Re: [Bioc-devel] Missing link files in Windows (release and devel)

2018-01-17 Thread Martin Morgan
On 01/17/2018 12:02 PM, Stephanie M. Gogarten wrote: This sentence seems to indicate that the original format \link[base]{rbind} should work: "Because they have been frequently misused, the HTML help system looks for topic foo in package pkg if it does not find file foo.html." I looked at th

Re: [Bioc-devel] Missing link files in Windows (release and devel)

2018-01-17 Thread Leonardo Collado Torres
Thank you Jim! I changed it to \link[Rsamtools:BamFile-class]{BamFile}. Best, Leo On Wed, Jan 17, 2018 at 11:56 AM, James W. MacDonald wrote: > > On Wed, Jan 17, 2018 at 11:38 AM, Leonardo Collado Torres > wrote: >> >> Thanks Martin! I just finished fixing the links in all my packages >> using

Re: [Bioc-devel] Missing link files in Windows (release and devel)

2018-01-17 Thread Stephanie M. Gogarten
This sentence seems to indicate that the original format \link[base]{rbind} should work: "Because they have been frequently misused, the HTML help system looks for topic foo in package pkg if it does not find file foo.html." On 1/17/18 8:56 AM, James W. MacDonald wrote: On Wed, Jan 17, 2018

Re: [Bioc-devel] Missing link files in Windows (release and devel)

2018-01-17 Thread James W. MacDonald
On Wed, Jan 17, 2018 at 11:38 AM, Leonardo Collado Torres wrote: > Thanks Martin! I just finished fixing the links in all my packages > using the \link[base:cbind]{rbind} syntax. One of them did seem a bit > weird to me: > > Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpqyL54j/R. > INST

Re: [Bioc-devel] Missing link files in Windows (release and devel)

2018-01-17 Thread Leonardo Collado Torres
Thanks Martin! I just finished fixing the links in all my packages using the \link[base:cbind]{rbind} syntax. One of them did seem a bit weird to me: Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpqyL54j/R.INSTALL22cc280d642c/derfinder/man/loadCoverage.Rd:15: missing file link 'BamFile'

Re: [Bioc-devel] Missing link files in Windows (release and devel)

2018-01-16 Thread Martin Morgan
On 01/16/2018 10:37 AM, Leonardo Collado Torres wrote: Hi, I have been seen warnings in several of my packages on both release and devel only in the Windows build machines in relation to missing link files. Is this something that I can address from my side or a more widespread issue? If it matte

[Bioc-devel] Missing link files in Windows (release and devel)

2018-01-16 Thread Leonardo Collado Torres
Hi, I have been seen warnings in several of my packages on both release and devel only in the Windows build machines in relation to missing link files. Is this something that I can address from my side or a more widespread issue? If it matters, I use roxygen2 for making my Rd files. Best, Leonard