Comments (25)
I've made a fix to the reticulate package to provide an implementation of sys.stdout
and sys.stderr
when they aren't found (I've seen this in R GUI but it's certainly possible it happens elsewhere). To install the fix you should be sure to close all R sessions then open a fresh R session and execute:
devtools::install_github("rstudio/reticulate")
The reason you need to close all R sessions is that windows shared libraries won't be successfully overwritten if they are in use during the installation.
One note: Keras progress isn't nearly as nice in this scenario (it doesn't update in place) so if you can run within R terminal or RStudio you'll have a better user experience.
from keras.
from keras.
same here, fresh install of keras / tensorflow / reticulate in R studio with devtools and getting "Error in py_call_impl(callable, dots$args, dots$keywords) : UnboundLocalError: local variable 'a' referenced before assignment"
from keras.
Did anyone finally get a solution for this issue?
from keras.
I can't repro this locally so this is a bit of mystery. Here's my diagnostics:
> reticulate::py_config()
python: C:\Users\JJALLA~1\AppData\Local\Programs\Python\Python35\\python.exe
libpython: C:/Users/JJALLA~1/AppData/Local/Programs/Python/Python35/python35.dll
pythonhome: C:\Users\JJALLA~1\AppData\Local\Programs\Python\Python35
version: 3.5.3 (v3.5.3:1880cb95a742, Jan 16 2017, 16:02:32) [MSC v.1900 64 bit (AMD64)]
Architecture: 64bit
numpy: C:\Users\JJALLA~1\AppData\Local\Programs\Python\Python35\lib\site-packages\numpy
numpy_version: 1.12.1
tensorflow: C:\Users\JJALLA~1\AppData\Local\Programs\Python\Python35\lib\site-packages\tensorflow
python versions found:
C:\Python27\\python.exe
C:\Users\JJALLA~1\AppData\Local\Programs\Python\Python35\\python.exe
C:\Users\JJALLA~1\AppData\Local\Programs\Python\PYTHON~1\\python.exe
C:\Users\JJALLA~1\AppData\Local\Programs\Python\Python36\\python.exe
C:\Users\JJALLA~1\ANACON~1\python.exe
> tf_config()
TensorFlow v1.1.0 (C:\Users\JJALLA~1\AppData\Local\Programs\Python\Python35\lib\site-packages\tensorflow)
Python v3.5 (C:\Users\JJALLA~1\AppData\Local\Programs\Python\Python35\\python.exe)
> devtools::session_info()
Session info ------------------------------------------------------------------------------------
setting value
version R version 3.3.3 (2017-03-06)
system x86_64, mingw32
ui RStudio (1.1.241)
language (EN)
collate English_United States.1252
tz America/New_York
date 2017-06-06
Packages ----------------------------------------------------------------------------------------
package * version date source
devtools 1.12.0 2016-06-24 CRAN (R 3.3.3)
digest 0.6.12 2017-01-27 CRAN (R 3.3.3)
jsonlite 1.4 2017-04-08 CRAN (R 3.3.3)
keras * 0.3.6 2017-06-06 local
magrittr 1.5 2014-11-22 CRAN (R 3.3.3)
memoise 1.0.0 2016-01-29 CRAN (R 3.3.3)
R6 2.2.0 2016-10-05 CRAN (R 3.3.3)
Rcpp 0.12.11 2017-05-22 CRAN (R 3.3.3)
reticulate 0.8 2017-05-22 CRAN (R 3.3.3)
tensorflow 0.8.2 2017-06-05 local
withr 1.0.2 2016-06-20 CRAN (R 3.3.3)
yaml 2.1.14 2016-11-12 CRAN (R 3.3.3)
>
I do recall fixing an issue similar to this in reticulate a couple months ago (it was Python 3 specific with a similar error message). One guess: perhaps when you updated reticulate it didn't update the underlying DLL (because it was in use). You might want to try quitting all R sessions then re-installing R sessions.
from keras.
Thanks @jjallaire. I closed my R session and reinstalled reticulate from CRAN but no luck. Yesterday was actually the first time I had ever installed reticulate so didn't think this would necessarily be the issue. Still seems to work when I knit the R file but fails if I source it or run it in the console.
I wonder if keras (or tensorflow) in Python is trying to write the model output to file as part of building the model and that's returning no output and leading to problems. Not sure why the code is behaving differently when run directly vs. when knitting.
from keras.
