library(ANTsRNet)
library(ANTsR)
#> Loading required package: ANTsRCore
#>
#> Attaching package: 'ANTsRCore'
#> The following objects are masked from 'package:stats':
#>
#> sd, var
#> The following objects are masked from 'package:base':
#>
#> all, any, apply, max, min, prod, range, sum
img <- ri( 1 ) %>% resampleImage( c(4,4) ) %>% iMath( "Normalize" )
mask = randomMask( getMask( img ), 50 )
r = c( 3, 3 )
patch = getNeighborhoodInMask( img, mask, r, boundary.condition = "NA" )
uvaSegModel = uvaSegTrain( patch, 6 )
#> Error in py_call_impl(callable, dots$args, dots$keywords): _SymbolicException: Inputs to eager execution function cannot be Keras symbolic tensors, but found [<tf.Tensor 'dense_2/Identity:0' shape=(None, 6) dtype=float32>, <tf.Tensor 'dense_1/Identity:0' shape=(None, 6) dtype=float32>]
#>
#> Detailed traceback:
#> File "/Users/johnmuschelli/.virtualenvs/r-reticulate/lib/python3.7/site-packages/tensorflow_core/python/keras/engine/training.py", line 728, in fit
#> use_multiprocessing=use_multiprocessing)
#> File "/Users/johnmuschelli/.virtualenvs/r-reticulate/lib/python3.7/site-packages/tensorflow_core/python/keras/engine/training_v2.py", line 324, in fit
#> total_epochs=epochs)
#> File "/Users/johnmuschelli/.virtualenvs/r-reticulate/lib/python3.7/site-packages/tensorflow_core/python/keras/engine/training_v2.py", line 123, in run_one_epoch
#> batch_outs = execution_function(iterator)
#> File "/Users/johnmuschelli/.virtualenvs/r-reticulate/lib/python3.7/site-packages/tensorflow_core/python/keras/engine/training_v2_utils.py", line 86, in execution_function
#> distributed_function(input_fn))
#> File "/Users/johnmuschelli/.virtualenvs/r-reticulate/lib/python3.7/site-packages/tensorflow_core/python/eager/def_function.py", line 457, in __call__
#> result = self._call(*args, **kwds)
#> File "/Users/johnmuschelli/.virtualenvs/r-reticulate/lib/python3.7/site-packages/tensorflow_core/python/eager/def_function.py", line 520, in _call
#> return self._stateless_fn(*args, **kwds)
#> File "/Users/johnmuschelli/.virtualenvs/r-reticulate/lib/python3.7/site-packages/tensorflow_core/python/eager/function.py", line 1823, in __call__
#> return graph_function._filtered_call(args, kwargs) # pylint: disable=protected-access
#> File "/Users/johnmuschelli/.virtualenvs/r-reticulate/lib/python3.7/site-packages/tensorflow_core/python/eager/function.py", line 1141, in _filtered_call
#> self.captured_inputs)
#> File "/Users/johnmuschelli/.virtualenvs/r-reticulate/lib/python3.7/site-packages/tensorflow_core/python/eager/function.py", line 1224, in _call_flat
#> ctx, args, cancellation_manager=cancellation_manager)
#> File "/Users/johnmuschelli/.virtualenvs/r-reticulate/lib/python3.7/site-packages/tensorflow_core/python/eager/function.py", line 511, in call
#> ctx=ctx)
#> File "/Users/johnmuschelli/.virtualenvs/r-reticulate/lib/python3.7/site-packages/tensorflow_core/python/eager/execute.py", line 75, in quick_execute
