[Rd] R-intro.texi patch

Note, the R-intro.R is correct. svn diff R-intro.texi Index: R-intro.texi === --- R-intro.texi(revision 71664) +++ R-intro.texi(working copy) @@ -1525,7 +1525,7 @@ After this assignment, the standard errors are

Re: [Rd] problem with normalizePath()

I wonder if this could be related to the issue that I submitted to bugzilla about two months ago? ( https://bugs.r-project.org/bugzilla3/show_bug.cgi?id=17159) That is to say, could it be that it's treating the first path after the single backslash as an actual directory, rather than as the name

[Bioc-devel] SRAdb::sraConvert returns results in arbitrary order

Hello, I was recently bitten by an unexpected behavior in the sraConvert function from the SRAdb package. I wanted to fetch the other SRA IDs associated with the SRX numbers of 32 samples, and I used the sraConvert function to do so. However, I did not realized that sraConvert returns the

Re: [Rd] new function to tools/utils package: dependencies based on DESCRIPTION file

Hi Jan, Thanks for volunteering. You, me, Duncan Murdoch (if interested) and anyone else who is interested should setup an informal chat. We need to ensure that the API is right and that it fits in well with other ongoing efforts. Michael On Thu, Nov 17, 2016 at 1:40 PM, Jan Gorecki

Re: [Rd] new function to tools/utils package: dependencies based on DESCRIPTION file

Hi Michael, Are you willing to accept patch for this? I'm already using this and few related functions for a while, it plays well. I could wrap it as patch to utils, or tools? Best, Jan On 16 June 2016 at 14:00, Michael Lawrence wrote: > I agree that the utils package

[Rd] problem with normalizePath()

The packages "readxl" and "haven" (and possibly others) no longer access files on shared network drives. The problem appears to be in the normalizePath() function. The file can be read from a local drive or by functions that don't call normalizePath(). The error thrown is Error:

Re: [Bioc-devel] adding new features to current release branch

No, you should not add new functions to the release branch. The documentation is pretty clear. The only thing you should change is bug fixes (and perhaps documentation improvements which could be thought of as bug fixes). Kasper On Thu, Nov 17, 2016 at 4:13 AM, Anand MT

Re: [Bioc-devel] adding new features to current release branch

On 11/17/2016 04:13 AM, Anand MT wrote: Hi Mods, My package maftools is now in release branch. Since the release, I haven't made any bug fixes or any sort of changes. Now I have few bug fixes and new functions that I want to add as they are helpful to users. Since, its mentioned only bug fixes

Re: [Bioc-devel] vmatchPattern Returns Out of Bounds Indices

Hi, These questions really belong to the support site. On 11/16/2016 04:00 PM, Dario Strbenac wrote: Hello, If using vmatchPattern to find a sequence in another sequence, the resulting end index can be beyond the length of the subject XStringSet. For example: forwardPrimer <-

Re: [Bioc-devel] OrganismDb package for Drosophila.melanogaster

On Tue, Nov 15, 2016 at 7:34 PM, Martin Morgan wrote: > On 11/15/2016 09:52 AM, Obenchain, Valerie wrote: >> On 11/15/2016 03:32 AM, Pariksheet Nanda wrote: >>> >>> It would be great to have an OrganismDb package for >>> Drosophila.melanogaster, similar to Homo.sapiens, Mus.musculus and >>>