[Bioc-devel] Bioconductor package update

Nathan Lawlor N@th@n@L@wlor @ending from j@x@org
Tue Jul 3 17:09:50 CEST 2018


Apologies, I meant to say July 2nd, not June 2nd.

On 7/3/18, 11:03 AM, "Nathan Lawlor" <Nathan.Lawlor using jax.org> wrote:

>Hi Ahrim,
>
>I forget exactly when the nightly build/check reports occur for
>Bioconductor packages but looking at the BiFET report: (BiFET:
>http://bioconductor.org/checkResults/devel/bioc-LATEST/BiFET/) it looks
>like the build for June 2nd has not yet been updated? So any changes you
>made on June 2nd won’t be reflected just yet
>
>Best,
>Nathan
>
>On 7/3/18, 10:28 AM, "Ahrim Youn" <Ahrim.Youn using jax.org> wrote:
>
>>Dear Martin,
>>
>>Thank you for your answer. I updated the man/ files and bumped the
>>version
>>in the DESCRIPTION file yesterday, but the change is not reflected in the
>>manual of the package.
>>
>>Ahrim
>>
>>On 6/30/18, 11:32 AM, "Martin Morgan" <martin.morgan using roswellpark.org>
>>wrote:
>>
>>>(cc'ing bioc-devel, where questions like this should be posted so other
>>>developers can benefit / contribute)
>>>
>>>I see
>>>
>>>commit 5fea2c1f2e0f3407cb6804db638b565e0a2ea5dd
>>>Author: Ahrim Youn <youna using mlg-jgm164.local.jax.org>
>>>Date:   Fri Jun 22 16:34:02 2018 -0400
>>>
>>>     update version number
>>>
>>>  DESCRIPTION          |  2 +-
>>>  R/library_function.r | 12 ++++++------
>>>  2 files changed, 7 insertions(+), 7 deletions(-)
>>>
>>>where you changed the R/ file roxygen comment but did not regenerate the
>>>documentation, I guess with
>>>
>>>   devtools::document()
>>>
>>>The build system does not do this for you. So Update the man/ files and
>>>bump the version.
>>>
>>>Martin
>>>
>>>On 06/30/2018 10:55 AM, Ahrim Youn wrote:
>>>> Hi,
>>>> 
>>>> I¹m a maintainer of the package BiFET and I¹m having a problem in
>>>> changing the manual of the package :
>>>> 
>>>> 
>>>>http://bioconductor.org/packages/devel/bioc/manuals/BiFET/man/BiFET.pdf
>>>> 
>>>> I changed the comments in the main R function which is linked to the
>>>> manual, and updated it to both github and biocondutor, but the manual
>>>> pdf file does not change.
>>>>   What is interesting is that the Vignette which I also updated is
>>>> updating according to my change :
>>>> 
>>>> 
>>>>http://bioconductor.org/packages/devel/bioc/vignettes/BiFET/inst/doc/Bi
>>>>F
>>>>E
>>>>T.html
>>>> 
>>>> 
>>>> Do you know why the manual pdf file does not update?
>>>> 
>>>> Thanks for your help!
>>>> 
>>>> Best,
>>>> Ahrim
>>>> ---
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>

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