MRXS Slide Ramdisk buffer Bug

Description

During tile extraction the ramdisk buffer feature is not compatible with MRXS format slides given they are made of multiple files unlike .svs

To Reproduce

Steps to reproduce the behavior:

Extract with ramdisk buffer

Expected behavior

Flag buffer as incompatible with MRXS files prior to extraction

Environment:

name: slideflow2 channels:

pytorch
conda-forge
defaults dependencies:
_libgcc_mutex=0.1=main
_openmp_mutex=5.1=1_gnu
blas=1.0=mkl
brotlipy=0.7.0=py39h27cfd23_1003
bzip2=1.0.8=h7b6447c_0
ca-certificates=2023.01.10=h06a4308_0
certifi=2022.9.24=py39h06a4308_0
cffi=1.15.1=py39h74dc2b5_0
charset-normalizer=2.0.4=pyhd3eb1b0_0
cryptography=38.0.1=py39h9ce1e76_0
cudatoolkit=11.3.1=h2bc3f7f_2
ffmpeg=4.3=hf484d3e_0
freetype=2.12.1=h4a9f257_0
giflib=5.2.1=h7b6447c_0
gmp=6.2.1=h295c915_3
gnutls=3.6.15=he1e5248_0
intel-openmp=2021.4.0=h06a4308_3561
jpeg=9e=h7f8727e_0
lame=3.100=h7b6447c_0
lcms2=2.12=h3be6417_0
ld_impl_linux-64=2.38=h1181459_1
lerc=3.0=h295c915_0
libblas=3.9.0=12_linux64_mkl
libcblas=3.9.0=12_linux64_mkl
libdeflate=1.8=h7f8727e_5
libffi=3.3=he6710b0_2
libgcc-ng=11.2.0=h1234567_1
libgomp=11.2.0=h1234567_1
libiconv=1.16=h7f8727e_2
libidn2=2.3.2=h7f8727e_0
liblapack=3.9.0=12_linux64_mkl
libpng=1.6.37=hbc83047_0
libstdcxx-ng=11.2.0=h1234567_1
libtasn1=4.16.0=h27cfd23_0
libtiff=4.4.0=hecacb30_1
libunistring=0.9.10=h27cfd23_0
libuv=1.40.0=h7b6447c_0
libwebp=1.2.4=h11a3e52_0
libwebp-base=1.2.4=h5eee18b_0
lz4-c=1.9.3=h295c915_1
mkl=2021.4.0=h06a4308_640
mkl-service=2.4.0=py39h7f8727e_0
mkl_fft=1.3.1=py39hd3c417c_0
mkl_random=1.2.2=py39h51133e4_0
ncurses=6.3=h5eee18b_3
nettle=3.7.3=hbbd107a_1
ninja-base=1.10.2=hd09550d_5
numpy-base=1.24.3=py39h31eccc5_0
openh264=2.1.1=h4ff587b_0
openssl=1.1.1t=h7f8727e_0
pip=22.2.2=py39h06a4308_0
pycparser=2.21=pyhd3eb1b0_0
pyopenssl=22.0.0=pyhd3eb1b0_0
pysocks=1.7.1=py39h06a4308_0
python=3.9.13=haa1d7c7_2
python_abi=3.9=2_cp39
pytorch=1.11.0=py3.9_cuda11.3_cudnn8.2.0_0
pytorch-mutex=1.0=cuda
readline=8.2=h5eee18b_0
six=1.16.0=pyhd3eb1b0_1
sqlite=3.39.3=h5082296_0
tk=8.6.12=h1ccaba5_0
torchaudio=0.11.0=py39_cu113
torchvision=0.12.0=py39_cu113
typing_extensions=4.3.0=py39h06a4308_0
tzdata=2022f=h04d1e81_0
wheel=0.37.1=pyhd3eb1b0_0
xz=5.2.6=h5eee18b_0
zlib=1.2.13=h5eee18b_0
zstd=1.5.2=ha4553b6_0
pip:
- absl-py==1.3.0
- affine==2.3.1
- alabaster==0.7.12
- alembic==1.10.3
- anyio==3.6.2
- argon2-cffi==21.3.0
- argon2-cffi-bindings==21.2.0
- array-record==0.2.0
- arrow==1.2.3
- asciitree==0.3.3
- astor==0.8.1
- asttokens==2.2.1
- astunparse==1.6.3
- attrs==22.1.0
- autograd==1.5
- autograd-gamma==0.5.0
- babel==2.11.0
- backcall==0.2.0
- beautifulsoup4==4.12.0
