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

Thu Aug 8 16:10:54 EDT 2013

Both ran fine. -angel

On Thu, Aug 8, 2013 at 4:09 PM, Tolmie, David A <dtolmie at fhcrc.org> wrote:

>  Angel,
>
>  Was it the update script or the data management script that had been
> failing for you?  The update is running just fine for me, it's the data
> migration script that's complaining.
>
>  Thanks,
>
>  -Dave
>
> ** **
>
>   From: Angel Pizarro <angel at itmat.upenn.edu>
> Reply-To: "angel at upenn.edu" <angel at upenn.edu>
> Date: Thursday, August 8, 2013 12:52 PM
> To: "Cheng, Sophia" <Sophia_Cheng at hms.harvard.edu>
> Cc: Faith Coldren <fcoldren at mail.med.upenn.edu>, David Tolmie <
> dtolmie at fhcrc.org>, "eagle-i-admins at open.med.harvard.edu" <
> eagle-i-admins at open.med.harvard.edu>, "ross.davis at Vanderbilt.Edu" <
> ross.davis at vanderbilt.edu>, "sukie at dartmouth.edu" <sukie at dartmouth.edu>,
> "Neiman, David" <David_Neiman at hms.harvard.edu>, "Cole, Julian C" <
> Julian_Cole at hms.harvard.edu>, "Ciriello, Marc" <
> Marc_Ciriello at hms.harvard.edu>
>
> Subject: Re: [Eagle-i-admins] New process and data migration issues &
> clarification of properties [2.0-MS2.14]
>
>   The update ran fine for us once we took care of the changed values in
> the respective properties files. -angel
>
>
> On Thu, Aug 8, 2013 at 3:45 PM, Cheng, Sophia <
> Sophia_Cheng at hms.harvard.edu> wrote:
>
>>  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>
>> Date: Thursday, August 8, 2013 3:43 PM
>> To: Sophia <sophia_cheng at hms.harvard.edu>
>> Cc: "Tolmie, David A" <dtolmie at fhcrc.org>, "
>> eagle-i-admins at open.med.harvard.edu" <eagle-i-admins at open.med.harvard.edu>,
>> "ross.davis at Vanderbilt.Edu" <ross.davis at vanderbilt.edu>, "
>> angel at itmat.upenn.edu" <angel at itmat.upenn.edu>, "
>> fcoldren at mail.med.upenn.edu" <fcoldren at mail.med.upenn.edu>, "
>> sukie at dartmouth.edu" <sukie at dartmouth.edu>, "Neiman, David" <
>> David_Neiman at hms.harvard.edu>, "Cole, Julian C" <
>> Julian_Cole at hms.harvard.edu>, "Ciriello, Marc" <
>> 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> 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>
>>> Date: Thursday, August 8, 2013 1:21 PM
>>> To: "eagle-i-admins at open.med.harvard.edu" <
>>> eagle-i-admins at open.med.harvard.edu>, "ross.davis at Vanderbilt.Edu" <
>>> ross.davis at Vanderbilt.Edu>, "angel at itmat.upenn.edu" <
>>> angel at itmat.upenn.edu>, "fcoldren at mail.med.upenn.edu" <
>>> fcoldren at mail.med.upenn.edu>, "sukie at dartmouth.edu" <sukie at dartmouth.edu
>>> >
>>> Cc: "Neiman, David" <David_Neiman at hms.harvard.edu>, "Cole, Julian C" <
>>> Julian_Cole at hms.harvard.edu>, "Ciriello, Marc" <
>>> 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  |  tel 206.667.6852 |  fax 206.667.4737***
>>>
>>> [image: Description: Description: Description: Description:
>>> AL-Logo-color] <http://library.fhcrc.org/>****
>>>
>>> ** **
>>>
>>>   From: <Cheng>, "Cheng, Sophia" <Sophia_Cheng at hms.harvard.edu>
>>> Reply-To: "eagle-i-admins at open.med.harvard.edu" <
>>> eagle-i-admins at open.med.harvard.edu>
>>> Date: Tuesday, July 23, 2013 4:51 PM
>>> To: David Tolmie <dtolmie at fhcrc.org>, "ross.davis at Vanderbilt.Edu" <
>>> ross.davis at Vanderbilt.Edu>, "angel at itmat.upenn.edu" <
>>> angel at itmat.upenn.edu>, "fcoldren at mail.med.upenn.edu" <
>>> fcoldren at mail.med.upenn.edu>, "sukie at dartmouth.edu" <sukie at dartmouth.edu
>>> >
>>> Cc: "Ciriello, Marc" <Marc_Ciriello at hms.harvard.edu>, "Bourges,
>>> Daniela" <Daniela_Bourges at hms.harvard.edu>, "Cole, Julian C" <
>>> Julian_Cole at hms.harvard.edu>, "Neiman, David" <
>>> David_Neiman at hms.harvard.edu>, "eagle-i-admins at open.med.harvard.edu" <
>>> 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.
>>>
>>
>>
>
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