Hi Kasper, ----- Original Message ----- > From: "Kasper Daniel Hansen" <kasperdanielhan...@gmail.com> > To: bioc-devel@r-project.org > Sent: Wednesday, May 28, 2014 7:20:00 AM > Subject: [Bioc-devel] BiocCheck > > 1) The hash bang in the BiocCheck script currently requires > intervention at > install time. >
Only if you don't have permission to write the script to $R_HOME/bin. Otherwise it is handled for you. I would prefer to use #!/usr/bin/env Rscript but the problem with that is you can't add an argument like: #!/usr/bin/env Rscript --vanilla env doesn't support that. > It would be much more convenient if the script could read of the > location > of R, in the same way as (say) the Sweave script can. In fact, I > modified > the BiocCheck script as per the Sweave script but ran into problems > with > .BiocCheckFromCommandLine, and figured I better stop. > What does Sweave do? What problem did you run into? > 2) Re. the checks for coding style: it would be convenient if there > was an > option (perhaps disabled by default, perhaps not) which lists the > offending > files for each "issue". > I think this would need to be disabled by default; in practice I see that many many files per package are "offending". I can't get to this right away but I've added https://github.com/Bioconductor/BiocCheck/issues/13 Dan > Best, > Kasper > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
