1. cd /mnt/isilon/projects/ecosystem_biology/ONT_pilot/external_data
2.  
3. # aquifer
4. # rm extracted LR data (archive stays)
5. rm -rf aquifer/lr/2019012*_02um
6. # rm not used SR data (only ERR3654041 is needed) [see issue 62]
7. rm -r aquifer/sr/ERR3654040/
8. # protect
9. chmod -R a-w aquifer/
10.  
11. # eli
12. # Q: do we need eli ???
13. # rm all data
14. # rm -r eli/    # I suggest keeping eli for the moment. It's a "human" dataset and could be used should a reviewer have strong opinions
15.  
16. # ganes
17. # Q: do we need ganges ??? YES please
18. # rm all data
19. rm -r ganges/
20.  
21. # mock (aka zymo)
22. # rm LR data for "LOG"
23. rm mock/lr/Zymo-GridION-LOG-BB-SN_signal.tar.gz
24. # rm not used SR data (only ERR2984773 is needed) [???]
25. rm -r mock/sr/ERR2935805/
26. # rename folder
27. mv mock zymo
28. # protect
29. chmod -R a-w zymo/
30.  
31. # nwc
32. # protect
33. chmod -R a-w nwc/
34.  
35. # rumen
36. # protect
37. chmod -R a-w rumen/
38.  
39. # all the other stuff:
40. #   -> not needed as there is code to download the data
41. # rm
42. find . -maxdepth 1 -mindepth 1 | grep -v "aquifer|mock|nwc|rumen|zymo" | while read f
43. do
44.     rm -ri "${f}"
45. done
46.  
47. # set the s-bit for all directories
48. cd /mnt/isilon/projects/ecosystem_biology/ONT_pilot/
49. find external_data/ -type d -exec chmod g+s {} ;