Re: [Bioc-devel] Access to schex

2021-05-21 Thread Nitesh Turaga
Hi Saskia, I’ve updated your email address to saskia.frey...@perkins.uwa.edu.au. Please activate your BiocCredentials account again, from https://git.bioconductor.org/BiocCredentials/account_activation. Another thing that could be happening is the “permissions” on your keys.

Re: [Bioc-devel] Bioconductor 3.14 R Version

2021-05-21 Thread Kern, Lori
Bioconductor has two releases per year. One spring and one fall. The devel will continue to use R 4.1 for the next 6 months leading up to our Bioconductor fall release. After the fall release (normally around November), we update the devel builders to use R devel (R 4.2) leading up to the

[Bioc-devel] Bioconductor 3.14 R Version

2021-05-21 Thread Chris Eeles
Hello Bioc Core Team, I noticed that currently Bioconductor 3.14 is building using R 4.1.0 beta. Will this be changed to R 4.2 in the future? Best, --- Christopher Eeles Software Developer BHK

Re: [Bioc-devel] missing GenomicScores platform availability shield for release

2021-05-21 Thread Robert Castelo
excellent, thank you so much Lori for following this up. have a nice weekend!! robert. On 21/05/2021 15:10, Kern, Lori wrote: > I'm sorry this took so long to get back to.� �I have fixed the issue > with the availability badge.� This was an older badge and still used > numerical release

Re: [Bioc-devel] missing GenomicScores platform availability shield for release

2021-05-21 Thread Kern, Lori
I'm sorry this took so long to get back to. I have fixed the issue with the availability badge. This was an older badge and still used numerical release values while all the other badges used release and devel. We have updated the badge location to use the release and devel that is

Re: [Bioc-devel] EnMCB reduce dependencies

2021-05-21 Thread xin wwa
Dear Carey, Thank you for your email! IlluminaHumanMethylation450kanno.ilmn12.hg19 depends on minfi, so if we load the ..anno.. package. We will always get minfi package in the dependencies list. Maybe we can directly reupload or include the annotation dataframe in our package? Regards, Xin Yu

Re: [Bioc-devel] EnMCB reduce dependencies

2021-05-21 Thread Vincent Carey
IlluminaHumanMethylation450kanno.ilmn12.hg19 is primarily a collection of data.frames isn't it? I notice that the Illum...anno... package itself depends on minfi, which seems unnecessary. But perhaps Kasper will comment. On Fri, May 21, 2021 at 5:32 AM xin wwa wrote: > Dear Bioconductor team,

[Bioc-devel] EnMCB reduce dependencies

2021-05-21 Thread xin wwa
Dear Bioconductor team, Hi, thank you for reading my email. Our package has too many dependencies. Therefore, we may want to reduce dependencies. The main reason is that we use minfi::getAnnotation("IlluminaHumanMethylation450kanno.ilmn12.hg19"). And minfi package we used has lots of

Re: [Bioc-devel] Access to schex

2021-05-21 Thread Saskia Freytag
Hi Nitesh, I have added multiple keys (using both my maintainer addresses), but none of them seem to change anything. Could it be that there is a problem with the email addresses registered to the package? It may be that a year ago we changed these to make them the same between RUVcorr and