Right now, we use the convLSTM launched in a earlier submit to foretell El Niño-Southern Oscillation (ENSO).
ENSO refers to a altering sample of sea floor temperatures and sea-level pressures occurring within the equatorial Pacific. From its three total states, in all probability the best-known is El Niño. El Niño happens when floor water temperatures within the japanese Pacific are larger than regular, and the robust winds that usually blow from east to west are unusually weak. The other situations are termed La Niña. All the pieces in-between is assessed as regular.
ENSO has nice impression on the climate worldwide, and routinely harms ecosystems and societies by means of storms, droughts and flooding, presumably leading to famines and financial crises. The very best societies can do is attempt to adapt and mitigate extreme penalties. Such efforts are aided by correct forecasts, the additional forward the higher.
Right here, deep studying (DL) can probably assist: Variables like sea floor temperatures and pressures are given on a spatial grid – that of the earth – and as we all know, DL is nice at extracting spatial (e.g., picture) options. For ENSO prediction, architectures like convolutional neural networks (Ham, Kim, and Luo (2019a)) or convolutional-recurrent hybrids are habitually used. One such hybrid is simply our convLSTM; it operates on sequences of options given on a spatial grid. Right now, thus, we’ll be coaching a mannequin for ENSO forecasting. This mannequin could have a convLSTM for its central ingredient.
Earlier than we begin, a be aware. Whereas our mannequin matches nicely with architectures described within the related papers, the identical can’t be stated for quantity of coaching knowledge used. For causes of practicality, we use precise observations solely; consequently, we find yourself with a small (relative to the duty) dataset. In distinction, analysis papers have a tendency to utilize local weather simulations, leading to considerably extra knowledge to work with.
From the outset, then, we don’t anticipate stellar efficiency. Nonetheless, this could make for an attention-grabbing case research, and a helpful code template for our readers to use to their very own knowledge.
We are going to try to predict month-to-month common sea floor temperature within the Niño 3.4 area, as represented by the Niño 3.4 Index, plus categorization as considered one of El Niño, La Niña or impartial. Predictions might be based mostly on prior month-to-month sea floor temperatures spanning a big portion of the globe.
On the enter facet, public and ready-to-use knowledge could also be downloaded from Tokyo Local weather Heart; as to prediction targets, we get hold of index and classification right here.
Enter and goal knowledge each are supplied month-to-month. They intersect within the time interval starting from 1891-01-01 to 2020-08-01; so that is the vary of dates we’ll be zooming in on.
Enter: Sea Floor Temperatures
Month-to-month sea floor temperatures are supplied in a latitude-longitude grid of decision 1°. Particulars of how the info had been processed can be found right here.
Knowledge recordsdata can be found in GRIB format; every file incorporates averages computed for a single month. We are able to both obtain particular person recordsdata or generate a textual content file of URLs for obtain. In case you’d prefer to comply with together with the submit, you’ll discover the contents of the textual content file I generated within the appendix. When you’ve saved these URLs to a file, you may have R get the recordsdata for you want so:
From R, we are able to learn GRIB recordsdata utilizing stars. For instance:
stars object with 2 dimensions and 1 attribute
attribute(s):
sst189101.grb
Min. :-274.9
1st Qu.:-272.8
Median :-259.1
Imply :-260.0
third Qu.:-248.4
Max. :-242.8
NA's :21001
dimension(s):
from to offset delta refsys level values
x 1 360 0 1 Coordinate System importe... NA NULL [x]
y 1 180 90 -1 Coordinate System importe... NA NULL [y]
So on this GRIB file, we’ve one attribute – which we all know to be sea floor temperature – on a two-dimensional grid. As to the latter, we are able to complement what stars
tells us with more information discovered within the documentation:
The east-west grid factors run eastward from 0.5ºE to 0.5ºW, whereas the north-south grid factors run northward from 89.5ºS to 89.5ºN.