I also receive this error. Had been running keras/TF in Rstudio fine all week, then today this error popped up. I re-ran the model and all went well. Then, my laptop shut down (I forgot to plug it in...) and now I get the error every time.
I am running the LSTM Nietzsche example code.
edit: running the example model in the above code delivers the same error on my machine.
edit 2: I ran the code block at the bottom to reinstall keras/tensorflow and the above code example ran without error.
Error in py_call_impl(callable, dots$args, dots$keywords) :
AttributeError: 'NoneType' object has no attribute 'write'
Detailed traceback:
File "C:\Users\MATTHE~1.HAR\AppData\Local\conda\conda\envs\R-TENS~1\lib\site-packages\tensorflow\contrib\keras\python\keras\models.py", line 835, in fit
initial_epoch=initial_epoch)
File "C:\Users\MATTHE~1.HAR\AppData\Local\conda\conda\envs\R-TENS~1\lib\site-packages\tensorflow\contrib\keras\python\keras\engine\training.py", line 1494, in fit
initial_epoch=initial_epoch)
File "C:\Users\MATTHE~1.HAR\AppData\Local\conda\conda\envs\R-TENS~1\lib\site-packages\tensorflow\contrib\keras\python\keras\engine\training.py", line 1144, in _fit_loop
callbacks.on_batch_end(batch_index, batch_logs)
File "C:\Users\MATTHE~1.HAR\AppData\Local\conda\conda\envs\R-TENS~1\lib\site-packages\tensorflow\contrib\keras\python\keras\callbacks.py", line 131, in on_batch_end
callback.on_batch_end(batch, logs)
File "C:\Users\MATTHE~1.HAR\AppData\Local\conda\conda\envs\R-TENS~1\lib\site-packages\tensor
> reticulate::py_config()
python: C:\Users\matthew.d.harris\AppData\Local\conda\conda\envs\r-tensorflow\python.exe
libpython: C:/Users/matthew.d.harris/AppData/Local/conda/conda/envs/r-tensorflow/python35.dll
pythonhome: C:\Users\MATTHE~1.HAR\AppData\Local\conda\conda\envs\R-TENS~1
version: 3.5.3 |Continuum Analytics, Inc.| (default, May 15 2017, 10:43:23) [MSC v.1900 64 bit (AMD64)]
Architecture: 64bit
numpy: C:\Users\MATTHE~1.HAR\AppData\Local\conda\conda\envs\R-TENS~1\lib\site-packages\numpy
numpy_version: 1.12.1
tensorflow: C:\Users\MATTHE~1.HAR\AppData\Local\conda\conda\envs\R-TENS~1\lib\site-packages\tensorflow
python versions found:
C:/ProgramData/Anaconda3/python.exe
C:\Users\matthew.d.harris\AppData\Local\conda\conda\envs\r-tensorflow\python.exe
C:\Python27\ARCGIS~1.4\\python.exe
C:\PROGRA~3\ANACON~1\python.exe
> tf_config()
TensorFlow v1.1.0 (C:\Users\MATTHE~1.HAR\AppData\Local\conda\conda\envs\R-TENS~1\lib\site-packages\tensorflow)
Python v3.5 (C:\Users\matthew.d.harris\AppData\Local\conda\conda\envs\r-tensorflow\python.exe)
> sessionInfo()
R version 3.3.2 (2016-10-31)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1
locale:
[1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252
[3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C
[5] LC_TIME=English_United States.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] dplyr_0.5.0 tokenizers_0.1.4 purrr_0.2.2 stringr_1.2.0 readr_1.0.0 tensorflow_0.8.2
[7] keras_0.3.5
loaded via a namespace (and not attached):
[1] Rcpp_0.12.10 assertthat_0.1 SnowballC_0.5.1 R6_2.2.1 jsonlite_1.4 DBI_0.5-1
[7] magrittr_1.5 stringi_1.1.2 reticulate_0.8 tools_3.3.2 tibble_1.2
Sys.setenv(TENSORFLOW_PYTHON="C:/ProgramData/Anaconda3/python.exe")
devtools::install_github("rstudio/keras", force = TRUE)
library(keras)
keras::install_tensorflow()
library("tensorflow")
tensorflow::use_condaenv("r-tensorflow")
# TF test
sess = tf$Session()
hello <- tf$constant('Hello, TensorFlow!')
sess$run(hello)
# keras test
model <- keras_model_sequential()
from keras.
