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Kerstin Kaspar
Unet
Commits
be480346
Commit
be480346
authored
3 years ago
by
Kerstin Kaspar
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train
parent
6749dc4b
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3 changed files
mlflow_test/train.py
+10
-6
10 additions, 6 deletions
mlflow_test/train.py
train.py
+18
-6
18 additions, 6 deletions
train.py
train_locally.py
+54
-0
54 additions, 0 deletions
train_locally.py
with
82 additions
and
12 deletions
mlflow_test/train.py
+
10
−
6
View file @
be480346
...
@@ -8,15 +8,19 @@ from datetime import date
...
@@ -8,15 +8,19 @@ from datetime import date
from
pathlib
import
Path
from
pathlib
import
Path
small_cache_files
=
{
# data locations
cache_files
=
{
'
train
'
:
'
train
'
:
'
/
/hpc.isc.pad.ptb.de/hipcl/daten841
/kaspar01/lodopab-ct/fbp/
small_
cache_lodopab_train_fbp.npy
'
,
'
/
gpfs001/scratch
/kaspar01/lodopab-ct/fbp/cache_lodopab_train_fbp.npy
'
,
'
validation
'
:
'
validation
'
:
'
/
/hpc.isc.pad.ptb.de/hipcl/daten841
/kaspar01/lodopab-ct/fbp/
small_
cache_lodopab_validation_fbp.npy
'
,
'
/
gpfs001/scratch
/kaspar01/lodopab-ct/fbp/cache_lodopab_validation_fbp.npy
'
,
'
test
'
:
'
test
'
:
'
/
/hpc.isc.pad.ptb.de/hipcl/daten841
/kaspar01/lodopab-ct/fbp/
small_
cache_lodopab_test_fbp.npy
'
}
'
/
gpfs001/scratch
/kaspar01/lodopab-ct/fbp/cache_lodopab_test_fbp.npy
'
}
ground_truth_data_loc
=
'
//hpc.isc.pad.ptb.de/hipcl/daten841/kaspar01/lodopab-ct/data/
'
ground_truth_data_loc
=
'
/gpfs001/scratch/kaspar01/lodopab-ct/data
'
model_path
=
Path
(
'
./model
'
)
/
f
'
{
date
.
today
().
strftime
(
"
%Y-%m-%d
"
)
}
_unet.pt
'
# create Dataloaders
# create Dataloaders
training_dataset
=
LodopabDataset
(
cache_files
=
small_cache_files
,
training_dataset
=
LodopabDataset
(
cache_files
=
small_cache_files
,
...
@@ -62,7 +66,7 @@ trainer = Trainer(model=model,
...
@@ -62,7 +66,7 @@ trainer = Trainer(model=model,
training_dataloader
=
training_dataloader
,
training_dataloader
=
training_dataloader
,
validation_dataloader
=
validation_dataloader
,
validation_dataloader
=
validation_dataloader
,
lr_scheduler
=
None
,
lr_scheduler
=
None
,
epochs
=
2
,
epochs
=
10
,
epoch
=
0
,
epoch
=
0
,
notebook
=
False
)
notebook
=
False
)
...
...
This diff is collapsed.
Click to expand it.
train.py
+
18
−
6
View file @
be480346
...
@@ -9,21 +9,33 @@ from pathlib import Path
...
@@ -9,21 +9,33 @@ from pathlib import Path
# data locations
# data locations
# cache_files = {
# 'train':
# '/gpfs001/scratch/kaspar01/lodopab-ct/fbp/cache_lodopab_train_fbp.npy',
# 'validation':
# '/gpfs001/scratch/kaspar01/lodopab-ct/fbp/cache_lodopab_validation_fbp.npy',
# 'test':
# '/gpfs001/scratch/kaspar01/lodopab-ct/fbp/cache_lodopab_test_fbp.npy'}
#
# ground_truth_data_loc = '/gpfs001/scratch/kaspar01/lodopab-ct/data'
# test
# cluster
cache_files
=
{
cache_files
=
{
'
train
'
:
'
train
'
:
'
/
gpfs001/scratch
/kaspar01/lodopab-ct/fbp/cache_lodopab_train_fbp.npy
'
,
'
/
oneFS/daten841
/kaspar01/lodopab-ct/fbp/
small_
cache_lodopab_train_fbp.npy
'
,
'
validation
'
:
'
validation
'
:
'
/
gpfs001/scratch
/kaspar01/lodopab-ct/fbp/cache_lodopab_validation_fbp.npy
'
,
'
/
oneFS/daten841
/kaspar01/lodopab-ct/fbp/
small_
cache_lodopab_validation_fbp.npy
'
,
'
test
'
:
'
test
'
:
'
/
gpfs001/scratch
/kaspar01/lodopab-ct/fbp/cache_lodopab_test_fbp.npy
'
}
'
/
oneFS/daten841
/kaspar01/lodopab-ct/fbp/
small_
cache_lodopab_test_fbp.npy
'
}
ground_truth_data_loc
=
'
/
gpfs001/scratch
/kaspar01/lodopab-ct/data
'
ground_truth_data_loc
=
'
/
oneFS/daten841
/kaspar01/lodopab-ct/data
/
'
model_path
=
Path
(
'
./model
'
)
/
f
'
{
date
.
