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 investigate.
Cheers, H. On 1/8/20 07:50, Wang, Zhe wrote: > 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 vignette before > this error happened. I tested building the vignette locally and it compiles > without error. Does anyone know how I should fix this? Should I comment out > some of the command in the vignette to reduce computing time? Should I try > increasing the core number a bit more? > > Thanks, > Zhe > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwICAg&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=stHSi8EN5PUgMEVus6KdL2z7-DfGzikck8btNROFUx0&s=dSXLn6y8wJtjg6ukcpOpGbSHfXqqsH97r9fuSJkakGo&e= > -- Hervé Pagès Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M1-B514 P.O. Box 19024 Seattle, WA 98109-1024 E-mail: hpa...@fredhutch.org Phone: (206) 667-5791 Fax: (206) 667-1319 _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
