Don't evaluate model variants in data_evaluationo
@@ -144,23 +144,23 @@ do
fi
#for variant in no_additional_ms compact_peptide affinity_only no_pretrain single_hidden_no_pretrain 500nm
- for variant in 50nm
- do
- if [ "$2" == "continue-incomplete" ] && [ -f "benchmark.multiallelic.${variant}.$kind.csv.bz2" ]
- then
- echo "Reusing existing multiallelic predictions: ${variant}"
- else
- echo time mhcflurry-predict \
- "$(pwd)/benchmark.multiallelic.$kind.csv.bz2" \
- --allele-column hla \
- --prediction-column-prefix "${variant}_" \
- --models \""$(mhcflurry-downloads path models_class1_pan_variants)/models.$variant"\" \
- --affinity-only \
- --no-affinity-percentile \
- --out "$(pwd)/benchmark.multiallelic.${variant}.$kind.csv" >> commands/multiallelic.${variant}.$kind.sh
- echo bzip2 -f "$(pwd)/benchmark.multiallelic.${variant}.$kind.csv" >> commands/multiallelic.${variant}.$kind.sh
- fi
- done
+ #for variant in 50nm
+ #do
+ # if [ "$2" == "continue-incomplete" ] && [ -f "benchmark.multiallelic.${variant}.$kind.csv.bz2" ]
+ # then
+ # echo "Reusing existing multiallelic predictions: ${variant}"
+ # else
+ # echo time mhcflurry-predict \
+ # "$(pwd)/benchmark.multiallelic.$kind.csv.bz2" \
+ # --allele-column hla \
+ # --prediction-column-prefix "${variant}_" \
+ # --models \""$(mhcflurry-downloads path models_class1_pan_variants)/models.$variant"\" \
+ # --affinity-only \
+ # --no-affinity-percentile \
+ # --out "$(pwd)/benchmark.multiallelic.${variant}.$kind.csv" >> commands/multiallelic.${variant}.$kind.sh
+ # echo bzip2 -f "$(pwd)/benchmark.multiallelic.${variant}.$kind.csv" >> commands/multiallelic.${variant}.$kind.sh
+ # fi
+ #done
### PRESENTATION: WITH FLANKS
if [ "$2" == "continue-incomplete" ] && [ -f "benchmark.multiallelic.presentation_with_flanks.$kind.csv.bz2" ]
