Activity

From Sep 05, 2018 to Oct 04, 2018

Oct 04, 2018

03:34 PM StocksAndFisheriesKB Feature #10960: GRSF Record citation facility: By clicking on Citation facility the string: [Date accessed and/or downloaded] in the Citation" field of a GRSF recor... Francesco Mangiacrapa
02:52 PM StocksAndFisheriesKB Bug #12261: Multiple time series in GRSF from RAM data: Hi @marketak@ics.forth.gr,
In order to make available Assessment IDs also for GRSF records, I didn't understand if... Francesco Mangiacrapa
11:59 AM D4Science Infrastructure 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 D4Science Infrastructure Support #12580 (Closed): WP6: Question on KNIME instances and DM: Leonardo Candela
11:56 AM D4Science Infrastructure 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 D4Science Infrastructure 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 D4Science Infrastructure 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 D4Science Infrastructure 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 D4Science Infrastructure VRE #12344: AlienAndInvasiveSpecies VRE: The "mess" is back ... my feeling is that it is not a mess at all ;) Leonardo Candela
11:25 AM D4Science Infrastructure 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 D4Science Infrastructure 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 D4Science Infrastructure 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

Oct 03, 2018

06:59 PM D4Science Infrastructure Task #12599 (Feedback): Is it possible to install rJava on RStudioLab?: rJava is going to be installed on every rstudio instance in the next minutes. Andrea Dell'Amico
03:02 PM D4Science Infrastructure Task #12599 (In Progress): Is it possible to install rJava on RStudioLab?: The problem is still the same (the JDK was updated from 7 to 8 in the meantime). I'm going to install the package glo... Andrea Dell'Amico
02:42 PM D4Science Infrastructure Task #12599 (Closed): Is it possible to install rJava on RStudioLab?: trying to do an installation in my environment I get this:
./configure: line 3747: /usr/lib/jvm/default-java/jre/b... Emmanuel Blondel
04:23 PM D4Science Infrastructure VRE #12344: AlienAndInvasiveSpecies VRE: In the VRE the following services are required to build the story:
1 - SPD
2 - GeoExplorer Gianpaolo Coro
12:28 PM D4Science Infrastructure Incident #10095: Workspace: a .dms strange file is returned when uploading files by Safari: Dunno why this ticket was assigned to me. Moreover, dunno if we can do anything on this type of issue. Leonardo Candela