Same here. But I get the error only when running the imdb_lstm.R or cifar10_cnn.R examples. When I run mnist_mlp.R everything goes well. And I also see that when I knit this code in RMarkdown it runs perfectly fine.
> Error in py_call_impl(callable, dots$args, dots$keywords) :
> AttributeError: 'NoneType' object has no attribute 'write'
>
> Detailed traceback:
> File "C:\PROGRA~3\ANACON~1\envs\R-TENS~1\lib\site-packages\tensorflow\contrib\keras\python\keras\models.py", line 1081, in fit_generator
> initial_epoch=initial_epoch)
> File "C:\PROGRA~3\ANACON~1\envs\R-TENS~1\lib\site-packages\tensorflow\contrib\keras\python\keras\engine\training.py", line 1886, in fit_generator
> callbacks.on_batch_end(batch_index, batch_logs)
> File "C:\PROGRA~3\ANACON~1\envs\R-TENS~1\lib\site-packages\tensorflow\contrib\keras\python\keras\callbacks.py", line 131, in on_batch_end
> callback.on_batch_end(batch, logs)
> File "C:\PROGRA~3\ANACON~1\envs\R-TENS~1\lib\site-packages\tensorflow\contrib\keras\python\keras\callbacks.py", line 303, in on_batch_end
> self.progbar.update(self.seen, self.log_values)
> File "C:\PROGRA~3\ANACON~1\envs\R-TENS~1\lib\site-packages\tensorflow\contrib\keras\python\keras\utils\generic_utils.py", line 272, in update
> sys.stdout.write('
> reticulate::py_config()
python: C:\PROGRA~3\ANACON~1/envs/r-tensorflow/python.exe
libpython: C:/PROGRA~3/ANACON~1/envs/r-tensorflow/python35.dll
pythonhome: C:\PROGRA~3\ANACON~1\envs\R-TENS~1
version: 3.5.3 |Continuum Analytics, Inc.| (default, May 15 2017, 10:43:23) [MSC v.1900 64 bit (AMD64)]
Architecture: 64bit
numpy: C:\PROGRA~3\ANACON~1\envs\R-TENS~1\lib\site-packages\numpy
numpy_version: 1.12.1
tensorflow: C:\PROGRA~3\ANACON~1\envs\R-TENS~1\lib\site-packages\tensorflow
python versions found:
C:\PROGRA~3\ANACON~1/envs/r-tensorflow/python.exe
C:\PROGRA~3\ANACON~1\python.exe
C:\PROGRA~3\ANACON~1/envs/keras_tf/python.exe
> tf_config()
TensorFlow v1.1.0 (C:\PROGRA~3\ANACON~1\envs\R-TENS~1\lib\site-packages\tensorflow)
Python v3.5 (C:\PROGRA~3\ANACON~1/envs/r-tensorflow/python.exe)
R version 3.3.3 (2017-03-06)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1
locale:
[1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252
[3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C
[5] LC_TIME=English_United States.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] keras_0.3.6
loaded via a namespace (and not attached):
[1] magrittr_1.5 R6_2.2.1 tools_3.3.3 Rcpp_0.12.8 reticulate_0.8 tensorflow_0.8.2
[7] jsonlite_1.5
from keras.
Great, thank you so much! I'll give this a shot later today. I only use RStudio and for some reason this issue was cropping up there. I'll post an update once I try it out. Thanks again.
from keras.
from keras.
I reproduced the error; did a clean install of devtools::install_github("rstudio/reticulate")
as suggested above; ran the same code & model with no errors. So far so good! Thank you for the fix @jjallaire !
from keras.
I did a clean install of reticulate from github and it's fixed for me now too! Thank you @jjallaire!
from keras.
I am still facing the issue, can anyone please throw some light on it?
I did start a new session and installed reticulate using the provided command but still facing the issue.
from keras.
Same here, some help please
from keras.
Hello, I am facing the same issue with keras, I have done an install of devtools::install_github("rstudio/reticulate") as suggested by @jjallaire but the problem still persist. I am running the code below with the keras package.
str(full_data)
Classes ‘grouped_df’, ‘tbl_df’, ‘tbl’ and 'data.frame': 1309 obs. of 13 variables:
$ survived : num 0 1 1 1 0 0 0 0 1 1 ...
$ pclass : Factor w/ 3 levels "1","2","3": 3 1 3 1 3 3 1 3 3 2 ...
