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[bioontology-support] bioontology-support Digest, Vol 123, Issue 41

Ally, Abdul abdul.ally at thermofisher.com
Tue Jul 17 11:40:17 PDT 2018


Got it! 

Abdul Ally
Area Director, Laboratory Science and Operations

Thermo Fisher Scientific
14665 Rothgeb Drive | Rockville, MD 20850

> On Jul 17, 2018, at 2:19 PM, "bioontology-support-request at lists.stanford.edu" <bioontology-support-request at lists.stanford.edu> wrote:
> 
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> When replying, please edit your Subject line so it is more specific
> than "Re: Contents of bioontology-support digest..."
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> Today's Topics:
> 
>   1. Re: Hypersensitivity Pneumonitis Ontology (HP_O)
>      (Jennifer Leigh Vendetti)
>   2. Re: your registration to BioPortal (Jennifer Leigh Vendetti)
> 
> 
> ----------------------------------------------------------------------
> 
> Message: 1
> Date: Tue, 17 Jul 2018 17:56:26 +0000
> From: Jennifer Leigh Vendetti <vendetti at stanford.edu>
> To: Marcin Golec <msgolec at yahoo.com>
> Cc: "bioontology-support at lists.stanford.edu"
>        <bioontology-support at lists.stanford.edu>
> Subject: Re: [bioontology-support] Hypersensitivity Pneumonitis
>        Ontology        (HP_O)
> Message-ID: <5524328A-E4A8-44F4-9046-BCF743352EBC at stanford.edu>
> Content-Type: text/plain; charset="utf-8"
> 
> Hello Marcin,
> 
> I just got indication from the person that does our IT support that a large amount of logging filled up the disk space on one of our UI servers. The side effect was that a number of ontology pages in the BioPortal UI weren?t accessible. I?m under the impression this has been fixed now. Apologies for that inconvenience. Please let us know if you have further issues.
> 
> Best,
> Jennifer
> 
> 
> 
> On Jul 17, 2018, at 10:03 AM, Marcin Golec <msgolec at yahoo.com<mailto:msgolec at yahoo.com>> wrote:
> 
> Jennifer,
> 
> I have just looked at it again and it seems that it works now.
> 
> Thank you for your help.
> 
> Best regards,
> 
> Marcin
> 
> ----- Forwarded Message -----
> From: Marcin Golec <msgolec at yahoo.com<mailto:msgolec at yahoo.com>>
> To: Jennifer Leigh Vendetti <vendetti at stanford.edu<mailto:vendetti at stanford.edu>>
> Cc: Bioontology Support <support at bioontology.org<mailto:support at bioontology.org>>
> Sent: Tuesday, July 17, 2018, 5:21:18 PM GMT+2
> Subject: Re: Hypersensitivity Pneumonitis Ontology (HP_O)
> 
> Jennifer,
> 
> thank you for your prompt reply.
> 
> It still does not work. When I click on "purlbioontology..." link it shows the following communicate:
> 
> <1531840809991blob.jpg>
> 
> How we will proceed now?
> 
> Perhaps I may upload it again (how?) or I may send you the owl file and you will upload it?
> 
> Best regards,
> 
> Marcin
> On Tuesday, July 17, 2018, 4:02:59 PM GMT+2, Jennifer Leigh Vendetti <vendetti at stanford.edu<mailto:vendetti at stanford.edu>> wrote:
> 
> 
> Hello Marcin,
> 
> 
> On Jul 17, 2018, at 1:19 AM, Marcin Golec <msgolec at yahoo.com<mailto:msgolec at yahoo.com>> wrote:
> 
> Jennifer,
> 
> following our e-mail echange earlier this year, I have uploaded our Hypersensitivity Pneumonitis Ontology (HP_O) to the Bioportal, however, it seems that the ontology is not accessible (i.e. when I click on Bioportal purl there is a communicate saying "We are sorry but something has gone wrong?).
> 
> 
> I looked at our system log files and there appears to have been an error on the first attempt to process the ontology. I manually reprocessed your ontology and cleared our application caches. I?m able to access the ontology now without errors. Let me know if you?re seeing the same.
> 
> Apologies for the inconvenience.
> 
> Kind regards,
> Jennifer
> 
> 
> 
> <Screenshot 2018-07-17 07.00.48.png>
> 
> 
> 
> <1531840809991blob.jpg><Screenshot 2018-07-17 07.00.48.png>
> 
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> 
> ------------------------------
> 
> Message: 2
> Date: Tue, 17 Jul 2018 18:18:33 +0000
> From: Jennifer Leigh Vendetti <vendetti at stanford.edu>
> To: "Conlon, Mike" <mconlon at ufl.edu>
> Cc: John Graybeal <jgraybeal at stanford.edu>, NCBO User Support
>        <support at bioontology.org>
> Subject: Re: [bioontology-support] your registration to BioPortal
> Message-ID: <F1566FA2-EB13-4F22-990C-522745DCB98D at stanford.edu>
> Content-Type: text/plain; charset="utf-8"
> 
> Hi Mike,
> 
> I?m picking up this thread from John. Another BioPortal user sent us the same screenshot this morning. I was notified by the person that does our IT support that one of our UI servers ran out of disk space and a number of pages in the BioPortal application were inaccessible. I just went through a test cycle of account creation and resetting a password and the system behaved as expected. It may work for you now if you?re willing to try again. If not, could you please forward me privately your password reset email (vendetti at stanford.edu<https://urldefense.proofpoint.com/v2/url?u=http-3A__stanford.edu&d=DwICAg&c=q6k2DsTcEGCcCb_WtVSz6hhIl8hvYssy7sH8ZwfbbKU&r=34WErv924Zyuu7uIrWyVmfq_VmgZkl9Vr5kWlMjPIdE&m=lZ322HoemrdfLNX7CwLV2nQoe3isTJI1uGjRwIx6YOE&s=1d2EP2Fxq4DeUsj-Hlgmc2zYQ_EMMV-8EDTp0ER5_rI&e=>) so that I can test the link in my local development environment?
> 
> Thanks for your continued patience with us.
> 
> Kind regards,
> Jennifer
> 
> 
> 
> On Jul 17, 2018, at 8:47 AM, Conlon, Mike <mconlon at ufl.edu<mailto:mconlon at ufl.edu>> wrote:
> 
> Hi John,
> 
> I tried to use the link in the password reset to reset my password.  Error message attached:
> 
> <image001.png>
> 
> Michael Conlon, PhD
> VIVO Project Director
> Emeritus Faculty
> University of Florida
> 
> 
> 
> From: John Graybeal <jgraybeal at stanford.edu<mailto:jgraybeal at stanford.edu>>
> Date: Tuesday, July 17, 2018 at 10:54 AM
> To: "Conlon, Mike" <mconlon at ufl.edu<mailto:mconlon at ufl.edu>>
> Cc: NCBO User Support <support at bioontology.org<mailto:support at bioontology.org>>
> Subject: your registration to BioPortal
> 
> Hello Mike,
> 
> I just tried to register and it seemed to go OK. There may have been an ongoing outage when you tried it, I'm not sure.
> 
> I've requested a password reset, you should have instructions in your email on how to reset your password.
> 
> John
> 
> 
> On Jul 17, 2018, at 6:25 AM, Conlon, Mike <mconlon at ufl.edu<mailto:mconlon at ufl.edu>> wrote:
> 
> <image001.png>
> 
> ========================
> John Graybeal
> Technical Program Manager
> Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal
> Stanford Center for Biomedical Informatics Research
> 650-736-1632
> 
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> End of bioontology-support Digest, Vol 123, Issue 41
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