Update patch extraction scripts

gzuidhof · Jun 21, 2016 · 32c9e62 · 32c9e62
1 parent d2b22a7
commit 32c9e62
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Showing 10 changed files with 21 additions and 10 deletions.
diff --git a/scripts/create_vggnet_input_subset_0.sh → ...e_patches/create_vggnet_input_subset_0.sh b/scripts/create_vggnet_input_subset_0.sh → ...e_patches/create_vggnet_input_subset_0.sh
@@ -1,6 +1,7 @@
 #!/bin/bash
 #SBATCH -t 4:00:00
 #SBATCH -p normal
+#SBATCH -c 12
 
 #Prepare python environment
 export PYTHONPATH=$HOME/pythonpackages/lib/python:$PYTHONPATH
@@ -12,4 +13,4 @@ cd $HOME/luna16/src/data_processing
 
 #Go!!!
 echo "starting python"
-srun -u python create_xy_xz_yz_CARTESIUS.py 0 candidates_subset01.csv
+srun -u python create_xy_xz_yz_CARTESIUS.py 0 AllUnet.csv
diff --git a/scripts/create_vggnet_input_subset_1.sh → ...e_patches/create_vggnet_input_subset_1.sh b/scripts/create_vggnet_input_subset_1.sh → ...e_patches/create_vggnet_input_subset_1.sh
@@ -1,6 +1,7 @@
 #!/bin/bash
 #SBATCH -t 4:00:00
 #SBATCH -p normal
+#SBATCH -c 12
 
 #Prepare python environment
 export PYTHONPATH=$HOME/pythonpackages/lib/python:$PYTHONPATH
@@ -12,4 +13,4 @@ cd $HOME/luna16/src/data_processing
 
 #Go!!!
 echo "starting python"
-srun -u python create_xy_xz_yz_CARTESIUS.py 1 candidates_subset01.csv
+srun -u python create_xy_xz_yz_CARTESIUS.py 1 AllUnet.csv
diff --git a/scripts/create_vggnet_input_subset_2.sh → ...e_patches/create_vggnet_input_subset_2.sh b/scripts/create_vggnet_input_subset_2.sh → ...e_patches/create_vggnet_input_subset_2.sh
@@ -1,6 +1,7 @@
 #!/bin/bash
 #SBATCH -t 4:00:00
 #SBATCH -p normal
+#SBATCH -c 12
 
 #Prepare python environment
 export PYTHONPATH=$HOME/pythonpackages/lib/python:$PYTHONPATH
@@ -12,4 +13,4 @@ cd $HOME/luna16/src/data_processing
 
 #Go!!!
 echo "starting python"
-srun -u python create_xy_xz_yz_CARTESIUS.py 2 candidates_subset23.csv
+srun -u python create_xy_xz_yz_CARTESIUS.py 2 AllUnet.csv
diff --git a/scripts/create_vggnet_input_subset_3.sh → ...e_patches/create_vggnet_input_subset_3.sh b/scripts/create_vggnet_input_subset_3.sh → ...e_patches/create_vggnet_input_subset_3.sh
@@ -1,6 +1,7 @@
 #!/bin/bash
 #SBATCH -t 4:00:00
 #SBATCH -p normal
+#SBATCH -c 12
 
 #Prepare python environment
 export PYTHONPATH=$HOME/pythonpackages/lib/python:$PYTHONPATH
@@ -12,4 +13,4 @@ cd $HOME/luna16/src/data_processing
 
 #Go!!!
 echo "starting python"
-srun -u python create_xy_xz_yz_CARTESIUS.py 3 candidates_subset23.csv
+srun -u python create_xy_xz_yz_CARTESIUS.py 3 AllUnet.csv
diff --git a/scripts/create_vggnet_input_subset_4.sh → ...e_patches/create_vggnet_input_subset_4.sh b/scripts/create_vggnet_input_subset_4.sh → ...e_patches/create_vggnet_input_subset_4.sh
@@ -1,6 +1,7 @@
 #!/bin/bash
 #SBATCH -t 4:00:00
 #SBATCH -p normal
+#SBATCH -c 12
 
 #Prepare python environment
 export PYTHONPATH=$HOME/pythonpackages/lib/python:$PYTHONPATH
@@ -12,4 +13,4 @@ cd $HOME/luna16/src/data_processing
 