$ sex : Factor w/ 2 levels "female","male": 2 1 1 1 2 2 2 2 1 1 ...
$ ticket : Factor w/ 51 levels "A. 2. ","A./5. ",..: 6 23 45 21 21 21 21 21 21 21 ...
$ cabin : Factor w/ 9 levels "A","B","C","D",..: 8 3 8 3 8 8 5 8 8 8 ...
$ embarked : Factor w/ 4 levels "","C","Q","S": 4 2 4 4 4 3 4 4 4 2 ...
$ fare_factor : Factor w/ 5 levels "1","2","3","4",..: 1 2 1 4 1 1 3 3 3 3 ...
$ age_interval : Factor w/ 6 levels "1","2","3","4",..: 2 4 3 4 4 5 6 1 3 2 ...
$ percent_survive_age : Factor w/ 12 levels "0.0888888888888889",..: 2 11 10 11 3 5 1 7 10 8 ...
$ title : Factor w/ 6 levels "Lady","Miss",..: 3 4 2 4 3 3 3 5 4 4 ...
$ percent_survive_title: Factor w/ 6 levels "0.156673114119923",..: 1 5 4 5 1 1 1 3 5 5 ...
$ fam_size : Factor w/ 9 levels "1","2","3","4",..: 2 2 1 2 1 1 1 5 3 2 ...
$ fam_ID : Factor w/ 176 levels "Abbott_3","Abelson_2",..: 19 40 109 61 109 109 109 130 90 123 ...
- attr(*, "vars")= chr "fam_ID"
- attr(*, "labels")='data.frame': 228 obs. of 1 variable:
..$ fam_ID: chr "Abbott_3" "Abelson_2" "Ahlin_2" "Aks_2" ...
..- attr(*, "vars")= chr "fam_ID"
..- attr(*, "drop")= logi TRUE
- attr(*, "indices")=List of 228
..$ : int 279 746 1283
..$ : int 308 874
..$ : int 40
..$ : int 855 1198
..$ : int 297 305 498 1197
..$ : int 192
..$ : int 13 68 119 541 542 610 813 850 1105
..$ : int 275
..$ : int 518 1081
..$ : int 571
..$ : int 49 353
..$ : int 25 182 233 261 1045 1065 1270
..$ : int 700 1093
..$ : int 206
..$ : int 85
..$ : int 448 469 644 858
..$ : int 362 702
..$ : int 118 299
..$ : int 543 546
..$ : int 183 618 1069 1217
..$ : int 248 871
..$ : int 291 484
..$ : int 140 852 971
..$ : int 188 593 657
..$ : int 356
..$ : int 0 477
..$ : int 670 684 1066 1247
..$ : int 728 1166
..$ : int 78 323 898
..$ : int 578 1257
..$ : int 679 1234
..$ : int 249 854
..$ : int 390 435 763 802
..$ : int 741 987
..$ : int 92 905
..$ : int 724 809
..$ : int 594 1010
..$ : int 166
..$ : int 580 1132
..$ : int 73 1006
..$ : int 1143 1163
..$ : int 426 1219
..$ : int 237 637 801
..$ : int 835 1070 1072
..$ : int 968
..$ : int 348 489 940
..$ : int 160 1016
..$ : int 540 745 1196
..$ : int 1 1125
..$ : int 423 616 1092
..$ : int 671
..$ : int 983
..$ : int 549 565 900 1078 1221
..$ : int 347 949
..$ : int 559 1151
..$ : int 93 788 923 1245
..$ : int 361 906
..$ : int 690 781
..$ : int 445 1184 1265
..$ : int 98 651
..$ : int 544 1130
..$ : int 1075
..$ : int 416 1085 1138
..$ : int 556 599
..$ : int 866 1111
..$ : int 981 1063
..$ : int 1041
..$ : int 352 532 1228
..$ : int 496
..$ : int 53 1168
..$ : int 86 147 436 736 1058
..$ : int 27 88 341 438 944 960
..$ : int 334 1295
..$ : int 660
..$ : int 587 1288
..$ : int 539
..$ : int 3 137
..$ : int 405 1292
..$ : int 1259 1293
..$ : int 861 1261
..$ : int 453 849
..$ : int 165 328 548
..$ : int 59 71 386 480 678 683 1030 1031
..$ : int 268 332
..$ : int 97 1241
..$ : int 104 392
..$ : int 451 490
..$ : int 142 403
..$ : int 247 755
..$ : int 704 1200
..$ : int 860
..$ : int 370 1255
..$ : int 52 645 720 848
..$ : int 62 230
..$ : int 314 440 535
..$ : int 820 1199
..$ : int 615 754 1244 1276
..$ : int 120 655 665
..$ : int 1129
.. [list output truncated]
- attr(*, "drop")= logi TRUE
- attr(*, "group_sizes")= int 3 2 1 2 4 1 9 1 2 1 ...
