mzR install requires deprecated header file
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Last seen 7.1 years ago
Hi, I am currently trying to install mzR in R 3.02. I am getting this error: pwiz/utility/misc/sha1calc.cpp:29:36: fatal error: Rcpp/iostream/Rostream.h: No such file or directory #include <rcpp iostream="" rostream.h=""> I saw this link: http://permalink.gmane.org/gmane.comp.lang.r.rcpp/6676 that suggests this is a known issue and fixed in mzR-1.9.4. I'm not terribly familiar with R. How can I install this specific, updated version of mzR? Right now I am using biocLite("mzR"). Many thanks! Rob -- output of sessionInfo(): na -- Sent via the guest posting facility at bioconductor.org.
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@james-w-macdonald-5106
Last seen 7 hours ago
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Hi Rob, mzR-1.9.4 is a devel version, so you need to first install a release candidate version of R, and then run biocLite() to install. http://cran.r-project.org/src/base-prerelease/ Best, Jim On Monday, February 10, 2014 12:57:01 PM, Rob [guest] wrote: > > Hi, > > I am currently trying to install mzR in R 3.02. I am getting this error: > > pwiz/utility/misc/sha1calc.cpp:29:36: fatal error: Rcpp/iostream/Rostream.h: No such file or directory > #include <rcpp iostream="" rostream.h=""> > > I saw this link: > http://permalink.gmane.org/gmane.comp.lang.r.rcpp/6676 > > that suggests this is a known issue and fixed in mzR-1.9.4. > > I'm not terribly familiar with R. How can I install this specific, updated version of mzR? Right now I am using biocLite("mzR"). > > Many thanks! > Rob > > -- output of sessionInfo(): > > na > > -- > 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
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Thanks, that worked great. On Mon, Feb 10, 2014 at 11:22 AM, James W. MacDonald <jmacdon@uw.edu> wrote: > Hi Rob, > > mzR-1.9.4 is a devel version, so you need to first install a release > candidate version of R, and then run biocLite() to install. > > http://cran.r-project.org/src/base-prerelease/ > > Best, > > Jim > > > > > On Monday, February 10, 2014 12:57:01 PM, Rob [guest] wrote: > >> >> Hi, >> >> I am currently trying to install mzR in R 3.02. I am getting this error: >> >> pwiz/utility/misc/sha1calc.cpp:29:36: fatal error: >> Rcpp/iostream/Rostream.h: No such file or directory >> #include <rcpp iostream="" rostream.h=""> >> >> I saw this link: >> http://permalink.gmane.org/gmane.comp.lang.r.rcpp/6676 >> >> that suggests this is a known issue and fixed in mzR-1.9.4. >> >> I'm not terribly familiar with R. How can I install this specific, >> updated version of mzR? Right now I am using biocLite("mzR"). >> >> Many thanks! >> Rob >> >> -- output of sessionInfo(): >> >> na >> >> -- >> 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 >> > > -- > James W. MacDonald, M.S. > Biostatistician > University of Washington > Environmental and Occupational Health Sciences > 4225 Roosevelt Way NE, # 100 > Seattle WA 98105-6099 > -- Rob Smith, MS PhD Candidate Dept of Computer Science Brigham Young University Provo, UT, USA [[alternative HTML version deleted]]
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----- Original Message ----- > From: "James W. MacDonald" <jmacdon at="" uw.edu=""> > To: "Rob [guest]" <guest at="" bioconductor.org=""> > Cc: 2robsmith at gmail.com, bioconductor at r-project.org > Sent: Monday, February 10, 2014 10:22:18 AM > Subject: Re: [BioC] mzR install requires deprecated header file > > Hi Rob, > > mzR-1.9.4 is a devel version, so you need to first install a release > candidate version of R, and then run biocLite() to install. > > http://cran.r-project.org/src/base-prerelease/ > > Best, > > Jim > There is now a patched version of mzR available so you do not need to install R and bioc/devel. If you want you can go back to the release version of R and do this: source("http://bioconductor.org/biocLite.R") biocLite("mzR") Dan > > > On Monday, February 10, 2014 12:57:01 PM, Rob [guest] wrote: > > > > Hi, > > > > I am currently trying to install mzR in R 3.02. I am getting this > > error: > > > > pwiz/utility/misc/sha1calc.cpp:29:36: fatal error: > > Rcpp/iostream/Rostream.h: No such file or directory > > #include <rcpp iostream="" rostream.h=""> > > > > I saw this link: > > http://permalink.gmane.org/gmane.comp.lang.r.rcpp/6676 > > > > that suggests this is a known issue and fixed in mzR-1.9.4. > > > > I'm not terribly familiar with R. How can I install this specific, > > updated version of mzR? Right now I am using biocLite("mzR"). > > > > Many thanks! > > Rob > > > > -- output of sessionInfo(): > > > > na > > > > -- > > 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 > > _______________________________________________ > 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 >
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