[Bioc-devel] Error in BUILD report (anamiR)

[Shepherd, Lori]

Thank you for your efforts.  Since the windows ERROR is out of your control we will undeprecate your package.


Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: Bioc-devel <bioc-devel-bounces at r-project.org> on behalf of Herv¨¦ Pag¨¨s <hpages at fredhutch.org>
Sent: Thursday, May 4, 2017 1:24:49 PM
To: Íõé¦Ì¨; Obenchain, Valerie; bioc-devel at r-project.org
Subject: Re: [Bioc-devel] Error in BUILD report (anamiR)

Hi Ti-Tai,

Not much you or we can do about this. Hopefully the RMySQL Windows
binary (currently 0.10.11) will soon be fixed on CRAN.

Thanks for keeping an eye on the build results for anamiR.

Best,
H.

On 05/04/2017 08:28 AM, Íõé¦Ì¨ wrote:
> Hi all,
>
> It turns out that this error is related to the RMySQL package(CRAN),
> and only happened in windows operating system.
>
> https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_rstats-2Ddb_RMySQL_issues_190&d=DwIGog&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=VSEps9beT-guh1-ZsGnrNtM76EXvC0sLDGAvbHiyf7o&s=EttA79WmCSlSiTmcSwggrVyANbs5AysI8hyEOfn4MeI&e=
>
> It looks like it can be solved only if we downgraded the RMySQL version now.
> Can I choose not to import the newest RMySQL version while being tested in the BUILDREPORT?
>
>
> Ti-Tai
>
> ________________________________________
> Ä: Obenchain, Valerie [Valerie.Obenchain at RoswellPark.org]
> ¼Ä¼þÈÕÆÚ: 2017Äê4ÔÂ16ÈÕ ÉÏÎç 10:58
> ÖÁ: Íõé¦Ì¨; bioc-devel at r-project.org
> Ö÷Ö¼: Re: [Bioc-devel]  Error in BUILD report (anamiR)
>
> It looks like this has been resolved on today's report:
>
> https://urldefense.proofpoint.com/v2/url?u=http-3A__www.bioconductor.org_checkResults_devel_bioc-2DLATEST_&d=DwIGog&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=VSEps9beT-guh1-ZsGnrNtM76EXvC0sLDGAvbHiyf7o&s=YqN2fHnUtseqzRMY6V06EubUXBY_m568PYWkUh0Zhb8&e=
>
> Valerie
>
>
> On 04/07/2017 02:21 PM, Íõé¦Ì¨ wrote:
>> Hi all,
>>
>> I got en error when it tries to create vignette in BUILD:
>> tokay2  Windows Server 2012 R2 Standard / x64
>>
>> Error: processing vignette 'IntroductionToanamiR.Rmd' failed with diagnostics:
>> could not run statement: Lost connection to MySQL server during query
>>
>> But for Linux or Mac, it all works.
>> I have no idea how to solve this problem.
>>
>> Many thanks,
>> Ti-Tai
>>
>>       [[alternative HTML version deleted]]
>>
>> _______________________________________________
>> Bioc-devel at r-project.org mailing list
>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIGog&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=VSEps9beT-guh1-ZsGnrNtM76EXvC0sLDGAvbHiyf7o&s=qn1gkdYoqG_1sfJjLb27oOtHp3x8K4Brjgt_SaWXkIE&e=
>>
>
>
>
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--
Herv¨¦ Pag¨¨s

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M1-B514
P.O. Box 19024
Seattle, WA 98109-1024

E-mail: hpages at fredhutch.org
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Fax:    (206) 667-1319

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