme to upgrade:**
* Login hook
* sobigdata-site-theme-6.3.3
* d4science site theme-6.4.0
* iMarine...
Massimiliano Assante

Oct 24, 2018

07:07 PM Task #12742: DataMiner - Support Python 3.6
python 3.6 is installed on dataminer1-d-d4s.d4science.org, dataminer2-d-d4s.d4science.org, dataminer1-devnext.d4scien... Andrea Dell'Amico
02:07 PM Task #12742 (In Progress): DataMiner - Support Python 3.6
Andrea Dell'Amico
11:52 AM Task #12252: VRE Modeler FARM VO reports only 12 VREs whereas they are circa 28
TestVRE created on FARM, it will expire tomorrow. Now it is present under "deployed VREs" list as expected. Roberto Cirillo
11:41 AM Task #12252: VRE Modeler FARM VO reports only 12 VREs whereas they are circa 28
I'm going to create a test VRE on FARM that will expire after one day. In this way I can verify if the new VRE will ... Roberto Cirillo

Oct 23, 2018

06:07 PM Task #12252: VRE Modeler FARM VO reports only 12 VREs whereas they are circa 28
Roberto Cirillo wrote:
> I'm not the VREModeler owner and I don't know how it works but my suspect is that the missi...
Massimiliano Assante
05:17 PM Task #12252: VRE Modeler FARM VO reports only 12 VREs whereas they are circa 28
I'm not the VREModeler owner and I don't know how it works but my suspect is that the missing VREs are simply expired... Roberto Cirillo
05:06 PM Incident #12756 (In Progress): ShareLatex on VRE CollabResearch crashes very often
I don't see anything strange on the service side. The *session expiring* error could be date related, is your worksta... Andrea Dell'Amico
04:50 PM Incident #12756 (Closed): ShareLatex on VRE CollabResearch crashes very often
Nell'ultima ora il sistema è andato in crash (per così dire) almeno dieci volte, ed ogni volta è stato necessario far... Carlo Meghini

Oct 22, 2018

04:59 PM Upgrade #12739: /gcube/preprod upgrade to gCube 4.13
**Hosting Nodes**
*WHN to upgrade*
* **(POSTPONED)** data1-d.d4science.net
* **(CNR) DONE** dataminer1-pre.d...
Roberto Cirillo
03:44 PM Task #12527: Undeploy FARM/AquaMaps VRE
I'm trying to remove the GenericResources with SecondaryType: MetadataBrokerXSLT
but I'm not able to do that with re...
Roberto Cirillo
03:22 PM Task #12527: Undeploy FARM/AquaMaps VRE
Accordingly with @fabio.sinibaldi@isti.cnr.it I'm going to open a new ticket for checking if the postgis db used by A... Roberto Cirillo
02:52 PM Task #12527 (In Progress): Undeploy FARM/AquaMaps VRE
The postGIS resource pointing to aquamapsgeomar is present only on aquamaps VRE so I'm going to drop it and the other... Roberto Cirillo
12:55 PM Task #12527: Undeploy FARM/AquaMaps VRE
We can get rid of all these resources, they are obsolete.
Just one thing, though : we should check whether the dat...
Fabio Sinibaldi
12:32 PM Task #12527 (Feedback): Undeploy FARM/AquaMaps VRE
There are some resources deployed only in the aquamaps scope.
Can I definitively remove these resource from the infr...
Roberto Cirillo
11:51 AM Task #12527: Undeploy FARM/AquaMaps VRE
The portlets below have been undeployed from the gateways and the cluster was restarted (one node at a time)
* da...
Massimiliano Assante
11:30 AM Task #12527: Undeploy FARM/AquaMaps VRE
The FARM/AquaMaps VRE is not returned by the VRE Modeler service for the FARM VO, e.g. https://services.d4science.org... Massimiliano Assante
11:25 AM Task #12527 (In Progress): Undeploy FARM/AquaMaps VRE
Massimiliano Assante
10:51 AM Support #12747 (Closed): couchbase08 is not responding
Restarted by @tommaso.piccioli@isti.cnr.it now it seems to be ok Roberto Cirillo
09:49 AM Support #12747 (Closed): couchbase08 is not responding
All the check nagios are failing. Please could you check? Roberto Cirillo
09:48 AM Incident #12746 (Closed): geoserver.d4science.org outOfMemory
Roberto Cirillo
09:43 AM Incident #12746: geoserver.d4science.org outOfMemory
it was running with -Xms3072m -Xmx3072m heap space.
I'm going to restart the service
Roberto Cirillo
09:42 AM Incident #12746 (Closed): geoserver.d4science.org outOfMemory
Roberto Cirillo