We be aware a number of issues we’ll need to do with this knowledge. For one, the temperatures appear to be given in Kelvin, however with minus indicators. We’ll take away the minus indicators and convert to levels Celsius for comfort. We’ll even have to consider what to do with the NA
s that seem for all non-maritime coordinates.
Earlier than we get there although, we have to mix knowledge from all recordsdata right into a single knowledge body. This provides a further dimension, time, starting from 1891/01/01 to 2020/01/12:
stars object with 3 dimensions and 1 attribute
attribute(s), abstract of first 1e+05 cells:
sst189101.grb
Min. :-274.9
1st Qu.:-273.3
Median :-258.8
Imply :-260.0
third Qu.:-247.8
Max. :-242.8
NA's :33724
dimension(s):
from to offset delta refsys level values
x 1 360 0 1 Coordinate System importe... NA NULL [x]
y 1 180 90 -1 Coordinate System importe... NA NULL [y]
time 1 1560 NA NA Date NA 1891-01-01,...,2020-12-01
Let’s visually examine the spatial distribution of month-to-month temperatures for one yr, 2020:
Goal: Niño 3.4 Index
For the Niño 3.4 Index, we obtain the month-to-month knowledge and, among the many supplied options, zoom in on two: the index itself (column NINO34_MEAN
) and PHASE
, which will be E
(El Niño), L
(La Niño) or N
(impartial).
1556
Subsequent, we have a look at the best way to get the info right into a format handy for coaching and prediction.
Enter
First, we take away all enter knowledge for cut-off dates the place floor fact knowledge are nonetheless lacking.
Subsequent, as is completed by e.g. Ham, Kim, and Luo (2019b), we solely use grid factors between 55° south and 60° north. This has the extra benefit of lowering reminiscence necessities.
360, 115, 1560
As already alluded to, with the little knowledge we’ve we are able to’t anticipate a lot by way of generalization. Nonetheless, we put aside a small portion of the info for validation, since we’d like for this submit to function a helpful template for use with greater datasets.
From right here on, we work with R arrays.
sst_train <- as.tbl_cube.stars(sst_train)$mets[[1]]
sst_valid <- as.tbl_cube.stars(sst_valid)$mets[[1]]
Conversion to levels Celsius is just not strictly essential, as preliminary experiments confirmed a slight efficiency enhance because of normalizing the enter, and we’re going to do this anyway. Nonetheless, it reads nicer to people than Kelvin.
sst_train <- sst_train + 273.15
quantile(sst_train, na.rm = TRUE)
0% 25% 50% 75% 100%
-1.8000 12.9975 21.8775 26.8200 34.3700
By no means surprisingly, world warming is obvious from inspecting temperature distribution on the validation set (which was chosen to span the final thirty-one years).
sst_valid <- sst_valid + 273.15
quantile(sst_valid, na.rm = TRUE)
0% 25% 50% 75% 100%
-1.800 13.425 22.335 27.240 34.870
The subsequent-to-last step normalizes each units in line with coaching imply and variance.
Lastly, what ought to we do concerning the NA
entries? We set them to zero, the (coaching set) imply. That might not be sufficient of an motion although: It means we’re feeding the community roughly 30% deceptive knowledge. That is one thing we’re not achieved with but.
Goal
The goal knowledge are break up analogously. Let’s examine although: Are phases (categorizations) distributedly equally in each units?
# A tibble: 3 x 4
# Teams: phase_code [3]
phase_code PHASE rely avg
<dbl> <chr> <int> <dbl>
1 1 E 301 27.7
2 2 L 333 25.6
3 3 N 554 26.7
nino_valid %>% group_by(phase_code, PHASE) %>% summarise(rely = n(), avg = imply(NINO34_MEAN))
# A tibble: 3 x 4
# Teams: phase_code [3]
phase_code PHASE rely avg
<dbl> <chr> <int> <dbl>
1 1 E 93 28.1
2 2 L 93 25.9
3 3 N 182 27.2
This doesn’t look too unhealthy. After all, we once more see the general rise in temperature, no matter section.
