[Bioc-devel] WARNING regarding imporing SummarizedExperiment

[Ruqian Lyu]

Thanks, Martin!

Cheers,
Ruqian

On Sun, Apr 15, 2018 at 9:06 PM, Martin Morgan <
martin.morgan at roswellpark.org> wrote:

> The solution is, in the NAMESPACE, to import only those functions used
>
>   importFrom(SummarizedExperiment, "start", "end")
>   importFrom(stats, "mean")
>
> or to import everything but
>
>    importFrom(stats, except = c(start, end))
>
> or to explicitly resolve symbols in the code and not mention them in the
> NAMESPACE file.
>
>     SummarizedExperiment::start(...)
>
> Each of these styles is supported by roxygen2.
>
> Martin
>
>
>
> On 04/14/2018 08:37 PM, Ruqian Lyu wrote:
>
>> Hi guys,
>>
>> I have identified the problem.
>> It's the packages I imported have same function name, so the previous
>> functions get overwritten.
>>
>>
>> Thanks
>>
>>
>> Ruqian
>>
>> On Sun, Apr 15, 2018 at 10:18 AM, Ruqian Lyu <
>> ruqianl at student.unimelb.edu.au
>>
>>> wrote:
>>>
>>
>> Hi guys,
>>>
>>> I'm wondering if any of you have met this warning message :
>>>
>>> Warning: replacing previous import 'SummarizedExperiment::start' by
>>> 'stats::start' when loading 'singscore'
>>> Warning: replacing previous import 'SummarizedExperiment::end' by
>>> 'stats::end' when loading 'singscore'
>>>
>>> I have import SummarizedExperiment in my DESCRIPTION and NAMESPACE.
>>> The package passed R CMD Check and BiocCheck without warnings. But the
>>> build report returned the warnings above.
>>>
>>> Link to the report:
>>>
>>> http://bioconductor.org/spb_reports/singscore_buildreport_
>>> 20180414041637.html
>>>
>>>
>>> I'm not sure why this is happening.
>>> Any help will be appreciated.
>>>
>>> Thanks!
>>>
>>> Regards,
>>> Ruqian
>>>
>>>
>>>
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>>
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>>
>>
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