| # from https://matplotlib.org/stable/gallery/subplots_axes_and_figures/gridspec_multicolumn.html | |
| import matplotlib.pyplot as plt | |
| from matplotlib.gridspec import GridSpec | |
| def format_axes(fig): | |
| for i, ax in enumerate(fig.axes): | |
| ax.text(0.5, 0.5, "ax%d" % (i+1), va="center", ha="center") |
| # run R in an activated Python environment that has AnnData installed | |
| library(Seurat) | |
| library(reticulate) | |
| # check that the environment is found | |
| reticulate::py_discover_config() | |
| file_rds <- readRDS("file.rds") | |
| # Option 1 | |
| # file.rds is an SCE object |
If you accidentally pushed a wrong file to the remote, you can remove the file and the erroneous commit from the history with the following. Identify the last good commit you want to go to and copy its SHA. (Make sure you have no unsaved changes in your local repo as they will be lost.) Then do:
git reset --hard SHA_ID
git push -f
The first command resets HEAD to the commit SHA_ID. The second one force pushes the new state to the remote.
| for param_name, param in model.named_parameters(): | |
| print(f'Parameter name: {param_name:42} value = {param.item():.4f}') |
I keep forgetting how to debug ssh connection problems from one local machine to another (in my case, my laptop).
This short guide lists the steps to successfully connect but it assumes that the pre-requisite requirements are
already satisfied.
Specifically, both machines need to be on a local network managed by ZeroTier One. Note
that after a restart, the zerotier application needs to be started again on a Windows machine. (I need to double
check whether zerotier starts automatically on my Linux machine but I didn't have to start it again just now.)
The ssh keys need to be set up on both machines accordingly.
Both of my machines have tmux installed and the "remote" local machine (the one I am connecting to i.e. my laptop)
has a host nickname (remote-host below) set up in .ssh/config on my "local" local machine.
Some useful commands for manipulating files so I don't have to search for these.
Count the number of files in a directory name:
ls name | wc -l
Display top n sorted filenames: