[Eagle-i-admins] New process and data migration issues & clarification of properties [2.0-MS2.14]

[Cheng, Sophia]

Faith,

Have you had trouble using the data migration script with the latest (2.0-MS2.14) version?

-Sophia

From: Faith Coldren <fcoldren at mail.med.upenn.edu<mailto:fcoldren at mail.med.upenn.edu>>
Date: Thursday, August 8, 2013 3:43 PM
To: Sophia <sophia_cheng at hms.harvard.edu<mailto:sophia_cheng at hms.harvard.edu>>
Cc: "Tolmie, David A" <dtolmie at fhcrc.org<mailto:dtolmie at fhcrc.org>>, "eagle-i-admins at open.med.harvard.edu<mailto:eagle-i-admins at open.med.harvard.edu>" <eagle-i-admins at open.med.harvard.edu<mailto:eagle-i-admins at open.med.harvard.edu>>, "ross.davis at Vanderbilt.Edu<mailto:ross.davis at Vanderbilt.Edu>" <ross.davis at vanderbilt.edu<mailto:ross.davis at vanderbilt.edu>>, "angel at itmat.upenn.edu<mailto:angel at itmat.upenn.edu>" <angel at itmat.upenn.edu<mailto:angel at itmat.upenn.edu>>, "fcoldren at mail.med.upenn.edu<mailto:fcoldren at mail.med.upenn.edu>" <fcoldren at mail.med.upenn.edu<mailto:fcoldren at mail.med.upenn.edu>>, "sukie at dartmouth.edu<mailto:sukie at dartmouth.edu>" <sukie at dartmouth.edu<mailto:sukie at dartmouth.edu>>, "Neiman, David" <David_Neiman at hms.harvard.edu<mailto:David_Neiman at hms.harvard.edu>>, "Cole, Julian C" <Julian_Cole at hms.harvard.edu<mailto:Julian_Cole at hms.harvard.edu>>, "Ciriello, Marc" <Marc_Ciriello at hms.harvard.edu<mailto:Marc_Ciriello at hms.harvard.edu>>
Subject: Re: [Eagle-i-admins] New process and data migration issues & clarification of properties [2.0-MS2.14]

We aren't running java 1.6. We have the following configuration:

java version "1.7.0_05-icedtea"
OpenJDK Runtime Environment (rhel-2.2.1.el6_3.3-x86_64)
OpenJDK 64-Bit Server VM (build 23.0-b21, mixed mode)


On Thu, Aug 8, 2013 at 3:07 PM, Cheng, Sophia <Sophia_Cheng at hms.harvard.edu<mailto:Sophia_Cheng at hms.harvard.edu>> wrote:
Hello everyone,

This is a bit of a shot in the dark, but has anyone else running java 1.6 with OpenJDK as the Java?  If so, have you been able to run the migration scripts?

Sincerely,
Sophia

From: <Tolmie>, David A <dtolmie at fhcrc.org<mailto:dtolmie at fhcrc.org>>
Date: Thursday, August 8, 2013 1:21 PM
To: "eagle-i-admins at open.med.harvard.edu<mailto:eagle-i-admins at open.med.harvard.edu>" <eagle-i-admins at open.med.harvard.edu<mailto:eagle-i-admins at open.med.harvard.edu>>, "ross.davis at Vanderbilt.Edu<mailto:ross.davis at Vanderbilt.Edu>" <ross.davis at Vanderbilt.Edu<mailto:ross.davis at Vanderbilt.Edu>>, "angel at itmat.upenn.edu<mailto:angel at itmat.upenn.edu>" <angel at itmat.upenn.edu<mailto:angel at itmat.upenn.edu>>, "fcoldren at mail.med.upenn.edu<mailto:fcoldren at mail.med.upenn.edu>" <fcoldren at mail.med.upenn.edu<mailto:fcoldren at mail.med.upenn.edu>>, "sukie at dartmouth.edu<mailto:sukie at dartmouth.edu>" <sukie at dartmouth.edu<mailto:sukie at dartmouth.edu>>
Cc: "Neiman, David" <David_Neiman at hms.harvard.edu<mailto:David_Neiman at hms.harvard.edu>>, "Cole, Julian C" <Julian_Cole at hms.harvard.edu<mailto:Julian_Cole at hms.harvard.edu>>, "Ciriello, Marc" <Marc_Ciriello at hms.harvard.edu<mailto:Marc_Ciriello at hms.harvard.edu>>
Subject: Re: [Eagle-i-admins] New process and data migration issues & clarification of properties [2.0-MS2.14]

Hi folks,

I'm back to trying to upgrade eagle-I, and I'm receiving the same kind of output as before when running the data migration script.  See attached.  The script claims to have run successfully, but shows command usage info as if underlying commands were not called correctly.  Nothing was written to any of the logs.

