I’m having trouble installing the SPOT R package for microarray image analysis. I’m awaiting a response from the packager developer, but wanted to see if anyone here has successfully used CSIRO’s SPOT software.
I’ve been following the developer’s "Spot Installation Instructions for Linux and Unix" <http://www.hca-vision.com/Spot_Documentation/Spot_Install_UNIX.pdf>: - Downloaded the Spot package (Spot_3.2_x86_64.tar) to my hard disk. - Started R: R version 3.2.1 (2015-06-18) -- "World-Famous Astronaut" Copyright (C) 2015 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin13.4.0 (64-bit) … - As instructed, executed the command: >install.packages("Spot_3.2_x86_64.tar.gz", CRAN = NULL) This produced: Warning in install.packages : package ‘Spot_3.2_x86_64.tar.gz’ is not available (for R version 3.2.1) Presuming that R was looking for the package in a repository and not my hard disk, I modified the command: > install.packages("~/Downloads/Spot_3.2_x86_64.tar.gz", repos = NULL, type = "source") This produced: * installing *source* package ‘Spot’ ... ERROR: a 'NAMESPACE' file is required * removing ‘/Library/Frameworks/R.framework/Versions/3.2/Resources/library/Spot’ Warning in install.packages : installation of package ‘/Users/wmorgan/Downloads/Spot_3.2_x86_64.tar.gz’ had non-zero exit status (I also tried type = “mac.binary” or “mac.binary.maverick”, but this only produced an error message that it's is not a mac binary file.) William R. Morgan, Ph.D. The College of Wooster Department of Biology Wooster, OH 44691 ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