Oct 19, 2018

06:00 PM Task #12527: Undeploy FARM/AquaMaps VRE
The AquaMaps VRE will be underplayed next Monday, the org.gcube.application.aquamaps.aquamapsportlet.3-1-7 only is de... Massimiliano Assante
04:08 PM Task #12742: DataMiner - Support Python 3.6
The request is described in this ticket #12642
Giancarlo Panichi
03:58 PM Task #12742 (Closed): DataMiner - Support Python 3.6
We have decided to support with DataMiner python 3.6.
So in order to test if the algorithms created for python 3.6 w...
Giancarlo Panichi
11:03 AM Upgrade #12739 (Completed): /gcube/preprod upgrade to gCube 4.13
Roberto Cirillo
11:02 AM Upgrade #12738 (Completed): D4Science Infrastructure Upgrade to gCube 4.13.0
Roberto Cirillo
10:29 AM Support #12737 (Closed): Social-ISTI- mongoR4-si heartbeat fails from mongoR2-si
The mongodb server mongoR4-si.isti.cnr.it is often restarted because of communication problem with the primary node: ... Roberto Cirillo

Oct 18, 2018

05:43 PM VM Creation #12661 (Closed): create a new VM same as data-d.d4science.org to test the new URIResolver
It works fine, Thanks Lucio Lelii
03:27 PM VM Creation #12661 (Feedback): create a new VM same as data-d.d4science.org to test the new URIResolver
Done. Now the configuration correctly reports data1-d.d4science.net.
Andrea Dell'Amico
03:21 PM VM Creation #12661 (In Progress): create a new VM same as data-d.d4science.org to test the new URIResolver
There's a problem with the hostname, the VM was created as data1-d.d4science.org. Working on it.
Andrea Dell'Amico
02:46 PM VM Creation #12661 (Feedback): create a new VM same as data-d.d4science.org to test the new URIResolver
Andrea Dell'Amico
02:46 PM VM Creation #12661: create a new VM same as data-d.d4science.org to test the new URIResolver
The hostname is data1-d.d4science.net, Lucio has gcube and root access.
Andrea Dell'Amico
02:32 PM VM Creation #12661: create a new VM same as data-d.d4science.org to test the new URIResolver
The VM is ready, smartgears 2.2.0-4.12.1-162179 is installed. Let us know if you need a different version.
Note th...
Andrea Dell'Amico
12:43 PM VM Creation #12661: create a new VM same as data-d.d4science.org to test the new URIResolver
OK. Last question, smartgears from snapshots or staging?
Andrea Dell'Amico
12:30 PM VM Creation #12661: create a new VM same as data-d.d4science.org to test the new URIResolver
I will manually install it for now, it's still under development, I'll give you the coordinate after the tests Lucio Lelii
11:42 AM VM Creation #12661: create a new VM same as data-d.d4science.org to test the new URIResolver
You are right. Can you give us the maven coordinates for the uri-resolver? until now the applications on data*.d4scie... Andrea Dell'Amico
10:09 AM VM Creation #12661: create a new VM same as data-d.d4science.org to test the new URIResolver
We need it for the next release, we have to test the URIResolver, without the new uri resolver all the release is blo... Lucio Lelii
05:42 PM Task #12703: Public pages visualised by data miner services and proxies
The information contained in the DataMiner Service metadata and pages has been updated. The services will be updated ... Giancarlo Panichi
05:21 PM Task #12703: Public pages visualised by data miner services and proxies
open mailing list
dataminer-managers@d4science.org
created, these are the destination addresses:
giancarlo...
Tommaso Piccioli
04:17 PM Task #12703 (In Progress): Public pages visualised by data miner services and proxies
Please @tommaso.piccioli@isti.cnr.it , can you create a mail list through which the emails can be sent to all datamin... Giancarlo Panichi
04:37 PM Task #12527: Undeploy FARM/AquaMaps VRE
Not clear if we have to continue with the VRE undeploy or not Massimiliano Assante
03:41 PM Task #12444 (Paused): Enable TLS/SSL on the mongodb production cluster
Roberto Cirillo
03:40 PM Task #12444 (In Progress): Enable TLS/SSL on the mongodb production cluster
The certificates have been already installed on mongodb cluster and mongo volatile area instance. Roberto Cirillo
12:27 PM Upgrade #12729 (Completed): D4Science Infrastructure Upgrade to gCube 4.12.1
Roberto Cirillo
12:27 PM Upgrade #12729 (In Progress): D4Science Infrastructure Upgrade to gCube 4.12.1
Roberto Cirillo
12:26 PM Upgrade #12729 (Planned): D4Science Infrastructure Upgrade to gCube 4.12.1
Roberto Cirillo
12:24 PM Upgrade #12729 (Completed): D4Science Infrastructure Upgrade to gCube 4.12.1
Roberto Cirillo

