From b70af4f3148012eb7ef2458ab9e46cef3b66762f Mon Sep 17 00:00:00 2001 From: Ryan Lane Date: Tue, 10 Sep 2024 13:16:06 -0700 Subject: [PATCH] Update README.md Correct CLI options in README. Signed-off-by: Ryan Lane --- README.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index f94b23c..7d2ba68 100644 --- a/README.md +++ b/README.md @@ -91,7 +91,7 @@ python src/chlamytracker/scripts/{script}.py --help will display a help message that gives a description of what the script does as well as the arguments it accepts and their default values. The three scripts for processing biological image data also accept a `--glob` argument that can be used to filter the set of files to process. For example, to track cells from only one row of wells from a plate, one could run the command. ```bash -python src/chlamytracker/scripts/track_cells_in_wells.py \ +python src/chlamytracker/scripts/track_cells.py \ /path/to/directory/of/nd2/files/ \ --glob "WellB*.nd2" ``` @@ -117,7 +117,7 @@ python src/chlamytracker/scripts/track_cells.py \ /path/to/directory/of/nd2/files/ \ --output-directory /path/to/writeable/storage/location/ \ --pool-radius 50 \ - --num-cores 6 + --num-workers 6 ``` Note that in the above examples, `--output-directory` is an optional argument. If not provided, output will be written to a directory named `processed` within the input directory (first argument). If `{input-directory}/processed/` already exists, files may be overwritten.