Lastly, we normalize the index, identical as we did for the enter knowledge.
train_mean_nino <- imply(nino_train$NINO34_MEAN)
train_sd_nino <- sd(nino_train$NINO34_MEAN)
nino_train <- nino_train %>% mutate(NINO34_MEAN = scale(NINO34_MEAN, middle = train_mean_nino, scale = train_sd_nino))
nino_valid <- nino_valid %>% mutate(NINO34_MEAN = scale(NINO34_MEAN, middle = train_mean_nino, scale = train_sd_nino))
On to the torch
dataset.
The dataset is answerable for appropriately matching up inputs and targets.
Our objective is to take six months of worldwide sea floor temperatures and predict the Niño 3.4 Index for the next month. Enter-wise, the mannequin will anticipate the next format semantics:
batch_size * timesteps * width * top * channels
, the place
-
batch_size
is the variety of observations labored on in a single spherical of computations, -
timesteps
chains consecutive observations from adjoining months, -
width
andtop
collectively represent the spatial grid, and -
channels
corresponds to obtainable visible channels within the “picture.”
In .getitem()
, we choose the consecutive observations, beginning at a given index, and stack them in dimension one. (One, not two, as batches will solely begin to exist as soon as the dataloader
comes into play.)
Now, what concerning the goal? Our final objective was – is – predicting the Niño 3.4 Index. Nonetheless, as you see we outline three targets: One is the index, as anticipated; a further one holds the spatially-gridded sea floor temperatures for the prediction month. Why? Our major instrument, probably the most outstanding constituent of the mannequin, might be a convLSTM, an structure designed for spatial prediction. Thus, to coach it effectively, we need to give it the chance to foretell values on a spatial grid. Up to now so good; however there’s yet one more goal, the section/class. This was added for experimentation functions: Possibly predicting each index and section helps in coaching?
Lastly, right here is the code for the dataset. In our experiments, we based mostly predictions on inputs from the previous six months (n_timesteps <- 6
). It is a parameter you may need to play with, although.
n_timesteps <- 6
enso_dataset <- dataset(
identify = "enso_dataset",
initialize = operate(sst, nino, n_timesteps) {
self$sst <- sst
self$nino <- nino
self$n_timesteps <- n_timesteps
},
.getitem = operate(i) {
x <- torch_tensor(self$sst[, , i:(n_timesteps + i - 1)]) # (360, 115, n_timesteps)
x <- x$permute(c(3,1,2))$unsqueeze(2) # (n_timesteps, 1, 360, 115))
y1 <- torch_tensor(self$sst[, , n_timesteps + i])$unsqueeze(1) # (1, 360, 115)
y2 <- torch_tensor(self$nino$NINO34_MEAN[n_timesteps + i])
y3 <- torch_tensor(self$nino$phase_code[n_timesteps + i])$squeeze()$to(torch_long())
checklist(x = x, y1 = y1, y2 = y2, y3 = y3)
},
.size = operate() {
nrow(self$nino) - n_timesteps
}
)
valid_ds <- enso_dataset(sst_valid, nino_valid, n_timesteps)
After the customized dataset, we create the – fairly typical – dataloader
s, making use of a batch measurement of 4.
batch_size <- 4
train_dl <- train_ds %>% dataloader(batch_size = batch_size, shuffle = TRUE)
valid_dl <- valid_ds %>% dataloader(batch_size = batch_size)
Subsequent, we proceed to mannequin creation.
The mannequin’s major ingredient is the convLSTM launched in a prior submit. For comfort, we reproduce the code within the appendix.
Apart from the convLSTM, the mannequin makes use of three convolutional layers, a batchnorm layer and 5 linear layers. The logic is the next.
First, the convLSTM job is to foretell the following month’s sea floor temperatures on the spatial grid. For that, we virtually simply return its remaining state, – virtually: We use self$conv1
to cut back the quantity channels to at least one.
