Update linux run CLI test bash file

Author: niklases

.gitignore

@@ -362,6 +362,26 @@ datasets/ANEH/Predictions_Hybrid_ESM1v_Top37_ANEH_variants_prediction_set.txt
 datasets/ANEH/Pickles/HYBRIDGREMLINESM1V
 datasets/ANEH/SSM_landscape.png
 datasets/ANEH/SSM_landscape.csv
+datasets/ANEH/ANEH_72.6.params
+datasets/ANEH/HYBRIDPLMC_DE_trajectories.png
+datasets/ANEH/MLGREMLIN_DE_trajectories.png
+datasets/ANEH/MLPLMC_DE_trajectories.png
+datasets/ANEH/Predictions_MLGREMLIN_37_ANEH_variants_prediction_set.txt
+datasets/ANEH/Predictions_MLPLMC_37_ANEH_variants_prediction_set.txt
+datasets/ANEH/Diverse_Double_Split/Predictions_MLGREMLIN_TopDiverse_Double_Split.txt
+datasets/ANEH/Diverse_Double_Split/Predictions_MLPLMC_TopDiverse_Double_Split.txt
+datasets/ANEH/Pickles/HYBRIDGREMLIN
+datasets/ANEH/Pickles/HYBRIDPLMC
+datasets/ANEH/Pickles/MLGREMLIN
+datasets/ANEH/Pickles/MLPLMC
+datasets/ANEH/Recomb_Double_Split/Predictions_MLGREMLIN_TopRecomb_Double_Split.txt
+datasets/ANEH/Recomb_Double_Split/Predictions_MLPLMC_TopRecomb_Double_Split.txt
+datasets/ANEH/Recomb_Quadruple_Split/Predictions_MLGREMLIN_TopRecomb_Quadruple_Split.txt
+datasets/ANEH/Recomb_Quadruple_Split/Predictions_MLPLMC_TopRecomb_Quadruple_Split.txt
+datasets/ANEH/Recomb_Quintuple_Split/Predictions_MLGREMLIN_TopRecomb_Quintuple_Split.txt
+datasets/ANEH/Recomb_Quintuple_Split/Predictions_MLPLMC_TopRecomb_Quintuple_Split.txt
+datasets/ANEH/Recomb_Triple_Split/Predictions_MLGREMLIN_TopRecomb_Triple_Split.txt
+datasets/ANEH/Recomb_Triple_Split/Predictions_MLPLMC_TopRecomb_Triple_Split.txt
 
 datasets/AVGFP/apc.png
 datasets/AVGFP/avGFP_aaidx_encoded.csv
@@ -467,3 +487,9 @@ datasets/AVGFP/Predictions_MLGREMLIN_avGFP_prediction_set.txt
 datasets/AVGFP/Predictions_ONEHOT_avGFP_prediction_set.txt
 datasets/AVGFP/CV_performance/ONEHOT_PLS_5-fold-CV.png
 datasets/AVGFP/CV_performance/ONEHOT_PLS_CV_Results.txt
+datasets/AVGFP/HYBRIDPLMC_DE_trajectories.png
+datasets/AVGFP/MLGREMLIN_DE_trajectories.png
+datasets/AVGFP/MLPLMC_DE_trajectories.png
+datasets/AVGFP/Predictions_GREMLIN_TopTS.txt
+datasets/AVGFP/Predictions_PLMC_TopTS.txt
+datasets/AVGFP/uref100_avgfp_jhmmer_119_plmc_42.6.params

scripts/CLI/run_cli_tests_linux.sh

@@ -496,11 +496,9 @@ $pypef hybrid -m HYBRIDGREMLINPROSST --ts TS.fasl --params GREMLIN --llm prosst
 echo
 
 $pypef hybrid directevo -m HYBRIDGREMLINESM1V -w P42212_F64L.fasta --params GREMLIN --llm esm
-ExitOnExitCode
-Write-Host
+echo
 $pypef hybrid directevo -m HYBRIDGREMLINPROSST -w P42212_F64L.fasta --params GREMLIN --llm prosst --pdb GFP_AEQVI.pdb
-ExitOnExitCode
-Write-Host
+echo
 
 # Takes long.. better delete 7 out of the 8 recomb txt files
 #$pypef hybrid -m HYBRIDGREMLINESM1V -w P42212_F64L.fasta --params GREMLIN --llm esm --pmult --drecomb
@@ -512,9 +510,6 @@ echo
 $pypef hybrid -m HYBRIDGREMLINPROSST -w P42212_F64L.fasta --params GREMLIN --llm prosst --pdb GFP_AEQVI.pdb -p avGFP_prediction_set.fasta
 echo
 
-
-
-
 $pypef hybrid low_n -i avGFP_dca_encoded.csv
 echo
 $pypef hybrid extrapolation -i avGFP_dca_encoded.csv