get_gambl_metadata looks in the wrong place for a case set file

[rdmorin]

This is probably an easy fix. This file is in the GAMBL repo but in a remote computer the code is still looking for it in the GSC path. Can this be updated to use the GAMBL repo prefix from the active config?

metadata_fl_dlbcl = get_gambl_metadata(case_set = "tFL-study")
Error: '/projects/rmorin/projects/gambl-repos/gambl-rmorin/data/metadata/raw_metadata/gambl_tFL_manual.tsv' does not exist.                         

[Kdreval]

Just looking into this. I fixed this but noticed there are some other files used in this case set. Do you know if they are synced to the remote computer? I'll implement the similar repo prefix for them so same error won't come up again

gambl_transformations = suppressMessages(read_delim("/projects/rmorin/projects/gambl-repos/gambl-rmorin/data/metadata/raw_metadata/gambl_transformation.txt", delim = " "))

fl_transformation_meta = suppressMessages(read_tsv("/projects/rmorin/projects/gambl-repos/gambl-rmorin/shared/gambl_fl_transformed.tsv"))

curated = suppressMessages(read_tsv("/projects/rmorin/projects/gambl-repos/gambl-rmorin/data/metadata/raw_metadata/clin_review_fl.tsv"))

[Kdreval]

This one also seems to be out of sync with master and is not in version control (not on GAMBL master): /projects/rmorin/projects/gambl-repos/gambl-rmorin/shared/gambl_fl_transformed.tsv