theammn
commented
1 month ago hi it's still not working when i try to load the environment saying that there are some conflicts in the packages
Open theammn opened 2 months ago
theammn
commented
1 month ago hi it's still not working when i try to load the environment saying that there are some conflicts in the packages
hi again!
i was able to run it to predict 3 proteins-protein interactions for my project and it worked, thanks!! but then i wanted to do it again with more proteins and it passed the 2 first stages of the code but when it arrived at the stage 3 : "Predict" I got this error :
Running pred 1 out of 1 2024-05-02 22:56:04.344415: W external/org_tensorflow/tensorflow/tsl/platform/default/dso_loader.cc:66] Could not load dynamic library 'libcudart.so.11.0'; dlerror: libcudart.so.11.0: cannot open shared object file: No such file or directory; LD_LIBRARY_PATH: /usr/share/lsf/10.1/linux3.10-glibc2.17-x86_64/lib:/apps/easybd/easybuild/software/snappy/1.1.9-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libpng/1.6.37-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/protobuf/3.17.3-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/nsync/1.24.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/LMDB/0.9.29-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libjpeg-turbo/2.0.6-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/JsonCpp/1.9.4-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/ICU/69.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/giflib/5.2.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/flatbuffers/2.0.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/double-conversion/3.1.5-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/cURL/7.78.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/HDF5/1.12.1-gompi-2021b/lib:/apps/easybd/easybuild/software/Szip/2.1.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/SciPy-bundle/2021.10-foss-2021b/lib/python3.9/site-packages/numpy/core/lib:/apps/easybd/easybuild/software/Python/3.9.6-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libffi/3.4.2-GCCcore-11.2.0/lib64:/apps/easybd/easybuild/software/GMP/6.2.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/SQLite/3.36-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/Tcl/8.6.11-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libreadline/8.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/ncurses/6.2-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/bzip2/1.0.8-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/ScaLAPACK/2.1.0-gompi-2021b-fb/lib:/apps/easybd/easybuild/software/FFTW/3.3.10-gompi-2021b/lib:/apps/easybd/easybuild/software/FlexiBLAS/3.0.4-GCC-11.2.0/lib:/apps/easybd/easybuild/software/OpenBLAS/0.3.18-GCC-11.2.0/lib:/apps/easybd/easybuild/software/OpenMPI/4.1.1-GCC-11.2.0/lib:/apps/easybd/easybuild/software/PMIx/4.1.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/UCX/1.11.2-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libevent/2.1.12-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/OpenSSL/1.1/lib:/apps/easybd/easybuild/software/hwloc/2.5.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libpciaccess/0.16-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libxml2/2.9.10-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/XZ/5.2.5-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/numactl/2.0.14-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/binutils/2.37-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/zlib/1.2.11-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/GCCcore/11.2.0/lib64 2024-05-02 22:56:05.118459: W external/org_tensorflow/tensorflow/tsl/platform/default/dso_loader.cc:66] Could not load dynamic library 'libcudart.so.11.0'; dlerror: libcudart.so.11.0: cannot open shared object file: No such file or directory; LD_LIBRARY_PATH: /usr/share/lsf/10.1/linux3.10-glibc2.17-x86_64/lib:/apps/easybd/easybuild/software/snappy/1.1.9-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libpng/1.6.37-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/protobuf/3.17.3-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/nsync/1.24.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/LMDB/0.9.29-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libjpeg-turbo/2.0.6-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/JsonCpp/1.9.4-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/ICU/69.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/giflib/5.2.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/flatbuffers/2.0.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/double-conversion/3.1.5-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/cURL/7.78.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/HDF5/1.12.1-gompi-2021b/lib:/apps/easybd/easybuild/software/Szip/2.1.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/SciPy-bundle/2021.10-foss-2021b/lib/python3.9/site-packages/numpy/core/lib:/apps/easybd/easybuild/software/Python/3.9.6-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libffi/3.4.2-GCCcore-11.2.0/lib64:/apps/easybd/easybuild/software/GMP/6.2.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/SQLite/3.36-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/Tcl/8.6.11-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libreadline/8.