 #Go!!!
 echo "starting python"
-srun -u python create_xy_xz_yz_CARTESIUS.py 4 candidates_subset45.csv
+srun -u python create_xy_xz_yz_CARTESIUS.py 4 AllUnet.csv
diff --git a/scripts/create_vggnet_input_subset_5.sh → ...e_patches/create_vggnet_input_subset_5.sh b/scripts/create_vggnet_input_subset_5.sh → ...e_patches/create_vggnet_input_subset_5.sh
@@ -1,6 +1,7 @@
 #!/bin/bash
 #SBATCH -t 4:00:00
 #SBATCH -p normal
+#SBATCH -c 12
 
 #Prepare python environment
 export PYTHONPATH=$HOME/pythonpackages/lib/python:$PYTHONPATH
@@ -12,4 +13,4 @@ cd $HOME/luna16/src/data_processing
 
 #Go!!!
 echo "starting python"
-srun -u python create_xy_xz_yz_CARTESIUS.py 5 candidates_subset45.csv
+srun -u python create_xy_xz_yz_CARTESIUS.py 5 AllUnet.csv
diff --git a/scripts/create_vggnet_input_subset_6.sh → ...e_patches/create_vggnet_input_subset_6.sh b/scripts/create_vggnet_input_subset_6.sh → ...e_patches/create_vggnet_input_subset_6.sh
@@ -1,6 +1,7 @@
 #!/bin/bash
 #SBATCH -t 4:00:00
 #SBATCH -p normal
+#SBATCH -c 12
 
 #Prepare python environment
 export PYTHONPATH=$HOME/pythonpackages/lib/python:$PYTHONPATH
@@ -12,4 +13,4 @@ cd $HOME/luna16/src/data_processing
 
 #Go!!!
 echo "starting python"
-srun -u python create_xy_xz_yz_CARTESIUS.py 6 candidates_subset67.csv
+srun -u python create_xy_xz_yz_CARTESIUS.py 6 AllUnet.csv
diff --git a/scripts/create_vggnet_input_subset_7.sh → ...e_patches/create_vggnet_input_subset_7.sh b/scripts/create_vggnet_input_subset_7.sh → ...e_patches/create_vggnet_input_subset_7.sh
@@ -1,6 +1,7 @@
 #!/bin/bash
 #SBATCH -t 4:00:00
 #SBATCH -p normal
+#SBATCH -c 12
 
 #Prepare python environment
 export PYTHONPATH=$HOME/pythonpackages/lib/python:$PYTHONPATH
@@ -12,4 +13,4 @@ cd $HOME/luna16/src/data_processing
 
 #Go!!!
 echo "starting python"
-srun -u python create_xy_xz_yz_CARTESIUS.py 7 candidates_subset67.csv
+srun -u python create_xy_xz_yz_CARTESIUS.py 7 AllUnet.csv
diff --git a/scripts/create_vggnet_input_subset_8.sh → ...e_patches/create_vggnet_input_subset_8.sh b/scripts/create_vggnet_input_subset_8.sh → ...e_patches/create_vggnet_input_subset_8.sh
@@ -1,6 +1,7 @@
 #!/bin/bash
 #SBATCH -t 4:00:00
 #SBATCH -p normal
+#SBATCH -c 12
 
 #Prepare python environment
 export PYTHONPATH=$HOME/pythonpackages/lib/python:$PYTHONPATH
@@ -12,4 +13,4 @@ cd $HOME/luna16/src/data_processing
 
 #Go!!!
 echo "starting python"
-srun -u python create_xy_xz_yz_CARTESIUS.py 8 candidates_subset89.csv
+srun -u python create_xy_xz_yz_CARTESIUS.py 8 AllUnet.csv
diff --git a/scripts/create_vggnet_input_subset_9.sh → ...e_patches/create_vggnet_input_subset_9.sh b/scripts/create_vggnet_input_subset_9.sh → ...e_patches/create_vggnet_input_subset_9.sh
@@ -1,14 +1,16 @@
 #!/bin/bash
 #SBATCH -t 4:00:00
 #SBATCH -p normal
+#SBATCH -c 12
 
 #Prepare python environment
 export PYTHONPATH=$HOME/pythonpackages/lib/python:$PYTHONPATH
+export PYTHONPATH=$HOME/pythonpackages/lib/python2.7/site-packages:$PYTHONPATH
 module load python/2.7.9
 
 #Go to project folder
 cd $HOME/luna16/src/data_processing
 
 #Go!!!
 echo "starting python"
-srun -u python create_xy_xz_yz_CARTESIUS.py 9 candidates_subset89.csv
+srun -u python create_xy_xz_yz_CARTESIUS.py 9 AllUnet.csv