v_0.31

2024-12-03 15:23:51 +01:00
parent 15a33b3c0e
commit 757706943f
2 changed files with 255 additions and 1 deletions
--- a/ptychoScopy_v1.0.ipynb
+++ b/ptychoScopy_v1.0.ipynb
@ -38,6 +38,32 @@
    "Skoupy R., Mueller E., Pennycook T., Guizar-Sicairos M., Fabbri E., Poghosyan E. ptychoScopy: Users Guide for Optimal Acquisition Design with Electron Ptychography, xxxx, xx, [DOI](https://doi.org)"
   ]
  },
+  {
+   "cell_type": "code",
+   "execution_count": 3,
+   "id": "14cb064d-a91a-4d44-954f-c7ff36435786",
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "3.10.13 | packaged by Anaconda, Inc. | (main, Sep 11 2023, 13:24:38) [MSC v.1916 64 bit (AMD64)]\n",
+      "Openpyxl version  3.1.5\n",
+      "Numpy version  1.26.2\n",
+      "Scipy version  1.10.1\n",
+      "Plotly version  5.18.0\n",
+      "Pandas version  2.1.4\n",
+      "IPython version  8.15.0\n",
+      "Ipywidgets version  8.0.4\n",
+      "abTEM version  1.0.6\n"
+     ]
+    }
+   ],
+   "source": [
+    "pty.get_versions() # run before \"display(ptychoscopy)\" field"
+   ]
+  },
  {
   "cell_type": "code",
   "execution_count": 2,
@ -785,7 +811,7 @@
   "name": "python",
   "nbconvert_exporter": "python",
   "pygments_lexer": "ipython3",
-   "version": "3.10.13"
+   "version": "3.11.5"
  },
  "varInspector": {
   "cols": {
--- a/ptychoscopy.yml
+++ b/ptychoscopy.yml
@ -0,0 +1,228 @@
+name: ptychoScopy
+channels:
+  - conda-forge
+  - defaults
+dependencies:
+  - anyio=3.5.0=py311haa95532_0
+  - argon2-cffi=21.3.0=pyhd3eb1b0_0
+  - argon2-cffi-bindings=21.2.0=py311h2bbff1b_0
+  - asttokens=2.0.5=pyhd3eb1b0_0
+  - async-lru=2.0.4=py311haa95532_0
+  - attrs=23.1.0=py311haa95532_0
+  - babel=2.11.0=py311haa95532_0
+  - backcall=0.2.0=pyhd3eb1b0_0
+  - beautifulsoup4=4.12.2=py311haa95532_0
+  - blas=1.0=mkl
+  - bleach=4.1.0=pyhd3eb1b0_0
+  - bottleneck=1.3.5=py311h5bb9823_0
+  - brotli=1.0.9=h2bbff1b_7
+  - brotli-bin=1.0.9=h2bbff1b_7
+  - brotli-python=1.0.9=py311hd77b12b_7
+  - bzip2=1.0.8=he774522_0
+  - ca-certificates=2024.7.2=haa95532_0
+  - certifi=2024.8.30=py311haa95532_0
+  - cffi=1.16.0=py311h2bbff1b_0
+  - charset-normalizer=2.0.4=pyhd3eb1b0_0
+  - colorama=0.4.6=py311haa95532_0
+  - comm=0.1.4=pyhd8ed1ab_0
+  - contourpy=1.2.0=py311h59b6b97_0
+  - cryptography=41.0.7=py311h89fc84f_0
+  - cycler=0.11.0=pyhd3eb1b0_0
+  - debugpy=1.6.7=py311hd77b12b_0
+  - decorator=5.1.1=pyhd3eb1b0_0
+  - defusedxml=0.7.1=pyhd3eb1b0_0
+  - entrypoints=0.4=pyhd8ed1ab_0
+  - et_xmlfile=1.1.0=py311haa95532_0
+  - executing=0.8.3=pyhd3eb1b0_0
+  - fonttools=4.25.0=pyhd3eb1b0_0
+  - freetype=2.12.1=ha860e81_0
+  - giflib=5.2.1=h8cc25b3_3
+  - h11=0.14.0=py311haa95532_0
+  - httpcore=1.0.2=py311haa95532_0
+  - httpx=0.27.0=py311haa95532_0
+  - icc_rt=2022.1.0=h6049295_2
+  - icu=73.1=h6c2663c_0
+  - idna=3.4=py311haa95532_0
+  - intel-openmp=2023.1.0=h59b6b97_46320
+  - ipykernel=6.25.0=py311h746a85d_0
+  - ipython_genutils=0.2.0=py_1
+  - jedi=0.18.1=py311haa95532_1
+  - jinja2=3.1.2=py311haa95532_0
+  - jpeg=9e=h2bbff1b_1