Oct 17, 2018

08:22 PM Task #12516 (Closed): PF-KPIs VRE: new PostgreSQL database is needed
Andrea Dell'Amico
03:01 PM VRE #12344: AlienAndInvasiveSpecies VRE
do we need to add other data to GN 3? Species distribution maps are not yet present.
Pasquale Pagano
02:58 PM Task #12711 (Closed): GeoNetwork connector provisioning on GN 3.2.1
Fabio Sinibaldi
02:57 PM Task #12711: GeoNetwork connector provisioning on GN 3.2.1
Ok, I changed the configuration in production by following your instruction and it works.
I renamed the titles in...
Pasquale Pagano
02:47 PM Task #12711: GeoNetwork connector provisioning on GN 3.2.1
Fabio Sinibaldi wrote:
> I don't have the configuration rights on production portals.
@massimiliano.assante@isti....
Andrea Dell'Amico
02:41 PM Task #12711: GeoNetwork connector provisioning on GN 3.2.1
I don't have the configuration rights on production portals. Fabio Sinibaldi
01:17 PM Task #12711: GeoNetwork connector provisioning on GN 3.2.1
It works for me in pre. Have you fixed the production? Pasquale Pagano
12:13 PM Task #12711 (Feedback): GeoNetwork connector provisioning on GN 3.2.1
Actually it works (but maybe there's a bug when dealing with anchors).
Double checked in preprod portal, and fixe...
Fabio Sinibaldi
02:44 PM Task #12671 (Closed): provision of patched org.gcube.spatial-data.geonetwork.3.2.3
I don't have enough details to perform tests in production via the DataMiner or other services.
Also, I wouldn't ...
Fabio Sinibaldi
12:40 PM Task #12671 (Feedback): provision of patched org.gcube.spatial-data.geonetwork.3.2.3
Library upgraded on the services above.
Please @fabio.sinibaldi@isti.cnr.it could you check?
Roberto Cirillo
12:09 PM Task #12671 (In Progress): provision of patched org.gcube.spatial-data.geonetwork.3.2.3
Roberto Cirillo
12:08 PM Task #12671: provision of patched org.gcube.spatial-data.geonetwork.3.2.3
I'm goingo to replace the geonetwork library on the following services:
dataminer
spd,
tabulardata
Roberto Cirillo
02:13 PM Task #12599 (In Progress): Is it possible to install rJava on RStudioLab?
I'm still not able to find the reason why the load of the library fails from inside rstudio while it works from a she... Andrea Dell'Amico
12:55 PM VM Creation #12592 (Closed): StorageHub in preproduction
Good news. I'm going to close this ticket Roberto Cirillo
12:23 PM VM Creation #12592: StorageHub in preproduction
it seems ok Lucio Lelii
10:40 AM VM Creation #12592 (Feedback): StorageHub in preproduction
Please @lucio.lelii@isti.cnr.it could you check if the service is configured properly now? Roberto Cirillo
10:38 AM VM Creation #12592: StorageHub in preproduction
I've opened the postgres to the new storagehub instance and now it seems to work fine. Roberto Cirillo
11:18 AM Task #12714 (Rejected): DataMiner - Check svn configuration of dataminer-ghost-d.dev.d4science.org
I'm going to close this ticket since the ghost is just an alias and the dm installation was done manually.
If you ne...
Roberto Cirillo

