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test-amd64.Rout
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test-amd64.Rout
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R version 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
[Previously saved workspace restored]
> # Test script
> # Loads TwoSampleMR and all its dependency packages
> library(TwoSampleMR)
TwoSampleMR version 0.6.8
[>] New authentication requirements: https://mrcieu.github.io/ieugwasr/articles/guide.html#authentication.
[>] Major upgrades to our servers completed to improve service and stability.
[>] We need your help to shape our emerging roadmap!
Please take 2 minutes to give us feedback -
https://forms.office.com/e/eSr7EFAfCG
>
> packageVersion("TwoSampleMR")
[1] ‘0.6.8’
>
> # Imports packages (from TwoSampleMR DESCRIPTION file)
> library(cowplot)
> library(data.table)
> library(plyr)
> library(dplyr)
Attaching package: ‘dplyr’
The following objects are masked from ‘package:plyr’:
arrange, count, desc, failwith, id, mutate, rename, summarise,
summarize
The following objects are masked from ‘package:data.table’:
between, first, last
The following objects are masked from ‘package:stats’:
filter, lag
The following objects are masked from ‘package:base’:
intersect, setdiff, setequal, union
> library(ggplot2)
> library(glmnet)
Loading required package: Matrix
Loaded glmnet 4.1-8
> library(gridExtra)
Attaching package: ‘gridExtra’
The following object is masked from ‘package:dplyr’:
combine
> library(gtable)
> library(ieugwasr)
OpenGWAS updates:
Date: 2024-05-17
[>] OpenGWAS is growing!
[>] Please take 2 minutes to give us feedback -
[>] It will help directly shape our emerging roadmap
[>] https://forms.office.com/e/eSr7EFAfCG
Attaching package: ‘ieugwasr’
The following object is masked from ‘package:TwoSampleMR’:
ld_matrix
> library(knitr)
> library(lattice)
> library(magrittr)
> library(MASS)
Attaching package: ‘MASS’
The following object is masked from ‘package:dplyr’:
select
> library(MendelianRandomization)
Attaching package: ‘MendelianRandomization’
The following objects are masked from ‘package:TwoSampleMR’:
mr_ivw, mr_median
> library(meta)
Loading required package: metadat
Loading 'meta' package (version 7.0-0).
Type 'help(meta)' for a brief overview.
Readers of 'Meta-Analysis with R (Use R!)' should install
older version of 'meta' package: https://tinyurl.com/dt4y5drs
> library(mr.raps)
> library(MRMix)
> library(MRPRESSO)
> library(pbapply)
> library(psych)
Attaching package: ‘psych’
The following objects are masked from ‘package:ggplot2’:
%+%, alpha
> library(RadialMR)
> library(reshape2)
Attaching package: ‘reshape2’
The following objects are masked from ‘package:data.table’:
dcast, melt
> library(rmarkdown)
>
> # Suggests packages (from TwoSampleMR DESCRIPTION file)
> library(Cairo)
> library(car)
Loading required package: carData
Attaching package: ‘car’
The following object is masked from ‘package:psych’:
logit
The following object is masked from ‘package:dplyr’:
recode
> library(markdown)
> library(MRInstruments)
> library(randomForest)
randomForest 4.7-1.1
Type rfNews() to see new features/changes/bug fixes.
Attaching package: ‘randomForest’
The following object is masked from ‘package:psych’:
outlier
The following object is masked from ‘package:gridExtra’:
combine
The following object is masked from ‘package:ggplot2’:
margin
The following object is masked from ‘package:dplyr’:
combine
> library(testthat)
Attaching package: ‘testthat’
The following object is masked from ‘package:psych’:
describe
The following objects are masked from ‘package:magrittr’:
equals, is_less_than, not
The following object is masked from ‘package:dplyr’:
matches
>
> proc.time()
user system elapsed
2.966 2.079 3.452