setup directory for conda setup

Added setup directory for conda setup

6 files changed, 185 insertions, 0 deletions

diff --git a/setup/checks/check_for_conda.sh b/setup/checks/check_for_conda.sh
new file mode 100644
index 0000000..b17bc1a
--- /dev/null
+++ b/setup/checks/check_for_conda.sh
@@ -0,0 +1,11 @@
+#taken from mobilitynet-analysis-scripts/setup/checks/check_for_conda.sh
+
+CURR_CONDA_VER=`conda --version | cut -d " " -f 2`
+EXP_CONDA_VER=23.1.0
+
+if [ $CURR_CONDA_VER == $EXP_CONDA_VER ]; then
+    echo "For conda, found $CURR_CONDA_VER, expected $EXP_CONDA_VER, all is good!"
+else
+    echo "For conda, found $CURR_CONDA_VER, expected $EXP_CONDA_VER, run 'bash setup/setup_conda.sh $EXP_CONDA_VER <platform>' to get the correct version"
+    echo "Or install manually after downloading from https://repo.anaconda.com/miniconda/"
+fi
diff --git a/setup/environment.yml b/setup/environment.yml
new file mode 100644
index 0000000..c72a998
--- /dev/null
+++ b/setup/environment.yml
@@ -0,0 +1,126 @@
+name: toriis
+channels:
+  - defaults
+dependencies:
+  - _libgcc_mutex=0.1=main
+  - _openmp_mutex=5.1=1_gnu
+  - anyio=3.5.0=py310h06a4308_0
+  - argon2-cffi=21.3.0=pyhd3eb1b0_0
+  - argon2-cffi-bindings=21.2.0=py310h7f8727e_0
+  - asttokens=2.0.5=pyhd3eb1b0_0
+  - attrs=22.1.0=py310h06a4308_0
+  - babel=2.11.0=py310h06a4308_0
+  - backcall=0.2.0=pyhd3eb1b0_0
+  - beautifulsoup4=4.11.1=py310h06a4308_0
+  - blas=1.0=mkl
+  - bleach=4.1.0=pyhd3eb1b0_0
+  - bottleneck=1.3.5=py310ha9d4c09_0
+  - brotlipy=0.7.0=py310h7f8727e_1002
+  - bzip2=1.0.8=h7b6447c_0
+  - ca-certificates=2023.01.10=h06a4308_0
+  - certifi=2022.12.7=py310h06a4308_0
+  - cffi=1.15.1=py310h5eee18b_3
+  - charset-normalizer=2.0.4=pyhd3eb1b0_0
+  - comm=0.1.2=py310h06a4308_0
+  - cryptography=38.0.4=py310h9ce1e76_0
+  - debugpy=1.5.1=py310h295c915_0
+  - decorator=5.1.1=pyhd3eb1b0_0
+  - defusedxml=0.7.1=pyhd3eb1b0_0
+  - entrypoints=0.4=py310h06a4308_0
+  - executing=0.8.3=pyhd3eb1b0_0
+  - flit-core=3.6.0=pyhd3eb1b0_0
+  - icu=58.2=he6710b0_3
+  - idna=3.4=py310h06a4308_0
+  - intel-openmp=2021.4.0=h06a4308_3561
+  - ipykernel=6.19.2=py310h2f386ee_0
+  - ipython=8.9.0=py310h06a4308_0
+  - ipython_genutils=0.2.0=pyhd3eb1b0_1
+  - jedi=0.18.1=py310h06a4308_1
+  - jinja2=3.1.2=py310h06a4308_0
+  - json5=0.9.6=pyhd3eb1b0_0
+  - jsonschema=4.16.0=py310h06a4308_0
+  - jupyter_client=7.4.9=py310h06a4308_0
+  - jupyter_core=5.1.1=py310h06a4308_0
+  - jupyter_server=1.23.4=py310h06a4308_0
+  - jupyterlab=3.5.3=py310h06a4308_0
+  - jupyterlab_pygments=0.1.2=py_0
+  - jupyterlab_server=2.16.5=py310h06a4308_0
+  - ld_impl_linux-64=2.38=h1181459_1
+  - libffi=3.4.2=h6a678d5_6
