Conflict between Numpy 1.19 and Keras

[theheking]

I am currently using tensorflow==2.2 and keras==2.4.3 with Janggu in conda environment supplied below. My environment runs smoothly until I apply a Bidirectional LSTM keras layer. This outputs a an error NotImplementedError: Cannot convert a symbolic Tensor (bidirectional/forward_lstm/strided_slice:0) to a numpy array.

I then downgrade my numpy installation from 1.21 to 1.19.5 which then results in conflicts with keras.
The error that results is:
ValueError: validation_split is only supported for Tensors or NumPy arrays, found: ([Bioseq("dna"), ReduceDim(Cover('rna')), ReduceDim(Cover('H3K4me3'))], ReduceDim(Cover('cage')), None)

Do you have any recommendations on how to resolve these issues. I cannot utilise tensorflow==1.14 and keras==2.2 due to hpc limitations.

Thank you so much!!

`# packages in environment at /share/anaconda3/envs/janggu:

Name Version Build Channel

_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 1_gnu conda-forge
absl-py 1.0.0 pypi_0 pypi
astunparse 1.6.3 pypi_0 pypi
atk 2.36.0 ha770c72_4 conda-forge
atk-1.0 2.36.0 h516909a_2 conda-forge
bedtools 2.30.0 h468198e_3 bioconda
biopython 1.77 py37h8f50634_1 conda-forge
bottleneck 1.3.4 py37hda87dfa_1 conda-forge
brotli 1.0.9 h166bdaf_7 conda-forge
brotli-bin 1.0.9 h166bdaf_7 conda-forge
bzip2 1.0.8 h7f98852_4 conda-forge
ca-certificates 2021.10.8 ha878542_0 conda-forge
cachetools 4.2.4 pypi_0 pypi
cairo 1.16.0 h18b612c_1001 conda-forge
certifi 2021.10.8 py37h89c1867_2 conda-forge
charset-normalizer 2.0.12 pypi_0 pypi
curl 7.64.0 h646f8bb_0 conda-forge
cycler 0.11.0 pyhd8ed1ab_0 conda-forge
dbus 1.13.6 he372182_0 conda-forge
expat 2.4.8 h27087fc_0 conda-forge
fontconfig 2.14.0 h8e229c2_0 conda-forge
fonttools 4.32.0 py37h540881e_0 conda-forge
freetype 2.10.4 h0708190_1 conda-forge
fribidi 1.0.10 h36c2ea0_0 conda-forge
gast 0.3.3 pypi_0 pypi
gdk-pixbuf 2.38.2 h3f25603_4 conda-forge
gettext 0.19.8.1 hf34092f_1004 conda-forge
glib 2.66.1 h680cd38_0 conda-forge
gobject-introspection 1.66.1 py37h619baee_1 conda-forge
google-auth 1.35.0 pypi_0 pypi
google-auth-oauthlib 0.4.6 pypi_0 pypi
google-pasta 0.2.0 pypi_0 pypi
graphite2 1.3.13 h58526e2_1001 conda-forge
graphviz 2.42.3 h0511662_0 conda-forge
grpcio 1.44.0 pypi_0 pypi
gstreamer 1.14.5 h36ae1b5_2 conda-forge
gtk2 2.24.32 h90f3771_0 conda-forge
h5py 2.10.0 nompi_py37h513d04c_102 conda-forge
harfbuzz 2.4.0 h37c48d4_1 conda-forge
hdf5 1.10.5 nompi_h5b725eb_1114 conda-forge
icu 58.2 hf484d3e_1000 conda-forge
idna 3.3 pypi_0 pypi
importlib-metadata 4.11.3 pypi_0 pypi
janggu 0.10.2 pypi_0 pypi
joblib 1.1.0 pyhd8ed1ab_0 conda-forge
jpeg 9e h166bdaf_1 conda-forge
keras 2.4.3 pypi_0 pypi
keras-preprocessing 1.1.2 pypi_0 pypi
kiwisolver 1.4.2 py37h7cecad7_1 conda-forge
krb5 1.16.3 hc83ff2d_1000 conda-forge
lcms2 2.12 hddcbb42_0 conda-forge
libblas 3.9.0 14_linux64_openblas conda-forge
libbrotlicommon 1.0.9 h166bdaf_7 conda-forge
libbrotlidec 1.0.9 h166bdaf_7 conda-forge
libbrotlienc 1.0.9 h166bdaf_7 conda-forge
libcblas 3.9.0 14_linux64_openblas conda-forge
libcurl 7.64.0 h01ee5af_0 conda-forge
libdeflate 1.6 h516909a_0 conda-forge
libedit 3.1.20191231 he28a2e2_2 conda-forge
libffi 3.2.1 he1b5a44_1007 conda-forge
libgcc-ng 11.2.0 h1d223b6_15 conda-forge
libgfortran-ng 11.2.0 h69a702a_15 conda-forge
libgfortran5 11.2.0 h5c6108e_15 conda-forge
libgomp 11.2.0 h1d223b6_15 conda-forge
libiconv 1.16 h516909a_0 conda-forge
liblapack 3.9.0 14_linux64_openblas conda-forge
libopenblas 0.3.20 pthreads_h78a6416_0 conda-forge
