Installing Workflows for Oligonucleotide arrays
2
0
Entering edit mode
Guest User ★ 13k
@guest-user-4897
Last seen 9.6 years ago
Is there a way to install workflows for microarray analysis on Bioconductor v2.14? or should i downgrade to bioconductor v2.13? > source("http://bioconductor.org/workflows.R") Bioconductor version 2.14 (BiocInstaller 1.14.2), ?biocLite for help Error: BiocInstaller:::BIOC_VERSION == "2.13" is not TRUE -- output of sessionInfo(): > sessionInfo() R version 3.1.0 (2014-04-10) Platform: x86_64-w64-mingw32/x64 (64-bit) locale: [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 [3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C [5] LC_TIME=English_United States.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] BiocInstaller_1.14.2 loaded via a namespace (and not attached): [1] affyio_1.32.0 base64_1.1 Biobase_2.24.0 [4] BiocGenerics_0.10.0 Biostrings_2.32.0 bit_1.1-12 [7] codetools_0.2-8 digest_0.6.4 ellipse_0.3-8 [10] ff_2.2-13 foreach_1.4.2 GenomeInfoDb_1.0.2 [13] GenomicRanges_1.16.3 grid_3.1.0 illuminaio_0.6.0 [16] IRanges_1.22.8 iterators_1.0.7 lattice_0.20-29 [19] Matrix_1.1-3 matrixStats_0.10.0 mvtnorm_0.9-99992 [22] parallel_3.1.0 R.methodsS3_1.6.1 Rcpp_0.11.2 [25] RcppEigen_0.3.2.1.2 stats4_3.1.0 tools_3.1.0 [28] VGAM_0.9-4 XVector_0.4.0 zlibbioc_1.10.0 -- Sent via the guest posting facility at bioconductor.org.
Microarray Microarray • 942 views
ADD COMMENT
0
Entering edit mode
Dan Tenenbaum ★ 8.2k
@dan-tenenbaum-4256
Last seen 3.2 years ago
United States
----- Original Message ----- > From: "Rinaldy K [guest]" <guest at="" bioconductor.org=""> > To: bioconductor at r-project.org, rinkz5 at gmail.com > Sent: Tuesday, June 10, 2014 2:40:14 AM > Subject: [BioC] Installing Workflows for Oligonucleotide arrays > > Is there a way to install workflows for microarray analysis on > Bioconductor v2.14? > > or should i downgrade to bioconductor v2.13? > This should be building for the latest release version (2.14). I'll look into it. Dan > > source("http://bioconductor.org/workflows.R") > Bioconductor version 2.14 (BiocInstaller > 1.14.2), ?biocLite for help > Error: BiocInstaller:::BIOC_VERSION == "2.13" is not TRUE > > -- output of sessionInfo(): > > > sessionInfo() > R version 3.1.0 (2014-04-10) > Platform: x86_64-w64-mingw32/x64 (64-bit) > > locale: > [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United > States.1252 > [3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C > [5] LC_TIME=English_United States.1252 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > other attached packages: > [1] BiocInstaller_1.14.2 > > loaded via a namespace (and not attached): > [1] affyio_1.32.0 base64_1.1 Biobase_2.24.0 > [4] BiocGenerics_0.10.0 Biostrings_2.32.0 bit_1.1-12 > [7] codetools_0.2-8 digest_0.6.4 ellipse_0.3-8 > [10] ff_2.2-13 foreach_1.4.2 GenomeInfoDb_1.0.2 > [13] GenomicRanges_1.16.3 grid_3.1.0 illuminaio_0.6.0 > [16] IRanges_1.22.8 iterators_1.0.7 lattice_0.20-29 > [19] Matrix_1.1-3 matrixStats_0.10.0 mvtnorm_0.9-99992 > [22] parallel_3.1.0 R.methodsS3_1.6.1 Rcpp_0.11.2 > [25] RcppEigen_0.3.2.1.2 stats4_3.1.0 tools_3.1.0 > [28] VGAM_0.9-4 XVector_0.4.0 zlibbioc_1.10.0 > > -- > Sent via the guest posting facility at bioconductor.org. > > _______________________________________________ > 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 >
ADD COMMENT
0
Entering edit mode