Oct 02, 2018

08:10 PM D4Science Infrastructure Incident #12552: VME-DB error after updating a VME report: No sorry, it is not possible. You need to be a member of the gCube VRE to get access to SVN in write mode. Pasquale Pagano
02:39 PM D4Science Infrastructure Incident #12552: VME-DB error after updating a VME report: Dear Massimiliano, would be still possible to give write access to the SVN project using the email address jesus.sant... Jesus Santamaria Fernandez
05:48 PM D4Science Infrastructure Support #12580: WP6: Question on KNIME instances and DM: There is (and will be) only one version of KNIME (as well as of other "engines") equipping the machines forming a Dat... Leonardo Candela
11:53 AM D4Science Infrastructure Support #12580: WP6: Question on KNIME instances and DM: Yes, the installed KNIME version is 3.6.0 that will become 3.6.1 in the next days.
R is 3.4.4 everywhere.
Andrea Dell'Amico
11:23 AM D4Science Infrastructure Support #12580: WP6: Question on KNIME instances and DM: I'm sorry @lars.valentin@bfr.bund.de and @matthias.filter@bfr.bund.de , most likely it was not changed after the lat... Giancarlo Panichi
11:08 AM D4Science Infrastructure Support #12580: WP6: Question on KNIME instances and DM: Ja, the information from this wiki page looks also outdated to me. As example, R is mentioned in version 3.4.0 but I ... Lars Valentin
10:56 AM D4Science Infrastructure Support #12580: WP6: Question on KNIME instances and DM: Sorry, I'm confused again. According to the tickets:
https://support.d4science.org/issues/12249
https://support.d4s... Matthias Filter
10:34 AM D4Science Infrastructure Support #12580: WP6: Question on KNIME instances and DM: Knime-Full 3.3.2 is installed on the computational machines, see:
https://wiki.gcube-system.org/gcube/Pre_Installe... Giancarlo Panichi
09:25 AM D4Science Infrastructure Support #12580 (Feedback): WP6: Question on KNIME instances and DM: According to my knowledge there is only one KNIME engine available on DM machines to run KNIME-based workflows.
I... Leonardo Candela
05:48 PM D4Science Infrastructure Task #12578 (Feedback): Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: Andrea Dell'Amico
05:48 PM D4Science Infrastructure Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: Lars Valentin wrote:
> Thanks for the effort! If I understand you right the dataminer does not yet behave as expecte... Andrea Dell'Amico
02:22 PM D4Science Infrastructure Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: Thanks for the effort! If I understand you right the dataminer does not yet behave as expected while KNIME in batch m... Lars Valentin
02:12 PM D4Science Infrastructure Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: I also run successfully:
~~~
/usr/local/bin/knime -reset -consoleLog -nosplash -application org.knime.product.KNI... Andrea Dell'Amico
01:47 PM D4Science Infrastructure Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: I also run the same workflow adding the option `-destFile=workflow.zip`. The result is attached. Andrea Dell'Amico
01:45 PM D4Science Infrastructure Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: Lars Valentin wrote:
> great, I am looking forward that this will lead to a finally working version. Please let me k... Andrea Dell'Amico
12:13 PM D4Science Infrastructure Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: great, I am looking forward that this will lead to a finally working version. Please let me know if it runs in the da... Lars Valentin
12:08 PM D4Science Infrastructure Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: Lars Valentin wrote:
> Thank you for testing. As stated above FSK seems to be still installed in Version=\"0.1.0.201... Andrea Dell'Amico
11:55 AM D4Science Infrastructure Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: Thank you for testing. As stated above FSK seems to be still installed in Version=\"0.1.0.201808131056\" as you see i... Lars Valentin
11:49 AM D4Science Infrastructure Task #12578 (In Progress): Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: The installation of the plugin failed because of a bug in my script that only shows up when run by cron. I'm fixing i... Andrea Dell'Amico
11:43 AM D4Science Infrastructure Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: I assume the DM algorithm you are using for testing purposes is FSKX T E X T (available at)
https://aginfra.d4scie... Leonardo Candela
11:03 AM D4Science Infrastructure Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: Andrea Dell'Amico wrote:
> Scripts and cron job have been installed. I tested the procedure on the dev environment a... Lars Valentin
05:08 PM D4Science Infrastructure VM Creation #12592: StorageHub in preproduction: I've just copied the VM requirements used in dev environment: #12592. @lucio.lelii@isti.cnr.it feel free to resize t... Roberto Cirillo
05:06 PM D4Science Infrastructure VM Creation #12592 (Closed): StorageHub in preproduction: This new service should serve the preproduction VO: /gcube/preprod Roberto Cirillo

Oct 01, 2018

07:58 PM D4Science Infrastructure Task #12578 (Feedback): Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: Scripts and cron job have been installed. I tested the procedure on the dev environment and the plugin installed succ... Andrea Dell'Amico
07:29 PM D4Science Infrastructure Task #12578 (In Progress): Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: The one I get installed is `1.2.1.201809271338`. I'm adding a cron job that (re)installs the plugin daily. By tomorro... Andrea Dell'Amico
05:51 PM D4Science Infrastructure Task #12578: Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: (I do not have access to that VRE, FYI). Andrea Dell'Amico
05:48 PM D4Science Infrastructure Task #12578 (Closed): Need installed FSKlab plugin for KNIME and the provided Testworkflow in Dataminer tested: Hello Andrea,
as requested before in the other ticket above, I would like to ask you to install our latest version... Lars Valentin
07:01 PM D4Science Infrastructure Support #12580 (Closed): WP6: Question on KNIME instances and DM: Is there the opportunity to specify different KNIME instances / versions as "executors" when integrating a KNIME WF a... Matthias Filter
06:17 PM D4Science Infrastructure Upgrade #12574 (Completed): Infra-gateways third update to gCube 4.12.1: Massimiliano Assante
05:51 PM D4Science Infrastructure Upgrade #12574 (In Progress): Infra-gateways third update to gCube 4.12.1: Massimiliano Assante
12:32 PM D4Science Infrastructure Upgrade #12574 (Planned): Infra-gateways third update to gCube 4.12.1: Massimiliano Assante
12:32 PM D4Science Infrastructure Upgrade #12574 (Completed): Infra-gateways third update to gCube 4.12.1: This update contains the fix for Incident #12563
Massimiliano Assante
05:01 PM D4Science Infrastructure VRE #12344: AlienAndInvasiveSpecies VRE: @roberto.cirillo@isti.cnr.it, I just created the GR CkanPorltet and activated the view per VRE (see at https://servic... Francesco Mangiacrapa
03:59 PM D4Science Infrastructure Task #12443 (Closed): Enable TLS/SSL on the mongodb development cluster: The CAFile with the root CA and the intermediate one, now is provided directly by playbook and not create on the fly.... Roberto Cirillo
03:15 PM D4Science Infrastructure Task #12443: Enable TLS/SSL on the mongodb development cluster: I've tried to delete the following file: /etc/pki/mongodb/lets-encrypt-x3-cross-signed.pem
and re run the playbook ... Roberto Cirillo
03:23 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Lars Valentin wrote:
>
> What Andrea was referring to was the direct use of a .knwf file (KNime WorkFlow).
>
> ... Andrea Dell'Amico
03:19 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Leonardo Candela wrote:
> the effort and time needed to install another version of KNIME will be reported. From a pr... Andrea Dell'Amico
11:30 AM StocksAndFisheriesKB Bug #12261: Multiple time series in GRSF from RAM data: Either the two options are fine, indeed as separate field might be better but for now also in the same field is fine,... Aureliano Gentile
09:14 AM StocksAndFisheriesKB Bug #12261: Multiple time series in GRSF from RAM data: Thanks @aureliano.gentile@fao.org
This is exactly what I described. Assessment IDs are valuable for the legacy re... Yannis Marketakis

Sep 30, 2018

12:03 PM StocksAndFisheriesKB Bug #12261: Multiple time series in GRSF from RAM data: I think Yannis wants to say that the AssessmentID(s) (and the reporting years) are available in the source legacy rec... Aureliano Gentile

Sep 29, 2018

05:06 PM StocksAndFisheriesKB Bug #12261: Multiple time series in GRSF from RAM data: @marketak@ics.forth.gr, i am not sure to understand your explanation.
Are you saying that we should combine the inf... Pasquale Pagano

Sep 28, 2018

04:52 PM D4Science Infrastructure VRE #12344: AlienAndInvasiveSpecies VRE: I've added the CkanConnector by ansible. Now it is available on AlienAndInvasiveSpecies VRE Roberto Cirillo
04:03 PM D4Science Infrastructure VRE #12344: AlienAndInvasiveSpecies VRE: I've added the catalogue and db resources could you check if other resources are needed.
I'm not able to reach the w... Roberto Cirillo
03:46 PM D4Science Infrastructure VRE #12344: AlienAndInvasiveSpecies VRE: @roberto.cirillo@isti.cnr.it we need to add the ckan-connector of ckan-d4s1 and the other resources (GR/RR) to presen... Francesco Mangiacrapa
03:33 PM D4Science Infrastructure VRE #12344: AlienAndInvasiveSpecies VRE: I just created the organization on the ckan-d4s1 (at https://ckan-d4s1.d4science.org/organization/alienandinvasivespe... Francesco Mangiacrapa
02:47 PM D4Science Infrastructure VRE #12344: AlienAndInvasiveSpecies VRE: Roberto Cirillo wrote:
> The resources and services 1,2,3,4 are in place. (4 should be substituted when GN v3 is rea... Leonardo Candela
12:51 PM D4Science Infrastructure VRE #12344: AlienAndInvasiveSpecies VRE: The resources and services 1,2,3,4 are in place. (4 should be substituted when GN v3 is ready)
I need to understand ... Roberto Cirillo
02:42 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Dear @lars.valentin@bfr.bund.de and @matthias.filter@bfr.bund.de
the effort and time needed to install another ve... Leonardo Candela
12:42 PM StocksAndFisheriesKB Bug #12261: Multiple time series in GRSF from RAM data: The assessment IDs are published for the legacy records. So, for the record http://data.d4science.org/ctlg/GRSF_Admin... Yannis Marketakis
12:11 PM D4Science Infrastructure Incident #12552: VME-DB error after updating a VME report: The change is just replacing 5000 in the read timeout by 15000 so if possible please go ahead with the modification. Jesus Santamaria Fernandez
11:16 AM D4Science Infrastructure Incident #12552: VME-DB error after updating a VME report: D4Science only hosts the source code and build it to provide the Reports Manager webapp. The library was developed by... Massimiliano Assante
10:46 AM D4Science Infrastructure Incident #12552: VME-DB error after updating a VME report: The read timeout is set in the AbstractRSGClient class (line 93):
http://svn.research-infrastructures.eu/public/d4sc... Jesus Santamaria Fernandez

Sep 27, 2018

06:32 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Leonardo Candela wrote:
> This is definitely a good news.
>
Indeed!
> If I get it correctly, the FSK lab file... Lars Valentin
12:03 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Thx for the efforts and the progress.
Two questions:
1): Would it be a big issue for you to install KNIME 3.6.1 ?... Matthias Filter
05:29 PM D4Science Infrastructure VRE #12344 (In Progress): AlienAndInvasiveSpecies VRE: In the VRE the following services with respective portlets are requested:
1 - DataMiner
2 - SPD
3 - GeoExplorer
4... Gianpaolo Coro

Sep 26, 2018

07:09 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: This is definitely a good news.
If I get it correctly, the FSK lab files (including the encoding of a model as a ... Leonardo Candela
06:33 PM D4Science Infrastructure Support #12249 (Feedback): Need installed KNIME 3.6 and R 3.4 including the listed plugins: Matthias Filter wrote:
> Unfortunately this does not work as our IT does not allow communication via ssh.
> In add... Andrea Dell'Amico
12:09 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: @matthias.filter@bfr.bund.de @lars.valentin@bfr.bund.de I'm wondering you can start a dialogue with the KNIME team, I... Leonardo Candela
09:55 AM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Unfortunately this does not work as our IT does not allow communication via ssh.
In addition I have to stress that ... Matthias Filter
06:15 PM D4Science Infrastructure Incident #12552: VME-DB error after updating a VME report: Jesus Santamaria Fernandez wrote:
> I am checking the reports-store-gateway-client version 1.0.2 where the timeout i... Massimiliano Assante
06:10 PM D4Science Infrastructure Incident #12552: VME-DB error after updating a VME report: I am checking the reports-store-gateway-client version 1.0.2 where the timeout is set in the AbstractRSGClient abstra... Jesus Santamaria Fernandez
06:06 PM D4Science Infrastructure Incident #12552: VME-DB error after updating a VME report: Jesus Santamaria Fernandez wrote:
> The log is showing a timeout error due to the time that takes the service to res... Massimiliano Assante
05:54 PM D4Science Infrastructure Incident #12552: VME-DB error after updating a VME report: The log is showing a timeout error due to the time that takes the service to respond.
Due to the current performance... Jesus Santamaria Fernandez
04:24 PM D4Science Infrastructure Incident #12552: VME-DB error after updating a VME report: here's the server log
~~~
Hi Jesus,
please find the server log related oto a VME update report
~~~
2018-0... Massimiliano Assante
10:24 AM D4Science Infrastructure Incident #12552 (In Progress): VME-DB error after updating a VME report: Massimiliano Assante
09:37 AM D4Science Infrastructure Incident #12552 (Closed): VME-DB error after updating a VME report: In order to reproduce the steps it is necessary to edit an existing VME report in the VME-DB application, update it a... Jesus Santamaria Fernandez
04:57 PM D4Science Infrastructure Task #12443 (Feedback): Enable TLS/SSL on the mongodb development cluster: I changed the playbook so that it builds the CAfile adding both the root CA and the intermediate one. To ensure that ... Andrea Dell'Amico
10:33 AM D4Science Infrastructure Task #12443: Enable TLS/SSL on the mongodb development cluster: This change doesn't work. Now I see this error server side when I try to connect to the mongo by my client:
~~~
2... Roberto Cirillo
03:34 PM StocksAndFisheriesKB Bug #12261: Multiple time series in GRSF from RAM data: Sorry for my late reply.
Reading the above comments I understood that assessment ID should be contained in the tim... Francesco Mangiacrapa
12:03 PM D4Science Infrastructure Task #12468 (Closed): Add DataMiner (production cluster) to PerformFish-KPIs VRE: Gianpaolo Coro
08:40 AM D4Science Infrastructure Support #12508: Access logs for SDILab geonetwork: In order to better assess what's wrong I would need to access the remote DB. Can this be authorized through online Pg... Emmanuel Blondel

