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added fixme: for some necessary required changes

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Tanushree Tunstall 2020-07-02 14:16:40 +01:00
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commit e0ba3108f6
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scripts/data_extraction.py
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@ -28,6 +28,22 @@ Created on Tue Aug 6 12:56:03 2019
# 3) <gene>_metadata.csv # 3) <gene>_metadata.csv
# 4) <gene>_all_muts_msa.csv # 4) <gene>_all_muts_msa.csv
# 5) <gene>_mutational_positons.csv # 5) <gene>_mutational_positons.csv
# FIXME
## Make all cols lowercase
## change WildPos: wild_pos
## Add an extra col: wild_chain_pos
## output df: <gene>_linking_df.csv
#containing the following cols
#1. Mutationinformation
#2. wild_type
#3. position
#4. mutant_type
#5. chain
#6. wild_pos
#7. wild_chain_pos
#======================================================================= #=======================================================================
#%% load libraries #%% load libraries
import os, sys import os, sys