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cmake in conda #45

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merged 5 commits into from
Dec 16, 2022
Merged

cmake in conda #45

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d9a2bea
add cmake to requirements
antoinefalisse Dec 15, 2022
9ab7177
testing
antoinefalisse Dec 15, 2022
abc47aa
adapt readme
antoinefalisse Dec 15, 2022
5448845
Update README.md
antoinefalisse Dec 16, 2022
e963e62
Update README.md
antoinefalisse Dec 16, 2022
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14 changes: 6 additions & 8 deletions README.md
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Expand Up @@ -27,17 +27,17 @@ Archived code base corresponding to publication: https://zenodo.org/record/74199
- Clone the repository: `git clone https://github.com/stanfordnmbl/opencap-processing.git`
- Navigate to the directory: `cd opencap-processing`
7. Install required packages: `python -m pip install -r requirements.txt`

8. Run `python createAuthenticationEnvFile.py`
- An environment variable (`.env` file) will be saved after authenticating.

### Muscle-driven simulations
1. Install [CMake](https://cmake.org/download/)
- **Windows only**: Add CMake to system path. During the installation, select *Add CMake to the system PATH for all users*
2. **Windows only**: Install [Visual Studio](https://visualstudio.microsoft.com/downloads/)
1. **Windows only**: Install [Visual Studio](https://visualstudio.microsoft.com/downloads/)
- The Community variant is sufficient and is free for everyone.
- During the installation, select the *workload Desktop Development with C++*.
- The code was tested with the 2017, 2019, and 2022 Community editions.
3. Run `createAuthenticationEnvFile.py`
- An environment variable (`.env` file) will be saved after authenticating.
2. **Linux only**: Install OpenBLAS libraries
- `sudo apt-get install libopenblas-base`


## Examples
- Run `example.py` for examples of how to run kinematic analyses
Expand All @@ -53,6 +53,4 @@ Archived code base corresponding to publication: https://zenodo.org/record/74199

### Locally
- Follow the install requirements above
- (Optional): Run `createAuthenticationEnvFile.py`
- An environment variable (`.env` file) will be saved after authenticating. You can proceed without this, but you will be required to login every time you run a script.
- Open `batchDownload.py` and follow the instructions
4 changes: 2 additions & 2 deletions UtilsDynamicSimulations/OpenSimAD/utilsOpenSimAD.py
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Expand Up @@ -1592,7 +1592,7 @@ def buildExternalFunction(filename, pathDCAD, CPP_DIR, nInputs,
cmd_tar = 'tar -xf linux.tar.gz -C "{}"'.format(OpenSimAD_DIR)
os.system(cmd_tar)
os.remove('linux.tar.gz')
cmd1 = 'cmake "' + pathBuildExpressionGraph + '" -DTARGET_NAME:STRING="' + filename + '" -DSDK_DIR:PATH="' + OpenSimADOS_DIR + '" -DCPP_DIR:PATH="' + CPP_DIR + '" -DCMAKE_INSTALL_PREFIX= "' + OpenSimADOS_DIR + '"'
cmd1 = 'cmake "' + pathBuildExpressionGraph + '" -DTARGET_NAME:STRING="' + filename + '" -DSDK_DIR:PATH="' + OpenSimADOS_DIR + '" -DCPP_DIR:PATH="' + CPP_DIR + '"'
cmd2 = "make"
BIN_DIR = pathBuild

Expand All @@ -1606,7 +1606,7 @@ def buildExternalFunction(filename, pathDCAD, CPP_DIR, nInputs,
cmd_tar = 'tar -xf macOS.tgz -C "{}"'.format(OpenSimAD_DIR)
os.system(cmd_tar)
os.remove('macOS.tgz')
cmd1 = 'cmake "' + pathBuildExpressionGraph + '" -DTARGET_NAME:STRING="' + filename + '" -DSDK_DIR:PATH="' + OpenSimADOS_DIR + '" -DCPP_DIR:PATH="' + CPP_DIR + '" -DCMAKE_INSTALL_PREFIX= "' + OpenSimADOS_DIR + '"'
cmd1 = 'cmake "' + pathBuildExpressionGraph + '" -DTARGET_NAME:STRING="' + filename + '" -DSDK_DIR:PATH="' + OpenSimADOS_DIR + '" -DCPP_DIR:PATH="' + CPP_DIR + '"'
cmd2 = "make"
BIN_DIR = pathBuild

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3 changes: 2 additions & 1 deletion requirements.txt
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Expand Up @@ -7,4 +7,5 @@ maskpass==0.3.6
requests
casadi
pyyaml
joblib
joblib
cmake