- attr(*, "biggest_group_size")= int 790
> full_data_dummy <- as.matrix(createDummyFeatures(full_data[1:891,]))
> str(full_data_dummy)
num [1:891, 1:290] 0 1 1 1 0 0 0 0 1 1 ...
- attr(*, "dimnames")=List of 2
..$ : chr [1:891] "1" "2" "3" "4" ...
..$ : chr [1:290] "survived" "pclass.1" "pclass.2" "pclass.3" ...
>
> ## Using keras for deeplearning classification
>
> library(keras)
> ## defining a network with 2 hidden layers with 100 units, using a relu activation in order to initally overfit model
> model <- keras_model_sequential() %>%
+ layer_dense(units = 16, activation = "relu", input_shape = c(289)) %>%
+ layer_dense(units = 16, activation = "relu") %>%
+ layer_dense(units = 1, activation = "sigmoid")
>
> ## spliting train data into train and validation, in order to monitor how much model overfits the train data
> val_indices <- 1:300
> x_val <- full_data_dummy[val_indices,-1]
> x_partial <- full_data_dummy[-val_indices,-1]
> y_val <- full_data_dummy[val_indices,1]
> y_partial <- full_data_dummy[-val_indices,1]
>
> ## compiling model using binary crossenthropy and metrics accuracy
> model %>% compile(
+ optimizer = "rmsprop",
+ loss = "binary_crossentropy",
+ metrics = c("accuracy"))
>
> ## fitting model on training dataset
> history <- model %>% fit(
+ x_partial, y_partial, epochs = 20, batch_size = 50, validation_data = c(x_val,y_val))
Error in py_call_impl(callable, dots$args, dots$keywords) :
ValueError: The truth value of an array with more than one element is ambiguous. Use a.any() or a.all()
from keras.
I get exaclty the same error:
Fehler in py_call_impl(callable, dots$args, dots$keywords): AttributeError: 'NoneType' object has no attribute 'write'
Using keras
application_inception_v3(weights = "imagenet", include_top = FALSE)
I tryed a fresh R session. Then I got at my first attempt:
Error: The h5py Python package is required to use pre-built Keras models
Without any change the second attemp produced the py_call_impl() Error again.
I tryed an new installation of h5py, which did not solve the problem.
> reticulate::py_config()
python: C:\Anaconda3\envs\r-reticulate\python.exe
libpython: C:/Anaconda3/envs/r-reticulate/python36.dll
pythonhome: C:\ANACON~1\envs\R-RETI~1
version: 3.6.9 |Anaconda, Inc.| (default, Jul 30 2019, 14:00:49) [MSC v.1915 64 bit (AMD64)]
Architecture: 64bit
numpy: C:\ANACON~1\envs\R-RETI~1\lib\site-packages\numpy
numpy_version: 1.17.0
tensorflow: C:\ANACON~1\envs\R-RETI~1\lib\site-packages\tensorflow\__init__.p
python versions found:
C:\Anaconda3\envs\r-reticulate\python.exe
C:\ANACON~1\python.exe
C:\Anaconda3\python.exe
C:\Anaconda3\envs\tf-keras\python.exe
>sessionInfo()
R version 3.6.1 (2019-07-05)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 14393)
Matrix products: default
locale:
[1] LC_COLLATE=German_Germany.1252 LC_CTYPE=German_Germany.1252 LC_MONETARY=German_Germany.1252 LC_NUMERIC=C LC_TIME=German_Germany.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] keras_2.2.4.1 reticulate_1.13 TinnRcom_1.0.21 formatR_1.5 svSocket_0.9-57
loaded via a namespace (and not attached):
[1] Rcpp_1.0.2 lattice_0.20-38 zeallot_0.1.0 grid_3.6.1 R6_2.4.0 jsonlite_1.6 magrittr_1.5 tfruns_1.4 whisker_0.3-2 svMisc_1.1.0 Matrix_1.2-17 generics_0.0.2
[13] tools_3.6.1 compiler_3.6.1 base64enc_0.1-3 tensorflow_1.14.0 tcltk_3.6.1
from keras.
