Hello Anna,
The speed of parallel computing depends on many factors. To avoid any
potential confounders, Please try to use this code for timing (assuming you
still have all the variables you used in your example)
```
parallel_param <- SnowParam(workers = ncores, type = "SOCK", tasks =
t; somehow it still fails and says it doesn't find the function
> "mandatory_is_vars()" which is a function exported by the package
> >
> > On 10/25/21, 13:49, "Jiefei Wang" wrote:
> >
> > What do you mean by "exported funct
n that trying to modify the code of one of the functions that raises
> errors and setting the option "exportglobals = TRUE" on SnowParam, somehow it
> still fails and says it doesn't find the function "mandatory_is_vars()" which
> is a function exported by the packa
What do you mean by "exported functions are invisible to SnowParam
workers"? Please provide more details. If you call 'bplapply' with a
function from your package, it should be visible to the worker.
___
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Hi Giulia,
One of your errors is raised from L1288 in the file "analysis-functions.R"
if (getOption("ISAnalytics.verbose") == TRUE) { ... }
The error message is "argument is of length zero". Usually, this means
something is wrong with the global option. Then I see at L4812 in
"internal-functions
Dear all,
We are preparing for the new devel branch for Bioc 3.15, so we look
for suggestions for BiocParallel from our community. If you think
there is anything we can improve, please feel free to leave your
comments here: https://github.com/Bioconductor/BiocParallel/issues/160
Cheers,
Jiefei
_
Hi,
If you are a newbie to the terminal, all you need to do is to extract
the R code from your vignette using `R CMD Stangle
xcms-lcms-ms.Rmd`(assume you are under the vignettes directory). Then
use `R -d valgrind -f xcms-lcms-ms.R` to check for the memory issue.
In the ideal case, it can directly
ciences Institute
> Building 145
> Australian National University
>
> Phone: 61-2-61250730
> E-mail: conrad.bur...@anu.edu.au
> Web page: http://maths.anu.edu.au/people/conrad-burden
>
>
> On 17 Sep 2020, at 8:36 pm, Jiefei Wang wrote:
>
>
Hi Conrad,
Just a friendly reminder, there is a bug in your package. Here is the build
result from the link you provided:
==
--- Error message ---
--- failure: length > 1 in coercion to logical ---
--- call from argument ---
columns < 1 || columns > nCo
Hi Henry,
It seems like you are using a Bioconductor package. Why not directly ask
the author of the package(eswri...@pitt.edu)?
JFYI, here is the link for the package, it seems like the author has
written a lot of documentation for the package:
https://www.bioconductor.org/packages/release/bioc/
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