+  - libgcc-ng=11.2.0=h1234567_1
+  - libgomp=11.2.0=h1234567_1
+  - libsodium=1.0.18=h7b6447c_0
+  - libstdcxx-ng=11.2.0=h1234567_1
+  - libuuid=1.41.5=h5eee18b_0
+  - libxml2=2.9.14=h74e7548_0
+  - libxslt=1.1.35=h4e12654_0
+  - lxml=4.9.1=py310h1edc446_0
+  - markupsafe=2.1.1=py310h7f8727e_0
+  - matplotlib-inline=0.1.6=py310h06a4308_0
+  - mistune=0.8.4=py310h7f8727e_1000
+  - mkl=2021.4.0=h06a4308_640
+  - mkl-service=2.4.0=py310h7f8727e_0
+  - mkl_fft=1.3.1=py310hd6ae3a3_0
+  - mkl_random=1.2.2=py310h00e6091_0
+  - nbclassic=0.4.8=py310h06a4308_0
+  - nbclient=0.5.13=py310h06a4308_0
+  - nbconvert=6.5.4=py310h06a4308_0
+  - nbformat=5.7.0=py310h06a4308_0
+  - ncurses=6.4=h6a678d5_0
+  - nest-asyncio=1.5.6=py310h06a4308_0
+  - notebook=6.5.2=py310h06a4308_0
+  - notebook-shim=0.2.2=py310h06a4308_0
+  - numexpr=2.8.4=py310h8879344_0
+  - numpy=1.23.5=py310hd5efca6_0
+  - numpy-base=1.23.5=py310h8e6c178_0
+  - openssl=1.1.1t=h7f8727e_0
+  - packaging=22.0=py310h06a4308_0
+  - pandas=1.5.2=py310h1128e8f_0
+  - pandocfilters=1.5.0=pyhd3eb1b0_0
+  - parso=0.8.3=pyhd3eb1b0_0
+  - pexpect=4.8.0=pyhd3eb1b0_3
+  - pickleshare=0.7.5=pyhd3eb1b0_1003
+  - pip=22.3.1=py310h06a4308_0
+  - platformdirs=2.5.2=py310h06a4308_0
+  - prometheus_client=0.14.1=py310h06a4308_0
+  - prompt-toolkit=3.0.36=py310h06a4308_0
+  - psutil=5.9.0=py310h5eee18b_0
+  - ptyprocess=0.7.0=pyhd3eb1b0_2
+  - pure_eval=0.2.2=pyhd3eb1b0_0
+  - pycparser=2.21=pyhd3eb1b0_0
+  - pygments=2.11.2=pyhd3eb1b0_0
+  - pyopenssl=22.0.0=pyhd3eb1b0_0
+  - pyrsistent=0.18.0=py310h7f8727e_0
+  - pysocks=1.7.1=py310h06a4308_0
+  - python=3.10.9=h7a1cb2a_0
+  - python-dateutil=2.8.2=pyhd3eb1b0_0
+  - python-fastjsonschema=2.16.2=py310h06a4308_0
+  - pytz=2022.7=py310h06a4308_0
+  - pyzmq=23.2.0=py310h6a678d5_0
+  - readline=8.2=h5eee18b_0
+  - requests=2.28.1=py310h06a4308_0
+  - send2trash=1.8.0=pyhd3eb1b0_1
+  - setuptools=65.6.3=py310h06a4308_0
+  - six=1.16.0=pyhd3eb1b0_1
+  - sniffio=1.2.0=py310h06a4308_1
+  - soupsieve=2.3.2.post1=py310h06a4308_0
+  - sqlite=3.40.1=h5082296_0
+  - stack_data=0.2.0=pyhd3eb1b0_0
+  - terminado=0.17.1=py310h06a4308_0
+  - tinycss2=1.2.1=py310h06a4308_0
+  - tk=8.6.12=h1ccaba5_0
+  - tomli=2.0.1=py310h06a4308_0
+  - tornado=6.2=py310h5eee18b_0
+  - traitlets=5.7.1=py310h06a4308_0
+  - typing-extensions=4.4.0=py310h06a4308_0
+  - typing_extensions=4.4.0=py310h06a4308_0
+  - tzdata=2022g=h04d1e81_0
+  - urllib3=1.26.14=py310h06a4308_0
+  - wcwidth=0.2.5=pyhd3eb1b0_0
+  - webencodings=0.5.1=py310h06a4308_1
+  - websocket-client=0.58.0=py310h06a4308_4
+  - wheel=0.37.1=pyhd3eb1b0_0
+  - xz=5.2.10=h5eee18b_1
