: Thursday, January 9, 2020 8:16 AM
To: Pages, Herve
Subject: RE: [Bioc-devel] TIMEOUT error in building vignette in package scruff
Hi Herve,
Thanks a lot for helping out. I'll take a look at Rsubread's source code and
see if there's anything I can do to fix this. If not I guess I'
I can confirm that downgrading Rsubread to an older version eliminates
the slowdown. Here are the timings I get on my laptop (Ubuntu 16.04.6
LTS) for 'R CMD build scruff' with different versions of Rsubread (all
these timings use the same R-devel version and the latest master branch
of
Hi Zhe,
The code in the vignette seems to rely a lot on the Rsubread package to
perform some very computationally intensive operations. Could it be that
some recent changes to the Rsubread package are somehow related to the
sudden slowdown of these operations? That's something I suggest you
Hi all,
I am the maintainer of package scruff. Recently I encountered a timeout error
in creating vignette in the development branch of the package. I tried
increasing the number of cores for parallelization from 2 to 3 but it still
timed out. I did not make any changes to the R codes in the