Thank you Dan for your help, i find it now changed to the latest version On Tue, Jun 10, 2014 at 10:33 PM, Dan Tenenbaum <dtenenba@fhcrc.org> wrote: > > > ----- Original Message ----- > > From: "Rinaldy K [guest]" <guest@bioconductor.org> > > To: bioconductor@r-project.org, rinkz5@gmail.com > > Sent: Tuesday, June 10, 2014 2:40:14 AM > > Subject: [BioC] Installing Workflows for Oligonucleotide arrays > > > > Is there a way to install workflows for microarray analysis on > > Bioconductor v2.14? > > > > or should i downgrade to bioconductor v2.13? > > > > > This should be building for the latest release version (2.14). I'll look > into it. > > Dan > > > > > source("http://bioconductor.org/workflows.R") > > Bioconductor version 2.14 (BiocInstaller > > 1.14.2), ?biocLite for help > > Error: BiocInstaller:::BIOC_VERSION == "2.13" is not TRUE > > > > -- output of sessionInfo(): > > > > > sessionInfo() > > R version 3.1.0 (2014-04-10) > > Platform: x86_64-w64-mingw32/x64 (64-bit) > > > > locale: > > [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United > > States.1252 > > [3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C > > [5] LC_TIME=English_United States.1252 > > > > attached base packages: > > [1] stats graphics grDevices utils datasets methods base > > > > other attached packages: > > [1] BiocInstaller_1.14.2 > > > > loaded via a namespace (and not attached): > > [1] affyio_1.32.0 base64_1.1 Biobase_2.24.0 > > [4] BiocGenerics_0.10.0 Biostrings_2.32.0 bit_1.1-12 > > [7] codetools_0.2-8 digest_0.6.4 ellipse_0.3-8 > > [10] ff_2.2-13 foreach_1.4.2 GenomeInfoDb_1.0.2 > > [13] GenomicRanges_1.16.3 grid_3.1.0 illuminaio_0.6.0 > > [16] IRanges_1.22.8 iterators_1.0.7 lattice_0.20-29 > > [19] Matrix_1.1-3 matrixStats_0.10.0 mvtnorm_0.9-99992 > > [22] parallel_3.1.0 R.methodsS3_1.6.1 Rcpp_0.11.2 > > [25] RcppEigen_0.3.2.1.2 stats4_3.1.0 tools_3.1.0 > > [28] VGAM_0.9-4 XVector_0.4.0 zlibbioc_1.10.0 > > > > -- > > Sent via the guest posting facility at bioconductor.org. > > > > _______________________________________________ > > Bioconductor mailing list > > Bioconductor@r-project.org > > https://stat.ethz.ch/mailman/listinfo/bioconductor > > Search the archives: > > http://news.gmane.org/gmane.science.biology.informatics.conductor > > > [[alternative HTML version deleted]]
ADD REPLY
0
Entering edit mode
@james-w-macdonald-5106
Last seen 14 hours ago
United States
Not sure what you are asking for here. Will you clarify please? Best, Jim On 6/10/2014 5:40 AM, Rinaldy K [guest] wrote: > Is there a way to install workflows for microarray analysis on Bioconductor v2.14? > > or should i downgrade to bioconductor v2.13? > >> source("http://bioconductor.org/workflows.R") > Bioconductor version 2.14 (BiocInstaller > 1.14.2), ?biocLite for help > Error: BiocInstaller:::BIOC_VERSION == "2.13" is not TRUE > > -- output of sessionInfo(): > >> sessionInfo() > R version 3.1.0 (2014-04-10) > Platform: x86_64-w64-mingw32/x64 (64-bit) > > locale: > [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 > [3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C > [5] LC_TIME=English_United States.1252 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > other attached packages: > [1] BiocInstaller_1.14.2 > > loaded via a namespace (and not attached): > [1] affyio_1.32.0 base64_1.1 Biobase_2.24.0 > [4] BiocGenerics_0.10.0 Biostrings_2.32.0 bit_1.1-12 > [7] codetools_0.2-8 digest_0.6.4 ellipse_0.3-8 > [10] ff_2.2-13 foreach_1.4.2 GenomeInfoDb_1.0.2 > [13] GenomicRanges_1.16.3 grid_3.1.0 illuminaio_0.6.0 > [16] IRanges_1.22.8 iterators_1.0.7 lattice_0.20-29 > [19] Matrix_1.1-3 matrixStats_0.10.0 mvtnorm_0.9-99992 > [22] parallel_3.1.0 R.methodsS3_1.6.1 Rcpp_0.11.2 > [25] RcppEigen_0.3.2.1.2 stats4_3.1.0 tools_3.1.0 > [28] VGAM_0.9-4 XVector_0.4.0 zlibbioc_1.10.0 > > -- > Sent via the guest posting facility at bioconductor.org. > > _______________________________________________ > 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

Login before adding your answer.

Traffic: 857 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6