This is the only Keras Rstudio that has ever worked for me:
https://irudnyts.github.io/custom-set-up-of-keras-and-tensorflow-for-r-and-python/
It sorted out all attribute problems
from keras.
data <- matrix(runif(1000*100), nrow = 1000, ncol = 100)
data<-scale(data)
data
labels <- matrix(round(runif(1000, min = 0, max = 1)), nrow = 1000, ncol = 1)
labels<-scale(labels)
labels
model <- keras_model_sequential()
add layers and compile the model
model %>%
layer_dense(units = 32, activation = 'relu', input_shape = c(100)) %>%
layer_dense(units = 1, activation = 'sigmoid') %>%
compile(
optimizer = 'rmsprop',
loss = 'binary_crossentropy',
metrics = c('accuracy')
)
hist<-model %>% fit(data, labels, epochs=20, batch_size=32)
model %>% predict(data[1:10,]) %>% round()
**hi @jjallaire I found the solution. Actually Mr kdpSingh did not use feature scaling in this code. I have run his code in my system , I found also same problem. I tried to rave out this problem by using feature scaling, as we take stochastic gradient decent as optimizer, we must need to use feature scaling. It works out finally. However we may use minimax or standardization scaling. By default here I have use scale() function to do so.
I hope it will be helpful for everyone
thanks
from keras.
Hi all, I'm running the code below in R using the keras package.
library(keras) use_condaenv('py35',required=TRUE) reticulate::py_config() tf_config() model <- keras_model_sequential() # add layers and compile the model model %>% layer_dense(units = 32, activation = 'relu', input_shape = c(100)) %>% layer_dense(units = 1, activation = 'sigmoid') %>% compile( optimizer = 'rmsprop', loss = 'binary_crossentropy', metrics = c('accuracy') ) # Generate dummy data data <- matrix(runif(1000*100), nrow = 1000, ncol = 100) labels <- matrix(round(runif(1000, min = 0, max = 1)), nrow = 1000, ncol = 1) # Train the model, iterating on the data in batches of 32 samples model %>% fit(data, labels, epochs=20, batch_size=32) # output predictions for first 10 rows model %>% predict(data[1:10,]) %>% round() # session info devtools::session_info()
When I get to the line fitting the model (
model %>% fit(data, labels, epochs=20, batch_size=32)
), my script produces the following error:Error in py_call_impl(callable, dots$args, dots$keywords) : AttributeError: 'NoneType' object has no attribute 'write' Detailed traceback: File "C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35\lib\site-packages\tensorflow\contrib\keras\python\keras\models.py", line 835, in fit initial_epoch=initial_epoch) File "C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35\lib\site-packages\tensorflow\contrib\keras\python\keras\engine\training.py", line 1494, in fit initial_epoch=initial_epoch) File "C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35\lib\site-packages\tensorflow\contrib\keras\python\keras\engine\training.py", line 1144, in _fit_loop callbacks.on_batch_end(batch_index, batch_logs) File "C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35\lib\site-packages\tensorflow\contrib\keras\python\keras\callbacks.py", line 131, in on_batch_end callback.on_batch_end(batch, logs) File "C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35\lib\site-packages\tensorflow\contrib\keras\python\keras\callback
Strangely, when I compile/knit this as a report, everything works fine the FIRST time but then the error recurs. Any ideas what could be causing this?
Here's the output from py_config, tf_config, and session_info.
