diff --git a/non-regression-tests/check_T4_class.py b/non-regression-tests/check_T4_class.py
index 26c734c0e12037103b82e194290b8f817370bf6c..aee06503c73299ffa38e80273e666e45cf0b22ad 100644
--- a/non-regression-tests/check_T4_class.py
+++ b/non-regression-tests/check_T4_class.py
@@ -1,4 +1,4 @@
 from common import check_class
 
-ret=check_class("nrt.txt","UNKNOWN")
-exit(ret)
\ No newline at end of file
+ret=check_class("nrt.txt","-")
+exit(ret)
diff --git a/non-regression-tests/run_HK97_long_multiproc.sh b/non-regression-tests/run_HK97_long_multiproc.sh
new file mode 100644
index 0000000000000000000000000000000000000000..8a59e5d2671a8adbf831a549b317d7932756677e
--- /dev/null
+++ b/non-regression-tests/run_HK97_long_multiproc.sh
@@ -0,0 +1,6 @@
+#/bin/bash
+DATA_PATH=./data
+
+echo "running PhageTerm on HK97 genome and a dataset with a minimum 50x coverage"
+python ../PhageTerm.py -c 4 -f "$DATA_PATH/R1_1M_READS_EACH_PHAGE(1).fastq.4" -p "$DATA_PATH/R2_1M_READS_EACH_PHAGE(1).fastq.4" -r $DATA_PATH/HK97_assembly.fasta --nrt
+python check_HK97_class.py
diff --git a/non-regression-tests/run_Lamda_long_multiproc.sh b/non-regression-tests/run_Lamda_long_multiproc.sh
new file mode 100644
index 0000000000000000000000000000000000000000..ea685076f0c5e27d6f68dfe03d82e023686edad4
--- /dev/null
+++ b/non-regression-tests/run_Lamda_long_multiproc.sh
@@ -0,0 +1,6 @@
+#/bin/bash
+DATA_PATH=./data
+
+echo "running PhageTerm on Lamda genome and a dataset with a minimum 50x coverage"
+python ../PhageTerm.py -c 4 -f "$DATA_PATH/R1_1M_READS_EACH_PHAGE(1).fastq.4" -p "$DATA_PATH/R2_1M_READS_EACH_PHAGE(1).fastq.4" -r $DATA_PATH/Lambda_assembly.fasta --nrt
+python check_Lamda_class.py
diff --git a/non-regression-tests/run_P1_long_multiproc.sh b/non-regression-tests/run_P1_long_multiproc.sh
new file mode 100644
index 0000000000000000000000000000000000000000..f86e6877861d295b2e4b75fb4ca25209b70c85b7
--- /dev/null
+++ b/non-regression-tests/run_P1_long_multiproc.sh
@@ -0,0 +1,6 @@
+#/bin/bash
+DATA_PATH=./data
+
+echo "running PhageTerm on P1 genome and a dataset with a minimum 50x coverage"
+python ../PhageTerm.py -c 4 -f "$DATA_PATH/R1_1M_READS_EACH_PHAGE(1).fastq.4" -p "$DATA_PATH/R2_1M_READS_EACH_PHAGE(1).fastq.4" -r $DATA_PATH/P1_assembly.fasta --nrt
+python check_P1_class.py
diff --git a/non-regression-tests/run_StaphN1_long_multiproc.sh b/non-regression-tests/run_StaphN1_long_multiproc.sh
new file mode 100644
index 0000000000000000000000000000000000000000..0a78f8e773a911ffbb6f5f74341216aa28a768ee
--- /dev/null
+++ b/non-regression-tests/run_StaphN1_long_multiproc.sh
@@ -0,0 +1,6 @@
+#/bin/bash
+DATA_PATH=./data
+
+echo "running PhageTerm on Staph1N genome and a dataset with a minimum 50x coverage"
+python ../PhageTerm.py -c 4 --nrt -f "$DATA_PATH/R1_1M_READS_EACH_PHAGE(1).fastq.4" -p "$DATA_PATH/R2_1M_READS_EACH_PHAGE(1).fastq.4" -r $DATA_PATH/Staph1N_assembly.fasta
+python check_Staph1N_class.py
diff --git a/non-regression-tests/run_T4_long_multiproc.sh b/non-regression-tests/run_T4_long_multiproc.sh
new file mode 100644
index 0000000000000000000000000000000000000000..2b304c61d8fc987294e494976e49a58c410b2fdb
--- /dev/null
+++ b/non-regression-tests/run_T4_long_multiproc.sh
@@ -0,0 +1,6 @@
+#/bin/bash
+DATA_PATH=./data
+
+echo "running PhageTerm on T4 genome and a dataset with a minimum 50x coverage"
+python ../PhageTerm.py -c 4 -f "$DATA_PATH/R1_1M_READS_EACH_PHAGE(1).fastq.4" -p "$DATA_PATH/R2_1M_READS_EACH_PHAGE(1).fastq.4" -r $DATA_PATH/T4_assembly.fasta --nrt
+python check_T4_class.py
diff --git a/non-regression-tests/run_T7_long_multiproc.sh b/non-regression-tests/run_T7_long_multiproc.sh
new file mode 100644
index 0000000000000000000000000000000000000000..b3a8e14f89ff3f93eb8e707a454ef13f7a18f542
--- /dev/null
+++ b/non-regression-tests/run_T7_long_multiproc.sh
@@ -0,0 +1,6 @@
+#/bin/bash
+DATA_PATH=./data
+
+echo "running PhageTerm on T7 genome and a dataset with a minimum 50x coverage"
+python ../PhageTerm.py -c 4 -f "$DATA_PATH/R1_1M_READS_EACH_PHAGE(1).fastq.4" -p "$DATA_PATH/R2_1M_READS_EACH_PHAGE(1).fastq.4" -r $DATA_PATH/T7_assembly.fasta --nrt
+python check_T7_class.py
diff --git a/non-regression-tests/run_nrt_long.sh b/non-regression-tests/run_nrt_long.sh
index 4f04b518bd3d7c472406b8713a43338424347907..3df7ebac78d26deabf42aac5ffb842f25e78cede 100755
--- a/non-regression-tests/run_nrt_long.sh
+++ b/non-regression-tests/run_nrt_long.sh
@@ -2,8 +2,8 @@
 ## VL: decided to write the checking of results in python scripts rather than shel script for portability.
 echo "running non regression tests (short version)"
 ./run_HK97_long.sh || exit 1
-./run_lamda_long.sh || exit 1
-./run_N1_long.sh || exit 1
+./run_Lamda_long.sh || exit 1
+./run_StaphN1_long.sh || exit 1
 ./run_P1_long.sh || exit 1
 ./run_T4_long.sh || exit 1
 ./run_T7_long.sh || exit 1
diff --git a/non-regression-tests/run_nrt_long_multiproc.sh b/non-regression-tests/run_nrt_long_multiproc.sh
new file mode 100644
index 0000000000000000000000000000000000000000..b1138a27e91b49754f1624fa2e2531c0c886203f
--- /dev/null
+++ b/non-regression-tests/run_nrt_long_multiproc.sh
@@ -0,0 +1,9 @@
+#/bin/bash
+## VL: decided to write the checking of results in python scripts rather than shel script for portability.
+echo "running non regression tests (short version)"
+./run_HK97_long_multiproc.sh || exit 1
+./run_Lamda_long_multiproc.sh || exit 1
+./run_StaphN1_long_multiproc.sh || exit 1
+./run_P1_long_multiproc.sh || exit 1
+./run_T4_long_multiproc.sh || exit 1
+./run_T7_long_multiproc.sh || exit 1