I'm doing this with the repository and data migrations tools from 2.0-MS2.16 this time.  I made certain there were no old instances of the eagle-i-datatools-datamanagement.jar before downloading the jar for the newest release.

Any thoughts or suggestions?

Thanks,

-Dave

________________________________

David Tolmie

Systems Librarian

Arnold Library | Fred Hutchinson Cancer Research Center | Seattle, WA

dtolmie at fhcrc.org<mailto:dtolmie at fhcrc.org>  |  tel 206.667.6852<tel:206.667.6852> |  fax 206.667.4737<tel:206.667.4737>

<http://library.fhcrc.org/>



From: <Cheng>, "Cheng, Sophia" <Sophia_Cheng at hms.harvard.edu<mailto:Sophia_Cheng at hms.harvard.edu>>
Reply-To: "eagle-i-admins at open.med.harvard.edu<mailto:eagle-i-admins at open.med.harvard.edu>" <eagle-i-admins at open.med.harvard.edu<mailto:eagle-i-admins at open.med.harvard.edu>>
Date: Tuesday, July 23, 2013 4:51 PM
To: David Tolmie <dtolmie at fhcrc.org<mailto:dtolmie at fhcrc.org>>, "ross.davis at Vanderbilt.Edu<mailto:ross.davis at Vanderbilt.Edu>" <ross.davis at Vanderbilt.Edu<mailto:ross.davis at Vanderbilt.Edu>>, "angel at itmat.upenn.edu<mailto:angel at itmat.upenn.edu>" <angel at itmat.upenn.edu<mailto:angel at itmat.upenn.edu>>, "fcoldren at mail.med.upenn.edu<mailto:fcoldren at mail.med.upenn.edu>" <fcoldren at mail.med.upenn.edu<mailto:fcoldren at mail.med.upenn.edu>>, "sukie at dartmouth.edu<mailto:sukie at dartmouth.edu>" <sukie at dartmouth.edu<mailto:sukie at dartmouth.edu>>
Cc: "Ciriello, Marc" <Marc_Ciriello at hms.harvard.edu<mailto:Marc_Ciriello at hms.harvard.edu>>, "Bourges, Daniela" <Daniela_Bourges at hms.harvard.edu<mailto:Daniela_Bourges at hms.harvard.edu>>, "Cole, Julian C" <Julian_Cole at hms.harvard.edu<mailto:Julian_Cole at hms.harvard.edu>>, "Neiman, David" <David_Neiman at hms.harvard.edu<mailto:David_Neiman at hms.harvard.edu>>, "eagle-i-admins at open.med.harvard.edu<mailto:eagle-i-admins at open.med.harvard.edu>" <eagle-i-admins at open.med.harvard.edu<mailto:eagle-i-admins at open.med.harvard.edu>>
Subject: New process and data migration issues & clarification of properties [2.0-MS2.14]

Now, regarding some of the issues that have been encountered:
(1) Some of you have reported having issues running the data-migration.sh for the latest release, 2.0-MS2.14.  This issue manifests with notification of incorrect/missing parameters during the execution of the script, but the script does not fail.  The output looks similar to the attached file.  I have been unable to reproduce the error using the files that were mentioned in the initial email:
Datamangement Toolkit -  http://infra.search.eagle-i.net:8081/nexus/content/repositories/releases/org/eagle-i/eagle-i-datatools-datamanagement/
Repository -  http://infra.search.eagle-i.net:8081/nexus/content/repositories/releases/org/eagle-i/eagle-i-repository-dist/

Not everyone has run into this problem, so I'm wondering if I could ask those of you who have had problems to remove your existing eagle-i-datatools-datamanagement.jar, re-download the jar and try the script again.

-------------- next part --------------
An HTML attachment was scrubbed...
URL: https://open.med.harvard.edu/pipermail/eagle-i-admins/attachments/20130808/ed84967c/attachment.html