[Bioc-devel] Build error in tokay2: cannot reserve space for vector

[Sergio Picart Armada]

Thank you Morgan, 

I already fixed this by skipping the offending test on win32. 
I fixed the devel version, but the release version has not noticed the version bump (from 1.0.0 to 1.0.1). 
Did I forget anything?

Thank you again, 

On Monday, May 21, 2018 18:58 CEST, Hervé Pagès <hpages using fredhutch.org> wrote:
 On 05/21/2018 05:50 AM, Martin Morgan wrote:
> Remember that 32-bit Windows can only address vectors that are less than
> 2^32 - 1 elements long -- it looks like your example is trying to do
> more than this, and the solution is to implement a more modest example.

32-bit Windows limits the amount of memory used by a single process to
a little bit less than 3GB. So I think you can actually create vectors
that have more than 2^32 elements as long as the total memory used by
R doesn't exceeds 3GB.

One more thing: since this is a 32-bit Windows issue, you should be able
to reproduce this locally by starting R in 32-bit mode:

R --arch i386

Hope this helps,

H.

>
> Martin
>
> On 05/18/2018 04:05 AM, Sergio Picart Armada wrote:
>>
>> Dear Bioconductor team,
>>
>> I'm the maintainer of the FELLA package.
>> Lately the check in tokay2 has failed, see
>> https://urldefense.proofpoint.com/v2/url?u=http-3A__bioconductor.org_checkResults_release_bioc-2DLATEST_FELLA_tokay2-2Dchecksrc.html&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=-81iJhkqlvXvFLUkNuwd1vRA5eMW-Cf9eDiFgGMLDuk&s=e4cRnI7RwkBDHiDNJodfgLbk-BNKmO6OZsD1MoUHxLc&e=
>>
>> Specifically: Message: At vector.pmt:442 : cannot reserve space for
>> vector, Out of memory
>> Class:   simpleError/error/conditionIt only happens in tokay2 and I
>> cannot reproduce this locally.
>> Is this something on the server side or should I take action?
>>
>> Thank you,
>> Sergi
>>
>>     [[alternative HTML version deleted]]
>>
>> _______________________________________________
>> Bioc-devel using r-project.org mailing list
>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=-81iJhkqlvXvFLUkNuwd1vRA5eMW-Cf9eDiFgGMLDuk&s=brMBxrnaU_ShvDUNzFa8pJ08ru-VDl6-q5yWF9aSIQc&e=
>>
>>
>
>
> This email message may contain legally privileged and/or...{{dropped:2}}
>
> _______________________________________________
> Bioc-devel using r-project.org mailing list
> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=-81iJhkqlvXvFLUkNuwd1vRA5eMW-Cf9eDiFgGMLDuk&s=brMBxrnaU_ShvDUNzFa8pJ08ru-VDl6-q5yWF9aSIQc&e=
>

--
Hervé Pagès

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 using fredhutch.org
Phone: (206) 667-5791
Fax: (206) 667-1319


 

	[[alternative HTML version deleted]]