- biscuit==0.0.1
- bleach==6.0.0
- blis==0.7.9
- cachetools==5.2.0
- catalogue==2.0.8
- cellpose==2.1.1
- chardet==3.0.4
- click==8.1.3
- click-plugins==1.1.1
- cligj==0.7.2
- cloudpickle==2.2.0
- cmaes==0.9.1
- colorlog==6.7.0
- comm==0.1.3
- commonmark==0.9.1
- confection==0.0.4
- configspace==0.6.0
- contourpy==1.0.6
- cplex==22.1.1.0
- cramjam==2.6.2
- crc32c==2.3
- cucim==23.2.0
- cupy-cuda11x==11.6.0
- cvxpy==1.3.1
- cycler==0.11.0
- cymem==2.0.7
- cython==0.29.32
- dask==2022.10.2
- debugpy==1.6.6
- decorator==5.1.1
- defusedxml==0.7.1
- distributed==2022.10.2
- dm-tree==0.1.7
- docutils==0.19
- ecos==2.0.12
- emcee==3.1.3
- entrypoints==0.4
- etils==1.2.0
- executing==1.2.0
- fastai==2.7.11
- fastcore==1.5.28
- fastdownload==0.0.7
- fasteners==0.18
- fastjsonschema==2.16.3
- fastparquet==2023.2.0
- fastprogress==1.0.3
- fastremap==1.13.4
- fastrlock==0.8.1
- filelock==3.12.0
- flatbuffers==1.12
- fonttools==4.38.0
- formulaic==0.5.2
- fpdf==1.7.2
- fpdf2==2.7.3
- fqdn==1.5.1
- fsspec==2022.10.0
- future==0.18.2
- gast==0.4.0
- gitdb==4.0.10
- gitpython==3.1.31
- glfw==2.5.5
- google-auth==2.14.1
- google-auth-oauthlib==0.4.6
- google-pasta==0.2.0
- googleapis-common-protos==1.59.0
- gptrepo==1.0.2
- greenlet==2.0.2
- grpcio==1.50.0
- h5py==3.7.0
- heapdict==1.0.1
- huggingface-hub==0.14.1
- idna==2.8
- imagecodecs==2023.3.16
- imageio==2.22.4
- imageio-ffmpeg==0.4.7
- imagesize==1.4.1
- imgui==1.4.1
- importlib-metadata==5.0.0
- importlib-resources==5.12.0
- interface-meta==1.3.0
- ipykernel==6.22.0
- ipython==8.11.0
- ipython-genutils==0.2.0
- ipywidgets==8.0.5
- isoduration==20.11.0
- jedi==0.18.2
- jinja2==3.1.2
- joblib==1.2.0
- jsonpointer==2.3
- jsonschema==4.17.3
- jupyter==1.0.0
- jupyter-client==8.1.0
- jupyter-console==6.6.3
- jupyter-core==5.3.0
- jupyter-events==0.6.3
- jupyter-server==2.5.0
- jupyter-server-terminals==0.4.4
- jupyterlab-pygments==0.2.2
- jupyterlab-widgets==3.0.6
- keras==2.9.0
- keras-preprocessing==1.1.2
- kiwisolver==1.4.4
- langcodes==3.3.0
- libclang==14.0.6
- lifelines==0.27.3
- llvmlite==0.39.1
- locket==1.0.0
- mako==1.2.4
- markdown==3.4.1
- markupsafe==2.1.1
- matplotlib==3.6.2
- matplotlib-inline==0.1.6
- mistune==2.0.5
- msgpack==1.0.4
- munch==2.5.0
- murmurhash==1.0.9
- natsort==8.3.1
- nbclassic==0.5.3
- nbclient==0.7.2
- nbconvert==7.2.10
- nbformat==5.8.0
- nest-asyncio==1.5.6
- networkx==2.8.8
- ninja==1.11.1
- notebook==6.5.3
- notebook-shim==0.2.2
- numba==0.56.4
- numcodecs==0.11.0
- numpy==1.21.6
- oauthlib==3.2.2
- opencv-python==4.6.0.66
- opencv-python-headless==4.7.0.72
- opt-einsum==3.3.0
- optuna==3.1.1
- osqp==0.6.2.post9
- packaging==21.3
- pandas==1.5.1
- pandocfilters==1.5.0
- parameterized==0.8.1