Sep 25, 2018

08:08 PM D4Science Infrastructure Task #12443: Enable TLS/SSL on the mongodb development cluster: Well, if it's what they want... I just changed the playbook so that by default it uses the `DST_Root_CA_X3` CA file, ... Andrea Dell'Amico
12:09 PM D4Science Infrastructure Task #12443: Enable TLS/SSL on the mongodb development cluster: I think there is a problem with our sslCAFile.
As reported here: https://jira.mongodb.org/browse/SERVER-21003
The ... Roberto Cirillo
11:37 AM D4Science Infrastructure Task #12443 (In Progress): Enable TLS/SSL on the mongodb development cluster: I've tried to switch the cluster configuration from allowSSL to preferSSL but I see the following error on the primar... Roberto Cirillo
07:32 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: I run both the workflows, they still fail and there's always the message related to the lock file.
We are stalled,... Andrea Dell'Amico
07:05 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: The only `lock` files I see are the ones listed (3.6.0 is from our installation, 3.6.1 is your tar file):
~~~
./k... Andrea Dell'Amico
05:13 PM D4Science Infrastructure Support #12508: Access logs for SDILab geonetwork: Generated dump file in VRE Folder under "Support Activity" > "12508" (quick link https://goo.gl/7rZPMr). Fabio Sinibaldi
03:44 PM D4Science Infrastructure Support #12508 (In Progress): Access logs for SDILab geonetwork: I will investigate a bit more. Some null entry is causing this issue somewhere.. Do you have possibility to make a du... Emmanuel Blondel

Sep 24, 2018

04:34 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Hey Andrea,
looks promising for me. I don't have the locked workflow issue.
I tried /home/Valentin/Downloads/kn... Lars Valentin
01:03 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: The workflow still fails. I've found the following thread, that can maybe give some hints? https://forum.knime.com/t/... Andrea Dell'Amico
11:36 AM StocksAndFisheriesKB Bug #12261: Multiple time series in GRSF from RAM data: Please @francesco.mangiacrapa@isti.cnr.it clarify the issue about the visibility of the assessment id.
Pasquale Pagano
10:14 AM D4Science Infrastructure Task #12443 (Paused): Enable TLS/SSL on the mongodb development cluster: Roberto Cirillo
10:12 AM D4Science Infrastructure Task #12443 (In Progress): Enable TLS/SSL on the mongodb development cluster: Roberto Cirillo

Sep 21, 2018

11:36 AM D4Science Infrastructure Upgrade #12532 (Completed): Please upgrade catlogue-ws on catalogue-ws.d4science.org: Roberto Cirillo
11:33 AM D4Science Infrastructure Upgrade #12532 (In Progress): Please upgrade catlogue-ws on catalogue-ws.d4science.org: Roberto Cirillo
11:33 AM D4Science Infrastructure Upgrade #12532: Please upgrade catlogue-ws on catalogue-ws.d4science.org: I'm going to deploy the following version: 1.3.0-4.12.1-171514 Roberto Cirillo
11:33 AM D4Science Infrastructure Upgrade #12532 (Planned): Please upgrade catlogue-ws on catalogue-ws.d4science.org: Roberto Cirillo
11:20 AM D4Science Infrastructure Upgrade #12532 (Completed): Please upgrade catlogue-ws on catalogue-ws.d4science.org: catalogue-ws Version: 1.3.0-4.12.1-171514
Please be sure that such a version has the ckan-util-library Version: 2.... Luca Frosini

Sep 20, 2018

06:22 PM D4Science Infrastructure Task #12443 (Closed): Enable TLS/SSL on the mongodb development cluster: The development cluster is working fine with ssl. I've also enabled ssl on volatile instance
Now, each node is runn... Roberto Cirillo
10:58 AM D4Science Infrastructure Task #12443 (In Progress): Enable TLS/SSL on the mongodb development cluster: Roberto Cirillo
04:39 PM D4Science Infrastructure Task #12527 (In Progress): Undeploy FARM/AquaMaps VRE: Massimiliano Assante

Sep 19, 2018

07:26 PM D4Science Infrastructure Task #12516 (Feedback): PF-KPIs VRE: new PostgreSQL database is needed: Done, passwords sent privately. Andrea Dell'Amico
07:19 PM D4Science Infrastructure Task #12516 (In Progress): PF-KPIs VRE: new PostgreSQL database is needed: Andrea Dell'Amico
03:03 PM D4Science Infrastructure Task #12516: PF-KPIs VRE: new PostgreSQL database is needed: The DB is needed to implement only the logic of the app, no sensible data will be stored. It is expected to occupy a ... Massimiliano Assante
02:58 PM D4Science Infrastructure Task #12516 (Closed): PF-KPIs VRE: new PostgreSQL database is needed: A new DB is necessary to support on project, it can be added in the current cluster of postgres on dev and production... Massimiliano Assante
03:46 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Hey Andrea,
if Ansible run flawlessly through all these steps it should work in the end - but unfortunately it doe... Lars Valentin
11:26 AM D4Science Infrastructure Support #12513 (Closed): Rstudio not launching: Roberto Cirillo
11:21 AM D4Science Infrastructure Support #12513: Rstudio not launching: Great - both appear to be working for me now too. Thanks very much. Anne Elise Nieblas
10:15 AM D4Science Infrastructure Support #12513 (Feedback): Rstudio not launching: I've reset your local state for both the VREs, now it seems to be working properly. Please could you check? Roberto Cirillo
09:59 AM D4Science Infrastructure Support #12513 (In Progress): Rstudio not launching: Roberto Cirillo
04:31 AM D4Science Infrastructure Support #12513 (Closed): Rstudio not launching: Hello, I am having trouble getting Rstudio to launch for both the IOTC_SS3 VRE (http://ip-90-147-166-173.ct1.garrserv... Anne Elise Nieblas

Sep 18, 2018

06:47 PM D4Science Infrastructure Support #12508: Access logs for SDILab geonetwork: It's really difficult to find out the reasons, but some bug reports led me to check language references in the databa... Fabio Sinibaldi
03:30 PM D4Science Infrastructure Support #12508: Access logs for SDILab geonetwork: Sorry i should have remembered the link of gcube logs.. i had a look to the logs and i got an internal error from geo... Emmanuel Blondel
03:22 PM D4Science Infrastructure Support #12508 (Feedback): Access logs for SDILab geonetwork: Related stack trace seems to be https://support.d4science.org/pastes/46 .. Does it tells you anything? I'll keep inve... Fabio Sinibaldi
02:42 PM D4Science Infrastructure Support #12508: Access logs for SDILab geonetwork: The logs are already available at https://geonetwork-sdi-lab.d4science.org/gcube-logs/ Andrea Dell'Amico
01:13 PM D4Science Infrastructure Support #12508 (Closed): Access logs for SDILab geonetwork: For some reason the Geonetwork Csw get capabilities is broken: http://geonetwork-sdi-lab.d4science.org/geonetwork/srv... Emmanuel Blondel
06:45 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: I reinstalled all the de.bund.* plugins, then I run the dummy workflow again. The result is attached.
Andrea Dell'Amico
05:57 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: The deployment variables for the plugins are the following:
~~~
knime_plugin_uninstall: []
#- de.bund.bfr.kni... Andrea Dell'Amico
04:16 PM D4Science Infrastructure Task #12364 (Closed): Move the data directory of the new geonetwork installations outside the webapp directory: All the other tasks, the ones that create the data directory with the correct permissions, are already present.
Andrea Dell'Amico
04:15 PM D4Science Infrastructure Task #12364 (In Progress): Move the data directory of the new geonetwork installations outside the webapp directory: Set for the preproduction geonetwork, adding
~~~
tomcat_m_other_java_opts: '-Dgeonetwork.dir={{ geonetwork_data_... Andrea Dell'Amico
03:25 PM StocksAndFisheriesKB Bug #12417: Associated data are not returned: Of course, you can find the record here http://data.d4science.org/ctlg/GRSF_Admin/9d81aa77-1fba-3804-b3f9-d4514d6705dc Luca Frosini
03:24 PM StocksAndFisheriesKB Bug #12417 (Closed): Associated data are not returned: The item has been successfully recreated, sorry for the inconvenience caused. Luca Frosini
12:57 PM D4Science Infrastructure Support #12505 (Closed): Restart SDI_Lab Geonetwork: Done. Andrea Dell'Amico
12:56 PM D4Science Infrastructure Support #12505 (In Progress): Restart SDI_Lab Geonetwork: Andrea Dell'Amico
12:44 PM D4Science Infrastructure Support #12505 (Closed): Restart SDI_Lab Geonetwork: CSW is dead in SDI_Lab Geonetwork, could you please restart the application ASAP? Emmanuel Blondel
12:19 PM D4Science Infrastructure Task #12443 (Paused): Enable TLS/SSL on the mongodb development cluster: Roberto Cirillo
11:59 AM D4Science Infrastructure Task #12443 (In Progress): Enable TLS/SSL on the mongodb development cluster: Roberto Cirillo

Sep 17, 2018

06:12 PM D4Science Infrastructure Upgrade #12498: Infra-gateways second update to gCube 4.12.1: The Catalogue works fine. Francesco Mangiacrapa
06:05 PM D4Science Infrastructure Upgrade #12498 (Completed): Infra-gateways second update to gCube 4.12.1: The upgrade of:
* org.gcube.portlets-user.gcube-ckan-data-catalogue.1-6-0
* org.gcube.portlets-user.data-analytic... Massimiliano Assante
05:41 PM D4Science Infrastructure Upgrade #12498 (In Progress): Infra-gateways second update to gCube 4.12.1: Massimiliano Assante
02:41 PM D4Science Infrastructure Upgrade #12498 (Completed): Infra-gateways second update to gCube 4.12.1: The second update to gCube 4.12.1 will contain:
* org.gcube.portlets-user.gcube-ckan-data-catalogue.1-6-0
* org.g... Massimiliano Assante

Sep 14, 2018

05:27 PM D4Science Infrastructure Task #12490 (Closed): Ask for a wildcard certificate for open-science.it: The certificate is in place. Andrea Dell'Amico
04:58 PM D4Science Infrastructure Task #12490 (In Progress): Ask for a wildcard certificate for open-science.it: The domain registration has been changed. I created the DNS records for open-science.it and www.open-science.it, when... Andrea Dell'Amico
04:56 PM D4Science Infrastructure Task #12490 (Closed): Ask for a wildcard certificate for open-science.it: And configure the DNS records to point to the infra load balancer.
Andrea Dell'Amico
04:59 PM D4Science Infrastructure Task #12241: Setup New gateway open-science.it: I opened a subtask for the certificate. Andrea Dell'Amico
04:52 PM D4Science Infrastructure Task #12241 (In Progress): Setup New gateway open-science.it: The domain registration has been changed. I created the DNS records for `open-science.it` and `www.open-science.it`, ... Andrea Dell'Amico
01:20 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: I'm out of office today, I'll elaborate in the next days.
Andrea Dell'Amico
01:14 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Andrea Dell'Amico wrote:
> Sorry, I forgot the attachment. It's there now. We are installing KNIME 4.6.0, FYI.
Th... Lars Valentin
12:39 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Sorry, I forgot the attachment. It's there now. We are installing KNIME 4.6.0, FYI.
Andrea Dell'Amico
10:13 AM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: I created a new version of the FSKX-Testworkflow. It creates as an output the file 'image.png'.
I installed this o... Lars Valentin
08:47 AM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Good morning,
the missing class might come from one of the plugins - I am wondering if we should for bugfixing sta... Lars Valentin
12:34 PM D4Science Infrastructure Upgrade #12477 (Completed): Infra-gateway PerformFISH-KPIs Form Submission Portlets rollout: Massimiliano Assante
10:32 AM D4Science Infrastructure Upgrade #12477 (In Progress): Infra-gateway PerformFISH-KPIs Form Submission Portlets rollout: Massimiliano Assante
10:31 AM D4Science Infrastructure Upgrade #12477 (Completed): Infra-gateway PerformFISH-KPIs Form Submission Portlets rollout: Massimiliano Assante
12:11 PM StocksAndFisheriesKB Feature #11752 (Closed): "Archived" is missing among the NEW status values to be selected for GRSF records Admin Panel: Francesco Mangiacrapa
12:10 PM StocksAndFisheriesKB Feature #11752: "Archived" is missing among the NEW status values to be selected for GRSF records Admin Panel: yes, it makes sense. I just checked this approved record http://data.d4science.org/ctlg/GRSF_Admin/c58637dd-3a63-3e54... Aureliano Gentile
11:47 AM StocksAndFisheriesKB Feature #11752: "Archived" is missing among the NEW status values to be selected for GRSF records Admin Panel: Looking at the code I noticed the following comment:
~~~
// if the record isn't approved, then remove also archiv... Francesco Mangiacrapa
12:05 PM StocksAndFisheriesKB Feature #12255 (Closed): Pop-up Text improvement for the locked records: The message has been changed. Francesco Mangiacrapa
10:29 AM StocksAndFisheriesKB Bug #12417: Associated data are not returned: I have found the issue. I opened the bug #12476 to solve it. Luca Frosini
09:54 AM StocksAndFisheriesKB Bug #12417: Associated data are not returned: Thanks, @marketak@ics.forth.gr for your feedback. I'm going to investigate the logs. Luca Frosini
08:58 AM StocksAndFisheriesKB Bug #12417 (In Progress): Associated data are not returned: I just tried to republish the record but it seems that the resources are not yet available. I tried: (1) updating the... Yannis Marketakis
08:28 AM StocksAndFisheriesKB Bug #12417: Associated data are not returned: No worries @luca.frosini@isti.cnr.it
I will re-publish it right away. Yannis Marketakis

