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Commit 527e86cb authored by Tim O'Donnell's avatar Tim O'Donnell
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update

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downloads-generation/data_evaluation/GENERATE.sh
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...@@ -100,7 +100,7 @@ else ...@@ -100,7 +100,7 @@ else
--out benchmark.monoallelic.predictions.csv --out benchmark.monoallelic.predictions.csv
bzip2 -f benchmark.monoallelic.predictions.csv bzip2 -f benchmark.monoallelic.predictions.csv
ls -lh benchmark.monoallelic.predictions.csv.bz2 ls -lh benchmark.monoallelic.predictions.csv.bz2
done fi
### GENERATE BENCHMARK: MULTIALLELIC ### GENERATE BENCHMARK: MULTIALLELIC
if [ "$2" == "continue-incomplete" ] && [ -f "benchmark.multiallelic.csv.bz2" ] if [ "$2" == "continue-incomplete" ] && [ -f "benchmark.multiallelic.csv.bz2" ]
...@@ -112,7 +112,6 @@ else ...@@ -112,7 +112,6 @@ else
--hits "$(pwd)/hits_with_tpm.csv.bz2" \ --hits "$(pwd)/hits_with_tpm.csv.bz2" \
--proteome-peptides "$(mhcflurry-downloads path data_mass_spec_benchmark)/proteome_peptides.all.csv.bz2" \ --proteome-peptides "$(mhcflurry-downloads path data_mass_spec_benchmark)/proteome_peptides.all.csv.bz2" \
--decoys-per-hit 99 \ --decoys-per-hit 99 \
--only-pmid 31844290 31495665 31154438 \
--only-format MULTIALLELIC \ --only-format MULTIALLELIC \
--out "$(pwd)/benchmark.multiallelic.csv" --out "$(pwd)/benchmark.multiallelic.csv"
bzip2 -f benchmark.multiallelic.csv bzip2 -f benchmark.multiallelic.csv
......
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