Oct 16, 2018

07:55 PM Task #12711: GeoNetwork connector provisioning on GN 3.2.1
Note that it does not work even in Pre-production ... The call issued in this case is the following
Public applica...
Pasquale Pagano
07:52 PM Task #12711 (In Progress): GeoNetwork connector provisioning on GN 3.2.1
It does not work in production. The call issued by the browser is the following
https://geonetwork-spatialdata.d4s...
Pasquale Pagano
07:38 PM Task #12711 (Feedback): GeoNetwork connector provisioning on GN 3.2.1
The connector has been installed into geonetwork-spatialdata.d4science.org too. Andrea Dell'Amico
05:30 PM Task #12711: GeoNetwork connector provisioning on GN 3.2.1
geonetwork.pre.d4science.net is ready to be tested.
Andrea Dell'Amico
05:20 PM Task #12711: GeoNetwork connector provisioning on GN 3.2.1
The playbook is ready to be tested. I only need to know where. Andrea Dell'Amico
03:02 PM Task #12711 (In Progress): GeoNetwork connector provisioning on GN 3.2.1
Andrea Dell'Amico
12:06 PM Task #12711 (Closed): GeoNetwork connector provisioning on GN 3.2.1
GeoNetwork 3.2.1 provisioning tasks should include the installation and configuration of gcube geonetwork-connector.
...
Fabio Sinibaldi
07:12 PM Task #12719 (Closed): Equip FIT4RRI with VRE with Wiki facilities
The wiki is there. Leonardo Candela
06:54 PM Task #12719 (Closed): Equip FIT4RRI with VRE with Wiki facilities
The FIT4RRI should be equipped with a Wiki Leonardo Candela
06:42 PM VM Creation #12592: StorageHub in preproduction
I've pushed right now the new storagehub preproduction files Roberto Cirillo
06:13 PM VM Creation #12592: StorageHub in preproduction
I've launched the playbook but I see the following exception:
~~~
SQLNestedException: Cannot create PoolableConne...
Roberto Cirillo
05:29 PM Task #12671: provision of patched org.gcube.spatial-data.geonetwork.3.2.3
DataMiner tests are successful. Please run patch provisioning on production environment. Fabio Sinibaldi
04:06 PM Task #12714: DataMiner - Check svn configuration of dataminer-ghost-d.dev.d4science.org
Roberto Cirillo wrote:
> The dataminer ghost: dataminer-ghost-d.dev.d4science.org is an ALIAS of dataminer1-devnext ...
Andrea Dell'Amico
04:02 PM Task #12714: DataMiner - Check svn configuration of dataminer-ghost-d.dev.d4science.org
The dataminer ghost: dataminer-ghost-d.dev.d4science.org is an ALIAS of dataminer1-devnext and it is not present in t... Roberto Cirillo
03:18 PM Task #12714 (Rejected): DataMiner - Check svn configuration of dataminer-ghost-d.dev.d4science.org
Check svn configuration of dataminer-ghost-d.dev.d4science.org.
The DataMiner ghost in dev should point to the algor...
Giancarlo Panichi
12:47 PM Task #12678: Ansible-dataminer: manage parallel computation as parameter in web.xml
Roberto Cirillo wrote:
> The new dataminer app has been installed successfully: The new web.xml is properly managed....
Andrea Dell'Amico
11:09 AM Task #12678 (Closed): Ansible-dataminer: manage parallel computation as parameter in web.xml
The new dataminer app has been installed successfully: The new web.xml is properly managed.
I've explicitly set the...
Roberto Cirillo
11:04 AM Task #12678: Ansible-dataminer: manage parallel computation as parameter in web.xml
The playbook take very long time: about one hour for update a single instance.
Most of the time used for installing ...
Roberto Cirillo
10:23 AM Task #12678 (In Progress): Ansible-dataminer: manage parallel computation as parameter in web.xml
Roberto Cirillo
12:16 PM Task #12058: IS-Collector: Restart all the smartgears services with too many open connections to IS-Collector
socialnetworking should be restarted again. I'm going to restart it. Roberto Cirillo
11:42 AM Task #12705 (Closed): dataminer1-proto: full of twitterMonitor log
Thanks @salvatore.minutoli@iit.cnr.it for your feedback. It's not needed to remove your log from the code since the l... Roberto Cirillo
11:11 AM Task #12705: dataminer1-proto: full of twitterMonitor log
This behaviour is actually normal. I thought old logs would be removed. However, if needed, I could remove the log fr... Salvatore Minutoli
10:09 AM Task #12705: dataminer1-proto: full of twitterMonitor log
@salvatore.minutoli@iit.cnr.it do you think it is a normal behavior?
The log is printed in the dataminer instance.
Roberto Cirillo
09:58 AM Task #12705 (Closed): dataminer1-proto: full of twitterMonitor log
Since 27th September, the analysis.log file is full of the following log line:
~~~
2018-09-27 10:21:55,983 [pool-...
Roberto Cirillo
10:26 AM Task #12703: Public pages visualised by data miner services and proxies
I'm reassigning to Giancarlo, when he'll have the new index.html ready I'll change the playbook to replace the origin... Andrea Dell'Amico
10:07 AM Task #12703: Public pages visualised by data miner services and proxies
I would also suggest to reconsider the WPS responses.
For instance this is the getCapabilities
~~~
http://data...
Leonardo Candela

Oct 15, 2018

07:56 PM Task #12703 (Closed): Public pages visualised by data miner services and proxies
If you access either http://dataminer0-proto.d4science.org//wps/ or http://dataminer-prototypes.d4science.org/wps/ y... Pasquale Pagano
06:41 PM VM Creation #8561 (In Progress): Move authorization service instance on a new VM called auth-dev.d4science.org
I just added the CNAME again, some services still break.
Andrea Dell'Amico
06:02 PM Incident #12696 (Closed): geonetwork-spatialdata.d4science.org denied access to database
GeoNetwork is now connected and the error is no more stated in the webapp logs. Fabio Sinibaldi
05:12 PM Incident #12696 (In Progress): geonetwork-spatialdata.d4science.org denied access to database
I just reloaded the postgresql service to be on the safe side, but in the logs I saw:'
~~~
2018-10-15 16:59:43.41...
Andrea Dell'Amico
05:03 PM Incident #12696 (Closed): geonetwork-spatialdata.d4science.org denied access to database
Node configuration seems faulty. From logs I can see the following error (seemingly the cause of other following ones... Fabio Sinibaldi
05:54 PM Incident #12695 (Closed): virtuoso.i-marine.d4science.org certificate is expired, so the service is not working inside the VRE
Fixed. Restarted the service to load the latest certificate.
Kostas Kakaletris
03:47 PM Incident #12695 (Closed): virtuoso.i-marine.d4science.org certificate is expired, so the service is not working inside the VRE