Sep 13, 2018

11:08 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Lars Valentin wrote:
> On one of our servers I can connect via ssh and -X window and start the KNIME in the GUI.
... Andrea Dell'Amico
06:33 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Lars Valentin wrote:
> On one of our servers I can connect via ssh and -X window and start the KNIME in the GUI.
>... Lars Valentin
06:30 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: On one of our servers I can connect via ssh and -X window and start the KNIME in the GUI.
Without that you could ch... Lars Valentin
06:17 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: There's no GUI available on the servers, so the command line is the only possible way to run knime. On which nodes di... Andrea Dell'Amico
06:04 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: Dear Andrea,
I was assuming that you tested with the provided testworkflow above if KNIME is working and our FSKX ... Lars Valentin
05:59 PM StocksAndFisheriesKB Bug #12417: Associated data are not returned: @marketak@ics.forth.gr sorry for the misunderstanding. I just tried to publish the record in dev and the Resources ar... Luca Frosini
12:48 PM StocksAndFisheriesKB Bug #12417: Associated data are not returned: @francesco.mangiacrapa@isti.cnr.it of course! Yannis Marketakis
12:45 PM StocksAndFisheriesKB Bug #12417: Associated data are not returned: Hi Yannis,
thank you for clarifying the situation.
Probably the problem (the missing resources) was caused by a ... Francesco Mangiacrapa
04:37 PM StocksAndFisheriesKB Feature #10960: GRSF Record citation facility: with thanks Aureliano Gentile
04:32 PM StocksAndFisheriesKB Feature #10960 (Closed): GRSF Record citation facility: I just changed the name of the button from "Cite this" to "Citation" and his hover at "GRSF Record Citation". I'm goi... Francesco Mangiacrapa
12:03 PM StocksAndFisheriesKB Feature #10960: GRSF Record citation facility: Thanks, the functionality looks good to me.
Indeed the content of the citation needs to be updated as per clarifica... Aureliano Gentile
04:37 PM D4Science Infrastructure Task #12468 (Feedback): Add DataMiner (production cluster) to PerformFish-KPIs VRE: Dataminer is in place. Please could you check? Roberto Cirillo
04:17 PM D4Science Infrastructure Task #12468 (In Progress): Add DataMiner (production cluster) to PerformFish-KPIs VRE: Roberto Cirillo
03:39 PM D4Science Infrastructure Task #12468 (Paused): Add DataMiner (production cluster) to PerformFish-KPIs VRE: Roberto Cirillo
03:31 PM D4Science Infrastructure Task #12468 (In Progress): Add DataMiner (production cluster) to PerformFish-KPIs VRE: Roberto Cirillo
12:11 PM D4Science Infrastructure Task #12468 (Closed): Add DataMiner (production cluster) to PerformFish-KPIs VRE: The production cluster is required in the specified VRE Gianpaolo Coro
03:32 PM StocksAndFisheriesKB Feature #12471 (Closed): Rename 'Item' as 'Record' to the CKAN languange of GRSF: Francesco Mangiacrapa
03:31 PM StocksAndFisheriesKB Feature #12471: Rename 'Item' as 'Record' to the CKAN languange of GRSF: "Record" looks fine so far. many thanks Aureliano Gentile
03:17 PM StocksAndFisheriesKB Feature #12471 (Feedback): Rename 'Item' as 'Record' to the CKAN languange of GRSF: I just added a dedicated CKAN language file for the GRSF Catalogue in order to rename the entity "Item/item" as "Reco... Francesco Mangiacrapa
02:57 PM StocksAndFisheriesKB Feature #12471 (In Progress): Rename 'Item' as 'Record' to the CKAN languange of GRSF: Francesco Mangiacrapa
02:37 PM StocksAndFisheriesKB Feature #12471 (Closed): Rename 'Item' as 'Record' to the CKAN languange of GRSF: By the comment reported at https://support.d4science.org/issues/10960#note-8
~~~
Item vs Record, we already discu... Francesco Mangiacrapa
02:57 PM D4Science Infrastructure Task #12443 (Paused): Enable TLS/SSL on the mongodb development cluster: Roberto Cirillo
12:04 PM D4Science Infrastructure Task #12443 (In Progress): Enable TLS/SSL on the mongodb development cluster: I'm going to test the new settings on mongo5-d-d4science.org that is running in standalone mode. If it works properly... Roberto Cirillo
01:48 PM StocksAndFisheriesKB Feature #12278: Complete Citation development: The aforementioned URL points to " Transform failed: No doc value set for custom tag <transform>"
In any case, we... Yannis Marketakis
01:12 PM StocksAndFisheriesKB Feature #12278: Complete Citation development: this url http://firms.fao.org/fi/common/format/popUpCitation.jsp?subSite=FIRMS&url=http%3A//firms.fao.org/firms/resou... Aureliano Gentile
12:45 PM StocksAndFisheriesKB Feature #12278: Complete Citation development: Aureliano Gentile wrote:
> Source citations: RAM has a default one for all records, FIRMS and FishSource have their ... Yannis Marketakis
11:59 AM D4Science Infrastructure Task #12445 (Closed): SSL Certificate for mongodb development cluster: Roberto Cirillo
10:09 AM D4Science Infrastructure Task #12445 (In Progress): SSL Certificate for mongodb development cluster: Roberto Cirillo
11:56 AM D4Science Infrastructure Task #12449 (Closed): Add Nagios checks on couchbase cluster: The change worked, it seems. I'm closing the ditcket. Andrea Dell'Amico
09:56 AM D4Science Infrastructure Task #12448 (Closed): Add a letsencrypt hook script to the mongodb-org-3.2 ansible role: I've added the following variable to mongo_dev/all.yml and mongo_vol_dev/mongo_vol_dev.yml:
~~~
letsencrypt_acme_... Roberto Cirillo

