Thanks for the responses.
So, the answer is yes for git and no for CRAN.
But still I guess Stephanie's response is about additional maintainer for the
package itself but not the git (?).
Best regards,
Fatemeh
From: Bioc-devel on behalf of Martin Morgan
> "ML" == Michael Lawrence
> on Wed, 1 Nov 2017 14:13:54 -0700 writes:
> Probably way easier to add the generics to the Matrix
> package and everyone just depends on that.
Yes! It is 'Recommended' and comes with every R installation,
and has had many such matrix S4 methods i
On 11/02/2017 03:39 AM, Fatemehsadat Seyednasrollah wrote:
Thanks for the responses.
So, the answer is yes for git and no for CRAN.
But still I guess Stephanie's response is about additional maintainer for the
package itself but not the git (?).
It's not clear what you're saying here. 'git' i
On 11/02/2017 05:00 AM, Martin Maechler wrote:
"ML" == Michael Lawrence
on Wed, 1 Nov 2017 14:13:54 -0700 writes:
> Probably way easier to add the generics to the Matrix
> package and everyone just depends on that.
Yes! It is 'Recommended' and comes with every R installation,
Yes! That is correct
Lori Shepherd
Bioconductor Core Team
Roswell Park Cancer Institute
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
From: Arman Shahrisa
Sent: Wednesday, November 1, 2017 2:36:05 PM
To: Shepherd
Dear all,
I just upgraded BioC to 3.6 and found that the data source of org.Hs.eg.db
and GO.db is still half year ago.
I was wondering whether these packages had been updated in current release.
> org.Hs.eg.db
OrgDb object:
| DBSCHEMAVERSION: 2.1
| Db type: OrgDb
| Supporting package: Annotation
On 11/02/2017 10:11 AM, Arman Shahrisa wrote:
I can see two branches master and releas_3_6. I created GMaster to
Again, you need to be very precise here.
There is no branch releas_3_6.
I don't know what 'it' is -- I guess your local repository that you
cloned, but where did you clone it from
Guangchuang,
Thanks for reporting this. We've looked into it and there is indeed a more
recent version of the data. Daniel is working on re-generating the db0 and
OrgDb packages. We'll post back with more information when the packages are
ready.
Valerie
On 11/02/2017 05:40 AM, Yu, Guangchuan
> Martin Morgan
> on Thu, 2 Nov 2017 06:17:19 -0400 writes:
> On 11/02/2017 05:00 AM, Martin Maechler wrote:
>>> "ML" == Michael Lawrence
>>> on Wed, 1 Nov 2017 14:13:54 -0700 writes:
>>
>> > Probably way easier to add the generics to the Matrix >
>>
I'm pretty sure we're also considering generics for functions that do not
exist in base R. Like rowVars() and colVars(). This sort of suggests that
matrixStats should be part of base R.
As an aside, we should think about the signature on those implicit
generics. Should they really include na.rm an
BioC developers,
Starting with BioC 3.6 we are providing an Archive directory for each release.
The Archive contains all package versions that occur during the 6 month cycle.
This will be done for the release branch only.
The structure is similar to the CRAN Archives except there will be a sepa
On 11/02/2017 12:57 PM, Obenchain, Valerie wrote:
BioC developers,
Starting with BioC 3.6 we are providing an Archive directory for each release.
The Archive contains all package versions that occur during the 6 month cycle.
This will be done for the release branch only.
The structure is simil
As Michael notes, I think the scope here is broader than considering S4
generics for functions in base R. To summarise, I think we would be looking
to have S4 generics for the following:
- All(?) the row*/col* functions in matrixStats (NB: matrixStats uses plain
old functions with no S3 or S4, whi
Hi Nitesh,
It seems that the bug fixes I made to my software are still not updated in
the Bioconductor page. I bumped the version to 1.4.1 but I still find the
version to be 1.4.0
https://www.bioconductor.org/packages/3.6/bioc/html/CountClust.html
Didn't the build go through?
Thanks
Kushal
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