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Temporarily removing contamination loop

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Auden Cote-L'Heureux 2023-12-04 16:04:46 -05:00 committed by GitHub
parent 333585acde
commit 0cd6d05960
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1 changed files with 0 additions and 5 deletions
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PTL2/Scripts/phylotol.py
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@ -1,6 +1,5 @@
#!/usr/bin/python3 #!/usr/bin/python3
import os, sys, re import os, sys, re
import contamination
import utils import utils
import preguidance import preguidance
import guidance import guidance
@ -28,10 +27,6 @@ if __name__ == '__main__':
print('\nBuilding trees\n') print('\nBuilding trees\n')
trees.run(params) trees.run(params)
if params.contamination_loop != None:
print('\nRunning contamination loop\n')
contamination.run(params)
if params.concatenate: if params.concatenate:
print('\nChoosing orthologs and concatenating alignments...\n') print('\nChoosing orthologs and concatenating alignments...\n')
concatenate.run(params) concatenate.run(params)