Sep 12, 2018

06:27 PM D4Science Infrastructure Task #12449 (Feedback): Add Nagios checks on couchbase cluster: I just configured a timeout in the couchbase check code:
~~~
r = requests.get(url, auth=(options.username, option... Andrea Dell'Amico
11:47 AM D4Science Infrastructure Task #12449: Add Nagios checks on couchbase cluster: We do not collect metrics in nagios, and the checks are failing because the service is so slow to answer that the tim... Andrea Dell'Amico
10:03 AM D4Science Infrastructure Task #12449: Add Nagios checks on couchbase cluster: I read the documentation of the couchbase nagios plugin at:
https://gcube.wiki.gcube-system.org/gcube/Monitoring_a_g... Luca Frosini
06:25 PM StocksAndFisheriesKB Feature #10960 (Feedback): GRSF Record citation facility: @aureliano.gentile@fao.org, @pasquale.pagano@isti.cnr.it,
From #12278 I understood that the current citation text ... Francesco Mangiacrapa
06:21 PM D4Science Infrastructure Support #12249: Need installed KNIME 3.6 and R 3.4 including the listed plugins: @lars.valentin@bfr.bund.de any news? did you run your workflows? Andrea Dell'Amico
05:54 PM StocksAndFisheriesKB Bug #12261: Multiple time series in GRSF from RAM data: From: Gentile, Aureliano (FIAS)
Sent: Friday, 07 September, 2018 9:23 PM
To: Nikos Minadakis <minadakn@ics.forth.g... Aureliano Gentile
12:34 PM D4Science Infrastructure Task #12461 (Closed): Cleanup the mongodb ansible roles and the playbooks under d4science-gcube: Done.
Andrea Dell'Amico
12:23 PM D4Science Infrastructure Task #12461 (In Progress): Cleanup the mongodb ansible roles and the playbooks under d4science-gcube: Andrea Dell'Amico
12:20 PM D4Science Infrastructure Task #12461 (Closed): Cleanup the mongodb ansible roles and the playbooks under d4science-gcube: * The correct role is mongodb-org-3.2.yml, all the other ones must be removed and that one renamed
* The used play... Andrea Dell'Amico
07:34 AM StocksAndFisheriesKB Bug #12417: Associated data are not returned: Francesco Mangiacrapa wrote:
> I) About **refer_to**:
>
> In your attached JSON there is only one **refer_to** fi... Yannis Marketakis

Sep 11, 2018

07:13 PM StocksAndFisheriesKB Bug #12417: Associated data are not returned: Yannis Marketakis wrote:
> The source record is OK. The issue is not there.
>
> The issue is that although the GR... Francesco Mangiacrapa
04:45 PM StocksAndFisheriesKB Bug #12417: Associated data are not returned: @marketak@ics.forth.gr the most recent time series are metadata attached to the record. Instead, the resources are pu... Luca Frosini
03:04 PM StocksAndFisheriesKB Bug #12417: Associated data are not returned: The source record is OK. The issue is not there.
The issue is that although the GRSF record has timeseries associa... Yannis Marketakis
02:53 PM StocksAndFisheriesKB Bug #12417: Associated data are not returned: Looking at the attached JSON file I found only one resource (see **refers_to** field) which is compliant with what we... Luca Frosini
08:54 AM StocksAndFisheriesKB Bug #12417: Associated data are not returned: @luca.frosini@isti.cnr.it the issue has to do with the timeseries resources as they appear in the catalogue.
If y... Yannis Marketakis
05:42 PM D4Science Infrastructure Task #12448 (Feedback): Add a letsencrypt hook script to the mongodb-org-3.2 ansible role: The hook script has been added to the role.
I also added the two variables to the `mongo_dev/all.yml` file:
~... Andrea Dell'Amico
05:19 PM D4Science Infrastructure Task #12448 (In Progress): Add a letsencrypt hook script to the mongodb-org-3.2 ansible role: Andrea Dell'Amico
05:31 PM D4Science Infrastructure Task #12449 (In Progress): Add Nagios checks on couchbase cluster: New nagios check on the selected buckets but we have to customize the parameters with @luca.frosini@isti.cnr.it Tommaso Piccioli
09:41 AM D4Science Infrastructure Task #12449: Add Nagios checks on couchbase cluster: The buckets to be monitored are:
accounting_storage_status
AccountingManager
JobUsageRecord
ServiceUsageRecord
S... Luca Frosini
05:13 PM D4Science Infrastructure Task #12450: Manage SSL in the mongodb configuration template: We do not have a completely managed cluster, so I didn't touch the configuration that provides x509 authentication be... Andrea Dell'Amico
05:12 PM D4Science Infrastructure Task #12450 (Closed): Manage SSL in the mongodb configuration template: Andrea Dell'Amico
04:56 PM D4Science Infrastructure Task #12450 (In Progress): Manage SSL in the mongodb configuration template: I added some variables to the mongodb-org-3.2 role:
~~~
mongodb_ssl_enabled: False
mongodb_ssl_letsencrypt_manag... Andrea Dell'Amico
05:07 PM D4Science Infrastructure Task #12459 (Closed): Add genericWorker ServiceEndpoint to all scopes where dataminer is running: Roberto Cirillo
04:33 PM D4Science Infrastructure Task #12459 (In Progress): Add genericWorker ServiceEndpoint to all scopes where dataminer is running: Roberto Cirillo
04:27 PM D4Science Infrastructure Task #12459 (Closed): Add genericWorker ServiceEndpoint to all scopes where dataminer is running: In particular:
dataminer-genericworkers.d4science.org will be added where dataminer.garr.d4science.org is running
... Roberto Cirillo
04:04 PM D4Science Infrastructure Upgrade #12457: Please upgrade catalogue-ws service to 1.2: thanks a lot Luca Frosini
02:24 PM D4Science Infrastructure Upgrade #12457 (Completed): Please upgrade catalogue-ws service to 1.2: The service has been upgraded. Roberto Cirillo
02:21 PM D4Science Infrastructure Upgrade #12457 (In Progress): Please upgrade catalogue-ws service to 1.2: Roberto Cirillo
02:20 PM D4Science Infrastructure Upgrade #12457 (Planned): Please upgrade catalogue-ws service to 1.2: I'm going to upgrade to version: 1.2.0-4.12.1-165241 Roberto Cirillo
12:47 PM D4Science Infrastructure Upgrade #12457 (Completed): Please upgrade catalogue-ws service to 1.2: The actual version in production is 1.1.1 but the latest released version is 1.2.
Can you please update it it? Luca Frosini
02:18 PM StocksAndFisheriesKB Feature #12274: Handling GRSF annotations: Considering the other urgent tickets I would give lower priority to this issue. Having all annotations available and ... Aureliano Gentile
08:33 AM StocksAndFisheriesKB Feature #12274: Handling GRSF annotations: @pasquale.pagano@isti.cnr.it you are perfectly right.
We store annotation in the GRSF KB as a node consisting of: ... Yannis Marketakis
01:21 PM StocksAndFisheriesKB Bug #12418: Missing tags for areas: Yannis Marketakis wrote:
> I think that the request has to do with the fact that although 27.6.a appears as an asses... Aureliano Gentile
01:20 PM StocksAndFisheriesKB Bug #12418: Missing tags for areas: @luca.frosini@isti.cnr.it I do not close this ticket since what I am saying is correct.
@marketak@ics.forth.gr and... Aureliano Gentile
08:38 AM StocksAndFisheriesKB Bug #12418 (In Progress): Missing tags for areas: Yannis Marketakis
08:37 AM StocksAndFisheriesKB Bug #12418: Missing tags for areas: I think that the request has to do with the fact that although 27.6.a appears as an assessment area, it does not appe... Yannis Marketakis
12:46 PM StocksAndFisheriesKB Feature #12278: Complete Citation development: Title is the tile of the record we are citing! In example "Pomadasys jubelini Pomadasys incisus Brachydeuterus auritu... Aureliano Gentile
12:27 PM StocksAndFisheriesKB Feature #12278: Complete Citation development: @aureliano.gentile@fao.org please explain what Sources citations: [Citations to the database sources] should be as w... Yannis Marketakis
12:09 PM StocksAndFisheriesKB Feature #12278: Complete Citation development: So, the new template is:
© [Copyright holder]. Title. In: Global Record of Stocks and Fisheries (GRSF). [Publish... Luca Frosini
12:03 PM D4Science Infrastructure Task #12413 (Closed): Nagios check: Provide a functional check for checking the IS-Collector instances: Andrea Dell'Amico
11:57 AM D4Science Infrastructure Task #12453 (Closed): Enable icproxy to serve the new D4OS VO: Roberto Cirillo
10:25 AM D4Science Infrastructure Task #12453 (In Progress): Enable icproxy to serve the new D4OS VO: Roberto Cirillo
10:12 AM D4Science Infrastructure Task #12453 (Closed): Enable icproxy to serve the new D4OS VO: The icproxy service hosted on registry.d4science.org should be enabled to serve the new VO D4OS.
Roberto Cirillo
10:21 AM D4Science Infrastructure Task #12446 (Closed): Remove accounting_service bucket: the bucket is not visible anymore. I'm going to close the ticket. Luca Frosini
10:19 AM D4Science Infrastructure Task #12446: Remove accounting_service bucket: I removed the accounting_service bucket obtaining a message like this:
"bucket not yet removed but it will continue" Luca Frosini
08:47 AM StocksAndFisheriesKB Bug #12421: Accented words are not properly displayed in the "short name" field and in other fields: @luca.frosini@isti.cnr.it the GRSF KB contains them with the proper encoding.
Moreover, the json serialization that... Yannis Marketakis