today
().
strftime
(
"
%Y-%m-%d
"
)
}
_unet.pt
'
model_path
=
Path
(
'
./model
'
)
/
f
'
{
date
.
today
().
strftime
(
"
%Y-%m-%d
"
)
}
_unet.pt
'
# create Dataloaders
# create Dataloaders
training_dataset
=
LodopabDataset
(
cache_files
=
small_
cache_files
,
training_dataset
=
LodopabDataset
(
cache_files
=
cache_files
,
ground_truth_data_loc
=
ground_truth_data_loc
,
ground_truth_data_loc
=
ground_truth_data_loc
,
split
=
'
train
'
,
split
=
'
train
'
,
transform
=
functools
.
partial
(
torch
.
unsqueeze
,
dim
=
0
),
transform
=
functools
.
partial
(
torch
.
unsqueeze
,
dim
=
0
),
...
@@ -33,7 +45,7 @@ training_dataloader = torch.utils.data.DataLoader(dataset=training_dataset,
...
@@ -33,7 +45,7 @@ training_dataloader = torch.utils.data.DataLoader(dataset=training_dataset,
batch_size
=
16
,
batch_size
=
16
,
shuffle
=
True
)
shuffle
=
True
)
validation_dataset
=
LodopabDataset
(
cache_files
=
small_
cache_files
,
validation_dataset
=
LodopabDataset
(
cache_files
=
cache_files
,
ground_truth_data_loc
=
ground_truth_data_loc
,
ground_truth_data_loc
=
ground_truth_data_loc
,
split
=
'
validation
'
,
split
=
'
validation
'
,
transform
=
functools
.
partial
(
torch
.
unsqueeze
,
dim
=
0
),
transform
=
functools
.
partial
(
torch
.
unsqueeze
,
dim
=
0
),
...
...
This diff is collapsed.
Click to expand it.
train_locally.py
0 → 100644
+
54
−
0
View file @
be480346
import
torch
from
data
import
LodopabDataset
from
trainer
import
Trainer
from
model
import
UNet
cache_files
=
{
'
train
'
:
'
//hpc.isc.pad.ptb.de/hipcl/daten841/kaspar01/lodopab-ct/fbp/cache_lodopab_train_fbp.npy
'
,
'
validation
'
:
'
//hpc.isc.pad.ptb.de/hipcl/daten841/kaspar01/lodopab-ct/fbp/cache_lodopab_validation_fbp.npy
'
,
'
test
'
:
'
//hpc.isc.pad.ptb.de/hipcl/daten841/kaspar01/lodopab-ct/fbp/cache_lodopab_test_fbp.npy
'
}
ground_truth_data_loc
=
'
//hpc.isc.pad.ptb.de/hipcl/daten841/kaspar01/lodopab-ct/
'
# auto define the correct device
device
=
"
cuda
"
if
torch
.
cuda
.
is_available
()
else
"
cpu
"
print
(
f
"
Using
{
device
}
device.
"
)
training_dataset
=
LodopabDataset
(
cache_files
=
cache_files
,
ground_truth_data_loc
=
ground_truth_data_loc
,
split
=
'
train
'
)
training_dataloader
=
torch
.
utils
.
data
.
DataLoader
(
dataset
=
training_dataset
,
batch_size
=
16
,
shuffle
=
True
)
validation_dataset
=
LodopabDataset
(
cache_files
=
cache_files
,
ground_truth_data_loc
=
ground_truth_data_loc
,
split
=
'
validation
'
)
validation_dataloader
=
torch
.
utils
.
data
.
DataLoader
(
dataset
=
validation_dataset
,
batch_size
=
16
,
shuffle
=
True
)
model
=
UNet
()
criterion
=
torch
.
nn
.
MSELoss
()
optimizer
=
torch
.
optim
.
SGD
(
model
.
parameters
(),
lr
=
0.01
,
weight_decay
=
1e-8
)
trainer
=
Trainer
(
model
=
model
,
device
=
torch
.
device
(
device
),
criterion
=
criterion
,
optimizer
=
optimizer
,
training_dataloader
=
training_dataloader
,
validation_dataloader
=
validation_dataloader
,
lr_scheduler
=
None
,
epochs
=
2
,
epoch
=
0
,
notebook
=
False
)
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