The embedded services, eg https://services.d4science.org/group/biodiversitylab/sparql-search show an empty page bec...
Andrea Dell'Amico
04:54 PM Task #12682: Add the CKAN Catalogue to the French Tropical Tuna Atlas VRE
Leonardo Candela wrote:
> @francesco.mangiacrapa@isti.cnr.it what about the 43 services?
>
A plausible answer ...
Francesco Mangiacrapa
03:56 PM Task #12682: Add the CKAN Catalogue to the French Tropical Tuna Atlas VRE
@francesco.mangiacrapa@isti.cnr.it what about the 43 services?
BTW the catalogue is working and "visible" to all ...
Leonardo Candela
03:49 PM Task #12682: Add the CKAN Catalogue to the French Tropical Tuna Atlas VRE
On the BB Catalogue, the harvesting of dedicated GN (http://geonetwork-french-tunaatlas.d4science.org/geonetwork/) ha... Francesco Mangiacrapa
11:04 AM Task #12682: Add the CKAN Catalogue to the French Tropical Tuna Atlas VRE
The proper organization "French Tropical Tuna Atlas" has been created on the BB Catalogue and the view per VRE activa... Francesco Mangiacrapa
10:49 AM Task #12682 (Feedback): Add the CKAN Catalogue to the French Tropical Tuna Atlas VRE
Resources created. Please could you enable the view in the VRE and check? Roberto Cirillo
10:36 AM Task #12682 (In Progress): Add the CKAN Catalogue to the French Tropical Tuna Atlas VRE
Roberto Cirillo
04:34 PM Task #12694 (Closed): GeoNetwork for AlienAndInvasiveSpecies VRE
Resource found and instance correctly registered in scope by using sdi-service. Thanks Fabio Sinibaldi
04:27 PM Task #12694 (Feedback): GeoNetwork for AlienAndInvasiveSpecies VRE
added. Please could you check? Roberto Cirillo
04:03 PM Task #12694 (In Progress): GeoNetwork for AlienAndInvasiveSpecies VRE
Roberto Cirillo
03:39 PM Task #12694 (Closed): GeoNetwork for AlienAndInvasiveSpecies VRE
Please add the geonetwork hosted on geonetwork-spatialdata.d4science.org to /d4science.research-infrastructures.eu/gC... Fabio Sinibaldi
03:05 PM Task #8673 (Closed): Reconfigure the authorization clients in dev to use https://auth-d.dev.d4science.org/ as the URL for the authentication service
I just removed node7.d.d4science.research-infrastructures.eu record from the DNS.
Andrea Dell'Amico
02:57 PM Task #8673: Reconfigure the authorization clients in dev to use https://auth-d.dev.d4science.org/ as the URL for the authentication service
I think it can be closed. Lucio Lelii
02:35 PM Task #8673: Reconfigure the authorization clients in dev to use https://auth-d.dev.d4science.org/ as the URL for the authentication service
Any news on this one? Andrea Dell'Amico
02:57 PM Task #12678 (Paused): Ansible-dataminer: manage parallel computation as parameter in web.xml
New variable managed. I need to test it in preproduction environment when the new dataminer version (1.5.5) is availa... Roberto Cirillo
02:27 PM Task #12678 (In Progress): Ansible-dataminer: manage parallel computation as parameter in web.xml
Roberto Cirillo
02:31 PM Task #10505 (Closed): R processes out of control on dataminer0-proto.d4science.org
Closing, as nobody is interested. Andrea Dell'Amico
12:53 PM VM Creation #12661: create a new VM same as data-d.d4science.org to test the new URIResolver
As we have to introduce smartgears, the playbook must be changed. We are going to switch from apache to nginx too. Andrea Dell'Amico
11:55 AM VM Creation #12661: create a new VM same as data-d.d4science.org to test the new URIResolver
any news on this ? Lucio Lelii
12:36 PM VM Creation #12592: StorageHub in preproduction
The external storage data disk are specified in the description as usual. Roberto Cirillo
12:26 PM VM Creation #12592: StorageHub in preproduction
Roberto Cirillo wrote:
> I've notice that the external storage data disk described in the description are not added....
Tommaso Piccioli

