Would it be possible to get that file or a representative subset of it somewhere so that I can reproduce this?
Thanks, Michael On Thu, May 10, 2018 at 3:31 PM, Ben Heavner <bheav...@gmail.com> wrote: > When I read a .gz file with readLines() in 3.4.3, it returns text (and a > warning). In 3.5.0, it gives a warning, but no text. Is this expected > behavior or a bug? > > 3.4.3: >> source_file = "1k_annotation.gz" >> readfile_con <- gzfile(source_file, "r") >> readLines(readfile_con, n = 5) > [1] "#chr\tpos\tref\talt\t > > <truncated output here> > > Warning message: > In readLines(readfile_con, n = 5) : > seek on a gzfile connection returned an internal error > >> close(readfile_con) > >> sessionInfo() > R version 3.4.3 (2017-11-30) > Platform: x86_64-apple-darwin15.6.0 (64-bit) > Running under: macOS Sierra 10.12.6 > > Matrix products: default > BLAS: > /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libRblas.0.dylib > LAPACK: > /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libRlapack.dylib > > locale: > [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > loaded via a namespace (and not attached): > [1] compiler_3.4.3 > > --------------------------------------------- > > 3.5.0: >> source_file = "1k_annotation.gz" >> readfile_con <- gzfile(source_file, "r") >> readLines(readfile_con, n = 5) > [1] "" "" "" "" "" > Warning message: > In readLines(readfile_con, n = 5) : > seek on a gzfile connection returned an internal error >> close(readfile_con) >> sessionInfo() > R version 3.5.0 (2018-04-23) > Platform: x86_64-pc-linux-gnu (64-bit) > Running under: Debian GNU/Linux 9 (stretch) > > Matrix products: default > BLAS: /usr/lib/openblas-base/libblas.so.3 > LAPACK: /usr/lib/libopenblasp-r0.2.19.so > > locale: > [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C > [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 > [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=C > [7] LC_PAPER=en_US.UTF-8 LC_NAME=C > [9] LC_ADDRESS=C LC_TELEPHONE=C > [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > loaded via a namespace (and not attached): > [1] compiler_3.5.0 > > ---------------------------------------- > (note: I'm running 3.5.0 via the docker rocker/tidyverse:3.5 container, and > 3.4.3 on my mac desktop machine) > > Thanks! > Ben Heavner > > [[alternative HTML version deleted]] > > ______________________________________________ > R-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-devel > ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