Sep 10, 2018

07:53 PM D4Science Infrastructure Task #12413: Nagios check: Provide a functional check for checking the IS-Collector instances: The checks have been added. They fail when the string `Profile` is not found.
I'm also adding the https checks.
Andrea Dell'Amico
07:35 PM D4Science Infrastructure Task #12446: Remove accounting_service bucket: Luca Frosini wrote:
> Before removing the bucket, the Nagios checks have to be removed. @tommaso.piccioli@isti.cnr.i... Andrea Dell'Amico
04:03 PM D4Science Infrastructure Task #12446 (In Progress): Remove accounting_service bucket: Before removing the bucket, the Nagios checks have to be removed. @tommaso.piccioli@isti.cnr.it can you do it and adv... Luca Frosini
04:02 PM D4Science Infrastructure Task #12446 (Closed): Remove accounting_service bucket: the accouting_service bucket is empty and could be removed.
Moreover, even empty, this bucket creates a lot of Nagi... Luca Frosini
07:32 PM D4Science Infrastructure Task #12449: Add Nagios checks on couchbase cluster: Can you list the buckets that need monitoring?
Andrea Dell'Amico
04:19 PM D4Science Infrastructure Task #12449 (Closed): Add Nagios checks on couchbase cluster: It seems that the new buckets in couchbase cluster are not monitored by Nagios.
This is my mistake because I never... Luca Frosini
06:28 PM StocksAndFisheriesKB Feature #10960 (In Progress): GRSF Record citation facility: I'm going to add a custom facility (e.g. a link like "Share by Citation") for the CKAN GRSF template in order to show... Francesco Mangiacrapa
04:37 PM D4Science Infrastructure Task #12384: Provide a cronjob for restarting VREModeler service: It can be moved into the pre inventory. Please, let me know when the wiki is ready. Thanks. Roberto Cirillo
04:22 PM D4Science Infrastructure Task #12450 (Closed): Manage SSL in the mongodb configuration template: Links to the documentation: https://docs.mongodb.com/v3.2/tutorial/configure-ssl/
Also the membership between cl... Andrea Dell'Amico
04:10 PM D4Science Infrastructure Task #12448 (Closed): Add a letsencrypt hook script to the mongodb-org-3.2 ansible role: Add a script that restarts the mongodb server when the certificate is renewed. Andrea Dell'Amico
04:10 PM StocksAndFisheriesKB Bug #12417: Associated data are not returned: Sorry, @marketak@ics.forth.gr I assigned the ticket to @francesco.mangiacrapa@isti.cnr.it by mistake. Luca Frosini
04:04 PM D4Science Infrastructure Task #12258: Remove old buckets: Luca Frosini wrote:
> @tommaso.piccioli@isti.cnr.it I would like removing the problematic empty bucket 'accounting_s... Luca Frosini
03:59 PM D4Science Infrastructure Task #12258: Remove old buckets: @tommaso.piccioli@isti.cnr.it I would like removing the problematic empty bucket 'accounting_service'. Can you please... Luca Frosini
04:00 PM D4Science Infrastructure Task #12445 (Closed): SSL Certificate for mongodb development cluster: It's needed to have SSL certificates on the following mongod instances:
~~~
mongo1-d-d4s.d4science.org
mongo2-d-... Roberto Cirillo
03:30 PM D4Science Infrastructure Task #12444 (Closed): Enable TLS/SSL on the mongodb production cluster: It's supported since 3.0 and the configuration seems straightforward.
The documentation: https://docs.mongodb.com/... Roberto Cirillo
03:29 PM D4Science Infrastructure Task #12443 (Closed): Enable TLS/SSL on the mongodb development cluster: It's supported since 3.0 and the configuration seems straightforward.
The documentation: https://docs.mongodb.com/... Roberto Cirillo
03:06 PM D4Science Infrastructure Task #11639 (Closed): Add to the DM Proto cluster at least three new DM instances: Roberto Cirillo
01:35 PM D4Science Infrastructure Task #12374 (Closed): document-store-lib-accounting-service will be created as uber-jar please mdoify ansible script installing accounting-service for next upgrade: Luca Frosini
01:15 PM D4Science Infrastructure Task #12374 (In Progress): document-store-lib-accounting-service will be created as uber-jar please mdoify ansible script installing accounting-service for next upgrade: You are right. Going to close the ticket. Luca Frosini
10:21 AM D4Science Infrastructure Task #12374 (Feedback): document-store-lib-accounting-service will be created as uber-jar please mdoify ansible script installing accounting-service for next upgrade: Why have you created the uber-jar for this component?
This component is part of smartgears distribution and the "jar... Roberto Cirillo
10:19 AM D4Science Infrastructure Task #12374 (In Progress): document-store-lib-accounting-service will be created as uber-jar please mdoify ansible script installing accounting-service for next upgrade: Roberto Cirillo
11:37 AM D4Science Infrastructure Support #12438 (Closed): remove users from VRE: Massimiliano Assante
11:35 AM D4Science Infrastructure Support #12438 (In Progress): remove users from VRE: Massimiliano Assante

Sep 08, 2018

03:17 PM D4Science Infrastructure Support #12438 (Closed): remove users from VRE: Please, remove the following user from the GEMex VRE:
Diaz Leon Heber
Andrea Rossi
Vasquez Villegard Orlando
... Eugenio Trumpy

Sep 07, 2018

05:29 PM D4Science Infrastructure Task #12425 (Closed): Enable TLS/SSL on the mongodb clusters: It's supported since 3.0 and the configuration seems straightforward.
The documentation: https://docs.mongodb.com/... Andrea Dell'Amico
05:26 PM StocksAndFisheriesKB Bug #12424 (Closed): Stock status FAO categories not properly handled: example
http://data.d4science.org/ctlg/GRSF_Admin/a1645b80-a323-3d65-bbf3-67539a325d83 says Fao Categories : unde... Aureliano Gentile
05:20 PM StocksAndFisheriesKB Feature #12423 (Rejected): Assessment method / empirical approach was not harvested: Assessment method / empirical approach was not harvested due to missing requirements specifications
the following ... Aureliano Gentile
05:20 PM StocksAndFisheriesKB Bug #12421: Accented words are not properly displayed in the "short name" field and in other fields: @marketak@ics.forth.gr maybe this is an encoding issue. Can you check the KB content? Luca Frosini
05:13 PM StocksAndFisheriesKB Bug #12421 (Closed): Accented words are not properly displayed in the "short name" field and in other fields: example:
http://data.d4science.org/ctlg/GRSF_Admin/f0a3c335-1a7d-30e2-b906-df7ae9a33fd3 (see "short name" field: ... Aureliano Gentile
05:17 PM StocksAndFisheriesKB Bug #12418: Missing tags for areas: @aureliano.gentile@fao.org I added @marketak@ics.forth.gr as assignee so he can investigate such issue in KB.
@au... Luca Frosini
04:43 PM StocksAndFisheriesKB Bug #12418 (Closed): Missing tags for areas: It seems that some area tags are missing, in example a tag for division Northwest Coast of Scotland and North Ireland... Aureliano Gentile
05:04 PM StocksAndFisheriesKB Bug #12420 (Closed): Narrative text is messed up when in multiple xml nodes: The text for scientific advice and for status and trends are messed up or put in separate boxes.
See this example ht... Aureliano Gentile
04:51 PM StocksAndFisheriesKB Bug #12419 (Closed): Fishing Pressure time series is missing in several records: Fishing Pressure time series is missing in several records.
Examples:
http://data.d4science.org/ctlg/GRSF_Admin/... Aureliano Gentile