libpng 1.6.37 h21135ba_2 conda-forge
libssh2 1.8.0 h1ad7b7a_1003 conda-forge
libstdcxx-ng 11.2.0 he4da1e4_15 conda-forge
libtiff 4.2.0 hf544144_3 conda-forge
libtool 2.4.6 h9c3ff4c_1008 conda-forge
libuuid 2.32.1 h7f98852_1000 conda-forge
libwebp-base 1.2.2 h7f98852_1 conda-forge
libxcb 1.13 h7f98852_1004 conda-forge
libxml2 2.9.9 h13577e0_2 conda-forge
libzlib 1.2.11 h166bdaf_1014 conda-forge
lz4-c 1.9.3 h9c3ff4c_1 conda-forge
markdown 3.3.6 pypi_0 pypi
matplotlib 3.5.1 py37h89c1867_0 conda-forge
matplotlib-base 3.5.1 py37h1058ff1_0 conda-forge
munkres 1.1.4 pyh9f0ad1d_0 conda-forge
ncurses 6.3 h27087fc_1 conda-forge
nomkl 1.0 h5ca1d4c_0 conda-forge
numexpr 2.8.0 py37h85a3170_102 conda-forge
numpy 1.21.6 py37h976b520_0 conda-forge
oauthlib 3.2.0 pypi_0 pypi
olefile 0.46 pyh9f0ad1d_1 conda-forge
openjpeg 2.4.0 hb52868f_1 conda-forge
openssl 1.0.2u h516909a_0 conda-forge
opt-einsum 3.3.0 pypi_0 pypi
packaging 21.3 pyhd8ed1ab_0 conda-forge
pandas 1.3.5 py37h8c16a72_0
pango 1.42.4 h7062337_4 conda-forge
patsy 0.5.2 pyhd8ed1ab_0 conda-forge
pcre 8.45 h9c3ff4c_0 conda-forge
pillow 8.2.0 py37h4600e1f_1 conda-forge
pip 22.0.4 pyhd8ed1ab_0 conda-forge
pixman 0.38.0 h516909a_1003 conda-forge
progress 1.6 pyhd8ed1ab_0 conda-forge
protobuf 3.20.0 pypi_0 pypi
pthread-stubs 0.4 h36c2ea0_1001 conda-forge
pyasn1 0.4.8 pypi_0 pypi
pyasn1-modules 0.2.8 pypi_0 pypi
pybedtools 0.9.0 py37h595c7a6_1 bioconda
pybigwig 0.3.13 py37h5295baf_2 bioconda
pydot 1.4.2 py37h89c1867_1 conda-forge
pyparsing 3.0.8 pyhd8ed1ab_0 conda-forge
pyqt 5.6.0 py37h13b7fb3_1008 conda-forge
pysam 0.15.4 pypi_0 pypi
python 3.7.0 hd21baee_1006 conda-forge
python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge
python_abi 3.7 2_cp37m conda-forge
pytz 2022.1 pyhd8ed1ab_0 conda-forge
pyyaml 6.0 pypi_0 pypi
qt 5.6.2 hce4f676_1013 conda-forge
readline 7.0 hf8c457e_1001 conda-forge
requests 2.27.1 pypi_0 pypi
requests-oauthlib 1.3.1 pypi_0 pypi
rsa 4.8 pypi_0 pypi
scikit-learn 1.0.2 py37hf9e9bfc_0 conda-forge
scipy 1.4.1 pypi_0 pypi
seaborn 0.11.2 hd8ed1ab_0 conda-forge
seaborn-base 0.11.2 pyhd8ed1ab_0 conda-forge
setuptools 62.1.0 py37h89c1867_0 conda-forge
sip 4.18.1 py37hf484d3e_1000 conda-forge
six 1.16.0 pyh6c4a22f_0 conda-forge
sqlite 3.28.0 h8b20d00_0 conda-forge
statsmodels 0.13.2 py37hb1e94ed_0 conda-forge
tensorboard 2.2.2 pypi_0 pypi
tensorboard-plugin-wit 1.8.1 pypi_0 pypi
tensorflow 2.2.0 pypi_0 pypi
tensorflow-estimator 2.2.0 pypi_0 pypi
termcolor 1.1.0 pypi_0 pypi
threadpoolctl 3.1.0 pyh8a188c0_0 conda-forge
tk 8.6.12 h27826a3_0 conda-forge
tornado 6.1 py37h540881e_3 conda-forge
typing-extensions 4.2.0 hd8ed1ab_0 conda-forge
typing_extensions 4.2.0 pyha770c72_0 conda-forge
unicodedata2 14.0.0 py37h540881e_1 conda-forge
urllib3 1.26.9 pypi_0 pypi
werkzeug 2.1.1 pypi_0 pypi
wheel 0.37.1 pyhd8ed1ab_0 conda-forge
wrapt 1.14.0 pypi_0 pypi
xorg-kbproto 1.0.7 h7f98852_1002 conda-forge
xorg-libice 1.0.10 h7f98852_0 conda-forge
xorg-libsm 1.2.3 hd9c2040_1000 conda-forge
xorg-libx11 1.7.2 h7f98852_0 conda-forge
xorg-libxau 1.0.9 h7f98852_0 conda-forge
xorg-libxdmcp 1.1.3 h7f98852_0 conda-forge
xorg-libxext 1.3.4 h7f98852_1 conda-forge
xorg-libxpm 3.5.13 h7f98852_0 conda-forge
xorg-libxrender 0.9.10 h7f98852_1003 conda-forge
xorg-libxt 1.2.1 h7f98852_2 conda-forge
xorg-renderproto 0.11.1 h7f98852_1002 conda-forge
xorg-xextproto 7.3.0 h7f98852_1002 conda-forge
xorg-xproto 7.0.31 h7f98852_1007 conda-forge
xz 5.2.5 h516909a_1 conda-forge
zipp 3.8.0 pypi_0 pypi
zlib 1.2.11 h166bdaf_1014 conda-forge
zstd 1.5.2 ha95c52a_0 conda-forge`