For predicting index and section, we then have to flatten the grid, as we require a single worth every. That is the place the extra conv layers are available. We do hope they’ll help in studying, however we additionally need to cut back the variety of parameters a bit, downsizing the grid (strides = 2
and strides = 3
, resp.) a bit earlier than the upcoming torch_flatten()
.
As soon as we’ve a flat construction, studying is shared between the duties of index and section prediction (self$linear
), till lastly their paths break up (self$cont
and self$cat
, resp.), and so they return their separate outputs.
(The batchnorm? I’ll touch upon that within the Dialogue.)
mannequin <- nn_module(
initialize = operate(channels_in,
convlstm_hidden,
convlstm_kernel,
convlstm_layers) {
self$n_layers <- convlstm_layers
self$convlstm <- convlstm(
input_dim = channels_in,
hidden_dims = convlstm_hidden,
kernel_sizes = convlstm_kernel,
n_layers = convlstm_layers
)
self$conv1 <-
nn_conv2d(
in_channels = 32,
out_channels = 1,
kernel_size = 5,
padding = 2
)
self$conv2 <-
nn_conv2d(
in_channels = 32,
out_channels = 32,
kernel_size = 5,
stride = 2
)
self$conv3 <-
nn_conv2d(
in_channels = 32,
out_channels = 32,
kernel_size = 5,
stride = 3
)
self$linear <- nn_linear(33408, 64)
self$b1 <- nn_batch_norm1d(num_features = 64)
self$cont <- nn_linear(64, 128)
self$cat <- nn_linear(64, 128)
self$cont_output <- nn_linear(128, 1)
self$cat_output <- nn_linear(128, 3)
},
ahead = operate(x) {
ret <- self$convlstm(x)
layer_last_states <- ret[[2]]
last_hidden <- layer_last_states[[self$n_layers]][[1]]
next_sst <- last_hidden %>% self$conv1()
c2 <- last_hidden %>% self$conv2()
c3 <- c2 %>% self$conv3()
flat <- torch_flatten(c3, start_dim = 2)
frequent <- self$linear(flat) %>% self$b3() %>% nnf_relu()
next_temp <- frequent %>% self$cont() %>% nnf_relu() %>% self$cont_output()
next_nino <- frequent %>% self$cat() %>% nnf_relu() %>% self$cat_output()
checklist(next_sst, next_temp, next_nino)
}
)
Subsequent, we instantiate a fairly small-ish mannequin. You’re greater than welcome to experiment with bigger fashions, however coaching time in addition to GPU reminiscence necessities will enhance.
An `nn_module` containing 2,389,605 parameters.
── Modules ───────────────────────────────────────────────────────────────────────────────
● convlstm: <nn_module> #182,080 parameters
● conv1: <nn_conv2d> #801 parameters
● conv2: <nn_conv2d> #25,632 parameters
● conv3: <nn_conv2d> #25,632 parameters
● linear: <nn_linear> #2,138,176 parameters
● b1: <nn_batch_norm1d> #128 parameters
● cont: <nn_linear> #8,320 parameters
● cat: <nn_linear> #8,320 parameters
● cont_output: <nn_linear> #129 parameters
● cat_output: <nn_linear> #387 parameters
We’ve three mannequin outputs. How ought to we mix the losses?
On condition that the principle objective is predicting the index, and the opposite two outputs are basically means to an finish, I discovered the next mixture quite efficient:
# weight for sea floor temperature prediction
lw_sst <- 0.2
# weight for prediction of El Nino 3.4 Index
lw_temp <- 0.4
# weight for section prediction
lw_nino <- 0.4
The coaching course of follows the sample seen in all torch
posts up to now: For every epoch, loop over the coaching set, backpropagate, examine efficiency on validation set.
