Merge pull request #6 from CoBrALab/ghosting_updates

Ghosting updates

environment.yml

@@ -1,26 +1,36 @@
 name: phantom_analysis
 channels:
   - simpleitk
-  - anaconda
   - defaults
   - conda-forge
   - bioconda
 dependencies:
   - _libgcc_mutex=0.1=conda_forge
   - _openmp_mutex=4.5=1_llvm
+  - appdirs=1.4.4=pyhd3eb1b0_0
   - brotli=1.0.9=he6710b0_2
-  - ca-certificates=2020.10.14=0
-  - certifi=2020.6.20=py38_0
+  - brotlipy=0.7.0=py38h27cfd23_1003
+  - ca-certificates=2021.10.26=h06a4308_2
+  - certifi=2021.10.8=py38h06a4308_0
+  - cffi=1.14.6=py38h400218f_0
+  - charset-normalizer=2.0.4=pyhd3eb1b0_0
+  - cloudpickle=2.0.0=pyhd3eb1b0_0
+  - cryptography=35.0.0=py38hd23ed53_0
   - cycler=0.10.0=py38_0
+  - cytoolz=0.11.0=py38h7b6447c_0
+  - dask-core=2021.10.0=pyhd3eb1b0_0
   - dbus=1.13.18=hb2f20db_0
   - expat=2.4.1=h2531618_2
   - fontconfig=2.13.1=h6c09931_0
   - fonttools=4.25.0=pyhd3eb1b0_0
   - freetype=2.10.4=h5ab3b9f_0
+  - fsspec=2021.10.1=pyhd3eb1b0_0
   - glib=2.69.0=h5202010_0
   - gst-plugins-base=1.14.0=h8213a91_2
   - gstreamer=1.14.0=h28cd5cc_2
   - icu=58.2=he6710b0_3
+  - idna=3.3=pyhd3eb1b0_0
+  - imageio=2.9.0=pyhd3eb1b0_0
   - joblib=1.0.1=pyhd8ed1ab_0
   - jpeg=9b=h024ee3a_2
   - kiwisolver=1.3.1=py38h2531618_0
@@ -42,25 +52,37 @@ dependencies:
   - libxcb=1.14=h7b6447c_0
   - libxml2=2.9.12=h03d6c58_0
   - llvm-openmp=12.0.1=h4bd325d_1
+  - locket=0.2.1=py38h06a4308_1
   - lz4-c=1.9.3=h295c915_1
   - matplotlib=3.4.2=py38h06a4308_0
   - matplotlib-base=3.4.2=py38hab158f2_0
   - munkres=1.1.4=py_0
   - ncurses=6.2=he6710b0_1
+  - networkx=2.6.3=pyhd3eb1b0_0
   - numpy=1.21.1=py38h9894fe3_0
   - olefile=0.46=py_0
   - openjpeg=2.3.0=h05c96fa_1
-  - openssl=1.1.1k=h27cfd23_0
+  - openssl=1.1.1l=h7f8727e_0
+  - packaging=21.3=pyhd3eb1b0_0
+  - partd=1.2.0=pyhd3eb1b0_0
   - pcre=8.45=h295c915_0
   - pillow=8.3.1=py38h2c7a002_0
   - pip=21.2.2=py38h06a4308_0
+  - pooch=1.4.0=pyhd3eb1b0_0
+  - pycparser=2.21=pyhd3eb1b0_0
+  - pyopenssl=21.0.0=pyhd3eb1b0_1
   - pyparsing=2.4.7=pyhd3eb1b0_0
   - pyqt=5.9.2=py38h05f1152_4
+  - pysocks=1.7.1=py38h06a4308_0
   - python=3.8.11=h12debd9_0_cpython
   - python-dateutil=2.8.2=pyhd3eb1b0_0
   - python_abi=3.8=2_cp38
+  - pywavelets=1.1.1=py38h7b6447c_2
+  - pyyaml=6.0=py38h7f8727e_1
   - qt=5.9.7=h5867ecd_1
   - readline=8.1=h27cfd23_0
+  - requests=2.26.0=pyhd3eb1b0_0
+  - scikit-image=0.18.0=py38h51da96c_0
   - scikit-learn=0.24.2=py38hdc147b9_0
   - scipy=1.7.1=py38h56a6a73_0
   - setuptools=52.0.0=py38h06a4308_0
@@ -69,9 +91,13 @@ dependencies:
   - six=1.16.0=pyhd3eb1b0_0
   - sqlite=3.36.0=hc218d9a_0
   - threadpoolctl=2.2.0=pyh8a188c0_0
+  - tifffile=2020.10.1=py38hdd07704_2
   - tk=8.6.10=hbc83047_0
+  - toolz=0.11.2=pyhd3eb1b0_0
   - tornado=6.1=py38h27cfd23_0
+  - urllib3=1.26.7=pyhd3eb1b0_0
   - wheel=0.36.2=pyhd3eb1b0_0
   - xz=5.2.5=h7b6447c_0
+  - yaml=0.2.5=h7b6447c_0
   - zlib=1.2.11=h7b6447c_3
   - zstd=1.4.9=haebb681_0