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/ncurses/6.2-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/bzip2/1.0.8-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/ScaLAPACK/2.1.0-gompi-2021b-fb/lib:/apps/easybd/easybuild/software/FFTW/3.3.10-gompi-2021b/lib:/apps/easybd/easybuild/software/FlexiBLAS/3.0.4-GCC-11.2.0/lib:/apps/easybd/easybuild/software/OpenBLAS/0.3.18-GCC-11.2.0/lib:/apps/easybd/easybuild/software/OpenMPI/4.1.1-GCC-11.2.0/lib:/apps/easybd/easybuild/software/PMIx/4.1.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/UCX/1.11.2-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libevent/2.1.12-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/OpenSSL/1.1/lib:/apps/easybd/easybuild/software/hwloc/2.5.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libpciaccess/0.16-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libxml2/2.9.10-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/XZ/5.2.5-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/numactl/2.0.14-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/binutils/2.37-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/zlib/1.2.11-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/GCCcore/11.2.0/lib64 2024-05-02 22:56:05.155585: W external/org_tensorflow/tensorflow/tsl/platform/default/dso_loader.cc:66] Could not load dynamic library 'libcudart.so.11.0'; dlerror: libcudart.so.11.0: cannot open shared object file: No such file or directory; LD_LIBRARY_PATH: /usr/share/lsf/10.1/linux3.10-glibc2.17-x86_64/lib:/apps/easybd/easybuild/software/snappy/1.1.9-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libpng/1.6.37-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/protobuf/3.17.3-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/nsync/1.24.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/LMDB/0.9.29-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libjpeg-turbo/2.0.6-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/JsonCpp/1.9.4-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/ICU/69.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/giflib/5.2.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/flatbuffers/2.0.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/double-conversion/3.1.5-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/cURL/7.78.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/HDF5/1.12.1-gompi-2021b/lib:/apps/easybd/easybuild/software/Szip/2.1.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/SciPy-bundle/2021.10-foss-2021b/lib/python3.9/site-packages/numpy/core/lib:/apps/easybd/easybuild/software/Python/3.9.6-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libffi/3.4.2-GCCcore-11.2.0/lib64:/apps/easybd/easybuild/software/GMP/6.2.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/SQLite/3.36-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/Tcl/8.6.11-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libreadline/8.1-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/ncurses/6.2-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/bzip2/1.0.8-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/ScaLAPACK/2.1.0-gompi-2021b-fb/lib:/apps/easybd/easybuild/software/FFTW/3.3.10-gompi-2021b/lib:/apps/easybd/easybuild/software/FlexiBLAS/3.0.4-GCC-11.2.0/lib:/apps/easybd/easybuild/software/OpenBLAS/0.3.18-GCC-11.2.0/lib:/apps/easybd/easybuild/software/OpenMPI/4.1.1-GCC-11.2.0/lib:/apps/easybd/easybuild/software/PMIx/4.1.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/UCX/1.11.2-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libevent/2.1.12-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/OpenSSL/1.1/lib:/apps/easybd/easybuild/software/hwloc/2.5.0-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libpciaccess/0.16-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/libxml2/2.9.10-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/XZ/5.2.5-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/numactl/2.0.14-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/binutils/2.37-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/zlib/1.2.11-GCCcore-11.2.0/lib:/apps/easybd/easybuild/software/GCCcore/11.2.0/lib64
and when i try to reinstall tensorflow i got :
ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts. tensorflow 2.8.4 requires keras<2.9,>=2.8.0rc0, but you have keras 2.12.0 which is incompatible. tensorflow 2.8.4 requires protobuf<3.20,>=3.9.2, but you have protobuf 4.25.3 which is incompatible. tensorflow 2.8.4 requires tensorboard<2.9,>=2.8, but you have tensorboard 2.12.3 which is incompatible. tensorflow 2.8.4 requires tensorflow-estimator<2.9,>=2.8, but you have tensorflow-estimator 2.12.0 which is incompatible. pythran 0.10.0 requires gast~=0.5.0, but you have gast 0.4.0 which is incompatible. beniget 0.4.1 requires gast~=0.5.0, but you have gast 0.4.0 which is incompatible. Successfully installed gast-0.4.0 google-auth-2.29.0 google-auth-oauthlib-1.0.0 grpcio-1.63.0 keras-2.12.0 numpy-1.22.4 protobuf-4.25.3 tensorboard-2.12.3 tensorboard-data-server-0.7.2 tensorflow-estimator-2.12.0 WARNING: You are using pip version 21.2.2; however, version 24.0 is available. You should consider upgrading via the '/apps/easybd/easybuild/software/Python/3.9.6-GCCcore-11.2.0/bin/python3.9 -m pip install --upgrade pip' command.
do you know how to manage this issue ?
thank you!!