Warp is a set of tools for cryo-EM and cryo-ET data processing including, among other tools: Warp, M, WarpTools, MTools, MCore, and Noise2Map.
If you want to use Warp on Windows, tutorials and binaries (currently only for v1) can be found at http://www.warpem.com.
If you're installing from scratch and don't have an environment yet, here is the easiest way to get everything inside a new environment called warp:
conda create -n warp warp -c warpem -c nvidia/label/cuda-11.7.0 -c pytorch -c conda-forge
conda activate warp # Activate the environment whenever you want to use Warp
If you want to install in an already existing environment:
conda install warp -c warpem -c nvidia/label/cuda-11.7.0 -c pytorch -c conda-forge
If you want to update to the latest version and already have all channels set up in your environment:
conda update warp
For information on how to use Warp, M and friends please check out the user guide section of warpem.github.io/warp.
After cloning this repository, run these commands:
conda env create -f warp_build.yml
conda activate warp_build
./scripts/build-native-unix.sh
./scripts/publish-unix.sh
All binaries will be in Release/linux-x64/publish.
Here is some inspiration for an lmod module file:
local root = "/path/to/warp/Release/linux-x64/publish"
conflict("warp")
prepend_path("PATH", root)
prepend_path("LD_LIBRARY_PATH", "/path/to/conda_envs/warp_build/lib")
setenv("RELION_EXTERNAL_RECONSTRUCT_EXECUTABLE", pathJoin(root, "Noise2Half"))
Install mkdocs-material into your conda environment then run
mkdocs serveTo preview the site. This includes hot reloading so you can preview any changes you make.
The documentation is built and deployed by calling mkdocs build on GitHub actions.
Warp was originally developed by Dimitry Tegunov in Patrick Cramer's lab at the Max Planck Institute for Biophysical Chemistry in Göttingen, Germany. This code is available in its original repository.
Warp is now being developed by Dimitry Tegunov and Alister Burt at Genentech, Inc. in South San Francisco, USA. For a list of changes that occurred between the last release under the Max Planck Society and the first release at Genentech, please see CHANGELOG.