Re: [Bioc-devel] EXTERNAL: introducing BiocManager in devel packagepages?

2018-08-05 Thread Anamaria Elek 
Hi everyone!
Now this might be a silly question, but since this is my first time submitting 
to bioc, please ignore my ignorance. What I’d like to know is this: my package 
has been accepted, although not yet added to the devel bioc – is it ok if I 
change biocLite with BiocManager in the Installation section of readme and 
vignette now, or should I wait for the addition to the Bioconductor git repo 
before making any new commits to the master branch?
Thanks in advance,
Anamaria Elek


From: Shepherd, Lori
Sent: 31 July 2018 05:51 PM
To: jmac...@u.washington.edu
Cc: bioc-devel
Subject: Re: [Bioc-devel] EXTERNAL: introducing BiocManager in devel 
packagepages?

We assume most users are using release not devel.  So this page is appropriate 
for the majority users using release 3.7.  This page is scheduled to be updated 
when the next release happens and BiocManager goes live in the Bioc3.8 release.


It has been pointed out and we have it as a task to update the useDevel page 
asap http://www.bioconductor.org/developers/how-to/useDevel/as this should 
be updated now for BiocManager.



Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263


From: James W. MacDonald 
Sent: Tuesday, July 31, 2018 11:24:32 AM
To: Shepherd, Lori
Cc: Tim Triche, Jr.; bioc-devel
Subject: Re: [Bioc-devel] EXTERNAL: introducing BiocManager in devel package 
pages?

Well, there's this:

Package Archives

Follow 
Installation 
instructions to use this package in your R session.

And the link for the Installation instructions directs you to the page that 
says to use biocLite.

Jim



On Tue, Jul 31, 2018 at 10:59 AM, Shepherd, Lori 
mailto:lori.sheph...@roswellpark.org>> wrote:
Yes DropletUtils has a release and a devel page; as most of the Bioconductor 
package do. The devel pages have been updated for the BiocManager while the 
release still are BiocInstaller.


Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263


From: Tim Triche, Jr. mailto:tim.tri...@gmail.com>>
Sent: Tuesday, July 31, 2018 10:26:31 AM
To: Shepherd, Lori
Cc: bioc-devel
Subject: Re: EXTERNAL: [Bioc-devel] introducing BiocManager in devel package 
pages?

Now I am wondering about my sanity... it seems like perhaps DropletUtils has a 
release package page too?  In any event, looks like things are all set.

thanks!

--t


On Tue, Jul 31, 2018 at 9:21 AM Shepherd, Lori 
mailto:lori.sheph...@roswellpark.org>>>
 wrote:

Where exactly did you see this?  It will be up to the package maintainers to 
update their package documentation (vignettes and such).  We have updated the 
devel package landing pages to include the new BiocManager instructions already:


https://bioconductor.org/packages/devel/bioc/html/DropletUtils.html



Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263


From: Bioc-devel 
mailto:bioc-devel-boun...@r-project.org>>>
 on behalf of Tim Triche, Jr. 
mailto:tim.tri...@gmail.com>>>
Sent: Tuesday, July 31, 2018 9:14:24 AM
To: bioc-devel
Subject: EXTERNAL: [Bioc-devel] introducing BiocManager in devel package pages?

So I was looking at DropletUtils and stumbled on this:

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R;)
biocLite("DropletUtils")


It seems like maybe devel might be a sensible place to start migrating
users to BiocManager::install(...).  Thoughts?

--t

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Re: [Bioc-devel] EXTERNAL: Updating SSH keys without previous email account

2018-08-05 Thread Obenchain, Valerie 
Hi,

There is an account for email anth...@achiu.me with 
github username 'idno0001'.

Visit this page and activate (not login to) your account:

  https://git.bioconductor.org/BiocCredentials

Once you're in you can see the keys we have for you. We scrape keys every 12 
hours from https://github.com/username.keys, e.g.,

  https://github.com/idno0001.keys

I'm guessing those are current and you have access to them. If not, please 
update them. If 'idno0001' is not your github account please let me know.

Valerie


On 08/02/2018 02:58 AM, Anthony Chiu wrote:

Hello

I maintain the 'twoddpcr' package and I have left my previous institute. I
no longer have the SSH keys that I used to push to the Git repository. I
never activated my Git credentials account at [1] (I submitted my public
key using the Google form during the transition from SVN), and I no longer
have access to my old 
 
email either.

Please could someone help me get access to the Git repositories again?

Thanks
Anthony

[1]: https://git.bioconductor.org/BiocCredentials/account_activation/

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