Add new 'topaz' environment for EM
This commit is contained in:
19
Programming/anaconda/2019.07/conda-env-defs/topaz/README.md
Normal file
19
Programming/anaconda/2019.07/conda-env-defs/topaz/README.md
Normal file
@@ -0,0 +1,19 @@
|
||||
# Topaz
|
||||
|
||||
[Topaz](https://github.com/tbepler/topaz) is a conda-based cryoEM particle
|
||||
picker. It is used primarily through cryosparc, but also provides python
|
||||
notebooks.
|
||||
|
||||
See https://intranet.psi.ch/en/bio/computing-cryosparc
|
||||
|
||||
## INSTALLATION
|
||||
|
||||
IMPORTANT! DON'T INSTALL WITH AURISTOR. Use an OpenAFS system (e.g. pmod6)
|
||||
|
||||
export TMPDIR=/opt/tmp/$USER
|
||||
export XDG_CACHE_HOME=/opt/tmp/$USER/.cache
|
||||
CONDA_COPY_ALWAYS=1 conda env create --file topaz.yml
|
||||
conda activate topaz-0.2.5
|
||||
|
||||
The alternate TMPDIR is required on pmod6 because /tmp is too small for pip to expand all wheel files.
|
||||
|
||||
10
Programming/anaconda/2019.07/conda-env-defs/topaz/topaz.yml
Normal file
10
Programming/anaconda/2019.07/conda-env-defs/topaz/topaz.yml
Normal file
@@ -0,0 +1,10 @@
|
||||
name: topaz-0.2.5
|
||||
channels:
|
||||
- tbepler
|
||||
- defaults
|
||||
dependencies:
|
||||
- python=3.6
|
||||
- cudatoolkit=9.2
|
||||
- pytorch
|
||||
- topaz
|
||||
|
||||
Reference in New Issue
Block a user