Hi all
Following Kasper's idea from a couple of months ago: Would it be possible to
have the git-svn bridge synchronise a branch other than master?
If so, one could use the git subtree command,
git subtree split -P minfi -b biocsvn
to create a branch 'biocsvn' only containing minfi directory
Hi Moritz,
- Original Message -
> From: "Moritz Gerstung"
> To: "Kasper Daniel Hansen"
> Cc: "Dan Tenenbaum" , bioc-devel@r-project.org, "Sean
> Davis"
> Sent: Monday, May 12, 2014 1:32:38 AM
> Subject: Re: [Bioc-devel] Bioconductor git-svn bridge is available
>
> Hi all
>
> Followin
On Mon, May 12, 2014 at 1:32 AM, Moritz Gerstung wrote:
> Hi all
>
> Following Kasper's idea from a couple of months ago: Would it be possible to
> have the git-svn bridge synchronise a branch other than master?
>
> If so, one could use the git subtree command,
>
> git subtree split -P minfi -b b
- Original Message -
> From: "Henrik Bengtsson"
> To: "Moritz Gerstung"
> Cc: bioc-devel@r-project.org, "Sean Davis"
> Sent: Monday, May 12, 2014 10:19:15 AM
> Subject: Re: [Bioc-devel] Bioconductor git-svn bridge is available
>
> On Mon, May 12, 2014 at 1:32 AM, Moritz Gerstung
> wr
Another use case where this is useful is that newer packages may still need
to use the 'devel' BioC branch as something of a 'release' branch since a
natural release cycle is faster than the BioC cycle (I think of the BioC
devel branch that way for some packages).
This way the master branch on git
Hi Michael,
On 05/09/2014 04:39 PM, Michael Lawrence wrote:
What would be the fastest way to do this with a DNAString? Just an
alphabetFrequency?
That would do it.
A couple of other issues I ran into with the 2bit code:
(1) It fails on empty sequences:
> export(DNAStringSet(c("AA", "",
On Mon, May 12, 2014 at 11:41 AM, Hervé Pagès wrote:
> Hi Michael,
>
>
> On 05/09/2014 04:39 PM, Michael Lawrence wrote:
>
>> What would be the fastest way to do this with a DNAString? Just an
>> alphabetFrequency?
>>
>
> That would do it.
>
> A couple of other issues I ran into with the 2bit
On 05/12/2014 12:23 PM, Michael Lawrence wrote:
On Mon, May 12, 2014 at 11:41 AM, Hervé Pagès mailto:hpa...@fhcrc.org>> wrote:
Hi Michael,
On 05/09/2014 04:39 PM, Michael Lawrence wrote:
What would be the fastest way to do this with a DNAString? Just an
alphabetFre
E N hotmail.com> writes:
>
> Hi,
>
> Let's me quote Ed Borasky
I'm also active on the Fedora Bugzilla for this issue:
https://bugzilla.redhat.com/show_bug.cgi?id=1074975
Here's a bit more detail. I don't know the exact process, but when a
package is updated, like R 3.0.2 to 3.1.0, a Fedora p
I've been dealing with some small bam files with millions of reference
sequences leading to monster headers. As one might guess, this leads to
pretty bad performance when calling scanBam.
Right now, it takes a bit (27MB bam file, 16k alignments, 2.5 million
reference sequences in the reference fas
1. It looks like R 3.1.0 is back in the Fedora updates-testing
repository. I just installed it and re-ran my install scripts.
2. A fair number of library packages appear to have been built around
the libRblas or libRlapack library. The ones I have had to re-install
so far are:
'robustbase',
Hello!
This is my first time posting to the community. I am working on a new
Bioconductor package for the Google Genomics API. I tried to search
but could not find the options and environment variables I should use
for R CMD CHECK before submission to Bioconductor. I have dependencies
on packages
Hi Siddartha,
- Original Message -
> From: "Siddhartha Bagaria"
> To: bioc-devel@r-project.org
> Cc: "Craig Citro"
> Sent: Monday, May 12, 2014 9:00:04 PM
> Subject: [Bioc-devel] R CMD CHECK options
>
> Hello!
>
> This is my first time posting to the community. I am working on a new
>
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