+  - json5=0.9.6=pyhd3eb1b0_0
+  - jsonschema=4.19.2=py311haa95532_0
+  - jsonschema-specifications=2023.7.1=py311haa95532_0
+  - jupyter-lsp=2.2.0=py311haa95532_0
+  - jupyter_client=8.6.0=py311haa95532_0
+  - jupyter_contrib_core=0.4.0=pyhd8ed1ab_0
+  - jupyter_contrib_nbextensions=0.7.0=pyhd8ed1ab_0
+  - jupyter_core=5.5.0=py311haa95532_0
+  - jupyter_events=0.8.0=py311haa95532_0
+  - jupyter_highlight_selected_word=0.2.0=pyhd8ed1ab_1006
+  - jupyter_latex_envs=1.4.6=pyhd8ed1ab_1002
+  - jupyter_nbextensions_configurator=0.6.1=pyhd8ed1ab_0
+  - jupyter_server=2.10.0=py311haa95532_0
+  - jupyter_server_terminals=0.4.4=py311haa95532_1
+  - jupyterlab=4.2.5=py311haa95532_0
+  - jupyterlab_pygments=0.1.2=py_0
+  - jupyterlab_server=2.27.3=py311haa95532_0
+  - jupyterlab_widgets=3.0.9=py311haa95532_0
+  - kiwisolver=1.4.4=py311hd77b12b_0
+  - krb5=1.20.1=h5b6d351_0
+  - lerc=3.0=hd77b12b_0
+  - libbrotlicommon=1.0.9=h2bbff1b_7
+  - libbrotlidec=1.0.9=h2bbff1b_7
+  - libbrotlienc=1.0.9=h2bbff1b_7
+  - libclang=14.0.6=default_hb5a9fac_1
+  - libclang13=14.0.6=default_h8e68704_1
+  - libdeflate=1.17=h2bbff1b_1
+  - libffi=3.4.4=hd77b12b_0
+  - libiconv=1.17=h8ffe710_0
+  - libpng=1.6.39=h8cc25b3_0
+  - libpq=12.15=h906ac69_1
+  - libsodium=1.0.18=h62dcd97_0
+  - libtiff=4.5.1=hd77b12b_0
+  - libwebp=1.3.2=hbc33d0d_0
+  - libwebp-base=1.3.2=h2bbff1b_0
+  - libxml2=2.10.4=h0ad7f3c_1
+  - libxslt=1.1.37=h0192164_0
+  - lxml=4.9.3=py311h09808a7_0
+  - lz4-c=1.9.4=h2bbff1b_0
+  - markupsafe=2.1.1=py311h2bbff1b_0
+  - matplotlib=3.8.0=py311haa95532_0
+  - matplotlib-base=3.8.0=py311hf62ec03_0
+  - matplotlib-inline=0.1.6=py311haa95532_0
+  - mistune=2.0.4=py311haa95532_0
+  - mkl=2023.1.0=h6b88ed4_46358
+  - mkl-service=2.4.0=py311h2bbff1b_1
+  - mkl_fft=1.3.8=py311h2bbff1b_0
+  - mkl_random=1.2.4=py311h59b6b97_0
+  - munkres=1.1.4=py_0
+  - nbclassic=1.0.0=pyhb4ecaf3_1
+  - nbclient=0.8.0=py311haa95532_0
+  - nbconvert=7.10.0=py311haa95532_0
+  - nbconvert-core=7.10.0=pyhd8ed1ab_0
+  - nbformat=5.9.2=py311haa95532_0
+  - nest-asyncio=1.5.6=py311haa95532_0
+  - notebook-shim=0.2.3=py311haa95532_0
+  - numexpr=2.8.7=py311h1fcbade_0
+  - numpy=1.26.2=py311hdab7c0b_0
+  - numpy-base=1.26.2=py311hd01c5d8_0
+  - openjpeg=2.4.0=h4fc8c34_0
+  - openpyxl=3.0.10=py311h2bbff1b_0
+  - openssl=3.2.0=hcfcfb64_1
+  - overrides=7.4.0=py311haa95532_0
+  - packaging=23.1=py311haa95532_0
+  - pandas=2.1.1=py311hf62ec03_0
+  - pandocfilters=1.5.0=pyhd3eb1b0_0
+  - parso=0.8.3=pyhd3eb1b0_0
+  - pickleshare=0.7.5=pyhd3eb1b0_1003
+  - pillow=10.0.1=py311h045eedc_0
+  - pip=23.3.1=py311haa95532_0
+  - platformdirs=3.10.0=py311haa95532_0
+  - ply=3.11=py311haa95532_0
+  - prometheus_client=0.14.1=py311haa95532_0
+  - prompt-toolkit=3.0.36=py311haa95532_0
+  - psutil=5.9.0=py311h2bbff1b_0
+  - pure_eval=0.2.2=pyhd3eb1b0_0
+  - pycparser=2.21=pyhd3eb1b0_0
+  - pygments=2.15.1=py311haa95532_1
+  - pyopenssl=23.2.0=py311haa95532_0
+  - pyparsing=3.0.9=py311haa95532_0
+  - pyqt=5.15.10=py311hd77b12b_0
+  - pyqt5-sip=12.13.0=py311h2bbff1b_0
