diff --git a/resources/auxiliary_workflows/benchmark/resources/method_definitions/viloca_alpha_0.00001.py b/resources/auxiliary_workflows/benchmark/resources/method_definitions/viloca_alpha_0.00001.py index f83020e9..e65d84a5 100644 --- a/resources/auxiliary_workflows/benchmark/resources/method_definitions/viloca_alpha_0.00001.py +++ b/resources/auxiliary_workflows/benchmark/resources/method_definitions/viloca_alpha_0.00001.py @@ -2,6 +2,7 @@ # CONDA: libshorah # CONDA: pyvcf # CONDA: biopython = 1.79 +# PIP: pandas # PIP: git+https://github.com/LaraFuhrmann/shorah@master import subprocess @@ -12,6 +13,7 @@ import gzip from fuc import pyvcf import pandas as pd +import shutil def gunzip(source_filepath, dest_filepath, block_size=65536): @@ -132,7 +134,7 @@ def main( elif file.endswith(".fas"): fname_haplos = (dname_work / "support" / onlyfiles[0]).resolve() - (dname_work / "support" / file).copy(fname_result_haplos) + shutil.copy((dname_work / "support" / file).resolve(), fname_result_haplos) # fix frequency information