From 250bafb4699777fb993da87b5935856fbf64c9b3 Mon Sep 17 00:00:00 2001 From: Basheer Becerra Date: Mon, 29 Jan 2024 15:16:23 -0500 Subject: [PATCH] Fix function to calc editing efficiency where there are no reads --- Dockerfile | 2 +- .../utility/crispr_editing_utility.py | 9 +++++++-- ...r_ambiguous_mapping-0.0.141-py3-none-any.whl | Bin 0 -> 35353 bytes .../crispr_ambiguous_mapping-0.0.141.tar.gz | Bin 0 -> 25879 bytes crispr-ambiguous-mapping/pyproject.toml | 2 +- 5 files changed, 9 insertions(+), 4 deletions(-) create mode 100644 crispr-ambiguous-mapping/dist/crispr_ambiguous_mapping-0.0.141-py3-none-any.whl create mode 100644 crispr-ambiguous-mapping/dist/crispr_ambiguous_mapping-0.0.141.tar.gz diff --git a/Dockerfile b/Dockerfile index 66f71de..71a956e 100644 --- a/Dockerfile +++ b/Dockerfile @@ -15,4 +15,4 @@ ENV PATH="${VENV}/bin:$PATH" # Install from PyPI RUN pip install --upgrade pip -RUN pip install crispr-ambiguous-mapping==0.0.140 +RUN pip install crispr-ambiguous-mapping==0.0.141 diff --git a/crispr-ambiguous-mapping/crispr_ambiguous_mapping/utility/crispr_editing_utility.py b/crispr-ambiguous-mapping/crispr_ambiguous_mapping/utility/crispr_editing_utility.py index 6542a12..ae012fb 100644 --- a/crispr-ambiguous-mapping/crispr_ambiguous_mapping/utility/crispr_editing_utility.py +++ b/crispr-ambiguous-mapping/crispr_ambiguous_mapping/utility/crispr_editing_utility.py @@ -1,5 +1,10 @@ from typing import Counter as CounterType def calculate_average_editing_frequency(total_mutation_counter: CounterType) -> float: - editing_efficiency = (sum(total_mutation_counter.values()) - total_mutation_counter[0])/sum(total_mutation_counter.values()) - return editing_efficiency \ No newline at end of file + total_editing_counts = (sum(total_mutation_counter.values()) - total_mutation_counter[0]) + total_counts = sum(total_mutation_counter.values()) + if total_counts > 0: + editing_efficiency = total_editing_counts/total_counts + return editing_efficiency + else: + return 0 \ No newline at end of file diff --git a/crispr-ambiguous-mapping/dist/crispr_ambiguous_mapping-0.0.141-py3-none-any.whl b/crispr-ambiguous-mapping/dist/crispr_ambiguous_mapping-0.0.141-py3-none-any.whl new file mode 100644 index 0000000000000000000000000000000000000000..e65cb8da050e2cbf78cc9146c3d0436f3a7a6070 GIT binary patch literal 35353 zcmb5VV~}XUmbO{8ZQHhO+qP}nwq12j*|u%F>XdDNr+d1m``($kap%X1*pYv7#m>E+ zH{X@H6{LYdPyhe`ApQm+03H{}k;>nvZ*ZJ@D9UcGn^n{7L$daUlSlj4^I zI<{r(oE9}X2B9)SqXprJB+z5Ju*jOeC*L9@#i>GHD&Bp?78R@|UO|M*&=vk6t1oeV z7TmwtVE+x8f0fn$OLo%K6SJywld@A&(X+BN6k}7;>SI&1WAs#tb3g$9IE~)vcY!bn z06-}!006_kGmWjGrQLtOk-snESZ&vSlMTU-eeWl*PY+1|0j(FtfzZIt4+e07Lv|~? 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