04:35 PM StocksAndFisheriesKB Bug #12417: Associated data are not returned: See also the legacy source file with associated data http://data.d4science.org/ctlg/GRSF_Admin/d4b2dff5-4106-3e7e-9e7... Aureliano Gentile
04:32 PM StocksAndFisheriesKB Bug #12417 (Closed): Associated data are not returned: Several GRSF records do not present associated data although time series are available in the source files.
In exa... Aureliano Gentile
03:05 PM D4Science Infrastructure Task #12413: Nagios check: Provide a functional check for checking the IS-Collector instances: yes Lucio Lelii
12:54 PM D4Science Infrastructure Task #12413: Nagios check: Provide a functional check for checking the IS-Collector instances: this is an example on how to retrieve a resource by id using the ic-proxy in dev:
http://node10-d-d4s.d4science.or... Lucio Lelii
12:14 PM D4Science Infrastructure Task #12413: Nagios check: Provide a functional check for checking the IS-Collector instances: It's fine by me. Andrea Dell'Amico
11:44 AM D4Science Infrastructure Task #12413 (Feedback): Nagios check: Provide a functional check for checking the IS-Collector instances: Roberto Cirillo
11:44 AM D4Science Infrastructure Task #12413 (In Progress): Nagios check: Provide a functional check for checking the IS-Collector instances: The query could be done on a mandatory resource that must be present on every VO. For example we could check the Stor... Roberto Cirillo
11:33 AM D4Science Infrastructure Task #12413 (Closed): Nagios check: Provide a functional check for checking the IS-Collector instances: The idea is to use the icproxy REST service in order to perform a query for each IS-Collector instance deployed in pr... Roberto Cirillo
10:34 AM D4Science Infrastructure Incident #12363 (Closed): Openaire, SmartArea, SoBigData: collector down: After the db restore, the OpenAIRE collector is up and running. The last two exist backup were not present on local s... Roberto Cirillo
10:21 AM D4Science Infrastructure Incident #12363 (In Progress): Openaire, SmartArea, SoBigData: collector down: Openaire collector is down. A db restore is needed Roberto Cirillo

Sep 06, 2018

07:34 PM D4Science Infrastructure Task #12397 (Closed): re-provision manuele resource-registry and database: thanks @andrea.dellamico@isti.cnr.it Luca Frosini
06:50 PM D4Science Infrastructure Task #12397: re-provision manuele resource-registry and database: Luca Frosini wrote:
> Sorry, this error is different from the errors fo tickets #12396 and #12406.
>
> can you p... Andrea Dell'Amico
06:46 PM D4Science Infrastructure Task #12397: re-provision manuele resource-registry and database: I'm able to run the playbook now. Thanks a lot. Luca Frosini
06:19 PM D4Science Infrastructure Task #12397: re-provision manuele resource-registry and database: Sorry, this error is different from the errors fo tickets #12396 and #12406.
@andrea.dellamico@isti.cnr.it can yo... Luca Frosini
05:15 PM D4Science Infrastructure Task #12397: re-provision manuele resource-registry and database: @andrea.dellamico@isti.cnr.it I have the same issue of ticket #12396 and #12406 while provisioning manuele_dev_regist... Luca Frosini
03:01 PM D4Science Infrastructure Task #12397: re-provision manuele resource-registry and database: DB has been recreated Luca Frosini
02:58 PM D4Science Infrastructure Task #12397 (In Progress): re-provision manuele resource-registry and database: Luca Frosini
10:48 AM D4Science Infrastructure Task #12397 (Closed): re-provision manuele resource-registry and database: Luca Frosini
06:41 PM D4Science Infrastructure Task #12406 (Closed): re-provision parthenos-pre joint-resource-registry and database: Luca Frosini
06:22 PM D4Science Infrastructure Task #12406: re-provision parthenos-pre joint-resource-registry and database: @andrea.dellamico@isti.cnr.it found that **ignore_errors: True** does not work if the host is unreachable (see https:... Luca Frosini
05:12 PM D4Science Infrastructure Task #12406: re-provision parthenos-pre joint-resource-registry and database: @andrea.dellamico@isti.cnr.it I have the same issue of ticket #12396 while provisioning resource_registry_parthenos_... Luca Frosini
03:26 PM D4Science Infrastructure Task #12406: re-provision parthenos-pre joint-resource-registry and database: DB has been recreated Luca Frosini
03:01 PM D4Science Infrastructure Task #12406 (In Progress): re-provision parthenos-pre joint-resource-registry and database: Luca Frosini
03:00 PM D4Science Infrastructure Task #12406 (Closed): re-provision parthenos-pre joint-resource-registry and database: Luca Frosini
06:27 PM D4Science Infrastructure Task #12396 (Closed): re-provision dev resource-registry and database: Luca Frosini
06:22 PM D4Science Infrastructure Task #12396: re-provision dev resource-registry and database: @andrea.dellamico@isti.cnr.it found that **ignore_errors: True** does not work if the host is unreachable (see https:... Luca Frosini
04:31 PM D4Science Infrastructure Task #12396: re-provision dev resource-registry and database: Moreover, it already has **ignore_errors: True** Luca Frosini
04:30 PM D4Science Infrastructure Task #12396: re-provision dev resource-registry and database: I mean there is no dedicated .yml file for resource-registry. §Instead the generic smartgears-node.yml Luca Frosini
04:28 PM D4Science Infrastructure Task #12396: re-provision dev resource-registry and database: Sorry, I don't understand how to do it because this playbook seems developed in a different way. Luca Frosini
04:23 PM D4Science Infrastructure Task #12396: re-provision dev resource-registry and database: Add a `ignore_errors: True` to the nagios related tasks. Take the geoserver-smartgears.yml playbook as an example. Andrea Dell'Amico
04:18 PM D4Science Infrastructure Task #12396: re-provision dev resource-registry and database: Trying to reprovision dev resource-registry I obtain the following error:
~~~
./run.sh smartgears-node.yml -i inv... Luca Frosini
02:59 PM D4Science Infrastructure Task #12396: re-provision dev resource-registry and database: DB has been recreated Luca Frosini
12:50 PM D4Science Infrastructure Task #12396 (In Progress): re-provision dev resource-registry and database: Luca Frosini
10:47 AM D4Science Infrastructure Task #12396 (Closed): re-provision dev resource-registry and database: Luca Frosini
04:19 PM D4Science Infrastructure Task #12407 (Closed): Recreate smart-executor dev database: Luca Frosini
03:37 PM D4Science Infrastructure Task #12407 (In Progress): Recreate smart-executor dev database: Luca Frosini
03:27 PM D4Science Infrastructure Task #12407 (Closed): Recreate smart-executor dev database: Luca Frosini
03:44 PM StocksAndFisheriesKB Feature #12274: Handling GRSF annotations: This is not a bug but the request for a new feature.
At present, it is not possible to edit an annotation since e... Pasquale Pagano
12:45 PM D4Science Infrastructure Support #11605: Set DataMiner queue length to 1: Hi @lars.valentin@bfr.bund.de I would suggest to open specific tickets to discuss any need you / your use cases might... Leonardo Candela
12:16 PM D4Science Infrastructure Task #12227 (Closed): Encoding issue on Dataminer proto 5: Andrea Dell'Amico