However, after we did the pre-processing, we had been conscious of an imminent downside: the lacking temperatures for continental areas, which we set to zero. As a sole measure, this strategy is clearly inadequate. What if we had chosen to make use of latitude-dependent averages? Or interpolation? Each could also be higher than a world common, however each have their issues as nicely. Let’s at the least alleviate adverse penalties by not utilizing the respective pixels for spatial loss calculation. That is taken care of by the next line under:
sst_loss <- nnf_mse_loss(sst_output[sst_target != 0], sst_target[sst_target != 0])
Right here, then, is the whole coaching code.
optimizer <- optim_adam(web$parameters, lr = 0.001)
num_epochs <- 50
train_batch <- operate(b) {
optimizer$zero_grad()
output <- web(b$x$to(machine = machine))
sst_output <- output[[1]]
sst_target <- b$y1$to(machine = machine)
sst_loss <- nnf_mse_loss(sst_output[sst_target != 0], sst_target[sst_target != 0])
temp_loss <- nnf_mse_loss(output[[2]], b$y2$to(machine = machine))
nino_loss <- nnf_cross_entropy(output[[3]], b$y3$to(machine = machine))
loss <- lw_sst * sst_loss + lw_temp * temp_loss + lw_nino * nino_loss
loss$backward()
optimizer$step()
checklist(sst_loss$merchandise(), temp_loss$merchandise(), nino_loss$merchandise(), loss$merchandise())
}
valid_batch <- operate(b) {
output <- web(b$x$to(machine = machine))
sst_output <- output[[1]]
sst_target <- b$y1$to(machine = machine)
sst_loss <- nnf_mse_loss(sst_output[sst_target != 0], sst_target[sst_target != 0])
temp_loss <- nnf_mse_loss(output[[2]], b$y2$to(machine = machine))
nino_loss <- nnf_cross_entropy(output[[3]], b$y3$to(machine = machine))
loss <-
lw_sst * sst_loss + lw_temp * temp_loss + lw_nino * nino_loss
checklist(sst_loss$merchandise(),
temp_loss$merchandise(),
nino_loss$merchandise(),
loss$merchandise())
}
for (epoch in 1:num_epochs) {
web$prepare()
train_loss_sst <- c()
train_loss_temp <- c()
train_loss_nino <- c()
train_loss <- c()
coro::loop(for (b in train_dl) {
losses <- train_batch(b)
train_loss_sst <- c(train_loss_sst, losses[[1]])
train_loss_temp <- c(train_loss_temp, losses[[2]])
train_loss_nino <- c(train_loss_nino, losses[[3]])
train_loss <- c(train_loss, losses[[4]])
})
cat(
sprintf(
"nEpoch %d, coaching: loss: %3.3f sst: %3.3f temp: %3.3f nino: %3.3f n",
epoch, imply(train_loss), imply(train_loss_sst), imply(train_loss_temp), imply(train_loss_nino)
)
)
web$eval()
valid_loss_sst <- c()
valid_loss_temp <- c()
valid_loss_nino <- c()
valid_loss <- c()
coro::loop(for (b in valid_dl) {
losses <- valid_batch(b)
valid_loss_sst <- c(valid_loss_sst, losses[[1]])
valid_loss_temp <- c(valid_loss_temp, losses[[2]])
valid_loss_nino <- c(valid_loss_nino, losses[[3]])
valid_loss <- c(valid_loss, losses[[4]])
})
cat(
sprintf(
"nEpoch %d, validation: loss: %3.3f sst: %3.3f temp: %3.3f nino: %3.3f n",
epoch, imply(valid_loss), imply(valid_loss_sst), imply(valid_loss_temp), imply(valid_loss_nino)
)
)
torch_save(web, paste0(
"model_", epoch, "_", spherical(imply(train_loss), 3), "_", spherical(imply(valid_loss), 3), ".pt"
))
}
After I ran this, efficiency on the coaching set decreased in a not-too-fast, however steady method, whereas validation set efficiency stored fluctuating. For reference, complete (composite) losses regarded like this:
Epoch Coaching Validation
10 0.336 0.633
20 0.233 0.295
30 0.135 0.461
40 0.099 0.903
50 0.061 0.727
Considering of the dimensions of the validation set – thirty-one years, or equivalently, 372 knowledge factors – these fluctuations might not be all too shocking.
