modify to make it compatible with clonality.py #38
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add next(reader) to skip the headline and remove sample_1 or sample_2 from file names to locate the outputs of clonality.py
compare.repertoires.py
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| file_TCRB_1=args.dir_1+"/TCRB.VJ.FREQ."+sample_1+".csv" | ||
| file_TCRB_1=args.dir_1+"/TCRB.VJ.FREQ."+".csv" | ||
| file_TCRB_2=args.dir_2+"/TCRB.VJ.FREQ."+sample_2+".csv" |
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Is there a reason you didn't take out the sample_2 in this line?
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oh,my god. I forgot to remove these ones. all sample_1 or sample_2 should be removed
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Great! @mandricigor could you modify the script to amend these two lines as well and create a new pull request?
@smangul1 I don't have authorization to merge a pull request with the master branch. Can you approve it and/or add me as a contributor?
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I merged these changes with the Mangul USC lab fork.
@mandricigor, I recommend merging this patch into your fork.
@dormeight made a good fix.
remove "sample_2"
aaronkarlsberg
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Approved! Works with my data.
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add next(reader) to skip the headline and remove sample_1 or sample_2 from file names to locate the outputs of clonality.py