Sep 05, 2018

05:03 PM D4Science Infrastructure Task #12393 (Closed): Do not setup /etc/hosts on the OpenStack VMs: `/etc/hosts` will be now modified on our pure xen hypervisors only. Andrea Dell'Amico
04:58 PM D4Science Infrastructure Task #12393 (Closed): Do not setup /etc/hosts on the OpenStack VMs: The private IP address can change between reboots. Andrea Dell'Amico
03:11 PM D4Science Infrastructure Upgrade #12019 (Completed): D4Science Infrastructure Upgrade to gCube 4.12.0: Roberto Cirillo
03:10 PM D4Science Infrastructure Task #12169 (Closed): Provide the new dataminer library for dataminer prototypes cluster: Roberto Cirillo
03:08 PM D4Science Infrastructure Task #12090 (Closed): Remove Edison VO scope from infrastructure-monitor: Roberto Cirillo
03:07 PM D4Science Infrastructure Task #12087 (Closed): Remove services from Edison VO: Roberto Cirillo
02:34 PM D4Science Infrastructure Task #12352 (Closed): Add new VO scope D4OS to all the dataminer instances: Now all the instances are running under D4OS VO. Roberto Cirillo
11:29 AM D4Science Infrastructure Task #12352: Add new VO scope D4OS to all the dataminer instances: It's running. Andrea Dell'Amico
11:25 AM D4Science Infrastructure Task #12352: Add new VO scope D4OS to all the dataminer instances: OK, thanks. Now I see only these VM from Palermo site running under the new VO D4OS:
~~~
ip-90-147-188-127.pa1.ga... Roberto Cirillo
11:00 AM D4Science Infrastructure Task #12352: Add new VO scope D4OS to all the dataminer instances: Done. I also added a task to force the removal of the `state` directory from inside the main playbook so there's no n... Andrea Dell'Amico
10:22 AM D4Science Infrastructure Task #12352 (Feedback): Add new VO scope D4OS to all the dataminer instances: Roberto Cirillo

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