Now losses are typically summary; let’s see what really will get predicted. We get hold of predictions for index values and phases like so …
… and mix these with the bottom fact, stripping off the primary six rows (six was the variety of timesteps used as predictors):
valid_perf <- knowledge.body(
actual_temp = nino_valid$NINO34_MEAN[(batch_size + 1):nrow(nino_valid)] * train_sd_nino + train_mean_nino,
actual_nino = issue(nino_valid$phase_code[(batch_size + 1):nrow(nino_valid)]),
pred_temp = pred_index * train_sd_nino + train_mean_nino,
pred_nino = issue(pred_phase %>% apply(1, which.max))
)
For the section, we are able to generate a confusion matrix:
yardstick::conf_mat(valid_perf, actual_nino, pred_nino)
Fact
Prediction 1 2 3
1 70 0 43
2 0 47 10
3 23 46 123
This appears higher than anticipated (based mostly on the losses). Phases 1 and a couple of correspond to El Niño and La Niña, respectively, and these get sharply separated.
What concerning the Niño 3.4 Index? Let’s plot predictions versus floor fact:
valid_perf <- valid_perf %>%
choose(precise = actual_temp, predicted = pred_temp) %>%
add_column(month = seq(as.Date("1990-07-01"), as.Date("2020-08-01"), by = "months")) %>%
pivot_longer(-month, names_to = "Index", values_to = "temperature")
ggplot(valid_perf, aes(x = month, y = temperature, shade = Index)) +
geom_line() +
scale_color_manual(values = c("#006D6F", "#B2FFFF")) +
theme_classic()
This doesn’t look unhealthy both. Nonetheless, we have to remember the fact that we’re predicting only a single time step forward. We in all probability shouldn’t overestimate the outcomes. Which leads on to the dialogue.
When working with small quantities of information, so much will be discovered by quick-ish experimentation. Nonetheless, when on the identical time, the duty is complicated, one ought to be cautious extrapolating.
For instance, well-established regularizers similar to batchnorm and dropout, whereas supposed to enhance generalization to the validation set, could end up to severely impede coaching itself. That is the story behind the one batchnorm layer I stored (I did attempt having extra), and it is usually why there isn’t any dropout.
One lesson to study from this expertise then is: Ensure that the quantity of information matches the complexity of the duty. That is what we see within the ENSO prediction papers printed on arxiv.
If we should always deal with the outcomes with warning, why even publish the submit?
For one, it exhibits an software of convLSTM to real-world knowledge, using a fairly complicated structure and illustrating methods like customized losses and loss masking. Comparable architectures and methods ought to be relevant to a variety of real-world duties – mainly, at any time when predictors in a time-series downside are given on a spatial grid.
Secondly, the appliance itself – forecasting an atmospheric phenomenon that enormously impacts ecosystems in addition to human well-being – looks as if a wonderful use of deep studying. Functions like these stand out as all of the extra worthwhile as the identical can’t be stated of every part deep studying is – and might be, barring efficient regulation – used for.
Thanks for studying!
A1: Record of GRB recordsdata
To be put right into a textual content file to be used with purrr::stroll( … obtain.file … )
.
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189101.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189102.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189103.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189104.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189105.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189106.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189107.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189108.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189109.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189110.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189111.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189112.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189201.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189202.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189203.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189204.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189205.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189206.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189207.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189208.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189209.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189210.grb
https://ds.knowledge.jma.go.jp/tcc/tcc/merchandise/elnino/cobesst/gpvdata/1891-1899/sst189211.grb
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A2: convlstm
code
For an in-depth clarification of convlstm
, see the weblog submit.
