Error: cannot allocate vector of size

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chittabrata mal ▴ 50

@chittabrata-mal-3798

Last seen 10.2 years ago

Dear List, During GCRMA using simpleAffy package for some array data (>30) it is showing: "Error: cannot allocate vector of size 372.1 Mb" R environment is as follows: R version 3.0.1 (2013-05-16) -- "Good Sport" Copyright (C) 2013 The R Foundation for Statistical Computing Platform: i686-pc-linux-gnu (32-bit) The system has 4GB RAM. During running the GCRMA free memory size is more than 372.1 Mb. How may I solve this problem? With regards. [[alternative HTML version deleted]]

gcrma simpleaffy gcrma simpleaffy • 7.9k views

ADD COMMENT • link updated 11.4 years ago by James W. MacDonald 67k • written 11.4 years ago by chittabrata mal ▴ 50

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James W. MacDonald 67k

@james-w-macdonald-5106

Last seen 12 hours ago

United States

You can solve the problem by installing more RAM or using a computer that already has more RAM. Best, Jim On 7/15/2013 8:36 AM, chittabrata mal wrote: > Dear List, > During GCRMA using simpleAffy package for some array data (>30) it is showing: > > "Error: cannot allocate vector of size 372.1 Mb" > > R environment is as follows: > R version 3.0.1 (2013-05-16) -- "Good Sport" > Copyright (C) 2013 The R Foundation for Statistical Computing > Platform: i686-pc-linux-gnu (32-bit) > > The system has 4GB RAM. During running the GCRMA free memory size is more than 372.1 Mb. > > How may I solve this problem? > > With regards. > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- James W. MacDonald, M.S. Biostatistician University of Washington Environmental and Occupational Health Sciences 4225 Roosevelt Way NE, # 100 Seattle WA 98105-6099

ADD COMMENT • link 11.4 years ago James W. MacDonald 67k

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Or, perhaps running a 64-bit version of R would do the trick (assuming the OP) is on a 64bit machine Also the aroma affeyrix suite of packages might be helpful HTH, -Steve On Monday, July 15, 2013, James W. MacDonald wrote: > You can solve the problem by installing more RAM or using a computer that > already has more RAM. > > Best, > > Jim > > > > On 7/15/2013 8:36 AM, chittabrata mal wrote: > >> Dear List, >> During GCRMA using simpleAffy package for some array data (>30) it is >> showing: >> >> "Error: cannot allocate vector of size 372.1 Mb" >> >> R environment is as follows: >> R version 3.0.1 (2013-05-16) -- "Good Sport" >> Copyright (C) 2013 The R Foundation for Statistical Computing >> Platform: i686-pc-linux-gnu (32-bit) >> >> The system has 4GB RAM. During running the GCRMA free memory size is more >> than 372.1 Mb. >> >> How may I solve this problem? >> >> With regards. >> >> [[alternative HTML version deleted]] >> >> ______________________________**_________________ >> Bioconductor mailing list >> Bioconductor@r-project.org >> https://stat.ethz.ch/mailman/**listinfo/bioconductor<https: stat.e="" thz.ch="" mailman="" listinfo="" bioconductor=""> >> Search the archives: http://news.gmane.org/gmane.** >> science.biology.informatics.**conductor<http: news.gmane.org="" gmane="" .science.biology.informatics.conductor=""> >> > > -- > James W. MacDonald, M.S. > Biostatistician > University of Washington > Environmental and Occupational Health Sciences > 4225 Roosevelt Way NE, # 100 > Seattle WA 98105-6099 > > ______________________________**_________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/**listinfo/bioconductor<https: stat.et="" hz.ch="" mailman="" listinfo="" bioconductor=""> > Search the archives: http://news.gmane.org/gmane.** > science.biology.informatics.**conductor<http: news.gmane.org="" gmane.="" science.biology.informatics.conductor=""> > -- Steve Lianoglou Computational Biologist Bioinformatics and Computational Biology Genentech [[alternative HTML version deleted]]

ADD REPLY • link 11.4 years ago Steve Lianoglou ★ 13k

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On 07/15/2013 07:17 AM, Steve Lianoglou wrote: > Or, perhaps running a 64-bit version of R would do the trick (assuming the > OP) is on a 64bit machine > > Also the aroma affeyrix suite of packages might be helpful or gcrma::justGCRMA, if you're not doing that already? Martin > > HTH, > -Steve > > > On Monday, July 15, 2013, James W. MacDonald wrote: > >> You can solve the problem by installing more RAM or using a computer that >> already has more RAM. >> >> Best, >> >> Jim >> >> >> >> On 7/15/2013 8:36 AM, chittabrata mal wrote: >> >>> Dear List, >>> During GCRMA using simpleAffy package for some array data (>30) it is >>> showing: >>> >>> "Error: cannot allocate vector of size 372.1 Mb" >>> >>> R environment is as follows: >>> R version 3.0.1 (2013-05-16) -- "Good Sport" >>> Copyright (C) 2013 The R Foundation for Statistical Computing >>> Platform: i686-pc-linux-gnu (32-bit) >>> >>> The system has 4GB RAM. During running the GCRMA free memory size is more >>> than 372.1 Mb. >>> >>> How may I solve this problem? >>> >>> With regards. >>> >>> [[alternative HTML version deleted]] >>> >>> ______________________________**_________________ >>> Bioconductor mailing list >>> Bioconductor at r-project.org >>> https://stat.ethz.ch/mailman/**listinfo/bioconductor<https: stat.="" ethz.ch="" mailman="" listinfo="" bioconductor=""> >>> Search the archives: http://news.gmane.org/gmane.** >>> science.biology.informatics.**conductor<http: news.gmane.org="" gman="" e.science.biology.informatics.conductor=""> >>> >> >> -- >> James W. MacDonald, M.S. >> Biostatistician >> University of Washington >> Environmental and Occupational Health Sciences >> 4225 Roosevelt Way NE, # 100 >> Seattle WA 98105-6099 >> >> ______________________________**_________________ >> Bioconductor mailing list >> Bioconductor at r-project.org >> https://stat.ethz.ch/mailman/**listinfo/bioconductor<https: stat.e="" thz.ch="" mailman="" listinfo="" bioconductor=""> >> Search the archives: http://news.gmane.org/gmane.** >> science.biology.informatics.**conductor<http: news.gmane.org="" gmane="" .science.biology.informatics.conductor=""> >> > > -- Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M1 B861 Phone: (206) 667-2793

ADD REPLY • link 11.4 years ago Martin Morgan 25k

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