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fix_trainling_nl

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chriswyatt1 2022-10-18 14:10:55 +00:00
parent 9b971c2b76
commit f4c13e6511
1 changed files with 3 additions and 4 deletions
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docs/ucl_myriad.md
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@ -16,12 +16,11 @@ This can be done with the following commands:
## Load Singularity environment modules - these commands can be placed in your ~/.bashrc also ## Load Singularity environment modules - these commands can be placed in your ~/.bashrc also
module add java/openjdk-11/11.0.1 module add java/openjdk-11/11.0.1
module add singularity-env/1.0.0 module add singularity-env/1.0.0
``` ```
Then set the correct configuration of the cache directories, where <YOUR_ID> is replaced with you credentials which you can find by entering `whoami` into the terminal once you are logged into myriad. Once you have added your credentials save these lines into your .bashrc file in the base directory (e.g. /home/<YOUR_ID>/.bashrc): Then set the correct configuration of the cache directories, where <YOUR_ID> is replaced with you credentials which you can find by entering `whoami` into the terminal once you are logged into myriad. Once you have added your credentials save these lines into your .bashrc file in the base directory (e.g. /home/<YOUR_ID>/.bashrc):
``` ```bash
# Set all the Singularity cache dirs to Scratch # Set all the Singularity cache dirs to Scratch
export SINGULARITY_CACHEDIR=/home/<YOUR_ID>/Scratch/.singularity/ export SINGULARITY_CACHEDIR=/home/<YOUR_ID>/Scratch/.singularity/
export SINGULARITY_TMPDIR=/home/<YOUR_ID>/Scratch/.singularity/tmp export SINGULARITY_TMPDIR=/home/<YOUR_ID>/Scratch/.singularity/tmp
@ -47,6 +46,6 @@ mv nextflow ~/bin/nextflow
Then make sure that your bin PATH is executable, by placing the following line in your .bashrc: Then make sure that your bin PATH is executable, by placing the following line in your .bashrc:
``` ```bash
export PATH=$PATH:/home/<YOUR_ID>/bin export PATH=$PATH:/home/<YOUR_ID>/bin
``` ```