Oct 12, 2018

06:36 PM Task #12682 (Closed): Add the CKAN Catalogue to the French Tropical Tuna Atlas VRE
The French Tropical Tuna Atlas should be equipped with a CKAN Catalogue. The portlet is already there (visibility is ... Leonardo Candela
05:09 PM Task #12678 (Closed): Ansible-dataminer: manage parallel computation as parameter in web.xml
It's needed to create an ansible task for adding the parallel computation parameter in the web.xml as reported here: ... Roberto Cirillo
03:14 PM Task #12671 (Paused): provision of patched org.gcube.spatial-data.geonetwork.3.2.3
Roberto Cirillo
03:06 PM Task #12671: provision of patched org.gcube.spatial-data.geonetwork.3.2.3
Preliminary test successful.
I'm gonna ask for more detailed tests in this environment in #12428
Fabio Sinibaldi
02:54 PM Task #12671 (Feedback): provision of patched org.gcube.spatial-data.geonetwork.3.2.3
The library has been replaced in preprod on the following instances:
~~~
dataminer-ghost-t.pre.d4science.org
dat...
Roberto Cirillo
02:46 PM Task #12671 (In Progress): provision of patched org.gcube.spatial-data.geonetwork.3.2.3
I'm going to replace the geonetwork library first on preproduction dataminer service instance. if it works well, I'm ... Roberto Cirillo
01:03 PM Task #12671 (Closed): provision of patched org.gcube.spatial-data.geonetwork.3.2.3
The library should be provisioned on nodes that are going to interact with GeoNetwork 3.2.1. The patch involves publi... Fabio Sinibaldi

Oct 11, 2018

05:01 PM VM Creation #12592: StorageHub in preproduction
I've notice that the external storage data disk described in the description are not added. Please could you add the ... Roberto Cirillo
03:55 PM VM Creation #12592: StorageHub in preproduction
Roberto Cirillo wrote:
> I'm not able to access to storagehub.pre.d4science.net please could you give me access?
...
Tommaso Piccioli
11:21 AM VM Creation #12592: StorageHub in preproduction
@lucio.lelii@isti.cnr.it the smartgears_hostname should be the same of homelibrary hostname as done in production or ... Roberto Cirillo
10:22 AM VM Creation #12592: StorageHub in preproduction
I'm not able to access to storagehub.pre.d4science.net please could you give me access? Roberto Cirillo
04:48 PM VM Creation #12661 (In Progress): create a new VM same as data-d.d4science.org to test the new URIResolver
@lucio.lelii@isti.cnr.it could you please complete the smartgears info? Tommaso Piccioli
04:00 PM VM Creation #12661 (Closed): create a new VM same as data-d.d4science.org to test the new URIResolver
This VM needs the same configuration of apache and tomcat present in data-d.d4science.org.
It needs also the install...
Lucio Lelii
09:56 AM Incident #12655 (Closed): workspace down: postgres filesystem is no more accessible
Postgresql disk reactivated Tommaso Piccioli
09:42 AM Incident #12655 (Closed): workspace down: postgres filesystem is no more accessible
the postgres db hosted on
~~~
workspace-repository-pg.d4science.org
~~~
is down and if i try to restart it, I...
Roberto Cirillo

Oct 10, 2018

05:07 PM VM Creation #12592 (In Progress): StorageHub in preproduction
New VM storagehub.pre.d4science.net running, to be provisioned. Tommaso Piccioli
04:47 PM Task #12639 (Closed): DataMiner - Check the configuration of the algorithms for the Proto Generic Workers.
Roberto Cirillo
04:09 PM Task #12639: DataMiner - Check the configuration of the algorithms for the Proto Generic Workers.
I can confirm that the proto algorithms are installed correctly.
Giancarlo Panichi
12:23 PM Task #12639: DataMiner - Check the configuration of the algorithms for the Proto Generic Workers.
All the instances have been updated. Please @g.panichi@isti.cnr.it could you perform the last check? Roberto Cirillo
11:56 AM Task #12639: DataMiner - Check the configuration of the algorithms for the Proto Generic Workers.
The problem is in the web.xml file that have the old folder inside... I'm going to update the web.xml and restart the... Roberto Cirillo