library(torch)
library(torchvision)
convlstm_cell <- nn_module(
initialize = operate(input_dim, hidden_dim, kernel_size, bias) {
self$hidden_dim <- hidden_dim
padding <- kernel_size %/% 2
self$conv <- nn_conv2d(
in_channels = input_dim + self$hidden_dim,
# for every of enter, neglect, output, and cell gates
out_channels = 4 * self$hidden_dim,
kernel_size = kernel_size,
padding = padding,
bias = bias
)
},
ahead = operate(x, prev_states) {
h_prev <- prev_states[[1]]
c_prev <- prev_states[[2]]
mixed <- torch_cat(checklist(x, h_prev), dim = 2) # concatenate alongside channel axis
combined_conv <- self$conv(mixed)
gate_convs <- torch_split(combined_conv, self$hidden_dim, dim = 2)
cc_i <- gate_convs[[1]]
cc_f <- gate_convs[[2]]
cc_o <- gate_convs[[3]]
cc_g <- gate_convs[[4]]
# enter, neglect, output, and cell gates (equivalent to torch's LSTM)
i <- torch_sigmoid(cc_i)
f <- torch_sigmoid(cc_f)
o <- torch_sigmoid(cc_o)
g <- torch_tanh(cc_g)
# cell state
c_next <- f * c_prev + i * g
# hidden state
h_next <- o * torch_tanh(c_next)
checklist(h_next, c_next)
},
init_hidden = operate(batch_size, top, width) {
checklist(torch_zeros(batch_size, self$hidden_dim, top, width, machine = self$conv$weight$machine),
torch_zeros(batch_size, self$hidden_dim, top, width, machine = self$conv$weight$machine))
}
)
convlstm <- nn_module(
initialize = operate(input_dim, hidden_dims, kernel_sizes, n_layers, bias = TRUE) {
self$n_layers <- n_layers
self$cell_list <- nn_module_list()
for (i in 1:n_layers) {
cur_input_dim <- if (i == 1) input_dim else hidden_dims[i - 1]
self$cell_list$append(convlstm_cell(cur_input_dim, hidden_dims[i], kernel_sizes[i], bias))
}
},
# we all the time assume batch-first
ahead = operate(x) {
batch_size <- x$measurement()[1]
seq_len <- x$measurement()[2]
top <- x$measurement()[4]
width <- x$measurement()[5]
# initialize hidden states
init_hidden <- vector(mode = "checklist", size = self$n_layers)
for (i in 1:self$n_layers) {
init_hidden[[i]] <- self$cell_list[[i]]$init_hidden(batch_size, top, width)
}
# checklist containing the outputs, of size seq_len, for every layer
# this is identical as h, at every step within the sequence
layer_output_list <- vector(mode = "checklist", size = self$n_layers)
# checklist containing the final states (h, c) for every layer
layer_state_list <- vector(mode = "checklist", size = self$n_layers)
cur_layer_input <- x
hidden_states <- init_hidden
# loop over layers
for (i in 1:self$n_layers) {
# each layer's hidden state begins from 0 (non-stateful)
h_c <- hidden_states[[i]]
h <- h_c[[1]]
c <- h_c[[2]]
# outputs, of size seq_len, for this layer
# equivalently, checklist of h states for every time step
output_sequence <- vector(mode = "checklist", size = seq_len)
# loop over timesteps
for (t in 1:seq_len) {
h_c <- self$cell_list[[i]](cur_layer_input[ , t, , , ], checklist(h, c))
h <- h_c[[1]]
c <- h_c[[2]]
# preserve monitor of output (h) for each timestep
# h has dim (batch_size, hidden_size, top, width)
output_sequence[[t]] <- h
}
# stack hs for all timesteps over seq_len dimension
# stacked_outputs has dim (batch_size, seq_len, hidden_size, top, width)
# identical as enter to ahead (x)
stacked_outputs <- torch_stack(output_sequence, dim = 2)
# cross the checklist of outputs (hs) to subsequent layer
cur_layer_input <- stacked_outputs
# preserve monitor of checklist of outputs or this layer
layer_output_list[[i]] <- stacked_outputs
# preserve monitor of final state for this layer
layer_state_list[[i]] <- checklist(h, c)
}
checklist(layer_output_list, layer_state_list)
}
)