#> "tensors, but found {}".format(keras_symbolic_tensors))Created on 2020-01-30 by the reprex package (v0.3.0.9001)
Session info
sessioninfo::session_info()
#> ─ Session info ───────────────────────────────────────────────────────────────
#> setting value
#> version R version 3.6.0 (2019-04-26)
#> os macOS Mojave 10.14.6
#> system x86_64, darwin15.6.0
#> ui X11
#> language (EN)
#> collate en_US.UTF-8
#> ctype en_US.UTF-8
#> tz America/New_York
#> date 2020-01-30
#>
#> ─ Packages ───────────────────────────────────────────────────────────────────
#> package * version date lib source
#> ANTsR * 0.5.4.2 2019-11-14 [1] local
#> ANTsRCore * 0.7.3 2019-12-11 [1] Github (ANTsX/ANTsRCore@416d8f1)
#> ANTsRNet * 1.1 2020-01-30 [1] local
#> assertthat 0.2.1 2019-03-21 [1] CRAN (R 3.6.0)
#> backports 1.1.5 2019-10-02 [1] CRAN (R 3.6.0)
#> base64enc 0.1-3 2015-07-28 [1] CRAN (R 3.6.0)
#> cli 2.0.1 2020-01-08 [1] CRAN (R 3.6.0)
#> crayon 1.3.4 2017-09-16 [1] CRAN (R 3.6.0)
#> digest 0.6.23 2019-11-23 [1] CRAN (R 3.6.0)
#> evaluate 0.14 2019-05-28 [1] CRAN (R 3.6.0)
#> fansi 0.4.1 2020-01-08 [1] CRAN (R 3.6.0)
#> fs 1.3.1 2019-05-06 [1] CRAN (R 3.6.0)
#> generics 0.0.2 2018-11-29 [1] CRAN (R 3.6.0)
#> glue 1.3.1 2019-03-12 [1] CRAN (R 3.6.0)
#> highr 0.8 2019-03-20 [1] CRAN (R 3.6.0)
#> htmltools 0.4.0 2019-10-04 [1] CRAN (R 3.6.0)
#> ITKR 0.5.2 2019-11-05 [1] Github (stnava/ITKR@fe97efa)
#> jsonlite 1.6 2018-12-07 [1] CRAN (R 3.6.0)
#> keras 2.2.5.0 2019-10-08 [1] CRAN (R 3.6.0)
#> knitr 1.26.1 2020-01-05 [1] Github (muschellij2/knitr@f5af631)
#> lattice 0.20-38 2018-11-04 [1] CRAN (R 3.6.0)
#> magrittr 1.5 2014-11-22 [1] CRAN (R 3.6.0)
#> Matrix 1.2-17 2019-03-22 [1] CRAN (R 3.6.0)
#> mvtnorm 1.0-11 2019-06-19 [1] CRAN (R 3.6.0)
#> pillar 1.4.3 2019-12-20 [1] CRAN (R 3.6.0)
#> pkgconfig 2.0.3 2019-09-22 [1] CRAN (R 3.6.0)
#> purrr 0.3.3 2019-10-18 [1] CRAN (R 3.6.0)
#> R6 2.4.1 2019-11-12 [1] CRAN (R 3.6.0)
#> Rcpp 1.0.3 2019-11-08 [1] CRAN (R 3.6.0)
#> RcppEigen 0.3.3.7.0 2019-11-16 [1] CRAN (R 3.6.0)
#> reprex 0.3.0.9001 2020-01-05 [1] Github (tidyverse/reprex@5ae0b29)
#> reticulate 1.13 2019-07-24 [1] CRAN (R 3.6.0)
#> rlang 0.4.2 2019-11-23 [1] CRAN (R 3.6.0)
#> rmarkdown 2.0.7 2020-01-17 [1] Github (rstudio/rmarkdown@2faf16a)
#> rstudioapi 0.10.0-9003 2020-01-05 [1] Github (rstudio/rstudioapi@abe596d)
#> sessioninfo 1.1.1 2018-11-05 [1] CRAN (R 3.6.0)
#> stringi 1.4.5 2020-01-11 [1] CRAN (R 3.6.0)
#> stringr 1.4.0 2019-02-10 [1] CRAN (R 3.6.0)
#> styler 1.1.1 2019-05-06 [1] CRAN (R 3.6.0)
#> tensorflow 2.0.0 2019-10-02 [1] CRAN (R 3.6.0)
#> tfruns 1.4 2018-08-25 [1] CRAN (R 3.6.0)
#> tibble 2.1.3 2019-06-06 [1] CRAN (R 3.6.0)
#> whisker 0.4 2019-08-28 [1] CRAN (R 3.6.0)
#> withr 2.1.2 2018-03-15 [1] CRAN (R 3.6.0)
#> xfun 0.11 2019-11-12 [1] CRAN (R 3.6.0)
#> yaml 2.2.0 2018-07-25 [1] CRAN (R 3.6.0)
#> zeallot 0.1.0 2018-01-28 [1] CRAN (R 3.6.0)
#>
#> [1] /Library/Frameworks/R.framework/Versions/3.6/Resources/library
Created on 2020-01-30 by the reprex package (v0.3.0.9001)
Session info