On 10/24/2016 07:48 AM, Rodriguez Martinez, Andrea wrote:
Hi,
I am developing a package based on the SummarizedExperiment package. I have included the
SummarizedExperiment package in both DESCRIPTION and NAMESPACE files. In some functions of my
package, and also in the vignette, I use the function "assays()" from the
SummarizedExperiment package. However, when I try to build the vignette, it says: function
"assays()" not found. The same happens when checking my package.
Imports: SummarizedExperiment
and
importFrom(SummarizedExperiment, assays)
or
import(SummarizedExperiment)
is sufficient for R functions defined in your package.
The code in a vignette is run as if it were a script source'd in to R,
so if you use assays() at the 'top level' (seen by the user) then you
need to ensure that assays() is visible -- include SummarizedExperiment
in the Depends: field of your package and library(yourpackage) in the
vignette, or library(SummarizedExperiment) in your vignette, or
SummarizedExperiment::assays() in your vignette, etc.
If that doesn't help, feel free to point to the specific vignette in github.
Martin
Any idea for this ?
Thanks,
Andrea
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