> reticulate::py_config() python: C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35\python.exe libpython: C:/Users/kdpsingh/AppData/Local/conda/conda/envs/py35/python35.dll pythonhome: C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35 version: 3.5.3 |Anaconda 4.4.0 (64-bit)| (default, May 15 2017, 10:43:23) [MSC v.1900 64 bit (AMD64)] Architecture: 64bit numpy: C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35\lib\site-packages\numpy numpy_version: 1.12.1 tensorflow: C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35\lib\site-packages\tensorflow python versions found: C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35\python.exe C:\PROGRA~3\ANACON~1\python.exe > tf_config() TensorFlow v1.1.0 (C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35\lib\site-packages\tensorflow) Python v3.5 (C:\Users\kdpsingh\AppData\Local\conda\conda\envs\py35\python.exe) > devtools::session_info() Session info --------------------------------------------------------------------------------- setting value version R version 3.3.2 (2016-10-31) system x86_64, mingw32 ui RStudio (1.0.136) language (EN) collate English_United States.1252 tz America/New_York date 2017-06-06 Packages ------------------------------------------------------------------------------------- package * version date source backports 1.0.4 2016-10-24 CRAN (R 3.3.2) devtools 1.12.0 2016-06-24 CRAN (R 3.3.3) digest 0.6.10 2016-08-02 CRAN (R 3.3.2) evaluate 0.10 2016-10-11 CRAN (R 3.3.2) htmltools 0.3.5 2016-03-21 CRAN (R 3.3.2) jsonlite 1.5 2017-06-01 CRAN (R 3.3.3) keras * 0.3.6 2017-06-05 Github (rstudio/keras@023d109) knitr 1.15.1 2016-11-22 CRAN (R 3.3.2) magrittr 1.5 2014-11-22 CRAN (R 3.3.2) memoise 1.0.0 2016-01-29 CRAN (R 3.3.3) R6 2.2.1 2017-05-10 CRAN (R 3.3.3) Rcpp 0.12.7 2016-09-05 CRAN (R 3.3.2) reticulate 0.8 2017-05-22 CRAN (R 3.3.3) rmarkdown 1.3 2016-12-21 CRAN (R 3.3.2) rprojroot 1.1 2016-10-29 CRAN (R 3.3.2) rstudioapi 0.6 2016-06-27 CRAN (R 3.3.3) stringi 1.1.2 2016-10-01 CRAN (R 3.3.2) stringr 1.1.0 2016-08-19 CRAN (R 3.3.2) tensorflow 0.8.2 2017-06-05 Github (rstudio/tensorflow@bace720) withr 1.0.2 2016-06-20 CRAN (R 3.3.3)
data <- matrix(runif(1000*100), nrow = 1000, ncol = 100)
data<-scale(data)
data
labels <- matrix(round(runif(1000, min = 0, max = 1)), nrow = 1000, ncol = 1)
labels<-scale(labels)
labels
model <- keras_model_sequential()
add layers and compile the model
model %>%
layer_dense(units = 32, activation = 'relu', input_shape = c(100)) %>%
layer_dense(units = 1, activation = 'sigmoid') %>%
compile(
optimizer = 'rmsprop',
loss = 'binary_crossentropy',
metrics = c('accuracy')
)
hist<-model %>% fit(data, labels, epochs=20, batch_size=32)
model %>% predict(data[1:10,]) %>% round()
``
from keras.
Hope this helps!
I had the same error, but in my case it was a multi-classification problem, so my loss function was: categorical_crossentropy.
Don't undestand why, but problem was solved by changing my loss function to: sparse_categorical_crossentropy
from keras.
from keras.
I am having the same problem. my code and error follow:
library(reticulate)
nx<-import("networkx")
py_config()
G1 <- nx$cycle_graph(6L)
G2 <- nx$wheel_graph(7L)
nx$graph_edit_distance(G1,G2)
Error in py_call_impl(callable, dots$args, dots$keywords)
Anyone has any suggestions?
from keras.
Hello guys i came up with a solution to the error message here you will have to convert all the factor variable whether the target variable or the predictors to numeric using one-hot-coding then rebuild the model it will run prefectly
from keras.
from keras.
the results to my model
from keras.
Related Issues (20)
- Rounding errors when using set_weight HOT 2
- Installation Issue on win10: (NameError: name 'base_events' is not defined) HOT 6
- Why wrap the `metric_mean_squared_error` as `mean_absolute_percentage_error`? HOT 1
- trouble installing Tensorflow HOT 6
- Errors ! installing and running Tensorflow in R Studio on windows 10 HOT 8
- Error install_keras() HOT 2
- Fatal Error when running tensorflow HOT 2
- the question of "model$layers$output" HOT 4
- Help needed - Installation Issue HOT 4
- ignore one class subfolder while using image_dataset_from_directory() function HOT 10
- disable SSL verification when installing keras and tensorflow for R? HOT 2
- LSTM-FNN example does not work anymore HOT 5
- Prediction Issue HOT 8
- Installation Issue HOT 3
- Release keras3 0.1.0
- Running R Keras model with custom loss crash when run twice on different data sets HOT 3
- After update, MWE does not produce same/similar output anymore (fit() or predict() problem) HOT 2
- Installation Issue HOT 7
- metric_binary_iou is not available HOT 2
- layer_dense() error : ValueError HOT 2
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from keras.