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OpenDAS
torchani
Commits
8b9c3d1a
Commit
8b9c3d1a
authored
Jul 03, 2019
by
Gao, Xiang
Committed by
Farhad Ramezanghorbani
Jul 03, 2019
Browse files
Support 0 molecule subsets when loading dataset (#257)
* Support 0 molecule subsets when loading dataset * fix * fix
parent
909935a5
Changes
1
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torchani/utils.py
torchani/utils.py
+8
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torchani/utils.py
View file @
8b9c3d1a
...
@@ -48,17 +48,20 @@ def pad_atomic_properties(atomic_properties, padding_values=defaultdict(lambda:
...
@@ -48,17 +48,20 @@ def pad_atomic_properties(atomic_properties, padding_values=defaultdict(lambda:
max_atoms
=
max
(
x
[
anykey
].
shape
[
1
]
for
x
in
atomic_properties
)
max_atoms
=
max
(
x
[
anykey
].
shape
[
1
]
for
x
in
atomic_properties
)
padded
=
{
k
:
[]
for
k
in
keys
}
padded
=
{
k
:
[]
for
k
in
keys
}
for
p
in
atomic_properties
:
for
p
in
atomic_properties
:
num_molecules
=
max
(
v
.
shape
[
0
]
for
v
in
p
.
values
())
num_molecules
=
1
for
v
in
p
.
values
():
assert
num_molecules
in
{
1
,
v
.
shape
[
0
]},
'Number of molecules in different atomic properties mismatch'
if
v
.
shape
[
0
]
!=
1
:
num_molecules
=
v
.
shape
[
0
]
for
k
,
v
in
p
.
items
():
for
k
,
v
in
p
.
items
():
shape
=
list
(
v
.
shape
)
shape
=
list
(
v
.
shape
)
padatoms
=
max_atoms
-
shape
[
1
]
padatoms
=
max_atoms
-
shape
[
1
]
shape
[
1
]
=
padatoms
shape
[
1
]
=
padatoms
padding
=
v
.
new_full
(
shape
,
padding_values
[
k
])
padding
=
v
.
new_full
(
shape
,
padding_values
[
k
])
v
=
torch
.
cat
([
v
,
padding
],
dim
=
1
)
v
=
torch
.
cat
([
v
,
padding
],
dim
=
1
)
if
v
.
shape
[
0
]
<
num_molecules
:
shape
=
list
(
v
.
shape
)
shape
=
list
(
v
.
shape
)
shape
[
0
]
=
num_molecules
shape
[
0
]
=
num_molecules
v
=
v
.
expand
(
*
shape
)
v
=
v
.
expand
(
*
shape
)
padded
[
k
].
append
(
v
)
padded
[
k
].
append
(
v
)
return
{
k
:
torch
.
cat
(
v
)
for
k
,
v
in
padded
.
items
()}
return
{
k
:
torch
.
cat
(
v
)
for
k
,
v
in
padded
.
items
()}
...
...
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