Handling moving of the base folder

[lan13005]

Everything in these fits are dumped relative to a specific folder. If this folder is moved, everything breaks since all the paths are now broken.

In general the main update that should occur is just to update the base directory in the yaml pair.

At some point we should copy the pyamptools.yaml and iftpwa.yaml files to the base directory and update the auto-copied yaml files to point to each other. niftyresults.pkl file also stores a copy of the yaml file, perhaps giving it the path to the yaml file is better than the dictionary itself (have IntensityCalculator search a relative path for the yaml_file)

Below shows example of what needs to be updated in the yaml pair and the pkl result file

import os

orig_dir = "/w/halld-scshelf2101/lng/WORK/PyAmpTools9/OTHER_CHANNELS/ETAPI0_ZACH/"
new_dir = "/w/halld-scshelf2101/lng/WORK/PyAmpTools9/OTHER_CHANNELS/ETAPI0_ZACH/5tbins_v0/"
PYAMPTOOLS_HOME = os.environ["PYAMPTOOLS_HOME"]

for i in range(4):
    
    os.system(f"rm -rf {new_dir}/RESULTS_t{i}")
    os.system(f"mkdir -p {new_dir}/RESULTS_t{i}")
    os.system(f"cp -r {new_dir}/RESULTS_t{i}_backup/NiftyFits {new_dir}/RESULTS_t{i}/")
    os.system(f"cp -r {new_dir}/RESULTS_t{i}_backup/*.pkl {new_dir}/RESULTS_t{i}/")
    os.system(f"cp -r {new_dir}/RESULTS_t{i}_backup/*.cfg {new_dir}/RESULTS_t{i}/")
    os.system(f"ln -s {new_dir}/RESULTS_t{i}_backup/AmpToolsFits {new_dir}/RESULTS_t{i}/")

    #### Automatically copied yaml file locations ####
    pya_yaml = f"RESULTS_t{i}/NiftyFits/.pyamptools_tdep.yaml"
    ift_yaml = f"RESULTS_t{i}/NiftyFits/.nifty_expanded.yaml"
    
    #### update pyamptools.yaml ####
    os.system(f"sed -i 's|{orig_dir}|{new_dir}|g' {pya_yaml}")
    # yaml: /w/halld-scshelf2101/lng/WORK/PyAmpTools9/OTHER_CHANNELS/ETAPI0_ZACH/5tbins_v0/iftpwa_tdep.yaml
    src = f"yaml: {new_dir}iftpwa_tdep.yaml"
    rep = f"yaml: {new_dir}/{ift_yaml}"
    os.system(f"sed -i 's|{src}|{rep}|g' {pya_yaml}")
    print(f"updated {new_dir}/{pya_yaml}")
    
    #### update nifty_expanded.yaml ####
    os.system(f"sed -i 's|{orig_dir}|{new_dir}|g' {ift_yaml}")
    src = f"yaml_file: {new_dir}pyamptools_tdep.yaml"
    rep = f"yaml_file: {new_dir}/{pya_yaml}"
    os.system(f"sed -i 's|{src}|{rep}|g' {ift_yaml}")
    print(f"updated {new_dir}/{ift_yaml}")
    
    pkl_floc = f"RESULTS_t{i}/NiftyFits/niftypwa_fit.pkl"
    # update stored pyamptools yaml file in pkl file
    os.system(f"python {PYAMPTOOLS_HOME}/bin/update_ift_pkl.py {pkl_floc} 'base_directory' '{new_dir}/RESULTS_t{i}/'")
    os.system(f"python {PYAMPTOOLS_HOME}/bin/update_ift_pkl.py {pkl_floc} 'yaml' '{new_dir}/RESULTS_t{i}/NiftyFits/.nifty_expanded.yaml'")
    # update stored iftpwa yaml file in pkl file
    os.system(f"python {PYAMPTOOLS_HOME}/bin/update_ift_pkl.py {pkl_floc} 'outputFolder' '{new_dir}/RESULTS_t{i}/NiftyFits/'")
    os.system(f"python {PYAMPTOOLS_HOME}/bin/update_ift_pkl.py {pkl_floc} 'fitResultPath' '{new_dir}/RESULTS_t{i}/NiftyFits/niftypwa_fit.pkl'")
    os.system(f"python {PYAMPTOOLS_HOME}/bin/update_ift_pkl.py {pkl_floc} 'yaml_file' '{new_dir}/RESULTS_t{i}/NiftyFits/.pyamptools_tdep.yaml'")
    os.system(f"python {PYAMPTOOLS_HOME}/bin/update_ift_pkl.py {pkl_floc} 'niftyCache' '{new_dir}/RESULTS_t{i}/NiftyFits/'")