problem in make.cdf.package of MoGene-1_0-st-v1.r3.CDF
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Peng Yu ▴ 940
@peng-yu-3586
Last seen 9.5 years ago
Hi, I use the following script to make the MoEx cdf. You can tune it to make MoGene cdf. $ cat make_cdf_package.R library(makecdfenv) make.cdf.package("MoEx-1_0-st-v1.text.cdf", packagename="moex10stv1cdf", species="Mus_musculus") Regards, Peng On Thu, Aug 27, 2009 at 4:56 AM, Pengcheng Yang<pengchy at="" gmail.com=""> wrote: > Forgot to paste my session information. Thanks! >> sessionInfo() > R version 2.9.2 (2009-08-24) > i386-pc-mingw32 > locale: > LC_COLLATE=Chinese_People's Republic of China.936;LC_CTYPE=Chinese_People's > Republic of China.936;LC_MONETARY=Chinese_People's Republic of > China.936;LC_NUMERIC=C;LC_TIME=Chinese_People's Republic of China.936 > attached base packages: > [1] tools ? ? stats ? ? graphics ?grDevices utils ? ? datasets ?methods > [8] base > other attached packages: > [1] makecdfenv_1.22.0 affyio_1.10.1 ? ? affy_1.20.2 ? ? ? Biobase_2.2.2 > loaded via a namespace (and not attached): > [1] preprocessCore_1.4.0 > On Thu, Aug 27, 2009 at 5:53 PM, Pengcheng Yang <pengchy at="" gmail.com=""> wrote: >> >> Hi Peng, >> I want to make a cdf package of MoGene-1_0-st-v1.r3 using the cdf file >> downloaded >> from?http://www.affymetrix.com/Auth/support/downloads/library_files /MoGene-1_0-st-v1.r3.unsupported-cdf.zip, >> and did as makecdfenv package's instruction. But failed with the >> information: >> ------------------------------------------- >> > >> > make.cdf.package("MoGene-1_0-st-v1.r3.CDF",spec="mus",version=1.0 ,author="yang",maintainer="yang") >> Error in isCDFXDA(file.path(path.expand(cdf.path), filename)) : >> ??VECTOR_ELT() can only be applied to a 'list', not a 'character' >> -------------------------------------------- >> I googled using this error message and found that you have encountered the >> same >> question:?http://article.gmane.org/gmane.science.biology.informatic s.conductor/24497 >> Could you please tell me how to make the cdf package of this platform? And >> there is another solution as this linkage >> suggest:?https://stat.ethz.ch/pipermail/bioconductor/2008-July/0234 03.html, >> but I do not know the following step. >> Thanks in advance. >> -- >> Pengcheng Yang >> PhD Candidate >> IOZ,CAS > > > > -- > Pengcheng Yang > PhD Candidate > IOZ,CAS >
cdf makecdfenv cdf makecdfenv • 994 views
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@benilton-carvalho-1375
Last seen 4.0 years ago
Brazil/Campinas/UNICAMP
you need to update affyio. On Sep 7, 2009, at 6:12 PM, Peng Yu wrote: > Hi, > > I use the following script to make the MoEx cdf. You can tune it to > make MoGene cdf. > > $ cat make_cdf_package.R > library(makecdfenv) > make.cdf.package("MoEx-1_0-st-v1.text.cdf", > packagename="moex10stv1cdf", species="Mus_musculus") > > Regards, > Peng > > On Thu, Aug 27, 2009 at 4:56 AM, Pengcheng Yang<pengchy at="" gmail.com=""> > wrote: >> Forgot to paste my session information. Thanks! >>> sessionInfo() >> R version 2.9.2 (2009-08-24) >> i386-pc-mingw32 >> locale: >> LC_COLLATE=Chinese_People's Republic of China. >> 936;LC_CTYPE=Chinese_People's >> Republic of China.936;LC_MONETARY=Chinese_People's Republic of >> China.936;LC_NUMERIC=C;LC_TIME=Chinese_People's Republic of China.936 >> attached base packages: >> [1] tools stats graphics grDevices utils datasets >> methods >> [8] base >> other attached packages: >> [1] makecdfenv_1.22.0 affyio_1.10.1 affy_1.20.2 >> Biobase_2.2.2 >> loaded via a namespace (and not attached): >> [1] preprocessCore_1.4.0 >> On Thu, Aug 27, 2009 at 5:53 PM, Pengcheng Yang <pengchy at="" gmail.com=""> >> wrote: >>> >>> Hi Peng, >>> I want to make a cdf package of MoGene-1_0-st-v1.r3 using the cdf >>> file >>> downloaded >>> from http://www.affymetrix.com/Auth/support/downloads/library_files/MoGene- 1_0-st-v1.r3.unsupported-cdf.zip >>> , >>> and did as makecdfenv package's instruction. But failed with the >>> information: >>> ------------------------------------------- >>>> >>>> make.cdf.package("MoGene-1_0-st- >>>> v1.r3.CDF",spec="mus",version=1.0,author="yang",maintainer="yang") >>> Error in isCDFXDA(file.path(path.expand(cdf.path), filename)) : >>> VECTOR_ELT() can only be applied to a 'list', not a 'character' >>> -------------------------------------------- >>> I googled using this error message and found that you have >>> encountered the >>> same >>> question: http://article.gmane.org/gmane.science.biology.informati cs.conductor/24497 >>> Could you please tell me how to make the cdf package of this >>> platform? And >>> there is another solution as this linkage >>> suggest: https://stat.ethz.ch/pipermail/bioconductor/2008-July/023403.html >>> , >>> but I do not know the following step. >>> Thanks in advance. >>> -- >>> Pengcheng Yang >>> PhD Candidate >>> IOZ,CAS >> >> >> >> -- >> Pengcheng Yang >> PhD Candidate >> IOZ,CAS >> > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
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