11:48 AM Task #12639: DataMiner - Check the configuration of the algorithms for the Proto Generic Workers.
the GetCapabilities doesn't work now. I guess because after the restart the dataminer try to use the deleted folder /... Roberto Cirillo
11:09 AM Task #12639 (Feedback): DataMiner - Check the configuration of the algorithms for the Proto Generic Workers.
All the instances have been changed and restarted. Please close this ticket if it is ok for you. Roberto Cirillo
10:51 AM Task #12639: DataMiner - Check the configuration of the algorithms for the Proto Generic Workers.
For the moment, I've upgraded only dataminer0-gw-proto.d4science.org. I'm going to change the other instances and res... Roberto Cirillo
10:44 AM Task #12639 (In Progress): DataMiner - Check the configuration of the algorithms for the Proto Generic Workers.
Please @roberto.cirillo@isti.cnr.it, can you restart all DataMiner so that tomcat instances load the correct jar? Tha... Giancarlo Panichi
10:30 AM Task #12639 (Feedback): DataMiner - Check the configuration of the algorithms for the Proto Generic Workers.
For testing, I've modified only dataminer0-gw-proto.d4science.org
Please @g.panichi@isti.cnr.it could you check if...
Roberto Cirillo
10:04 AM Task #12639 (In Progress): DataMiner - Check the configuration of the algorithms for the Proto Generic Workers.
I've never exectuted this kind of task. I hope it works as I expect Roberto Cirillo
12:53 AM Task #12599: Is it possible to install rJava on RStudioLab?
Hi @andrea.dellamico@isti.cnr.it , the instances i've tried are:
* http://ip-90-147-167-30.ct1.garrservices.it/ (fro...
Emmanuel Blondel
12:47 AM Task #12599: Is it possible to install rJava on RStudioLab?
I just tried RStudioLab (my instance was rstudio1.d4science.org) and rJava loaded, here is a screenshot.
I've also ...
Andrea Dell'Amico

Oct 09, 2018

04:32 PM Task #12639 (Closed): DataMiner - Check the configuration of the algorithms for the Proto Generic Workers.
The Proto Generic Workers have been configured to use the algorithms of production:
~~~
gcube@dataminer0-gw-proto...
Giancarlo Panichi
02:36 PM Support #12634 (Closed): Resource leak in geonetwork processes
VM restarted Oct 9 13:25 Tommaso Piccioli
01:51 PM Support #12250: so called "right click feature" to send model file from folder directly to the dataminer
We will integrate it for now into the Dev VRE as well. I will create a sub-ticket on that. Matthias Filter
12:54 PM Task #12599: Is it possible to install rJava on RStudioLab?
I've tried on both RStudioLab and RPrototypingLab, and before i've restarted the R session in case Emmanuel Blondel
12:47 PM Task #12599: Is it possible to install rJava on RStudioLab?
On what instance? I’ll try to reproduce from inside studio, because the library always loads successfully when I run ... Andrea Dell'Amico
11:51 AM Task #12599: Is it possible to install rJava on RStudioLab?
still get the same error
library(rJava)
Error: package or namespace load failed for ‘rJava’:
.onLoad failed i...
Emmanuel Blondel
11:39 AM Task #12599: Is it possible to install rJava on RStudioLab?
It's not even that. it seems that I have to setup a full java environment before running `R CMD javareconf`. The comm... Andrea Dell'Amico
11:01 AM Task #12599: Is it possible to install rJava on RStudioLab?
It seems that `rJava` wants `JAVA_HOME="/usr/lib/jvm/java-8-oracle/jre"`, while that variable is usually `JAVA_HOME="... Andrea Dell'Amico
10:13 AM Support #12636 (Closed): Redmine: preventing email addresses to be shown in public projects
As reported in #12333 in the case of Redmine public projects everything (including email addresses of the people invo... Leonardo Candela
09:29 AM Incident #12552 (Closed): VME-DB error after updating a VME report
Thank you all for the effort, I will proceed to close the ticket as everything is working fine. Jesus Santamaria Fernandez