+  - zeromq=4.3.4=h2531618_0
+  - zlib=1.2.13=h5eee18b_0
+prefix: /home/gabrielkosmacher/miniconda3/envs/toriis
diff --git a/setup/setup.sh b/setup/setup.sh
new file mode 100644
index 0000000..d2631f9
--- /dev/null
+++ b/setup/setup.sh
@@ -0,0 +1,14 @@
+#taken from mobilitynet-analysis-scripts/setup/setup.sh
+# If the conda binary is not found, specify the full path to it
+# you can find it by searching for "conda" under the miniconda3 directory
+# typical paths are:
+# - on linux: /home/<user>/miniconda3/bin/conda
+# - on OSX: /Users/<user>/miniconda3/bin/conda
+# - on Windows: C:/Users/<user>/Miniconda3/Scripts/conda
+
+set -e
+
+source setup/checks/check_for_conda.sh
+
+conda env update --name toriis --file setup/environment.yml
+conda activate toriis
diff --git a/setup/setup_conda.sh b/setup/setup_conda.sh
new file mode 100644
index 0000000..e7d4e3e
--- /dev/null
+++ b/setup/setup_conda.sh
@@ -0,0 +1,22 @@
+# taken from mobilitynet-analysis-scripts/setup/setup_conda.sh
+EXP_CONDA_VER=$1
+PLATFORM=$2
+echo "Installing for version $EXP_CONDA_VER and platform $PLATFORM"
+
+if [[ -z $EXP_CONDA_VER || -z $PLATFORM ]]; then
+    echo "Usage: setup_conda.sh <version> <platform>"
+    echo "   Platform options are Linux-x86_64, MacOSX-x86_64"
+    echo "   For Windows, manually download and install https://repo.anaconda.com/miniconda/Miniconda3-$EXP_CONDA_VER-Windows-x86_64.exe"
+else
+    INSTALL_PREFIX=$HOME/miniconda-$EXP_CONDA_VER
+    SOURCE_SCRIPT="$HOME/miniconda-$EXP_CONDA_VER/etc/profile.d/conda.sh"
+
+    curl -o miniconda.sh -L https://repo.continuum.io/miniconda/Miniconda3-$EXP_CONDA_VER-$PLATFORM.sh;
+    bash miniconda.sh -b -p $INSTALL_PREFIX
+    source $SOURCE_SCRIPT
+    hash -r
+    conda config --set always_yes yes --set changeps1 no
+    # Useful for debugging any issues with conda
+    conda info -a
+    echo "Successfully installed at $INSTALL_PREFIX. Please run 'source $SOURCE_SCRIPT' in every terminal where you want to use conda"
+fi
diff --git a/setup/teardown.sh b/setup/teardown.sh
new file mode 100644
index 0000000..308fde8
--- /dev/null
+++ b/setup/teardown.sh
@@ -0,0 +1,3 @@
+# taken from mobilitynet-analysis-scripts/setup/teardown.sh
+conda activate base
+conda env remove --name toriis
diff --git a/setup/teardown_conda.sh b/setup/teardown_conda.sh
new file mode 100644
index 0000000..2fde7a5
--- /dev/null
+++ b/setup/teardown_conda.sh
@@ -0,0 +1,9 @@
+# taken from mobilitynet-analysis-scripts/setup/teardown_conda.sh
+EXP_CONDA_VER=$1
+
+if [ -z $EXP_CONDA_VER ]; then
+    echo "Usage: teardown_conda.sh <version>"
+else
+    INSTALL_PREFIX=$HOME/miniconda-$EXP_CONDA_VER
+    rm -rf $INSTALL_PREFIX
+fi