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todo.md

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Todo LOG

Place to store todos, future implementation. For more logistic stuff, refer to the README

Makefile

  • Install program with make, i.e. compiled with cc.
  • Run repeated steps with make:
    • submit job
    • build/run docker
    • clean "garbage" , or hidden files

PBS scripts

  • Detailed instruction on what to modify from a template file
  • Resource allocation strategy
  • Merged error and output file, add a timestamp to it
    • combine it with Makefile, so it could be applied by providing CLI arg for script to use, need to provided arg to override name of the job as well
  • Remind to submit job only from SCRATCH, if output is to be written, redirect to SCRATCH as well. Then manually transfer it to PROJECT

Conda Envs in Container

  • Reproducible flow to that install packages for env, and set it is kernel for jupyter access
  • Explanation on --home and --env XDG_CACHE_HOME for exec the shell and submitting the job
    • Use more plain language
  • Optional, turn this to more batched-script styles
  • Known problem with conda init , and eval "conda.bash hook"