+  - pysocks=1.7.1=py311haa95532_0
+  - python=3.11.5=he1021f5_0
+  - python-dateutil=2.8.2=pyhd3eb1b0_0
+  - python-fastjsonschema=2.16.2=py311haa95532_0
+  - python-json-logger=2.0.7=py311haa95532_0
+  - python-tzdata=2023.3=pyhd3eb1b0_0
+  - pytz=2023.3.post1=py311haa95532_0
+  - pywin32=305=py311h2bbff1b_0
+  - pywinpty=2.0.10=py311h5da7b33_0
+  - pyyaml=6.0.1=py311h2bbff1b_0
+  - pyzmq=25.1.0=py311hd77b12b_0
+  - qt-main=5.15.2=h19c9488_10
+  - referencing=0.30.2=py311haa95532_0
+  - requests=2.31.0=py311haa95532_0
+  - rfc3339-validator=0.1.4=py311haa95532_0
+  - rfc3986-validator=0.1.1=py311haa95532_0
+  - rpds-py=0.10.6=py311h062c2fa_0
+  - scipy=1.11.4=py311hc1ccb85_0
+  - send2trash=1.8.2=py311haa95532_0
+  - sip=6.7.12=py311hd77b12b_0
+  - six=1.16.0=pyhd3eb1b0_1
+  - sniffio=1.2.0=py311haa95532_1
+  - soupsieve=2.5=py311haa95532_0
+  - sqlite=3.41.2=h2bbff1b_0
+  - stack_data=0.2.0=pyhd3eb1b0_0
+  - tbb=2021.8.0=h59b6b97_0
+  - tenacity=8.2.2=py311haa95532_0
+  - terminado=0.17.1=py311haa95532_0
+  - tinycss2=1.2.1=py311haa95532_0
+  - tk=8.6.12=h2bbff1b_0
+  - tornado=6.3.3=py311h2bbff1b_0
+  - traitlets=5.7.1=py311haa95532_0
+  - typing-extensions=4.7.1=py311haa95532_0
+  - typing_extensions=4.7.1=py311haa95532_0
+  - tzdata=2023c=h04d1e81_0
+  - ucrt=10.0.22621.0=h57928b3_0
+  - urllib3=1.26.18=py311haa95532_0
+  - vc=14.2=h21ff451_1
+  - vc14_runtime=14.36.32532=hdcecf7f_17
+  - vs2015_runtime=14.36.32532=h05e6639_17
+  - wcwidth=0.2.5=pyhd3eb1b0_0
+  - webencodings=0.5.1=py311haa95532_1
+  - websocket-client=0.58.0=py311haa95532_4
+  - wheel=0.41.2=py311haa95532_0
+  - widgetsnbextension=4.0.9=pyhd8ed1ab_0
+  - win_inet_pton=1.1.0=py311haa95532_0
+  - winpty=0.4.3=4
+  - xz=5.4.5=h8cc25b3_0
+  - yaml=0.2.5=he774522_0
+  - zeromq=4.3.4=hd77b12b_0
+  - zlib=1.2.13=h8cc25b3_0
+  - zstd=1.5.5=hd43e919_0
+  - pip:
+      - abtem==1.0.6
+      - arrow==1.3.0
+      - asciitree==0.3.3
+      - ase==3.23.0
+      - click==8.1.7
+      - cloudpickle==3.0.0
+      - dask==2024.8.1
+      - distributed==2024.8.1
+      - fasteners==0.19
+      - fqdn==1.5.1
+      - fsspec==2024.6.1
+      - importlib-metadata==8.4.0
+      - ipympl==0.9.4
+      - ipython==7.31.1
+      - ipython-genutils==0.2.0
+      - ipywidgets==8.0.4
+      - isoduration==20.11.0
+      - jsonpointer==2.4
+      - jupyter-contrib-core==0.4.2
+      - jupyter-nbextensions-configurator==0.6.3
+      - llvmlite==0.43.0
+      - locket==1.0.0
+      - msgpack==1.0.8
+      - notebook==7.0.6
+      - numba==0.60.0
+      - numcodecs==0.13.0
+      - partd==1.4.2
+      - plotly==5.18.0
+      - pyfftw==0.14.0
+      - setuptools==73.0.1
+      - sortedcontainers==2.4.0
+      - tabulate==0.9.0
+      - tblib==3.0.0
+      - threadpoolctl==3.5.0
+      - toolz==0.12.1
+      - types-python-dateutil==2.8.19.14
+      - uri-template==1.3.0
+      - webcolors==1.13
+      - zarr==2.18.2
+      - zict==3.0.0
+      - zipp==3.20.0
+prefix: C:\Users\skoupy_r\AppData\Local\anaconda3\envs\ptychoScopy