Thanks Michael for clarifying.
BTW it's interesting to notice that Views objects are actually List
objects (i.e. Views extends List). Views is just below List in the
class hierarchy and at the same level as SimpleList and CompressedList.
Its internals are actually very close to CompressedList whi
Yes, I am generally in favor of the GViews, and I've been a fan of
Views since they were invented. Was just pointing out that we can do a
lot with Lists these days.
On Tue, Jun 28, 2016 at 4:56 PM, Hervé Pagès wrote:
> On 06/28/2016 05:43 AM, Michael Lawrence wrote:
>>
>> Thanks for these use cas
On 06/28/2016 05:43 AM, Michael Lawrence wrote:
Thanks for these use cases.
I've been wondering about the usefulness of Views given how far along
Lists have come since the invention of Views. Instead of
viewSums(Views(cov, gr)) we could just do sum(cov[gr]). The latter
works today. The differenc
On 06/28/2016 03:54 AM, Johnston, Jeffrey wrote:
During the BioC developer day, Hervé brought up the idea of possibly extending
the concept of GenomicViews to other use cases. I'd like to share how we
currently use GenomicRanges, Views and RleLists to perform certain analyses,
and hopefully de
The results are at https://www.surveymonkey.com/results/SM-FKMZZ2QT/
Martin
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Hi Antti,
I'm not sure I follow. NotNeeded is a status seen in the INSTALL phase of the
build, and it means your package did not need to be installed because no other
package built by the build system depends on it.
This status should not change from one day to the next. (It would change if
s
Sean did that. His original call was
biocLite('jmacdon/BiocAnno2016',dependencies=TRUE,build_vignettes=TRUE)
On Tue, Jun 28, 2016 at 11:24 AM, Dan Tenenbaum
wrote:
> I think you need to add the
>
> dependencies=TRUE
>
> argument which gets passed to devtools::install_github() and thence to
> de
I think you need to add the
dependencies=TRUE
argument which gets passed to devtools::install_github() and thence to
devtools::install().
Dan
- Original Message -
> From: "Martin Morgan"
> To: "James W. MacDonald" , "Sean Davis"
>
> Cc: "bioc-devel"
> Sent: Tuesday, June 28, 2016
On 06/28/2016 10:56 AM, James W. MacDonald wrote:
I had a similar experience, where the dependencies were not found upon
installation. I didn't do anything to fix it - instead it seemed that just
re-running biocLite after the initial failed install ended up working.
Installing from github deleg
I had a similar experience, where the dependencies were not found upon
installation. I didn't do anything to fix it - instead it seemed that just
re-running biocLite after the initial failed install ended up working.
Maybe the same will work for you?
Best,
Jim
On Mon, Jun 27, 2016 at 5:03 PM,
Thanks for these use cases.
I've been wondering about the usefulness of Views given how far along
Lists have come since the invention of Views. Instead of
viewSums(Views(cov, gr)) we could just do sum(cov[gr]). The latter
works today. The difference between the Views and List approach is
that the
Would it be possible to change the build report RSS feed generation to
treat "NotNeeded" similarly as "OK"?
This would make the feed more useful for spotting real problems.
Thanks!
Antti
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During the BioC developer day, Hervé brought up the idea of possibly extending
the concept of GenomicViews to other use cases. I'd like to share how we
currently use GenomicRanges, Views and RleLists to perform certain analyses,
and hopefully demonstrate that a way to directly use Views with GRa
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