- parse==1.12.1
- parso==0.8.3
- partd==1.3.0
- pathy==0.10.1
- pbr==5.11.0
- pexpect==4.8.0
- pickleshare==0.7.5
- pillow==9.5.0
- pkgconfig==1.5.5
- platformdirs==3.2.0
- ply==3.11
- preshed==3.0.8
- pretrainedmodels==0.7.4
- prometheus-client==0.16.0
- promise==2.3
- prompt-toolkit==3.0.38
- protobuf==3.20.2
- psutil==5.9.4
- ptyprocess==0.7.0
- pure-eval==0.2.2
- pyarrow==10.0.0
- pyasn1==0.4.8
- pyasn1-modules==0.2.8
- pydantic==1.10.7
- pygments==2.13.0
- pynisher==0.6.4
- pynndescent==0.5.8
- pyomo==6.5.0
- pyopengl==3.1.6
- pyparsing==3.0.9
- pyperclip==1.8.2
- pyrfr==0.8.3
- pyrsistent==0.19.3
- python-dateutil==2.8.2
- python-json-logger==2.0.7
- pytz==2022.6
- pyvips==2.2.1
- pywavelets==1.4.1
- pyyaml==6.0
- pyzmq==25.0.2
- qdldl==0.1.7
- qtconsole==5.4.1
- qtpy==2.3.0
- rasterio==1.3.3
- regex==2022.10.31
- requests==2.22.0
- requests-oauthlib==1.3.1
- requests-wsgi-adapter==0.4.1
- rfc3339-validator==0.1.4
- rfc3986-validator==0.1.1
- rich==12.6.0
- rsa==4.9
- saliency==0.2.0
- scikit-image==0.19.3
- scikit-learn==1.1.3
- scikit-misc==0.1.4
- scipy==1.9.3
- scs==3.2.3
- seaborn==0.11.2
- send2trash==1.8.0
- setuptools==67.7.2
- shapely==1.8.5.post1
- slideflow==2.0.3.post1
- smac==1.4.0
- smart-open==6.3.0
- smmap==5.0.0
- sniffio==1.3.0
- snowballstemmer==2.2.0
- snuggs==1.4.7
- sortedcontainers==2.4.0
- soupsieve==2.4
- spacy==3.5.1
- spacy-legacy==3.0.12
- spacy-loggers==1.0.4
- sphinx==5.3.0
- sphinx-markdown-tables==0.0.17
- sphinxcontrib-applehelp==1.0.2
- sphinxcontrib-devhelp==1.0.2
- sphinxcontrib-htmlhelp==2.0.0
- sphinxcontrib-jsmath==1.0.1
- sphinxcontrib-qthelp==1.0.3
- sphinxcontrib-serializinghtml==1.1.5
- sphinxcontrib-video==0.0.1.dev3
- sqlalchemy==2.0.9
- srsly==2.4.6
- stack-data==0.6.2
- tabulate==0.9.0
- tblib==1.7.0
- tensorboard==2.9.1
- tensorboard-data-server==0.6.1
- tensorboard-plugin-wit==1.8.1
- tensorflow==2.9.2
- tensorflow-datasets==4.9.2
- tensorflow-estimator==2.9.0
- tensorflow-io-gcs-filesystem==0.27.0
- tensorflow-metadata==1.13.1
- tensorflow-probability==0.17.0
- termcolor==2.1.0
- terminado==0.17.1
- thinc==8.1.9
- threadpoolctl==3.1.0
- tifffile==2022.10.10
- tinycss2==1.2.1
- toml==0.10.2
- toolz==0.12.0
- tornado==6.1
- tqdm==4.64.1
- traitlets==5.9.0
- typer==0.7.0
- umap-learn==0.5.3
- uri-template==1.2.0
- urllib3==1.25.11
- versioneer==0.28
- wasabi==1.1.1
- wcwidth==0.2.6
- webcolors==1.13
- webencodings==0.5.1
- webob==1.8.5
- websocket-client==1.5.1
- werkzeug==2.2.2
- widgetsnbextension==4.0.6
- wrapt==1.14.1
- zarr==2.14.2
- zict==2.2.0
- zipp==3.10.0

jamesdolezal / slideflow

MRXS Slide Ramdisk buffer Bug #300

Description

To Reproduce

Expected behavior

Environment: