User: felix.ernst

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Posts by felix.ernst

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Comment: C: Correct way to load a package inside bplapply function
... Sorry, forgot that. I update the sessionInfo output in the original thread opening post, since there is a 5000 character limit for replies. ​the dependencies can be installed using this: source("https://bioconductor.org/biocLite.R") biocLite() biocLite("devtools") devtools::find_rtools() library(de ...
written 3 months ago by felix.ernst0
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Comment: C: Correct way to load a package inside bplapply function
... addition because of the 5000 spaces limit: The output is of course much shorter and for each file loaded the output appears: <environment: namespace:base> cpu elapsed transient class <environment: namespace:tools> ...
written 3 months ago by felix.ernst0
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Comment: C: Correct way to load a package inside bplapply function
... The problem exists with 3.4.1 in a fresh install as well. The example function does not return a output, so the problem has to be in connection with some thing else. Therefore I modified the function stepwise and commented out all the function calls and simplified some stuff so I ended up with this ...
written 3 months ago by felix.ernst0
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Comment: C: Correct way to load a package inside bplapply function
...   Thanks for the advice. I will do that in the next couple of days. I tried updating to R 3.4.0 a couple of month ago, but couldn't do it, since some dependencies were not up to date. What is your comment on the usage of loadNamespace vs requireNamespace? The function in question with the weird ou ...
written 3 months ago by felix.ernst0
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Comment: C: Correct way to load a package inside bplapply function
... Hi Martin, I did so more digging. It looks to me that this might be an output, which one could get from selectMethod   seqinfo check.names seqnames ranges strand mcols seqlengths seqinfo <envir ...
written 3 months ago by felix.ernst0
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Comment: C: Correct way to load a package inside bplapply function
... Thanks for the reply. I changed the initial post accordingly. Do you know, how this output is created? I don't recognize it from its format. It is not a startup message nor a warning. To add a bit more context, I switched from using parallel to BiocParallel. It did not change anything inside the f ...
written 3 months ago by felix.ernst0
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Correct way to load a package inside bplapply function
... Hello, I am trying to figure out to correct way to load a package inside a function called with bplapply. The function resides in a package inside a S4 method call setMethod( f = "analyze", signature = signature(.Object = "testClass" , experimentNo = "numeric"), ...
biocparallel parallel written 3 months ago by felix.ernst0

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