Oct 08, 2018

07:15 PM Task #12614: Need server with joblength 1 to use all 16 cores and a cue system per server.
Good idea to discuss that during PBM. I would like to add a few thoughts for later discussion.
I understand that t...
Lars Valentin
05:45 PM Task #12614: Need server with joblength 1 to use all 16 cores and a cue system per server.
I agree to discuss this during the next PBM.
I will add this ticket to the WP6 discussion slot.
Matthias Filter
04:42 PM Task #12614: Need server with joblength 1 to use all 16 cores and a cue system per server.

Apart from the technicalities behind this request, there is an organisational issue.
It was clarified many tim...
Leonardo Candela
06:41 PM Incident #12552 (Feedback): VME-DB error after updating a VME report
Jesus, good news, Reports manager updated in production and seems working.
Just for testing purposes I committed a...
Massimiliano Assante
03:18 PM Incident #12552: VME-DB error after updating a VME report
Jesus, Production has not been updated yet. The fix is in integration now. Will let you know when we put the Reports ... Massimiliano Assante
03:14 PM Incident #12552: VME-DB error after updating a VME report
Dear Massimiliano,
We have tried again but still a warning message appears after updating a report even if the rep...
Jesus Santamaria Fernandez
11:37 AM Incident #12552: VME-DB error after updating a VME report
The fix has been done in the code as requested, submitting a remote build now Massimiliano Assante
06:29 PM Support #12634 (Feedback): Resource leak in geonetwork processes
I'm not sure whether the problem is due to lucene or geonetwork using it (probably the use of IndexSearcher), but it'... Fabio Sinibaldi
06:12 PM Support #12634 (Closed): Resource leak in geonetwork processes
on geonetwork1-p-d4s.d4science.org (alias geonetwork.d4science.org) there are many deleted files with existing file s... Tommaso Piccioli
04:17 PM Support #12250: so called "right click feature" to send model file from folder directly to the dataminer
If this feature (the algorithm for executing FSKX-based models) is of interest for the RAKIP community only, there is... Leonardo Candela

Oct 06, 2018

03:22 PM Support #12250 (Closed): so called "right click feature" to send model file from folder directly to the dataminer
As I found out finally the variable name to accept a file and KNIME with FSK plugin is functional now, I tested the s... Lars Valentin
01:57 PM Task #12614 (Closed): Need server with joblength 1 to use all 16 cores and a cue system per server.
as explained here https://support.d4science.org/issues/11605#note-16 I follow the wish from https://support.d4science... Lars Valentin

Oct 05, 2018

02:58 PM Task #12599: Is it possible to install rJava on RStudioLab?
What i got trying to run 'library(rJava)' (in ``RStudioLab`` and ``RPrototypingLab`` VREs)
```
Error: package or ...
Emmanuel Blondel
11:53 AM Task #12608 (Closed): Wiki: Update dataminer mandatory resources
The following wiki:
https://gcube.wiki.gcube-system.org/gcube/ServiceManager_Guide#Statistical_Manager
contai...
Roberto Cirillo
10:44 AM Support #12607: VREModeler portlet is no more present in dev environment
Thank you @massimiliano.assante@isti.cnr.it Roberto Cirillo
10:37 AM Support #12607 (Closed): VREModeler portlet is no more present in dev environment
devsec: https://next.d4science.org/group/devsec/vre-definition
devNext: https://next.d4science.org/group/devnext/v...
Massimiliano Assante
10:31 AM Support #12607 (In Progress): VREModeler portlet is no more present in dev environment
Massimiliano Assante
10:28 AM Support #12607 (Closed): VREModeler portlet is no more present in dev environment
PLease could you add the VREModeler to the dev gateway?
I've not found it in devsec and devNext VOs
Roberto Cirillo

Oct 04, 2018

11:59 AM Support #12249 (Closed): Need installed KNIME 3.6 and R 3.4 including the listed plugins
Since everything is working as reported in #12578 I'm going to close this ticket and to say thank you to all the peop... Leonardo Candela
11:58 AM Support #12580 (Closed): WP6: Question on KNIME instances and DM
Leonardo Candela
11:56 AM Task #12578 (Closed): Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested
Ok, it seems that we have completed this task. Going to close the ticket. Pasquale Pagano
10:55 AM Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested
I just added the test.fskx file for testing the testworkflow and I get no permission error messages anymore and the D... Lars Valentin
10:22 AM Task #12578 (Feedback): Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested
Lars Valentin wrote:
> > It's a different problem: knime wants to write inside the knime distribution somehow, when ...
Andrea Dell'Amico
08:59 AM Task #12578 (In Progress): Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested

> It's a different problem: knime wants to write inside the knime distribution somehow, when using your plugin (oth...
Lars Valentin
11:39 AM VRE #12344: AlienAndInvasiveSpecies VRE
The "mess" is back ... my feeling is that it is not a mess at all ;) Leonardo Candela
11:25 AM VRE #12344: AlienAndInvasiveSpecies VRE
I have added GeoExplorer and SPD portlets to the VRE, and removed the mess @leonardo.candela@isti.cnr.it did Massimiliano Assante
11:20 AM VRE #12344: AlienAndInvasiveSpecies VRE
I played a bit with the VRE ... you'll find a "Data Access & Discovery" menu item including the catalogue + SPD & GIS... Leonardo Candela
10:41 AM VRE #12344: AlienAndInvasiveSpecies VRE
As I've said 6 days ago, the SPD and GeoExplorer are already in place. I guess the portlet is missing @massimiliano.... Roberto Cirillo
 

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