install_midcor_package.R

In seliv55/RaMID: Correction of raw GC/MS data for natural stable isotope abundace.

# standing on the directory where the package is (midcor)

library(devtools)
build()
install()

 ls("package:ramid") # list functions
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# run script:
vs@vit:~/phenomen/docker-midcor/scripts$ ./runMidcor.R -i ~/phenomen/outin.csv -o ~/phenomen/tes_out.csv

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# crear Docker container:

# go to the directory where the dockerfile is
cd /home/vs/phenomen/docker-midcor
# create container from dockerfile
sudo docker build -t midcor:0.1 .

# check existing images:
sudo docker images

# try to run the tool from docker
sudo docker run --name=midcor-d -i -t midcor:0.1 -i outin.csv -o my_out.csv 

sudo docker run -i -t -v $PWD:/data midcor:0.1 -i /data/outin.csv -o /data/my_out.csv

vs@vit:~/phenomen/tmp$ sudo docker run -i -t -v /home/vs/phenomen/isodyn:/data isodyn:0.1 /data


vs@vit:~/phenomen/tmp$ sudo docker ps
 
vs@vit:~/phenomen/tmp$ sudo docker stop 05db1e579964